# hmmscan :: search sequence(s) against a profile database
# HMMER 3.2.1 (June 2018); http://hmmer.org/
# Copyright (C) 2018 Howard Hughes Medical Institute.
# Freely distributed under the BSD open source license.
# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
# query sequence file:             /oak/stanford/groups/akundaje/marinovg/genomes/Archaea/Euryarchaeota/Thermococcus_barophilus_MP_uid54733/NC_015471.faa
# target HMM database:             /oak/stanford/groups/akundaje/marinovg/genomes/PFam/PFam32.0/Pfam-A.hmm
# output directed to file:         /oak/stanford/groups/akundaje/marinovg/genomes/Archaea/Euryarchaeota/Thermococcus_barophilus_MP_uid54733/NC_015471.PFam32-A
# per-seq hits tabular output:     /oak/stanford/groups/akundaje/marinovg/genomes/Archaea/Euryarchaeota/Thermococcus_barophilus_MP_uid54733/NC_015471.PFam32-A.tblout
# number of worker threads:        20
# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

Query:       gi|331746791|ref|YP_004422828.1|  [L=255]
Description: hypothetical protein TERMP_02213 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      0.002   18.1   0.3     0.0044   17.0   0.3    1.7  1  Pox_A3L          Poxvirus A3L Protein
      0.004   17.4   0.2       0.28   11.5   0.0    2.5  2  DsrD             Dissimilatory sulfite reductase D (DsrD)
     0.0043   17.0   0.0     0.0069   16.4   0.0    1.3  1  Ax_dynein_light  Axonemal dynein light chain
  ------ inclusion threshold ------
      0.057   13.3   0.1       0.13   12.1   0.1    1.5  1  DUF1086          Domain of Unknown Function (DUF1086)


Domain annotation for each model (and alignments):
>> Pox_A3L  Poxvirus A3L Protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.0   0.3   9.9e-07    0.0044       6      49 ..       6      50 ..       2      77 .. 0.87

  Alignments for each domain:
  == domain 1  score: 17.0 bits;  conditional E-value: 9.9e-07
                           Pox_A3L  6 LdpprrCskCaanlveylkeDretikmiles.qpkklkilkeFLa 49
                                      ++ pr C  C+++ ++++k  re +k ++e+  p  lk++k+F +
  gi|331746791|ref|YP_004422828.1|  6 MEYPRTCKGCKNESFRVIKCHREYLKKLMENmRPVSLKVMKNFNR 50
                                      678**********************98887638*********965 PP

>> DsrD  Dissimilatory sulfite reductase D (DsrD)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.3   0.0     0.022        98      20      42 ..      45      67 ..      29      74 .. 0.87
   2 !   11.5   0.0   6.3e-05      0.28      15      55 ..     156     200 ..     147     202 .. 0.86

  Alignments for each domain:
  == domain 1  score: 3.3 bits;  conditional E-value: 0.022
                                      HHHHHHH-TTS-HHHHHHHHHHH CS
                              DsrD 20 fkDlekalPdakpreiKkvvneL 42
                                      +k++++  Pd ++r+ K++++ +
  gi|331746791|ref|YP_004422828.1| 45 MKNFNRKAPDGRERDEKRMLTSI 67
                                      79999*************99876 PP

  == domain 2  score: 11.5 bits;  conditional E-value: 6.3e-05
                                       SS-EEHHHHHHH....-TTS-HHHHHHHHHHHHHTTSEEEEEETT CS
                              DsrD  15 KskfYfkDleka....lPdakpreiKkvvneLVnegkLeywSsGS 55 
                                       K+k YfkD +       P++k r+i  +     ne    y+  G 
  gi|331746791|ref|YP_004422828.1| 156 KPKEYFKDYYIRvlfhYPGVKHRDIETFTDGVYNEKIQAYFVGGA 200
                                       9*******997778889**********999999999999998875 PP

>> Ax_dynein_light  Axonemal dynein light chain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   0.0   1.5e-06    0.0069      21      68 ..     192     244 ..     181     252 .. 0.87

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 1.5e-06
                   Ax_dynein_light  21 iqqvssepatredviklqekldeklqqrqaretGiCpiRe.....elysqcfd 68 
                                       iq +    a+red+ +l +++ +k++q++a+  Gi pi +     e++s +fd
  gi|331746791|ref|YP_004422828.1| 192 IQAYFVGGASREDMERLGKDISQKMKQKSAKYWGISPITRgrdaiEIISLIFD 244
                                       677777889*****************************998888888888887 PP

>> DUF1086  Domain of Unknown Function (DUF1086)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.1   2.9e-05      0.13      67     105 ..     155     193 ..     151     197 .. 0.90

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 2.9e-05
                           DUF1086  67 qktedeikaYgslFlrHlaeegadnsetfaDGvPkeGls 105
                                        k ++ +k+Y ++ l H    ++ ++etf+DGv  e ++
  gi|331746791|ref|YP_004422828.1| 155 YKPKEYFKDYYIRVLFHYPGVKHRDIETFTDGVYNEKIQ 193
                                       578899***************************999775 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (255 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       843  (0.0470188); expected 358.6 (0.02)
Passed bias filter:                      611  (0.0340789); expected 358.6 (0.02)
Passed Vit filter:                        42  (0.00234257); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.52u 0.26s 00:00:00.78 Elapsed: 00:00:00.46
# Mc/sec: 1656.15
//
Query:       gi|331746792|ref|YP_004422829.1|  [L=1199]
Description: hypothetical protein TERMP_02214 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    2.2e-25   89.6   0.3    4.4e-10   39.3   0.1    3.6  3  N6_Mtase         N-6 DNA Methylase
    7.9e-15   55.0   2.7    7.9e-15   55.0   2.7    2.7  3  TaqI_C           TaqI-like C-terminal specificity domain
    2.1e-09   37.8   0.5    7.3e-09   36.1   0.0    2.2  2  Eco57I           Eco57I restriction-modification methylase
    2.3e-05   24.3   0.0    0.00013   21.9   0.0    2.4  2  HSDR_N_2         Type I restriction enzyme R protein N termin
      3e-05   23.8   0.0       0.32   10.6   0.0    2.5  2  UPF0020          Putative RNA methylase family UPF0020
  ------ inclusion threshold ------
       0.12   12.2   0.0        1.5    8.7   0.0    2.6  1  Methyltransf_23  Methyltransferase domain


Domain annotation for each model (and alignments):
>> N6_Mtase  N-6 DNA Methylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.4   0.0   6.5e-10   1.9e-06       3      42 ..     415     454 ..     413     464 .. 0.90
   2 !   18.5   0.0   3.2e-07   0.00095      37     108 ..     498     586 ..     496     602 .. 0.78
   3 !   39.3   0.1   1.5e-13   4.4e-10     107     253 ..     722     876 ..     707     893 .. 0.78

  Alignments for each domain:
  == domain 1  score: 27.4 bits;  conditional E-value: 6.5e-10
                          N6_Mtase   3 kdllGdvYEyllrkfaeeegksgGeffTPrevsklivell 42 
                                        d+lG+vYE l++ ++++  k  G ++TP+ev+++iv+ +
  gi|331746792|ref|YP_004422829.1| 415 PDILGHVYEKLINLLTNKGQKGLGAYYTPEEVTRTIVKST 454
                                       79**********************************9864 PP

  == domain 2  score: 18.5 bits;  conditional E-value: 3.2e-07
                          N6_Mtase  37 livellepksgesvyDpacGsggllvqaekvlkee.................dgktkelsiyGqeknettyrLakmN 96 
                                       ++ + l++ ++ +++Dpa+Gsg +l+++ k l e                  + ++   ++yG++++et++++ak+ 
  gi|331746792|ref|YP_004422829.1| 498 VLKDFLDEINKMKILDPAVGSGHFLISVLKELLEIkkrvhsligeefntyklKLEIILNNLYGVDIDETAVEVAKLR 574
                                       5667788889999***************9988654567888888888877776677777888888888888888888 PP

                          N6_Mtase  97 lllhgieykkvk 108
                                       l l  ie  +v+
  gi|331746792|ref|YP_004422829.1| 575 LWLALIEDLDVD 586
                                       888777766554 PP

  == domain 3  score: 39.3 bits;  conditional E-value: 1.5e-13
                          N6_Mtase 107 vkirlgdtlekpkfe........kdkkfdvvvaNppfnqkewkektlekderfrea.vapksnadlafllhiieslk 174
                                        ki+ ++ + kp +         k+  fd+++ Npp+++   + ++ + d r+re     +    laf+    e lk
  gi|331746792|ref|YP_004422829.1| 722 KKIKFDEDILKPFHWvvdfgwimKEGGFDIIIGNPPYGNILSNIEKDIIDTRYREEeATYSVDSFLAFMRRSQELLK 798
                                       455555555555555566666667889***********98445556666789999944445555678********** PP

                          N6_Mtase 175 pkGraavvlangvLfrggkegkIrkalvekdlveavialpeklFyntsiptcilvlkkekaerkgkvlfidaseefk 251
                                       ++G  +++++  ++  g + +k rk++++   ++  + lp ++F +  +  +i+vlk e+++++++vl++   +  +
  gi|331746792|ref|YP_004422829.1| 799 DGGYLGFIIPA-SFGTGVNYTKARKHFLQTMELKVFLYLPFDVFEGAYVDNSIIVLKNEEPSMDNEVLIYAFPKRSR 874
                                       ********986.566688889************************************************98887766 PP

                          N6_Mtase 252 kk 253
                                        +
  gi|331746792|ref|YP_004422829.1| 875 LE 876
                                       66 PP

>> TaqI_C  TaqI-like C-terminal specificity domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.0   0.3       2.5   7.5e+03      23      61 ..     253     291 ..     218     311 .. 0.54
   2 ?   -2.4   0.1       1.6   4.9e+03      16      33 ..     702     719 ..     674     731 .. 0.71
   3 !   55.0   2.7   2.6e-18   7.9e-15       2     120 .]     959    1082 ..     958    1082 .. 0.89

  Alignments for each domain:
  == domain 1  score: -3.0 bits;  conditional E-value: 2.5
                            TaqI_C  23 likkklknekakelfeekpKilvrdiskkldaaydekay 61 
                                       +   ++k +++++l + ++  l+ +i+  lda+ ++k++
  gi|331746792|ref|YP_004422829.1| 253 FGYREVKTNSKTKLKKVTNNCLYDKIKAPLDATEEDKQK 291
                                       222222233333344445556666666666666655554 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 1.6
                            TaqI_C  16 ikgnYldlikkklkneka 33 
                                       ++g+Y+++i++ ++++++
  gi|331746792|ref|YP_004422829.1| 702 VSGEYFNFINDTINENRR 719
                                       347888888888887776 PP

  == domain 3  score: 55.0 bits;  conditional E-value: 2.6e-18
                            TaqI_C    2 pllkGkdikrysieik.gnYldlikkklknekakelfeekpKilvrdiskkld...aaydekayyvlntlyllia 72  
                                        p+l+G +++ry  + k ++++d+ ++k ++    +l+ +k+Ki++r+i +++d   a +++ + +v+++ly++  
  gi|331746792|ref|YP_004422829.1|  959 PYLEG-NVYRYITNLKqTKFVDFSQHKDNKDY-LDLYLSKEKIMIRRIVSRQDrimASFCNLQGVVKKDLYVFNL 1031
                                        89***.*****99998579****977766655.666666*********99887788******************9 PP

                            TaqI_C   73 kdele..vslkyllgiLNSklik.fyykkiystlrggysrlkrkeleklPi 120 
                                        k e+   v++ yll+++NSkl++ +y+ k ++ l++ + +++ +el++lPi
  gi|331746792|ref|YP_004422829.1| 1032 KSEFLslVDYYYLLALINSKLLSfIYLGKSSIALKDDFRQTTLTELRELPI 1082
                                        99987889***************55778999999****************9 PP

>> Eco57I  Eco57I restriction-modification methylase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.1   0.1       3.8   1.1e+04      29      81 ..     673     726 ..     658     729 .. 0.76
   2 !   36.1   0.0   2.4e-12   7.3e-09       2     101 ..     745     854 ..     744     858 .. 0.79

  Alignments for each domain:
  == domain 1  score: -3.1 bits;  conditional E-value: 3.8
                            Eco57I  29 kdiyqkFvekalkledkylaliiparfl.asgkglkefrekllkdkklkklvef 81 
                                       ++iy++ v k   + +++l  i    +   sg++++ +++++ ++++ kk ++f
  gi|331746792|ref|YP_004422829.1| 673 YEIYKNNVGKKAAILKEILESIRRRIYQrVSGEYFNFINDTINENRRKKKKIKF 726
                                       567777777777777777777777777777888888888888888887777766 PP

  == domain 2  score: 36.1 bits;  conditional E-value: 2.4e-12
                            Eco57I   2 k...fdviiGNPPYqes..eakkelkaleek........akdiyqkFvekalkle..dkylaliiparflasgkglk 63 
                                       k   fd+iiGNPPY ++  + +k+     ++        + d +  F+ ++ +l    +yl++iipa f  +g   +
  gi|331746792|ref|YP_004422829.1| 745 KeggFDIIIGNPPYGNIlsNIEKDIID--TRyreeeatySVDSFLAFMRRSQELLkdGGYLGFIIPASFG-TGVNYT 818
                                       5555**********6551144454443..33346778888889***********97678**********9.888889 PP

                            Eco57I  64 efrekllkdkklkklvefedskevFkdveikggilvfl 101
                                       + r+++l+  +lk++ +++   +vF+++ ++++i+v+ 
  gi|331746792|ref|YP_004422829.1| 819 KARKHFLQTMELKVFLYLPF--DVFEGAYVDNSIIVLK 854
                                       99***********9998875..68**********9875 PP

>> HSDR_N_2  Type I restriction enzyme R protein N terminus (HSDR_N)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.9   0.0   4.3e-08   0.00013       1     109 [.      65     181 ..      65     182 .. 0.84
   2 ?   -2.6   0.0       1.8   5.4e+03      65      95 ..    1136    1166 ..    1124    1177 .. 0.73

  Alignments for each domain:
  == domain 1  score: 21.9 bits;  conditional E-value: 4.3e-08
                          HSDR_N_2   1 pEEwvRqklikyLveelgypkeliavekelqlg.....skkkraDivvykkdkkpllivecKapsvki..seevleq 70 
                                       pE  +Rq++i  L++ lgy+ +   v  ++++      +k k++D+ v +      +++e+     ++  +  +++q
  gi|331746792|ref|YP_004422829.1|  65 PEPFTRQHVIDPLLKFLGYELTPEVVKRTVSVLgssmiKKIKQPDYRVKSIF-GEEILIEAEPLGSNLykKGSGVNQ 140
                                       67789***************999888888885447888899999****8877.555667776666555326689*** PP

                          HSDR_N_2  71 lksYlea..lkaeylvvtNglehivykvdkkkkkfeelkdi 109
                                       + + l    ++++ +++tNg e i++ +d+ +k+++ l +i
  gi|331746792|ref|YP_004422829.1| 141 VIEWLDRrsFNVDIGIATNGFEWILLYYDNTSKEIKTLAEI 181
                                       ****997668**************************99998 PP

  == domain 2  score: -2.6 bits;  conditional E-value: 1.8
                          HSDR_N_2   65 eevleqlksYlealkaeylvvtNglehivyk 95  
                                        + + e +++Yl ++  ++  + +     ++ 
  gi|331746792|ref|YP_004422829.1| 1136 QSETEKIFEYLYTVVNKFNFWHDQIARELFT 1166
                                        5677889999999999999888887777776 PP

>> UPF0020  Putative RNA methylase family UPF0020
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   10.6   0.0   0.00011      0.32      31     103 ..     510     582 ..     504     606 .. 0.79
   2 !   10.4   0.0   0.00013      0.38      83     136 ..     708     763 ..     665     777 .. 0.63

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00011
                                       -EEETT-TTSHHHHHHHHHHTT--TTTT----SSHHHHHHHHHHHH--.EEEEES-HHHHHHHHHHHHHTT-GG CS
                           UPF0020  31 pllDPmCGsGtilIEaallganiapgllrefvlelkaeaeeearaelk.lygsDldrrvvqgareNaekagvgd 103
                                       ++lDP  GsG +lI       +i  + + + ++e  ++ + + +  l+ lyg+D+d+ +v+ a+  +  a ++d
  gi|331746792|ref|YP_004422829.1| 510 KILDPAVGSGHFLISVLKELLEIK-KRVHSLIGEEFNTYKLKLEIILNnLYGVDIDETAVEVAKLRLWLALIED 582
                                       79************7665555555.344466667788888888866666***************9887777765 PP

  == domain 2  score: 10.4 bits;  conditional E-value: 0.00013
                                       ES-HHHHHHHHHHHHHTT-GGGEEEEE--GGG--..STTS---EEEE--------- CS
                           UPF0020  83 DldrrvvqgareNaekagvgdliefsqadaakLr..lkegevdvivtnpPYGerlg 136
                                       ++++  ++  r++ +k + ++ i      + ++    keg +d+i++npPYG+ l+
  gi|331746792|ref|YP_004422829.1| 708 NFINDTINENRRKKKKIKFDEDILKPFHWVVDFGwiMKEGGFDIIIGNPPYGNILS 763
                                       55566666666666666665555433333333334348899***********8776 PP

>> Methyltransf_23  Methyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.7   0.0   0.00049       1.5      90     122 ..     778     810 ..     488     843 .. 0.59

  Alignments for each domain:
  == domain 1  score: 8.7 bits;  conditional E-value: 0.00049
                   Methyltransf_23  90 evlehvpdppellrqiatllkpgGylllsepla 122
                                       e +++v+++ + +r+ ++llk+gGyl +  p++
  gi|331746792|ref|YP_004422829.1| 778 EATYSVDSFLAFMRRSQELLKDGGYLGFIIPAS 810
                                       4677888888***************98887754 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (1199 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       754  (0.0420548); expected 358.6 (0.02)
Passed bias filter:                      453  (0.0252663); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.87u 0.33s 00:00:01.20 Elapsed: 00:00:00.51
# Mc/sec: 7020.82
//
Query:       gi|331746793|ref|YP_004422830.1|  [L=460]
Description: hypothetical protein TERMP_02215 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.8e-25   87.1   0.0    1.9e-24   86.1   0.0    1.5  1  AAA_14    AAA domain
    4.9e-05   23.8   0.1    0.00022   21.6   0.1    1.7  2  AAA_16    AAA ATPase domain
    9.7e-05   22.4   0.0    0.00024   21.1   0.0    1.6  1  ATPase_2  ATPase domain predominantly from Archaea
    0.00021   21.6   0.0     0.0025   18.1   0.0    2.3  1  AAA_22    AAA domain
    0.00044   20.7   0.0     0.0056   17.1   0.0    2.7  2  AAA       ATPase family associated with various cellular acti
    0.00084   19.5   0.0     0.0013   18.8   0.0    1.4  1  DUF4143   Domain of unknown function (DUF4143)
     0.0042   16.3   0.0     0.0064   15.7   0.0    1.2  1  DAP3      Mitochondrial ribosomal death-associated protein 3
  ------ inclusion threshold ------
      0.018   14.6   0.3      0.045   13.3   0.3    1.7  1  HTH_24    Winged helix-turn-helix DNA-binding
      0.094   11.9   0.0       0.15   11.2   0.0    1.3  1  DUF815    Protein of unknown function (DUF815)
        0.1   12.3   0.0       0.17   11.6   0.0    1.4  1  AAA_24    AAA domain
       0.13   11.3   0.0       0.25   10.4   0.0    1.4  1  T2SSE     Type II/IV secretion system protein
       0.13   10.9   0.0          1    8.0   0.0    1.9  2  RNA12     RNA12 protein
       0.14   11.3   0.0       0.25   10.5   0.0    1.4  1  NB-ARC    NB-ARC domain
       0.17   11.6   0.0        1.1    8.9   0.0    2.2  2  AAA_30    AAA domain
        1.1    9.1   6.8       0.85    9.5   0.1    3.5  4  TrmB      Sugar-specific transcriptional regulator TrmB


Domain annotation for each model (and alignments):
>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   86.1   0.0   1.6e-27   1.9e-24       2     131 .]      55     188 ..      54     188 .. 0.89

  Alignments for each domain:
  == domain 1  score: 86.1 bits;  conditional E-value: 1.6e-27
                            AAA_14   2 rkilvitGaRrvGKTtllkqlikell..vkkesilyinldderdkkladpekllelileklke.....ekktylflD 71 
                                       +k+lv+ G+R vGKTt+l q + +ll  +++e+ +y+ ld+ r   ++ ++ +++++ ++l e     ++ t+lf+D
  gi|331746793|ref|YP_004422830.1|  55 NKLLVLYGLRGVGKTTMLAQTYFKLLpqISRERLVYVPLDKLRSLGISLSD-FIQAYERLLGErveefSQPTFLFID 130
                                       799*******************9999******************8888653.444444443223445899******* PP

                            AAA_14  72 EiqevpewekalkslvdegknldvivtGSnskllskeiatslagrvaeielyplsfaEfl 131
                                       E+++ +++  ++k+l+d+ +nl ++vtGS+s+ l  ++  +l++r++++++ pl+f E+l
  gi|331746793|ref|YP_004422830.1| 131 EAHYDENFGITVKDLHDSANNLMIVVTGSSSLPL--KLDPDLTRRAKKLRVPPLTFTEYL 188
                                       **********************************..678*******************97 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.6   0.1   1.9e-07   0.00022      14      86 ..      44     118 ..      36     133 .. 0.74
   2 ?    3.7   0.0     0.058        70     116     145 ..     101     133 ..      75     159 .. 0.78

  Alignments for each domain:
  == domain 1  score: 21.6 bits;  conditional E-value: 1.9e-07
                            AAA_16  14 salervrsgrp.elvllsGesGvGKsslv.rellr...alekdg.giflrgkcdqlesaipysalaqalareellrq 84 
                                       + +e+  + r+  l++l+G +GvGK++++ ++ ++   ++++++ +++   k ++l  +i++s ++qa  + +ll +
  gi|331746793|ref|YP_004422830.1|  44 EEIESFLRTREnKLLVLYGLRGVGKTTMLaQTYFKllpQISRERlVYVPLDKLRSL--GISLSDFIQAY-E-RLLGE 116
                                       44554444455599***************655555555777778888899999999..999999***99.4.56665 PP

                            AAA_16  85 ll 86 
                                         
  gi|331746793|ref|YP_004422830.1| 117 RV 118
                                       55 PP

  == domain 2  score: 3.7 bits;  conditional E-value: 0.058
                            AAA_16 116 a..srllellkrll.allsrderplvlvlDdlq 145
                                          s++ ++  rll ++ ++ ++p+ l++D+++
  gi|331746793|ref|YP_004422830.1| 101 IslSDFIQAYERLLgERVEEFSQPTFLFIDEAH 133
                                       24589999999999999999999********99 PP

>> ATPase_2  ATPase domain predominantly from Archaea
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.1   0.0     2e-07   0.00024       9      63 ..      44      99 ..      42     159 .. 0.66

  Alignments for each domain:
  == domain 1  score: 21.1 bits;  conditional E-value: 2e-07
                          ATPase_2  9 keleeilerepneiyfiYGpegsGKtaLlkeiienl.edkdkyviyyialreesis 63
                                      +e+e+ l++ +n+ +++YG +g+GKt++l + + +l  + + +++ y +l + ++ 
  gi|331746793|ref|YP_004422830.1| 44 EEIESFLRTRENKLLVLYGLRGVGKTTMLAQTYFKLlPQISRERLVYVPLDKLRSL 99
                                      589**************************999888755666666666666655443 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.1   0.0   2.1e-06    0.0025       4      70 ..      54     120 ..      51     166 .. 0.77

  Alignments for each domain:
  == domain 1  score: 18.1 bits;  conditional E-value: 2.1e-06
                            AAA_22   4 tagilvvtGesGtGKTt.llrrlleqldeeakaeeerpevvfvtlpsst....sskdllrellralglelka 70 
                                       + ++lv++G  G+GKTt l++++++ l++       r ++v+v l ++     s++d+ ++  r lg++ ++
  gi|331746793|ref|YP_004422830.1|  54 ENKLLVLYGLRGVGKTTmLAQTYFKLLPQI-----SRERLVYVPLDKLRslgiSLSDFIQAYERLLGERVEE 120
                                       6789***********862788999999754.....5999999998888866688888888888888876655 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.0   4.7e-06    0.0056       2      68 ..      59     133 ..      58     180 .. 0.69
   2 ?   -1.9   0.0       3.6   4.3e+03      39      59 ..     412     433 ..     393     438 .. 0.77

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 4.7e-06
                                       EEESSTTSSHHHHHHHHHHHH.....THEEEEEETTTCSSS......STTHHHHHHHHHHHHHHHTSTSEEEEEETG CS
                               AAA   2 llyGppGtGKTllakavakel.....gvefleisgsellsk......yvgesekkirelfkeakekakpsilfiDEi 67 
                                       +lyG  G+GKT++  +   +l       +++ + + +l+s       ++++ e+ + e ++e +   +p+ lfiDE+
  gi|331746793|ref|YP_004422830.1|  59 VLYGLRGVGKTTMLAQTYFKLlpqisRERLVYVPLDKLRSLgislsdFIQAYERLLGERVEEFS---QPTFLFIDEA 132
                                       79*********99888888865666534455555555552222222255666777776666643...489******9 PP

                                       G CS
                               AAA  68 d 68 
                                       +
  gi|331746793|ref|YP_004422830.1| 133 H 133
                                       8 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 3.6
                                       TTHHHHHHHHHHHHHHHTS.TS CS
                               AAA  39 vgesekkirelfkeakeka.kp 59 
                                       vg ++k++r+++k++k+   ++
  gi|331746793|ref|YP_004422830.1| 412 VGWGKKDLRQVIKTMKKTGlTC 433
                                       67789999****9998877554 PP

>> DUF4143  Domain of unknown function (DUF4143)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.8   0.0   1.1e-06    0.0013      18     120 ..     313     413 ..     204     415 .. 0.78

  Alignments for each domain:
  == domain 1  score: 18.8 bits;  conditional E-value: 1.1e-06
                                       x.....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                           DUF4143  18 k.....glverlppwsespnskkrlrkspKlyfvDtGLlvallgldkeelledsenkGallEnlVaqeLlkysekeg 89 
                                              +++ ++++   + ++k  rk+pK+ f+ + L  a+l      +++ds+++G+llE +Va  L   +  ++
  gi|331746793|ref|YP_004422830.1| 313 EkledlEVIFPVRAY---GSLGKVARKTPKYKFLAPMLRSAVLYEFGL-FERDSKTLGMLLEDAVALYLHLLA--KE 383
                                       045445666666666...9999*******************6644444.468889**********97665522..57 PP

                                       xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                           DUF4143  90 aklyyyrdkngaEvDfvielkggkivpiEvK 120
                                       +kl  + d ++   Df+++ +    + iEv 
  gi|331746793|ref|YP_004422830.1| 384 KKLGLHYDAQKGGADFILK-GHSIGIVIEVG 413
                                       88888888889*******8.56677788885 PP

>> DAP3  Mitochondrial ribosomal death-associated protein 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.0   5.4e-06    0.0064       4      43 ..      36      75 ..      35      83 .. 0.89

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 5.4e-06
                                      -SHHHHHHHHHTTS-SSS---EEEEE-SSSSSTTTTHHHH CS
                              DAP3  4 ReetlelikklkkadkkkkvkrlvltGekgsGKSvlLlqa 43
                                      R++  +l +++++  +++++k lvl+G +g+GK+++L+q+
  gi|331746793|ref|YP_004422830.1| 36 RKPLAKLSEEIESFLRTRENKLLVLYGLRGVGKTTMLAQT 75
                                      566668888899999999*********************8 PP

>> HTH_24  Winged helix-turn-helix DNA-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.3   3.7e-05     0.045       7      47 ..     281     321 ..     276     321 .. 0.89

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 3.7e-05
                            HTH_24   7 kILelLqknprisqreLAerlglSpstvnrrlkrLeeeGlI 47 
                                        +L lL    ++ + +L+  lgl ++t+ + +++Le+ ++I
  gi|331746793|ref|YP_004422830.1| 281 GLLLLLASGESLAYDDLSSTLGLAKGTIEKLIEKLEDLEVI 321
                                       5778888888999************************9998 PP

>> DUF815  Protein of unknown function (DUF815)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   0.0   0.00013      0.15      38      96 ..      40     100 ..      35     136 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00013
                            DUF815  38 ealventeqfleglpannvLLwGarGtGKSslvkallneyaeeg..Lrlievekedlkelp 96 
                                       ++l e +e fl+ ++ + ++L+G rG+GK +++  +  ++  +    rl+ v  ++l++l 
  gi|331746793|ref|YP_004422830.1|  40 AKLSEEIESFLRTRENKLLVLYGLRGVGKTTMLAQTYFKLLPQIsrERLVYVPLDKLRSLG 100
                                       5789999************************998888777777655678888777777775 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.6   0.0   0.00014      0.17       4      55 ..      57     116 ..      54     155 .. 0.72

  Alignments for each domain:
  == domain 1  score: 11.6 bits;  conditional E-value: 0.00014
                            AAA_24   4 kiliyGpsgiGKTtlakel.........gpkplfidtekGlksldadkfpdieswedflde 55 
                                        +++yG  g+GKTt++++           ++ +++ ++k l+sl     + i+++e +l e
  gi|331746793|ref|YP_004422830.1|  57 LLVLYGLRGVGKTTMLAQTyfkllpqisRERLVYVPLDK-LRSLGISLSDFIQAYERLLGE 116
                                       579*************99988888888888888888888.555555555555555555544 PP

>> T2SSE  Type II/IV secretion system protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   0.0   0.00021      0.25      94     161 ..      10      89 ..       3      92 .. 0.78

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.00021
                             T2SSE  94 viRkksakeltlddlgaeealk............ekiaevlrkavrerglilvsGgTgsGKttll.yallkeinks. 156
                                       v R  +++e +l+++++++a +            e+i+++lr+   e++l+++ G  g GKtt+l  +  k +++  
  gi|331746793|ref|YP_004422830.1|  10 VRRTIDTAEARLRKYAFTPAGEkrperkplaklsEEIESFLRTR--ENKLLVLYGLRGVGKTTMLaQTYFKLLPQIs 84 
                                       55566667777777777777777788888888889********9..9999*************99667777777765 PP

                             T2SSE 157 deriv 161
                                        er+v
  gi|331746793|ref|YP_004422830.1|  85 RERLV 89 
                                       66666 PP

>> RNA12  RNA12 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.0      0.17     2e+02       5      35 ..      43      73 ..      40      82 .. 0.88
   2 ?    8.0   0.0   0.00086         1     314     399 ..     254     341 ..     251     351 .. 0.87

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 0.17
                             RNA12  5 iedlkewleEnvntFivvkGPrGSGkkeLvl 35
                                       e+++++l+   n  +v+ G rG Gk+ ++ 
  gi|331746793|ref|YP_004422830.1| 43 SEEIESFLRTRENKLLVLYGLRGVGKTTMLA 73
                                      68999*********************99875 PP

  == domain 2  score: 8.0 bits;  conditional E-value: 0.00086
                             RNA12 314 aeeilkmfll.dseeakkakwtkeqaWklikklskkgsieynellle.elfkgsaesalkaLekaelisvstedgrp 388
                                       a ei++  +  d   +  ++ t+e+a  l+  l++ +s+ y++l  +  l kg+ e+ +++Le  e+i  ++  g +
  gi|331746793|ref|YP_004422830.1| 254 AYEIVRKIVEvDLVREGLSETTREKALGLLLLLASGESLAYDDLSSTlGLAKGTIEKLIEKLEDLEVIFPVRAYGSL 330
                                       567777777777888899999**********************98762578999***************99999999 PP

                             RNA12 389 skikagkPvyr 399
                                        k+    P y+
  gi|331746793|ref|YP_004422830.1| 331 GKVARKTPKYK 341
                                       99998888886 PP

>> NB-ARC  NB-ARC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.0   0.00021      0.25       7      42 ..      45      77 ..      39      91 .. 0.77

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00021
                                      HHHHHHHCTTTSCSEEEEEEESTTSSHHHHHHHHCC CS
                            NB-ARC  7 kviekLlekdelqslvvalvGmgGvGKttlakqiln 42
                                      ++   L    e +  ++ l+G  GvGKtt+++q + 
  gi|331746793|ref|YP_004422830.1| 45 EIESFLR-TRENK--LLVLYGLRGVGKTTMLAQTYF 77
                                      5555555.67777..999***********9988764 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.9   0.0   0.00093       1.1      14      38 ..      51      75 ..      44     133 .. 0.87
   2 ?   -0.2   0.0      0.58   6.9e+02      49      82 ..     283     320 ..     268     370 .. 0.77

  Alignments for each domain:
  == domain 1  score: 8.9 bits;  conditional E-value: 0.00093
                            AAA_30 14 ltsgdrvavltGpAGtGKttalkal 38
                                       t ++++ vl G  G GKtt+l++ 
  gi|331746793|ref|YP_004422830.1| 51 RTRENKLLVLYGLRGVGKTTMLAQT 75
                                      5678899***************875 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.58
                            AAA_30  49 viglAptgkaAkv.Laeelgieastiakllkrlk...g 82 
                                       +++lA+ +  A + L+  lg++  ti+kl+++l+    
  gi|331746793|ref|YP_004422830.1| 283 LLLLASGESLAYDdLSSTLGLAKGTIEKLIEKLEdleV 320
                                       55677777766555999***********9988875550 PP

>> TrmB  Sugar-specific transcriptional regulator TrmB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.0       3.7   4.4e+03       1      18 [.      96     114 ..      96     120 .. 0.75
   2 ?    1.5   0.1      0.24   2.8e+02      37      54 ..     252     269 ..     243     280 .. 0.80
   3 ?    9.5   0.1   0.00071      0.85      16      53 ..     284     322 ..     275     345 .. 0.81
   4 ?   -1.6   0.2       2.2   2.6e+03       3      20 ..     354     371 ..     352     384 .. 0.76

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 3.7
                                       HHHCHHHHHC.CCHCHHHH CS
                              TrmB   1 LqklGLseyE.akvYlaLl 18 
                                       L+ lG+s  + +++Y  Ll
  gi|331746793|ref|YP_004422830.1|  96 LRSLGISLSDfIQAYERLL 114
                                       6678999888569999998 PP

  == domain 2  score: 1.5 bits;  conditional E-value: 0.24
                                       HCHHHHHHHHHHCTSEEE CS
                              TrmB  37 skvYevLrsLedkGlVer 54 
                                         +Ye++r+ ++ +lV+ 
  gi|331746793|ref|YP_004422830.1| 252 EDAYEIVRKIVEVDLVRE 269
                                       679************986 PP

  == domain 3  score: 9.5 bits;  conditional E-value: 0.00071
                                       HHH.HHCCCHHCHHCCCTTSSCHCHHHHHHHHHHCTSEE CS
                              TrmB  16 aLl.klgpatadeiaeelgvprskvYevLrsLedkGlVe 53 
                                        Ll + +++  d++++ lg+ + ++ + +++Led  ++ 
  gi|331746793|ref|YP_004422830.1| 284 LLLaSGESLAYDDLSSTLGLAKGTIEKLIEKLEDLEVIF 322
                                       4552555667789********************988775 PP

  == domain 4  score: -1.6 bits;  conditional E-value: 2.2
                                       HCHHHHHCCCHCHHHHHH CS
                              TrmB   3 klGLseyEakvYlaLlkl 20 
                                       ++GL e ++k+   Ll+ 
  gi|331746793|ref|YP_004422830.1| 354 EFGLFERDSKTLGMLLED 371
                                       688888888888888764 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (460 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       511  (0.0285013); expected 358.6 (0.02)
Passed bias filter:                      495  (0.0276089); expected 358.6 (0.02)
Passed Vit filter:                        93  (0.00518713); expected 17.9 (0.001)
Passed Fwd filter:                        15  (0.000836633); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              15  [number of targets reported over threshold]
# CPU time: 0.54u 0.31s 00:00:00.85 Elapsed: 00:00:00.46
# Mc/sec: 3024.26
//
Query:       gi|331746794|ref|YP_004422831.1|  [L=50]
Description: hypothetical protein TERMP_02216 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (50 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       341  (0.0190195); expected 358.6 (0.02)
Passed bias filter:                      300  (0.0167327); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.28s 00:00:00.76 Elapsed: 00:00:00.48
# Mc/sec: 312.45
//
Query:       gi|331746795|ref|YP_004422832.1|  [L=404]
Description: hypothetical protein TERMP_02217 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.4e-12   47.4   0.1    4.3e-12   45.8   0.0    1.9  2  Cdc6_C        CDC6, C terminal winged helix domain
    6.5e-12   45.9   0.0    1.3e-11   44.9   0.0    1.4  1  AAA_22        AAA domain
      1e-07   32.5   0.0    2.9e-06   27.8   0.0    2.8  2  AAA_16        AAA ATPase domain
    1.4e-07   32.0   0.0    4.8e-07   30.3   0.0    1.9  2  AAA           ATPase family associated with various cellular 
    2.4e-06   27.1   0.0      4e-06   26.4   0.0    1.3  1  TniB          Bacterial TniB protein
    3.2e-05   23.9   0.0      6e-05   23.0   0.0    1.5  1  NACHT         NACHT domain
    0.00085   19.4   0.1     0.0018   18.3   0.1    1.5  1  AAA_14        AAA domain
     0.0033   17.2   0.0     0.0055   16.5   0.0    1.3  1  AAA_30        AAA domain
     0.0053   16.8   0.0      0.014   15.4   0.0    1.8  1  AAA_5         AAA domain (dynein-related subfamily)
  ------ inclusion threshold ------
      0.023   13.9   0.0       0.04   13.1   0.0    1.3  1  NB-ARC        NB-ARC domain
      0.027   14.9   0.0        7.9    6.9   0.0    2.8  3  AAA_17        AAA domain
      0.027   14.2   0.0      0.048   13.4   0.0    1.3  1  AAA_24        AAA domain
       0.04   13.8   0.5        7.6    6.5   0.0    3.8  4  MarR_2        MarR family
      0.051   13.5   0.0      0.082   12.8   0.0    1.4  1  Rad17         Rad17 P-loop domain
      0.067   12.6   0.0       0.11   11.9   0.0    1.2  1  Mg_chelatase  Magnesium chelatase, subunit ChlI
      0.077   13.3   0.2       0.38   11.1   0.2    2.0  1  AAA_19        AAA domain
      0.094   13.3   0.0       0.22   12.1   0.0    1.7  1  AAA_18        AAA domain
        0.1   11.7   0.0        1.2    8.3   0.0    2.1  2  DUF815        Protein of unknown function (DUF815)
       0.11   12.3   0.0        8.4    6.1   0.0    2.3  2  DEAD          DEAD/DEAH box helicase
       0.14   12.0   0.0       0.39   10.7   0.0    1.7  1  LcrG          LcrG protein


Domain annotation for each model (and alignments):
>> Cdc6_C  CDC6, C terminal winged helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.0       5.6     5e+03      16      36 ..      72      92 ..      70      95 .. 0.78
   2 !   45.8   0.0   4.8e-15   4.3e-12       1      82 [.     306     386 ..     306     388 .. 0.96

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 5.6
                                      EEHHHHHHHHHHHHHHTT--- CS
                            Cdc6_C 16 vttgevyevYkslCesegvdp 36
                                      v ++ ++++Y +++ + ++d 
  gi|331746795|ref|YP_004422832.1| 72 VAVRMLERTYNEVALENEIDS 92
                                      666778999999999988876 PP

  == domain 2  score: 45.8 bits;  conditional E-value: 4.8e-15
                                       HHHHHHHHCHCSSS-EEHHHHHHHHHHHHHHTT-----HHHHHHHH.HHHHHTTSEEEEEEE-CC.C-EEEEEEESS CS
                            Cdc6_C   1 LcalvlllrksgkeevttgevyevYkslCesegvdpltqrevsdll.seLemlgileleksskGrregrtrkisLnv 76 
                                       L+al+ l++ +g  ++ ++ +y +Yk+lC+ +g  p+t++   +++ ++Le+ g+++++  s+Gr +grt ++ L  
  gi|331746795|ref|YP_004422832.1| 306 LYALAVLTE-KGHAQIDSSTLYLKYKELCDVLGWYPRTMKHTINYIgAKLEAEGLITRKAISRGR-YGRTHLFHLEE 380
                                       89*******.*****************************9999999458***************9.*********** PP

                                       SCHHHH CS
                            Cdc6_C  77 dpddvl 82 
                                       dp +v+
  gi|331746795|ref|YP_004422832.1| 381 DPTTVK 386
                                       **9997 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   44.9   0.0   1.5e-14   1.3e-11       8     126 ..      60     183 ..      58     195 .. 0.78

  Alignments for each domain:
  == domain 1  score: 44.9 bits;  conditional E-value: 1.5e-14
                            AAA_22   8 lvvtGesGtGKTtllrrlleqldeeakaeeerpevvfvtlpsstsskdllrellralglelkaerlsseellealeq 84 
                                       lv++G++G+GKT+ +r+l ++++e+a  +e +++ +++ ++ +t  + +l el+++lg + +  + s  ++++    
  gi|331746795|ref|YP_004422832.1|  60 LVIHGPPGVGKTVAVRMLERTYNEVALENEIDSRAIYISAKDLT-YRRVLYELASQLGINVNL-GMSIADIYDSTIM 134
                                       89************************9999*************9.9999*********87777.8888999966666 PP

                            AAA_22  85 alraravielliiDEaqhlr..s..eealeeLrsllnl...srkgvqli 126
                                       +++++  + l+i+DE+++lr  +  e + + + sl+ +     k v  i
  gi|331746795|ref|YP_004422832.1| 135 YMKEKESKYLIIVDEIDKLRkrPgeEPVDNLVYSLSRInerVGKVVVSI 183
                                       66666667***********975164444444477776655433334444 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.8   0.0   3.3e-09   2.9e-06       2     149 ..      34     155 ..      33     181 .. 0.71
   2 ?   -0.9   0.0       2.1   1.9e+03     147     164 ..     236     253 ..     214     264 .. 0.77

  Alignments for each domain:
  == domain 1  score: 27.8 bits;  conditional E-value: 3.3e-09
                            AAA_16   2 lvGReeeleqL.lsalervrsgrpelvllsGesGvGKsslvrellralekdggiflrgkcdqlesaipysalaqala 77 
                                       l  R++e+e++  +a + + s+   +++++G++GvGK+  vr+l r +++     + ++  ++   ++ ++ a+ l+
  gi|331746795|ref|YP_004422832.1|  34 LLFRDREVEEIaGHAADFLFSSIVKNLVIHGPPGVGKTVAVRMLERTYNEV----ALENEIDS---RAIYISAKDLT 103
                                       778********6666668888888*********************988876....34444333...23334444444 PP

                            AAA_16  78 reellrqlldeaesaeleawrekleealaavpelagaeasrllellkrllallsrderplvlvlDdlqwade 149
                                        +++l +l+++            +  +l+           ++++   + +++++++e++ ++++D++++++ 
  gi|331746795|ref|YP_004422832.1| 104 YRRVLYELASQ----------LGINVNLG----------MSIADIYDSTIMYMKEKESKYLIIVDEIDKLRK 155
                                       55666666655..........34455566..........778888888888888888888888888887766 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 2.1
                            AAA_16 147 adeaslqllaaLlrlles 164
                                       +d+a l llaaL r+ ++
  gi|331746795|ref|YP_004422832.1| 236 VDDAALRLLAALIRRESR 253
                                       578889999999888766 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   30.3   0.0   5.4e-10   4.8e-07       2     105 ..      61     181 ..      60     202 .. 0.71
   2 ?   -2.3   0.0       6.4   5.7e+03      65      92 ..     217     246 ..     216     261 .. 0.60

  Alignments for each domain:
  == domain 1  score: 30.3 bits;  conditional E-value: 5.4e-10
                                       EEESSTTSSHHHHHHHHHHHH.........THEEEEEETTTCSSS..................STTHHHHHHHHHHH CS
                               AAA   2 llyGppGtGKTllakavakel.........gvefleisgsellsk..................yvgesekkirelfk 51 
                                       +++GppG+GKT +++ + ++          +++ + is+++l+                     + +  +++ +++k
  gi|331746795|ref|YP_004422832.1|  61 VIHGPPGVGKTVAVRMLERTYnevaleneiDSRAIYISAKDLTYRrvlyelasqlginvnlgmSIADIYDSTIMYMK 137
                                       68***************999633333333358999*******95569999999999888544444444444444444 PP

                                       HHHHTSTSEEEEEETGGGHHHHHTTCCCHHHHHHHHHHHHHHHHTTTSSSTEEE CS
                               AAA  52 eakekakpsilfiDEidalaksrsgseseeeervvnqLlteldgvkkkeskviv 105
                                          ek+++  +++DEid+l k+        +e+ v+ L+  l++ +++ +kv+v
  gi|331746795|ref|YP_004422832.1| 138 ---EKESKYLIIVDEIDKLRKRP-------GEEPVDNLVYSLSRINERVGKVVV 181
                                       ...333459**********5555.......888889888888888887666554 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 6.4
                                       ETGGGHHHHH..TTCCCHHHHHHHHHHHHH CS
                               AAA  65 DEidalaksr..sgseseeeervvnqLlte 92 
                                       DE++a+ k+r  +  + +  ++++  Ll++
  gi|331746795|ref|YP_004422832.1| 217 DELYAILKDRveKAFAPGTVDDAALRLLAA 246
                                       899999999964333444444444444444 PP

>> TniB  Bacterial TniB protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.4   0.0   4.5e-09     4e-06      35     132 ..      57     154 ..      49     174 .. 0.90

  Alignments for each domain:
  == domain 1  score: 26.4 bits;  conditional E-value: 4.5e-09
                              TniB  35 mpnlllvGdsnnGKtmivekFarlhppekdedaekvpvlvvqappkpdekrlyaaiLealgaplkararvskleqqv 111
                                       ++nl+++G++ +GKt+ v+  +r++++   e++   + ++++a +    + ly ++  +lg +++   +++++++ +
  gi|331746795|ref|YP_004422832.1|  57 VKNLVIHGPPGVGKTVAVRMLERTYNEVALENEIDSRAIYISAKDLTYRRVLY-ELASQLGINVNLGMSIADIYDST 132
                                       589*************************99999999*******9998777777.699******************** PP

                              TniB 112 lrllrelkvrvLii.DEihnll 132
                                       + +++e + + Lii DEi++l 
  gi|331746795|ref|YP_004422832.1| 133 IMYMKEKESKYLIIvDEIDKLR 154
                                       *******99977544***9986 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.0   0.0   6.7e-08     6e-05       3     113 ..      60     170 ..      58     207 .. 0.83

  Alignments for each domain:
  == domain 1  score: 23.0 bits;  conditional E-value: 6.7e-08
                                       EEEEC-TTTCHHHHHHHHHHHHCTS-SCCCC-SEEEEEETTTTTTS-...-HCHHHCCC..CTS--SSS-C.CHHHH CS
                             NACHT   3 vilqGeaGsGKTtLlqklalawaegklpqgafklvFflslrelsrsgnarsladllfsq..lpepaapvse.vwavl 76 
                                       ++++G++G+GKT+ ++ l ++  e  l+++  +  +++s ++l+ +   + la +l  +  l  ++a++    + ++
  gi|331746795|ref|YP_004422832.1|  60 LVIHGPPGVGKTVAVRMLERTYNEVALENEIDSRAIYISAKDLTYRRVLYELASQLGINvnLGMSIADIYDsTIMYM 136
                                       79***************************999**************9999999998544113334444433488899 PP

                                       CCSCCCEEEEEE-STT-SS-TCH.........HHHHH CS
                             NACHT  77 lelperlLlilDglDelvtdlgqkekqpvrtlLseli 113
                                        e + + L+i+D +D+l++ +g+   +pv++l  +l 
  gi|331746795|ref|YP_004422832.1| 137 KEKESKYLIIVDEIDKLRKRPGE---EPVDNLVYSLS 170
                                       9999***************9999...88888877764 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.1     2e-06    0.0018       4      77 ..      59     154 ..      57     193 .. 0.71

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 2e-06
                            AAA_14   4 ilvitGaRrvGKTtllkqlikell......vkkesilyinldderd........kkladpe.........kllelil 57 
                                        lvi G+  vGKT+ ++ l +++         +++ +yi+ +d ++        +     +         ++ +++ 
  gi|331746795|ref|YP_004422832.1|  59 NLVIHGPPGVGKTVAVRMLERTYNevalenEIDSRAIYISAKDLTYrrvlyelaS-----QlginvnlgmSIADIYD 130
                                       689*************999888778888875568999***999999555544440.....13333444443333333 PP

                            AAA_14  58 eklke....ekktylflDEiqevp 77 
                                       + ++     e k++++ DEi +++
  gi|331746795|ref|YP_004422832.1| 131 STIMYmkekESKYLIIVDEIDKLR 154
                                       33111334578999******9984 PP

>> AAA_30  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.5   0.0   6.1e-06    0.0055      20     100 ..      59     153 ..      47     176 .. 0.76

  Alignments for each domain:
  == domain 1  score: 16.5 bits;  conditional E-value: 6.1e-06
                            AAA_30  20 vavltGpAGtGKttalkalreaweaag.......grviglAptgkaAkvLae...elgi...eastiakllkrlk.g 82 
                                         v++Gp+G GKt a++ l++++++         + + + A   +  +vL e   +lgi    +++ia + +++   
  gi|331746795|ref|YP_004422832.1|  59 NLVIHGPPGVGKTVAVRMLERTYNEVAleneidsRAIYISAKDLTYRRVLYElasQLGInvnLGMSIADIYDSTImY 135
                                       5699***************9999988778899988888888887777665543338887445566676666555575 PP

                            AAA_30  83 rarlepgtllivDEagmv 100
                                       +++ e++ l+ivDE+  +
  gi|331746795|ref|YP_004422832.1| 136 MKEKESKYLIIVDEIDKL 153
                                       55677889******8665 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.4   0.0   1.6e-05     0.014       1      79 [.      59     155 ..      59     160 .. 0.73

  Alignments for each domain:
  == domain 1  score: 15.4 bits;  conditional E-value: 1.6e-05
                                       EEEEE--SSSSHHHHHHHGGGGB........S--EEEEE--TT--HHHHH--B--.................----- CS
                             AAA_5   1 dvlLvGppGtgKselaerlaaal........nreveyvqltrdtteedlkgrreik........ngttslvdsplvr 61 
                                       ++++ GppG+gK+  ++ l + +         ++  ++   +d+t++ +++++  +        ++ +   ds ++ 
  gi|331746795|ref|YP_004422832.1|  59 NLVIHGPPGVGKTVAVRMLERTYnevaleneIDSRAIYISAKDLTYRRVLYELASQlginvnlgMSIADIYDSTIM- 134
                                       58899**********9999999966666655455556666677777777777666577867666666666677666. PP

                                       ---...G-SEEEEESGGG--H CS
                             AAA_5  62 aar...egeilvlDEveraes 79 
                                        ++   ++ ++++DE++++++
  gi|331746795|ref|YP_004422832.1| 135 YMKekeSKYLIIVDEIDKLRK 155
                                       444688999999999999875 PP

>> NB-ARC  NB-ARC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.0   4.4e-05      0.04      22     112 ..      59     150 ..      39     156 .. 0.75

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 4.4e-05
                                       EEEEEESTTSSHHHHHHHHCCSHCCC..CCCBTEEEEEEEESXXHHHHHHHXXHHHHHCCCTTSSSS-STTSHHHHH CS
                            NB-ARC  22 vvalvGmgGvGKttlakqilnksdev..egrFdsvawvvvsktdkseeiletilkeLslseddleekeeveslkrkl 96 
                                        + ++G +GvGKt+ ++   + ++ev  e++ ds a    +k  + +++l +++ +L+ + +   + ++   + +  
  gi|331746795|ref|YP_004422832.1|  59 NLVIHGPPGVGKTVAVRMLERTYNEValENEIDSRAIYISAKDLTYRRVLYELASQLGINVNLGMSIAD---IYDST 132
                                       578***********8887777776651156888887776778889999999999999888444444443...56888 PP

                                       HHHCCCT..TEEEEEEEE CS
                            NB-ARC  97 vrlLltk..rfllvlDDV 112
                                         ++++k  ++l++ D +
  gi|331746795|ref|YP_004422832.1| 133 IMYMKEKesKYLIIVDEI 150
                                       889999889999999987 PP

>> AAA_17  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.9   0.0    0.0088       7.9       2      21 ..      64      83 ..      63      88 .. 0.87
   2 ?    4.5   0.0      0.05        45      38     119 ..     143     223 ..     122     238 .. 0.72
   3 ?   -1.4   0.0       3.2   2.8e+03      74     110 ..     272     308 ..     249     314 .. 0.71

  Alignments for each domain:
  == domain 1  score: 6.9 bits;  conditional E-value: 0.0088
                                      E-TTSSHHHHHHHHHHHHTE CS
                            AAA_17  2 GgPGsGKgtqceklvekygf 21
                                      G+PG+GK+ +++ l + y+ 
  gi|331746795|ref|YP_004422832.1| 64 GPPGVGKTVAVRMLERTYNE 83
                                      9**********999999985 PP

  == domain 2  score: 4.5 bits;  conditional E-value: 0.05
                                       TSHSSHHHHCTSHHHHHHHHHHHHHHHHHHHH.HSSEEEEEE-SEEEETTEEEESSHHHHHHHH..SEEEEEE--HH CS
                            AAA_17  38 glakardemrklpleekkelqkeaaekiaeea.kkkgvlvdghprikeqagfldglpkevleelkpdaiilleadpe 113
                                        l    de++kl +++ +e  +++  ++ + + + ++v+v  ++++ ++a+++++l +  + +l+p ++ + + + +
  gi|331746795|ref|YP_004422832.1| 143 YL-IIVDEIDKLRKRPGEEPVDNLVYSLSRINeRVGKVVVSIFFVT-NNARIVERLSAPSFSSLSPIFVYFRNYNTD 217
                                       33.4567888888888888777777777666524567888888876.88999*****99999999988887777777 PP

                                       HHHHHH CS
                            AAA_17 114 eilerr 119
                                       e+++ +
  gi|331746795|ref|YP_004422832.1| 218 ELYAIL 223
                                       777544 PP

  == domain 3  score: -1.4 bits;  conditional E-value: 3.2
                                       EEEEE-SEEEETTEEEESSHHHHHHHH..SEEEEEE- CS
                            AAA_17  74 vlvdghprikeqagfldglpkevleelkpdaiillea 110
                                         ++ +  +++ + +  ++  +v++ l++da++ll+a
  gi|331746795|ref|YP_004422832.1| 272 GKITEKSIWRAVEIIERKVLNQVINGLDIDALLLLYA 308
                                       4444555555666667788888999999999999876 PP

>> AAA_24  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.0   5.3e-05     0.048       4      78 ..      59     154 ..      57     160 .. 0.63

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 5.3e-05
                            AAA_24   4 kiliyGpsgiGKTtlakel..gpkplfidtekGlksldadkfpdie....................swedfldevve 58 
                                       +++i Gp+g+GKT  +++l  +++ + +  e  +++++    +d++                    s++d++d    
  gi|331746795|ref|YP_004422832.1|  59 NLVIHGPPGVGKTVAVRMLerTYNEVALENEIDSRAIYISA-KDLTyrrvlyelasqlginvnlgmSIADIYDSTIM 134
                                       789****************5533333333333222222222.22224457777777777777666666666666666 PP

                            AAA_24  59 laaeladyktlviDtidele 78 
                                         +e++    +++D id+l 
  gi|331746795|ref|YP_004422832.1| 135 YMKEKESKYLIIVDEIDKLR 154
                                       66666666688889999885 PP

>> MarR_2  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.0       1.3   1.2e+03       5      18 ..     102     115 ..     100     128 .. 0.82
   2 ?    2.0   0.2      0.22     2e+02       6      23 ..     239     256 ..     235     263 .. 0.83
   3 ?    6.5   0.0    0.0085       7.6      35      54 ..     344     363 ..     342     369 .. 0.90
   4 ?   -2.8   0.0       6.9   6.2e+03      11      30 ..     375     391 ..     373     392 .. 0.79

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 1.3
                                       HHHHHHHHHHHCTT CS
                            MarR_2   5 paqarvLaaLgrrp 18 
                                       ++ +rvL++L+   
  gi|331746795|ref|YP_004422832.1| 102 LTYRRVLYELASQL 115
                                       6889*****98765 PP

  == domain 2  score: 2.0 bits;  conditional E-value: 0.22
                                       HHHHHHHHHHCTTTSEEE CS
                            MarR_2   6 aqarvLaaLgrrpgrdlt 23 
                                       a +r+LaaL rr+ rdl+
  gi|331746795|ref|YP_004422832.1| 239 AALRLLAALIRRESRDLR 256
                                       6789*********99886 PP

  == domain 3  score: 6.5 bits;  conditional E-value: 0.0085
                                       HHHHHHHHHHHHHTTSEEEE CS
                            MarR_2  35 ksavsrilkrLvaaGLverr 54 
                                       k+++++i ++L+a GL++r+
  gi|331746795|ref|YP_004422832.1| 344 KHTINYIGAKLEAEGLITRK 363
                                       7999*************997 PP

  == domain 4  score: -2.8 bits;  conditional E-value: 6.9
                                       HHHHHCTTTSEEEHHHHHHH CS
                            MarR_2  11 LaaLgrrpgrdltvgelarr 30 
                                       L++L   p    tv+ ++++
  gi|331746795|ref|YP_004422832.1| 375 LFHLEEDP---TTVKNITKE 391
                                       88888888...599999875 PP

>> Rad17  Rad17 P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   0.0   9.1e-05     0.082      26      70 ..      39      82 ..      23     157 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 9.1e-05
                             Rad17 26 kkieevkewlkadvLesrkkriLLisGPsGCgkstvvkvLskelg 70
                                      + +ee+     ad+L s   + L+i GP+G gk+ +v++L + + 
  gi|331746795|ref|YP_004422832.1| 39 REVEEIAGH-AADFLFSSIVKNLVIHGPPGVGKTVAVRMLERTYN 82
                                      555555543.688999999999******************88765 PP

>> Mg_chelatase  Magnesium chelatase, subunit ChlI
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   0.00012      0.11      23      63 ..      58      98 ..      51     110 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00012
                      Mg_chelatase 23 HnlllvGppGsGKtmlakrlpsllpplseeealevakiasv 63
                                       nl++ GppG GKt+  + l+    ++  e+ +++++i+  
  gi|331746795|ref|YP_004422832.1| 58 KNLVIHGPPGVGKTVAVRMLERTYNEVALENEIDSRAIYIS 98
                                      599*******************9999999999999998744 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.2   0.00042      0.38      11     113 ..      58     152 ..      52     159 .. 0.50

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00042
                            AAA_19  11 kvllvtaGpGtGKTrvlkhivallvelg...gvkpeeillvaft...grAakelrerlaalgaeatTiHrlalldfd 81 
                                       k+l++ ++pG GKT  +++  + ++e+    +++ + i++ a     +r   el+ +l   g + +    +    + 
  gi|331746795|ref|YP_004422832.1|  58 KNLVIHGPPGVGKTVAVRMLERTYNEVAlenEIDSRAIYISAKDltyRRVLYELASQL---GINVNLG--M---SIA 126
                                       6799**********88877766666654000444455555553311122222333333...2222211..1...222 PP

                            AAA_19  82 dlltealelleeaeeekklqeeellivDEfqd 113
                                       d+ + +  +++e     k ++++l+ivDE+  
  gi|331746795|ref|YP_004422832.1| 127 DIYDSTIMYMKE-----K-ESKYLIIVDEIDK 152
                                       222222334332.....1.2445777777765 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   0.0   0.00024      0.22       2      39 ..      61      92 ..      60     156 .. 0.65

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 0.00024
                            AAA_18  2 lltGtpGvGKttlakeLskrlgfgvnlrdvakenglll 39
                                      ++ G+pGvGKt   + L++       +++va en++  
  gi|331746795|ref|YP_004422832.1| 61 VIHGPPGVGKTVAVRMLERT------YNEVALENEIDS 92
                                      588**************666......455555554443 PP

>> DUF815  Protein of unknown function (DUF815)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.3   0.0    0.0013       1.2      30      82 ..      34      86 ..      27     119 .. 0.81
   2 ?    0.8   0.0      0.25   2.3e+02     180     208 ..     123     151 ..     118     177 .. 0.85

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.0013
                            DUF815 30 LvgidkqkealventeqfleglpannvLLwGarGtGKSslvkallneyaeegL 82
                                      L   d++ e++   ++ fl     +n+++ G  G+GK   v+ l ++y+e  L
  gi|331746795|ref|YP_004422832.1| 34 LLFRDREVEEIAGHAADFLFSSIVKNLVIHGPPGVGKTVAVRMLERTYNEVAL 86
                                      55568888999999999****************************99998774 PP

  == domain 2  score: 0.8 bits;  conditional E-value: 0.25
                            DUF815 180 lsLsdRFGlwlgFykldqeeYleivekla 208
                                       +s++d +  ++ ++k ++++Yl iv+++ 
  gi|331746795|ref|YP_004422832.1| 123 MSIADIYDSTIMYMKEKESKYLIIVDEID 151
                                       899999999***************99875 PP

>> DEAD  DEAD/DEAH box helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.1   0.0    0.0093       8.4      15      54 ..      58      98 ..      48     119 .. 0.85
   2 ?    3.7   0.0     0.053        47     121     155 ..     140     175 ..     103     185 .. 0.70

  Alignments for each domain:
  == domain 1  score: 6.1 bits;  conditional E-value: 0.0093
                                      CEEEEEESTTSSHHHHHHHHHHHHHHHS...TTSTS-EEEEEE CS
                                      xxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxx RF
                              DEAD 15 gdvlvaaeTGsGKTlaflipvlqivyet...kgktgpkalive 54
                                      ++++++++ G GKT a  + +l++ y++   +++   +a++++
  gi|331746795|ref|YP_004422832.1| 58 KNLVIHGPPGVGKTVA--VRMLERTYNEvalENEIDSRAIYIS 98
                                      7899***********9..7788888888888888888999886 PP

  == domain 2  score: 3.7 bits;  conditional E-value: 0.053
                                       TEEE.EEEETHHHHHHTTTHHHHHHHHHHSHHHCTT CS
                                       xxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                              DEAD 121 qvrf.lVlDEadrlldqgfsdfinrilnqlpqitcd 155
                                       + ++ +++DE+d+l +   ++ +++++ +l++i+++
  gi|331746795|ref|YP_004422832.1| 140 ESKYlIIVDEIDKLRKRPGEEPVDNLVYSLSRINER 175
                                       44443899******9997777777777777666554 PP

>> LcrG  LcrG protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.0   0.00043      0.39      23      71 ..     105     158 ..      87     164 .. 0.81

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00043
                              LcrG  23 akllqelleglGlapeageklfggleaelvkaaeqe.....LleevkRrRsrqp 71 
                                        ++l el  +lG++ + g+ +    + + +   e+e     +++e+ ++R+r  
  gi|331746795|ref|YP_004422832.1| 105 RRVLYELASQLGINVNLGMSIADIYDSTIMYMKEKEskyliIVDEIDKLRKRPG 158
                                       47899***********************88777777556555799999998755 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (404 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       687  (0.0383178); expected 358.6 (0.02)
Passed bias filter:                      558  (0.0311228); expected 358.6 (0.02)
Passed Vit filter:                        81  (0.00451782); expected 17.9 (0.001)
Passed Fwd filter:                        20  (0.00111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              20  [number of targets reported over threshold]
# CPU time: 0.67u 0.27s 00:00:00.94 Elapsed: 00:00:00.49
# Mc/sec: 2485.12
//
Query:       gi|331746796|ref|YP_004422833.1|  [L=309]
Description: hypothetical protein TERMP_02218 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
     0.0066   16.5   0.0       0.01   15.8   0.0    1.3  1  Mrr_cat         Restriction endonuclease
     0.0083   15.4   1.6      0.016   14.5   1.2    1.6  2  Endonuc-FokI_C  Restriction endonuclease FokI, C terminal


Domain annotation for each model (and alignments):
>> Mrr_cat  Restriction endonuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.8   0.0   1.1e-06      0.01       3      57 ..     162     213 ..     160     239 .. 0.76

  Alignments for each domain:
  == domain 1  score: 15.8 bits;  conditional E-value: 1.1e-06
                                       TT-TTCHHHHHHHHHHHHSSSEEE---B-TTSS.B--EEEETTEEEEEEEEEEE-- CS
                           Mrr_cat   3 kmspkeFeklvaellealGykeveltgrsgDgg.iDliakkdplgserilvqaKry 57 
                                       ++s  eFe+ +a+ll+a G++ v + g++ +g  +D+ia  d+ +   i+  +K +
  gi|331746796|ref|YP_004422833.1| 162 ELSNDEFEDRIADLLKAIGFN-VIQKGHKLEGEfADGIAWIDNYY---IVYDCKNR 213
                                       78999***************9.999998888888*****998744...77777765 PP

>> Endonuc-FokI_C  Restriction endonuclease FokI, C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.0      0.25   2.3e+03     115     144 ..      35      65 ..      28      78 .. 0.74
   2 !   14.5   1.2   1.8e-06     0.016      34     115 ..     164     244 ..     153     259 .. 0.78

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 0.25
                    Endonuc-FokI_C 115 Welfeeevkkyn.fvfvsgsfkGnfkerLen 144
                                       We++++++      v++  + kG++++ L++
  gi|331746796|ref|YP_004422833.1|  35 WENLKKSLPLPGlGVYIKQTIKGKIHDYLHK 65 
                                       7777777665543589999999999888765 PP

  == domain 2  score: 14.5 bits;  conditional E-value: 1.8e-06
                    Endonuc-FokI_C  34 qnrdfeiktieLlvkeldfk....GkrLGgsrkPdgivyedndGiildtkayskGyslpikqademeryveenkdrd 106
                                       +n +fe ++++Ll k ++f+    G++L g +  dgi++ dn+ i+ d k     y+ + +    +++y+e+  +r+
  gi|331746796|ref|YP_004422833.1| 164 SNDEFEDRIADLL-KAIGFNviqkGHKLEG-EFADGIAWIDNYYIVYDCKNR-WNYTPTDSDIRAIKKYLEDEMKRN 237
                                       67899*9999987.5678861111555544.568****************85.56999999999************* PP

                    Endonuc-FokI_C 107 eevnpnkWW 115
                                        e n  +++
  gi|331746796|ref|YP_004422833.1| 238 GEEN--RYY 244
                                       9987..555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (309 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       601  (0.0335211); expected 358.6 (0.02)
Passed bias filter:                      492  (0.0274416); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.58u 0.32s 00:00:00.89 Elapsed: 00:00:00.67
# Mc/sec: 1387.84
//
Query:       gi|331746797|ref|YP_004422834.1|  [L=37]
Description: hypothetical protein TERMP_02219 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (37 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       207  (0.0115455); expected 358.6 (0.02)
Passed bias filter:                      190  (0.0105974); expected 358.6 (0.02)
Passed Vit filter:                         9  (0.00050198); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.38u 0.27s 00:00:00.65 Elapsed: 00:00:00.44
# Mc/sec: 251.55
//
Query:       gi|331746798|ref|YP_004422835.1|  [L=197]
Description: hypothetical protein TERMP_02220 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    1.1e-06   28.7   0.1    1.5e-06   28.2   0.1    1.2  1  Polbeta       Polymerase beta, Nucleotidyltransferase
    0.00024   21.3   0.0    0.00042   20.6   0.0    1.4  1  NTP_transf_2  Nucleotidyltransferase domain


Domain annotation for each model (and alignments):
>> Polbeta  Polymerase beta, Nucleotidyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.2   0.1   1.7e-10   1.5e-06       4      71 ..       5      76 ..       2      91 .. 0.89

  Alignments for each domain:
  == domain 1  score: 28.2 bits;  conditional E-value: 1.7e-10
                                      TTTHHHHHHHHSTTEEEEEE-S------EEEEEEEESS---HHHHHHHHHHHHHH......SSSEEEEEETT.T CS
                           Polbeta  4 keilekekeielaylFGSrakgkareeSDiDlavllkekldleeelelaaeledi.....klgkkvDlvdln.e 71
                                      k++ +k+k++  ++l+GS   gk  +  D+D++v++k+  + ee+++la e+ +i     ++++k+D+  +n e
  gi|331746798|ref|YP_004422835.1|  5 KNFKKKHKKVFDVILYGSTTLGKELP-NDFDFMVITKKA-NEEERFDLAFEFREIlldlgFSHEKLDVKAINlE 76
                                      66778999*****************8.9*********99.8999999999999999998999999999998844 PP

>> NTP_transf_2  Nucleotidyltransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.6   0.0   4.7e-08   0.00042       3      48 ..       2      54 ..       1      90 [. 0.76

  Alignments for each domain:
  == domain 1  score: 20.6 bits;  conditional E-value: 4.7e-08
                                      HHHHHHHHHTT.TSEEEEEHHHHCTTSCTTSSEEEEEEESTTCHHH.......H CS
                      NTP_transf_2  3 klleelkelep.vakvvlfGSyarGtalkgSDiDllvvlpeevsre.......k 48
                                      k+++ +k++++ v +v+l+GS+  G+ l++ D D+ v++++  ++e       +
  gi|331746798|ref|YP_004422835.1|  2 KAAKNFKKKHKkVFDVILYGSTTLGKELPN-DFDFMVITKKANEEErfdlafeF 54
                                      788999999999**************9997.***********876666644331 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (197 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       441  (0.024597); expected 358.6 (0.02)
Passed bias filter:                      366  (0.0204139); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.29s 00:00:00.80 Elapsed: 00:00:00.49
# Mc/sec: 1212.60
//
Query:       gi|331746799|ref|YP_004422836.1|  [L=111]
Description: hypothetical protein TERMP_02221 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (111 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       447  (0.0249317); expected 358.6 (0.02)
Passed bias filter:                      343  (0.019131); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.43u 0.27s 00:00:00.70 Elapsed: 00:00:00.43
# Mc/sec: 769.30
//
Query:       gi|331746800|ref|YP_004422837.1|  [L=52]
Description: hypothetical protein TERMP_02222 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
     0.0024   18.0   0.0     0.0026   17.8   0.0    1.1  1  HicB_lk_antitox  HicB_like antitoxin of bacterial toxin-antit


Domain annotation for each model (and alignments):
>> HicB_lk_antitox  HicB_like antitoxin of bacterial toxin-antitoxin system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.8   0.0   1.5e-07    0.0026      25      55 ..       2      32 ..       1      36 [. 0.87

  Alignments for each domain:
  == domain 1  score: 17.8 bits;  conditional E-value: 1.5e-07
                   HicB_lk_antitox 25 sagdtleeaianakeaielhlegliedgeei 55
                                      s g+t eea++n+keai l+le l +d e+i
  gi|331746800|ref|YP_004422837.1|  2 SQGETKEEALRNIKEAIGLYLEVLEKDFEKI 32
                                      89********************987766655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (52 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       383  (0.021362); expected 358.6 (0.02)
Passed bias filter:                      324  (0.0180713); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.32u 0.26s 00:00:00.58 Elapsed: 00:00:00.39
# Mc/sec: 398.62
//
Query:       gi|331746801|ref|YP_004422838.1|  [L=62]
Description: hypothetical protein TERMP_02223 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
  ------ inclusion threshold ------
       0.16   12.4   0.0       0.18   12.3   0.0    1.1  1  PSII_Pbs31  Photosystem II Psb31 protein


Domain annotation for each model (and alignments):
>> PSII_Pbs31  Photosystem II Psb31 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.0     1e-05      0.18       9      58 ..       8      55 ..       4      62 .] 0.79

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 1e-05
                        PSII_Pbs31  9 raRaiYGsRiarLksAvekGdfaavveeknaftLFnsGayksaadKakkk 58
                                       aRa+ G+R++r+    +   f+   ++   ++L+  G y  +  K+  k
  gi|331746801|ref|YP_004422838.1|  8 LARAVLGKRVVRVVTGPD--GFDLEFDDGTIIELYDVGGYVITSRKEVEK 55
                                      59***********99999..5666789*************6666665443 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (62 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       437  (0.0243739); expected 358.6 (0.02)
Passed bias filter:                      350  (0.0195214); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.42u 0.27s 00:00:00.69 Elapsed: 00:00:00.45
# Mc/sec: 413.16
//
Query:       gi|331746802|ref|YP_004422839.1|  [L=146]
Description: Programmed cell death toxin YdcE-like protein [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    9.4e-14   52.2   0.2    1.5e-13   51.6   0.2    1.3  1  PIN_3          PIN domain
  ------ inclusion threshold ------
      0.016   15.4   0.2      0.023   14.9   0.2    1.4  1  PIN_2          PIN domain
      0.059   13.5   1.1       0.28   11.4   0.3    2.1  2  OCRL_clath_bd  Inositol polyphosphate 5-phosphatase clathrin 


Domain annotation for each model (and alignments):
>> PIN_3  PIN domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.6   0.2   2.4e-17   1.5e-13       2     114 ..       3     109 ..       2     111 .. 0.81

  Alignments for each domain:
  == domain 1  score: 51.6 bits;  conditional E-value: 2.4e-17
                             PIN_3   2 vvlDtnvlldallfdspaarkildaletgaitlvvsprlldElervlarelaypqfklraadkaallakvalerkav 78 
                                        v Dtnv+l++++ +  +a+ ++++l ++ +  ++s+++l+El+  +      ++ kl+  ++ + la +      +
  gi|331746802|ref|YP_004422839.1|   3 LVMDTNVVLAVMIKPRGLAALLIELLDKEHFINYTSQEALEELQIKM--AILEEEGKLSKNWL-QVLANFL---YGT 73 
                                       79***********8888***************************444..33344445555555.5555555...566 PP

                             PIN_3  79 apdaelrpllkcrDpdDqkvlelAlaaradvlVTkd 114
                                       +  ++++    crD+dD+k l++A+ a+ +v++T+d
  gi|331746802|ref|YP_004422839.1|  74 EIIEPKEHFNLCRDEDDNKLLDIAYDAKVQVILTWD 109
                                       666666666669***********************9 PP

>> PIN_2  PIN domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.9   0.2   3.9e-06     0.023       1      64 [.       4      70 ..       4     113 .. 0.77

  Alignments for each domain:
  == domain 1  score: 14.9 bits;  conditional E-value: 3.9e-06
                             PIN_2  1 VvdaNivvsallk....srikkrlilvekaleliapeeaveeiekhkealvkksklseeeleellell 64
                                      V+d+N+v++ ++k    +     l+  e+    ++ +ea+ee++ +++ l +++kls++ l+ l++ l
  gi|331746802|ref|YP_004422839.1|  4 VMDTNVVLAVMIKprglAALLIELLDKEH-FINYTSQEALEELQIKMAILEEEGKLSKNWLQVLANFL 70
                                      89***********7542233333333333.44489*************88777888777766666544 PP

>> OCRL_clath_bd  Inositol polyphosphate 5-phosphatase clathrin binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.7   0.0       0.1     6e+02      68      95 ..      11      38 ..       3      47 .. 0.73
   2 ?   11.4   0.3   4.7e-05      0.28      42      95 ..      76     126 ..      49     134 .. 0.84

  Alignments for each domain:
  == domain 1  score: 0.7 bits;  conditional E-value: 0.1
                     OCRL_clath_bd 68 vkiRvrgerapelllElqDdertltfle 95
                                      + + ++    + ll+El D e+ +++ +
  gi|331746802|ref|YP_004422839.1| 11 LAVMIKPRGLAALLIELLDKEHFINYTS 38
                                      5556666667789999999999877765 PP

  == domain 2  score: 11.4 bits;  conditional E-value: 4.7e-05
                     OCRL_clath_bd  42 iPinskfkivrEAeEaLLidistnsgvkiRvrgerapelllElqDdertltfle 95 
                                       i  +++f+++r+ ++  L+di+ +  v++ +  +   + ll+l+Dd + l + +
  gi|331746802|ref|YP_004422839.1|  76 IEPKEHFNLCRDEDDNKLLDIAYDAKVQVILTWD---DDLLDLRDDKKVLRLKD 126
                                       55578********************999988755...6799*****99988755 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (146 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       590  (0.0329076); expected 358.6 (0.02)
Passed bias filter:                      334  (0.018629); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.56u 0.31s 00:00:00.87 Elapsed: 00:00:00.52
# Mc/sec: 841.94
//
Query:       gi|331746803|ref|YP_004422840.1|  [L=107]
Description: Programmed cell death antitoxin YdcD-like protein [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    7.7e-07   28.8   0.0    2.3e-06   27.3   0.0    1.9  1  RHH_1            Ribbon-helix-helix protein, copG family
    0.00026   21.1   0.0    0.00031   20.9   0.0    1.3  1  RHH_8            Ribbon-Helix-Helix transcriptional regulator
    0.00044   20.4   0.2      0.002   18.2   0.0    1.9  2  HicB_lk_antitox  HicB_like antitoxin of bacterial toxin-antit
  ------ inclusion threshold ------
      0.014   15.2   0.5      0.026   14.4   0.4    1.5  1  sCache_2         Single Cache domain 2


Domain annotation for each model (and alignments):
>> RHH_1  Ribbon-helix-helix protein, copG family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   27.3   0.0     5e-10   2.3e-06       2      34 ..       9      42 ..       8      47 .. 0.92

  Alignments for each domain:
  == domain 1  score: 27.3 bits;  conditional E-value: 5e-10
                                      EEEEEEHHHHHHHHHHHHHHT.SSHHHHHHHHHH CS
                             RHH_1  2 vsirldeellerLdelarrrg.rSrSelIReAlr 34
                                      vs+rl++ +++++del+++++ +SrS++I+ A+ 
  gi|331746803|ref|YP_004422840.1|  9 VSVRLPKYIIKKIDELVKEGEfKSRSDFIKYAVT 42
                                      8****************************98876 PP

>> RHH_8  Ribbon-Helix-Helix transcriptional regulator family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.9   0.0   6.9e-08   0.00031      13      45 ..      16      48 ..       6      91 .. 0.74

  Alignments for each domain:
  == domain 1  score: 20.9 bits;  conditional E-value: 6.9e-08
                             RHH_8 13 vDLgqiDlLveeGfYsnRtDlirtairaqLakh 45
                                        + +iD Lv+eG + +R+D+i+ a+   L + 
  gi|331746803|ref|YP_004422840.1| 16 YIIKKIDELVKEGEFKSRSDFIKYAVTLTLGQI 48
                                      55679*********************9877553 PP

>> HicB_lk_antitox  HicB_like antitoxin of bacterial toxin-antitoxin system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.2   0.0   4.5e-07     0.002      91     120 ..       8      38 ..       2      41 .. 0.89
   2 ?    0.1   0.1      0.18   8.1e+02      30      51 ..      62      83 ..      47     100 .. 0.71

  Alignments for each domain:
  == domain 1  score: 18.2 bits;  conditional E-value: 4.5e-07
                   HicB_lk_antitox  91 riNitlpervlkriDaavkaag.esRSgfla 120
                                        + + lp+ ++k+iD++vk+ + +sRS f+ 
  gi|331746803|ref|YP_004422840.1|   8 PVSVRLPKYIIKKIDELVKEGEfKSRSDFIK 38 
                                       58899***************9989*****96 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 0.18
                   HicB_lk_antitox 30 leeaianakeaielhleglied 51
                                       eea a +++a++  + + ied
  gi|331746803|ref|YP_004422840.1| 62 PEEAKARSRQALQKLFTEEIED 83
                                      4778888888877665554544 PP

>> sCache_2  Single Cache domain 2
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.4   5.8e-06     0.026       5      48 ..      33      76 ..      30      80 .. 0.89

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 5.8e-06
                          sCache_2  5 keaelknqvetaislieavykqvesgkiteeeaqeevkelvngl 48
                                      + + +k  v+ ++++i + +++ +++ it eea+++ ++++++l
  gi|331746803|ref|YP_004422840.1| 33 RSDFIKYAVTLTLGQIMMEKAREKAKTITPEEAKARSRQALQKL 76
                                      56668899*******************************99875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (107 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1325  (0.0739026); expected 358.6 (0.02)
Passed bias filter:                      625  (0.0348597); expected 358.6 (0.02)
Passed Vit filter:                        67  (0.00373696); expected 17.9 (0.001)
Passed Fwd filter:                         4  (0.000223102); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               4  [number of targets reported over threshold]
# CPU time: 0.50u 0.26s 00:00:00.76 Elapsed: 00:00:00.47
# Mc/sec: 689.60
//
Query:       gi|331746804|ref|YP_004422841.1|  [L=163]
Description: hypothetical protein TERMP_02226 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    0.00061   19.9   2.0     0.0011   19.1   2.0    1.3  1  Halogen_Hydrol  5-bromo-4-chloroindolyl phosphate hydrolysis 
     0.0011   18.8   1.2     0.0022   17.9   0.3    1.9  2  TrmB            Sugar-specific transcriptional regulator TrmB
     0.0019   18.3   0.1     0.0033   17.5   0.1    1.4  1  HTH_28          Helix-turn-helix domain
     0.0028   17.8   0.6     0.0076   16.4   0.3    2.0  1  HTH_17          Helix-turn-helix domain
     0.0084   16.0   3.8     0.0084   16.0   3.8    1.8  2  Ferritin        Ferritin-like domain
  ------ inclusion threshold ------
      0.013   15.5   0.0      0.024   14.6   0.0    1.5  1  HTH_29          Winged helix-turn helix
      0.027   14.0   0.6      0.027   14.0   0.6    2.7  3  HTH_24          Winged helix-turn-helix DNA-binding
      0.041   14.6   1.5      0.086   13.5   1.5    1.6  1  IMS_C           impB/mucB/samB family C-terminal domain
      0.041   14.7   9.9       0.14   13.0   5.4    2.4  2  FliT            Flagellar protein FliT
      0.065   11.8   8.7      0.062   11.9   8.1    1.3  1  FapA            Flagellar Assembly Protein A
      0.079   12.5   1.4      0.094   12.2   1.4    1.2  1  Allexi_40kDa    Allexivirus 40kDa protein
       0.09   13.0   0.0        0.2   11.9   0.0    1.6  1  PaaX            PaaX-like protein
       0.12   12.0   5.6       0.14   11.8   5.6    1.1  1  DUF4559         Domain of unknown function (DUF4559)
       0.16   12.0   7.7       0.95    9.5   1.4    2.3  2  Bcr-Abl_Oligo   Bcr-Abl oncoprotein oligomerisation domain
       0.16   11.8   4.6       0.23   11.3   4.6    1.3  1  PCRF            PCRF domain
       0.27   11.7   2.8       0.61   10.6   0.2    2.7  3  HTH_26          Cro/C1-type HTH DNA-binding domain
       0.28   11.8   0.9       0.55   10.9   0.9    1.6  1  DUF3800         Protein of unknown function (DUF3800)
       0.37   10.0   3.7       0.43    9.8   3.7    1.1  1  TMPIT           TMPIT-like protein
       0.39   11.2   3.6        1.5    9.3   1.3    2.6  3  YejG            YejG-like protein
       0.61   10.8   5.8       0.79   10.4   4.8    1.6  2  DUF2203         Uncharacterized conserved protein (DUF2203)
       0.67   10.5   4.2        1.6    9.2   3.9    1.8  1  NPV_P10         Nucleopolyhedrovirus P10 protein
        1.9    9.0   9.5        8.4    6.9   1.3    2.8  2  FlaC_arch       Flagella accessory protein C (FlaC)
        2.2    8.5   6.7        3.3    7.9   5.4    1.8  1  Fib_alpha       Fibrinogen alpha/beta chain family
        2.2    8.5   7.6        2.8    8.1   4.0    2.3  2  DUF1492         Protein of unknown function (DUF1492)
        3.5    7.6  10.1       0.48   10.4   2.5    2.3  2  P4Ha_N          Prolyl 4-Hydroxylase alpha-subunit, N-termina


Domain annotation for each model (and alignments):
>> Halogen_Hydrol  5-bromo-4-chloroindolyl phosphate hydrolysis protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.1   2.0   1.5e-06    0.0011      63     118 ..      25      80 ..      10      83 .. 0.92

  Alignments for each domain:
  == domain 1  score: 19.1 bits;  conditional E-value: 1.5e-06
                    Halogen_Hydrol  63 lkyiretlkeakekikrlekalkrvrslevikqvreilriarrifkalekePrrlk 118
                                       ++ i++ ++e ke++k+l++ l+   + +++++++++l++ r+i + le+e +++k
  gi|331746804|ref|YP_004422841.1|  25 IENIEKEIREVKEHMKELQRLLNDKADKQAVDLLSKMLETERKIVDSLEQELKEIK 80 
                                       566999***********************************************997 PP

>> TrmB  Sugar-specific transcriptional regulator TrmB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.0       5.5     4e+03      27      36 ..      57      66 ..      42      77 .. 0.54
   2 !   17.9   0.3     3e-06    0.0022      15      64 ..     110     159 ..     104     162 .. 0.92

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 5.5
                                      HHCCCTTSSC CS
                              TrmB 27 eiaeelgvpr 36
                                       ++++l+ +r
  gi|331746804|ref|YP_004422841.1| 57 LLSKMLETER 66
                                      3444444333 PP

  == domain 2  score: 17.9 bits;  conditional E-value: 3e-06
                                       HHHHHHCCCHHCHHCCCTTSSCHCHHHHHHHHHHCTSEEEESSTTTEEEE CS
                              TrmB  15 laLlklgpatadeiaeelgvprskvYevLrsLedkGlVerekgrpklYra 64 
                                       ++L+++g  + +e+ ++lg++  k Y+++++L+    ++++k+ +k+Y +
  gi|331746804|ref|YP_004422841.1| 110 IKLISQGHNSPTELIRMLGISADKLYQIINRLIASRRIKKIKKGRKVYYV 159
                                       7899**************************************99888864 PP

>> HTH_28  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.5   0.1   4.7e-06    0.0033       4      39 ..     108     144 ..     107     155 .. 0.83

  Alignments for each domain:
  == domain 1  score: 17.5 bits;  conditional E-value: 4.7e-06
                            HTH_28   4 eiikllaaGh.svreaArelgisrrtvyrWikryeeg 39 
                                       + ikl+ +Gh s +e+ r lgis + +y+ i+r+ + 
  gi|331746804|ref|YP_004422841.1| 108 RLIKLISQGHnSPTELIRMLGISADKLYQIINRLIAS 144
                                       5699999**************************8774 PP

>> HTH_17  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   0.3   1.1e-05    0.0076       4      38 ..     120     158 ..     119     163 .] 0.85

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 1.1e-05
                            HTH_17   4 veEaAelLgvsrstvyrlir....rgelpaakiGrrwri 38 
                                       + E+ ++Lg+s  ++y+ i+    + +++  k+Gr++++
  gi|331746804|ref|YP_004422841.1| 120 PTELIRMLGISADKLYQIINrliaSRRIKKIKKGRKVYY 158
                                       578889***********9966777************665 PP

>> Ferritin  Ferritin-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.0   3.8   1.2e-05    0.0084      69     140 ..      15      80 ..       5      82 .. 0.88
   2 ?   -1.5   0.0         3   2.1e+03      84     103 ..      98     117 ..      87     119 .. 0.77

  Alignments for each domain:
  == domain 1  score: 16.0 bits;  conditional E-value: 1.2e-05
                                       HHHC-SSSSCSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                          Ferritin  69 leeieapkefgsveevleaalehekkvteslrelielaeeegDpatadfledfleeqeeheweleallekle 140
                                       l+e+      ++++  +e++ +  ++v e+++el +l +++ D + +d+l ++le++ + ++ le+ l++++
  gi|331746804|ref|YP_004422841.1|  15 LHEL------KTALIRIENIEKEIREVKEHMKELQRLLNDKADKQAVDLLSKMLETERKIVDSLEQELKEIK 80 
                                       4444......677888899999999*******************************************9987 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 3
                                       HHHHHHHHHHHHHHHHHHHH CS
                          Ferritin  84 vleaalehekkvteslreli 103
                                       v  +++e+e+ +++ + +++
  gi|331746804|ref|YP_004422841.1|  98 VSIDDFELEERLIKLISQGH 117
                                       55678899999999998876 PP

>> HTH_29  Winged helix-turn helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.6   0.0   3.4e-05     0.024       5      45 ..     110     151 ..     108     156 .. 0.84

  Alignments for each domain:
  == domain 1  score: 14.6 bits;  conditional E-value: 3.4e-05
                            HTH_29   5 llllaeGvstvsqiAkllglsrrtvyrwlkrfeegG.laall 45 
                                       + l+++G+ ++ ++ ++lg+s ++ y +++r  + + +++++
  gi|331746804|ref|YP_004422841.1| 110 IKLISQGHNSPTELIRMLGISADKLYQIINRLIASRrIKKIK 151
                                       7899***************************88777454454 PP

>> HTH_24  Winged helix-turn-helix DNA-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.2   0.1       2.2   1.6e+03      34      43 ..      35      44 ..      34      45 .. 0.84
   2 ?   -0.6   0.0       1.4   9.9e+02       2      14 ..      62      74 ..      61      75 .. 0.80
   3 ?   14.0   0.6   3.8e-05     0.027      11      44 ..     112     144 ..     104     148 .. 0.84

  Alignments for each domain:
  == domain 1  score: -1.2 bits;  conditional E-value: 2.2
                            HTH_24 34 vnrrlkrLee 43
                                      v++++k+L++
  gi|331746804|ref|YP_004422841.1| 35 VKEHMKELQR 44
                                      7899**9975 PP

  == domain 2  score: -0.6 bits;  conditional E-value: 1.4
                            HTH_24  2 detdrkILelLqk 14
                                       et+rkI   L++
  gi|331746804|ref|YP_004422841.1| 62 LETERKIVDSLEQ 74
                                      689****998876 PP

  == domain 3  score: 14.0 bits;  conditional E-value: 3.8e-05
                            HTH_24  11 lLqknprisqreLAerlglSpstvnrrlkrLeee 44 
                                       l+  +++ s +eL ++lg+S   + + ++rL+ +
  gi|331746804|ref|YP_004422841.1| 112 LI-SQGHNSPTELIRMLGISADKLYQIINRLIAS 144
                                       44.459*************************976 PP

>> IMS_C  impB/mucB/samB family C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   1.5   0.00012     0.086      32     107 ..      67     134 ..      13     140 .. 0.73

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 0.00012
                             IMS_C  32 eLaeelarrLrdkglvartitlklrysdfhasrsatLprptsdtreileaalkLlrrlidepglpirligvsasnl 107
                                       + +++l   L++ +l  +t+ l+         +s++++    d  e++e ++kL  + ++ p+++ir +g+sa +l
  gi|331746804|ref|YP_004422841.1|  67 KIVDSLEQELKEIKLKFDTLELSSE-----LAESHKVS---IDDFELEERLIKLISQGHNSPTELIRMLGISADKL 134
                                       5566666666666667777777774.....66777666...99************999999************998 PP

>> FliT  Flagellar protein FliT
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.2   2.7     0.025        18      36      74 ..      11      48 ..       3      55 .. 0.83
   2 ?   13.0   5.4   0.00019      0.14      20      78 ..      35      89 ..      33      95 .. 0.85

  Alignments for each domain:
  == domain 1  score: 6.2 bits;  conditional E-value: 0.025
                                      -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCH CS
                              FliT 36 spaereekrellrrilandaeirallqprldelqkllga 74
                                      +p+e  e+  +l ri  +++eir+ +++ + elq+ll++
  gi|331746804|ref|YP_004422841.1| 11 DPDELHELKTALIRIENIEKEIRE-VKEHMKELQRLLND 48
                                      67888888888899********98.8999*******987 PP

  == domain 2  score: 13.0 bits;  conditional E-value: 0.00019
                                      HHHHHHHHHCS--ST--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHTHHH CS
                              FliT 20 rqqlverlreldaaplspaereekrellrrilandaeirallqprldelqkllgalrrq 78
                                        +++ +l++l     ++ + ++  +ll+++l+ +++i + l+++l e++ ++++l  +
  gi|331746804|ref|YP_004422841.1| 35 VKEHMKELQRLL----NDKADKQAVDLLSKMLETERKIVDSLEQELKEIKLKFDTLELS 89
                                      556777777777....999*******************************999887655 PP

>> FapA  Flagellar Assembly Protein A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   8.1   8.6e-05     0.062     326     410 ..       6      92 ..       3     125 .. 0.61

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 8.6e-05
                              FapA 326 ievgldepelkeklkeleeeleeleeeleklkkkikklpklkaekqlesekkeqlkklletk....eklkeeleele 398
                                       + +g+d p+   +lk    ++e++e+e++++k+ +k+l+ l ++k  +++  + l k+let      +l++el+e++
  gi|331746804|ref|YP_004422841.1|   6 LILGFD-PDELHELKTALIRIENIEKEIREVKEHMKELQRLLNDK-ADKQAVDLLSKMLETErkivDSLEQELKEIK 80 
                                       556888.66667778888888888888888888866666543333.3444444444444444122255666666666 PP

                              FapA 399 eelkelkeeles 410
                                        ++++l+ + e 
  gi|331746804|ref|YP_004422841.1|  81 LKFDTLELSSEL 92 
                                       666644333332 PP

>> Allexi_40kDa  Allexivirus 40kDa protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   1.4   0.00013     0.094      80     145 ..      25      94 ..       4     129 .. 0.64

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 0.00013
                      Allexi_40kDa  80 Lselrdalrtltklldklksvekklelsaetasdskl....lkklesietsleelhakldelsssetses 145
                                       + ++ +++r++++++++l+++ + + +++  +  sk+     k ++s+e++l+e++ k+d+l  s++ ++
  gi|331746804|ref|YP_004422841.1|  25 IENIEKEIREVKEHMKELQRLLNDKADKQAVDLLSKMleteRKIVDSLEQELKEIKLKFDTLELSSELAE 94 
                                       44455555555555555555544444433333333320000456899************99877655443 PP

>> PaaX  PaaX-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.9   0.0   0.00028       0.2      28      68 ..     122     162 ..     114     163 .] 0.90

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 0.00028
                              PaaX  28 rllaelGiseslvRaalsRlakaGwlvrekegrrsfYrLsd 68 
                                       +l+  lGis+  +   + Rl +   +++ k+gr+++Y L +
  gi|331746804|ref|YP_004422841.1| 122 ELIRMLGISADKLYQIINRLIASRRIKKIKKGRKVYYVLVE 162
                                       566779*******************************9976 PP

>> DUF4559  Domain of unknown function (DUF4559)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   5.6    0.0002      0.14     182     259 ..      21     100 ..      12     153 .. 0.53

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.0002
                           DUF4559 182 tvpeleeaeeaieel...lkilkqefeislkeddevrvltdvllslqklkeleeellkedatkldelvlraeeqkis 255
                                        +  +e++e++i e+   +k l+  ++ ++++ + v+ l+++l+ ++k+ +  e++lke  +k d+l l+ e  + +
  gi|331746804|ref|YP_004422841.1|  21 ALIRIENIEKEIREVkehMKELQRLLNDKADK-QAVDLLSKMLETERKIVDSLEQELKEIKLKFDTLELSSELAESH 96 
                                       34444444444444400033334444444444.67788888888888888888888888777777776665544333 PP

                           DUF4559 256 keel 259
                                       k ++
  gi|331746804|ref|YP_004422841.1|  97 KVSI 100
                                       3332 PP

>> Bcr-Abl_Oligo  Bcr-Abl oncoprotein oligomerisation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   1.4    0.0013      0.95      23      49 ..      22      48 ..      12      53 .. 0.87
   2 ?    6.1   0.9     0.016        11      24      64 ..      53      95 ..      48     102 .. 0.72

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.0013
                     Bcr-Abl_Oligo 23 LdsvedieqeLerCkaslrrLekelne 49
                                      L  +e+ie+e+ + k+++++L++ ln 
  gi|331746804|ref|YP_004422841.1| 22 LIRIENIEKEIREVKEHMKELQRLLND 48
                                      66799******************9996 PP

  == domain 2  score: 6.1 bits;  conditional E-value: 0.016
                     Bcr-Abl_Oligo 24 dsvedieqeLerCkaslrrLekelneekfk..viyLqtllake 64
                                      ++v+ + + Le+ ++ +  Le+el+e k k   + L + la  
  gi|331746804|ref|YP_004422841.1| 53 QAVDLLSKMLETERKIVDSLEQELKEIKLKfdTLELSSELAES 95
                                      6677788999999999999999999876551155666666655 PP

>> PCRF  PCRF domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   4.6   0.00032      0.23      23      91 ..      24      93 ..       9     109 .. 0.60

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00032
                                      GSSSTTHHHHHTHHHHHHHHHHHHHTTTHHH...HT.......-S-..-GGGTHHHHHHHHHH..HHHHHT- CS
                              PCRF 23 kakklskelaeleeivealeeleealedleeakelle...edeelaelaeeeleelekeleeleeelkklLl 91
                                      +++++ ke++e++e +++l++l + ++d ++++ l +   +++++ +  e+el+e++ ++++l  el++ L 
  gi|331746804|ref|YP_004422841.1| 24 RIENIEKEIREVKEHMKELQRLLNDKADKQAVDLLSKmleTERKIVDSLEQELKEIKLKFDTL--ELSSELA 93
                                      456666677777777777776666666655544333222255556666666666666666666..5555555 PP

>> HTH_26  Cro/C1-type HTH DNA-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.1   0.0       1.6   1.2e+03      25      45 ..      40      60 ..      32      64 .. 0.74
   2 ?   -0.5   0.1       2.4   1.7e+03      28      45 ..      43      60 ..      41      87 .. 0.63
   3 ?   10.6   0.2   0.00085      0.61       5      34 ..     112     141 ..     108     152 .. 0.76

  Alignments for each domain:
  == domain 1  score: 0.1 bits;  conditional E-value: 1.6
                            HTH_26 25 atlsrlvkgkpervsldtLdk 45
                                        l+rl+++k++    d L+k
  gi|331746804|ref|YP_004422841.1| 40 KELQRLLNDKADKQAVDLLSK 60
                                      568899999987777766666 PP

  == domain 2  score: -0.5 bits;  conditional E-value: 2.4
                            HTH_26 28 srlvkgkpervsldtLdk 45
                                      +rl+++k++    d L+k
  gi|331746804|ref|YP_004422841.1| 43 QRLLNDKADKQAVDLLSK 60
                                      566666665555554444 PP

  == domain 3  score: 10.6 bits;  conditional E-value: 0.00085
                            HTH_26   5 lmadrgitkseLargtgisaatlsrlvkgk 34 
                                       l+ + + + +eL r++gisa++l+ + +  
  gi|331746804|ref|YP_004422841.1| 112 LISQGHNSPTELIRMLGISADKLYQIINRL 141
                                       555555599***************999875 PP

>> DUF3800  Protein of unknown function (DUF3800)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.9   0.9   0.00077      0.55      28      77 ..      21     102 ..       4     160 .. 0.57

  Alignments for each domain:
  == domain 1  score: 10.9 bits;  conditional E-value: 0.00077
                           DUF3800  28 e..eikkleekikelkkky..........................krlleriakflkkn..dlik....sdeesdes 70 
                                          +i+++e++i+e+k+++                          +++++ ++++lk+   +       ++ e  es
  gi|331746804|ref|YP_004422841.1|  21 AliRIENIEKEIREVKEHMkelqrllndkadkqavdllskmleteRKIVDSLEQELKEIklK--FdtleLSSELAES 95 
                                       14567888888888888887777777888887777777666677666666666666663221..1334422222333 PP

                           DUF3800  71 ilivldk 77 
                                        ++ +d+
  gi|331746804|ref|YP_004422841.1|  96 HKVSIDD 102
                                       3333333 PP

>> TMPIT  TMPIT-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   3.7   0.00061      0.43       4      61 ..      25      84 ..      13     118 .. 0.60

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.00061
                             TMPIT  4 weelekefkeleetakeykqkleelsklq..skcskeikkqkkrlkelksslkklkksvk 61
                                      +e++eke++e++e+ ke+++ l++ +  q  + +sk +++++k + +l+++lk++k + +
  gi|331746804|ref|YP_004422841.1| 25 IENIEKEIREVKEHMKELQRLLNDKADKQavDLLSKMLETERKIVDSLEQELKEIKLKFD 84
                                      455566666666666666666655544332244555556666666666666666655543 PP

>> YejG  YejG-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.0   0.1       1.6   1.1e+03      36      64 ..      20      48 ..      11      54 .. 0.66
   2 ?    9.3   1.3    0.0021       1.5      35      76 ..      49      90 ..      23      93 .. 0.83
   3 ?    0.9   0.0      0.83     6e+02      38      60 ..     109     129 ..      92     144 .. 0.74

  Alignments for each domain:
  == domain 1  score: 0.0 bits;  conditional E-value: 1.6
                              YejG 36 nsliglkLlshdgesawevlrelkqslad 64
                                        li ++ + ++ ++++e ++el++ l+d
  gi|331746804|ref|YP_004422841.1| 20 TALIRIENIEKEIREVKEHMKELQRLLND 48
                                      45666666666666677777777776665 PP

  == domain 2  score: 9.3 bits;  conditional E-value: 0.0021
                              YejG 35 ensliglkLlshdgesawevlrelkqsladiqvesaiveleg 76
                                      + +  ++ Lls+  e+ ++++ +l+q+l++i+++   +el +
  gi|331746804|ref|YP_004422841.1| 49 KADKQAVDLLSKMLETERKIVDSLEQELKEIKLKFDTLELSS 90
                                      44456789*************************999988876 PP

  == domain 3  score: 0.9 bits;  conditional E-value: 0.83
                              YejG  38 liglkLlshdgesawevlrelkq 60 
                                       l  +kL+s+ ++s +e++r+l  
  gi|331746804|ref|YP_004422841.1| 109 L--IKLISQGHNSPTELIRMLGI 129
                                       4..58999999999999998864 PP

>> DUF2203  Uncharacterized conserved protein (DUF2203)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.4   4.8    0.0011      0.79       6      70 ..      16      80 ..      14      89 .. 0.85
   2 ?    3.3   0.2      0.19   1.3e+02       7      74 ..      64     129 ..      61     144 .. 0.57

  Alignments for each domain:
  == domain 1  score: 10.4 bits;  conditional E-value: 0.0011
                           DUF2203  6 eeAnalLpllkelleelralrkeleeleeeleeakaeaekseaaeleaeleeleaeieelveeie 70
                                      +e ++ L +++++ +e+r+++++++el++ l+++ ++++ +  +++ ++++++ +++e+ ++ei+
  gi|331746804|ref|YP_004422841.1| 16 HELKTALIRIENIEKEIREVKEHMKELQRLLNDKADKQAVDLLSKMLETERKIVDSLEQELKEIK 80
                                      677889999*****************999999999998776688888888888888888888885 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.19
                           DUF2203   7 eAnalLpllkelleelralrkeleeleeeleeakaeaekseaaeleaeleel.eaeieelveeieelGv 74 
                                       + ++++  l++ l+e++ l+ +  el++el+e+++ +  +   ele++l +l ++  ++ +e i+ lG+
  gi|331746804|ref|YP_004422841.1|  64 TERKIVDSLEQELKEIK-LKFDTLELSSELAESHKVSI-D-DFELEERLIKLiSQGHNSPTELIRMLGI 129
                                       55777888888888887.44455555666666555532.2.4444444444404444444555555555 PP

>> NPV_P10  Nucleopolyhedrovirus P10 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.2   3.9    0.0023       1.6       8      62 ..      27      80 ..      22      87 .. 0.91

  Alignments for each domain:
  == domain 1  score: 9.2 bits;  conditional E-value: 0.0023
                           NPV_P10  8 vIradikavddkVdalqqqvddvqenlpdvtelnekLdaqsaqLaeletkvenIq 62
                                       I ++i++v++ ++ lq  ++d +++ + v+ l++ L+   + +++le+++++I+
  gi|331746804|ref|YP_004422841.1| 27 NIEKEIREVKEHMKELQRLLND-KADKQAVDLLSKMLETERKIVDSLEQELKEIK 80
                                      58899*************9999.66789999********************9996 PP

>> FlaC_arch  Flagella accessory protein C (FlaC)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.9   1.3     0.012       8.4      15      34 ..      24      43 ..      13      57 .. 0.63
   2 ?    6.3   1.2     0.017        12       2      22 ..      69      89 ..      68     114 .. 0.78

  Alignments for each domain:
  == domain 1  score: 6.9 bits;  conditional E-value: 0.012
                         FlaC_arch 15 eletvkkeneelsksveelk 34
                                      ++e+++ke+ e+++  +el+
  gi|331746804|ref|YP_004422841.1| 24 RIENIEKEIREVKEHMKELQ 43
                                      56666666666666666555 PP

  == domain 2  score: 6.3 bits;  conditional E-value: 0.017
                         FlaC_arch  2 idelEnklsklsteletvkke 22
                                      +d+lE++l++++ +++t++ +
  gi|331746804|ref|YP_004422841.1| 69 VDSLEQELKEIKLKFDTLELS 89
                                      799**********99999854 PP

>> Fib_alpha  Fibrinogen alpha/beta chain family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.9   5.4    0.0047       3.3      36     104 ..      14      79 ..      10      88 .. 0.71

  Alignments for each domain:
  == domain 1  score: 7.9 bits;  conditional E-value: 0.0047
                                       HHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHCCHHHH CS
                         Fib_alpha  36 dlekleneleeisnstkeaeelvkeikdslrekqkskkdndnvikksskeleeeilrlketidaqesni 104
                                       +l++l+  l +i+n +ke++e+ +++k+  r  + ++   ++++  +sk+le    ++ +++ ++ ++i
  gi|331746804|ref|YP_004422841.1|  14 ELHELKTALIRIENIEKEIREVKEHMKELQRLLNDKA--DKQAVDLLSKMLE-TERKIVDSLEQELKEI 79 
                                       6889999999999999999999999998855444444..4799999999999.4444444444444444 PP

>> DUF1492  Protein of unknown function (DUF1492)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.1   4.0     0.004       2.8      30      77 ..      24      72 ..      14      87 .. 0.78
   2 ?    1.7   0.1      0.41     3e+02      61      85 ..     121     145 ..      93     161 .. 0.69

  Alignments for each domain:
  == domain 1  score: 8.1 bits;  conditional E-value: 0.004
                           DUF1492 30 akediekktaeaikkklelqrlidklensdsrsvLr.mvyidkltvwqv 77
                                        e+iek+ +e+ ++ +elqrl+++  ++++  +L+ m   ++  v+++
  gi|331746804|ref|YP_004422841.1| 24 RIENIEKEIREVKEHMKELQRLLNDKADKQAVDLLSkMLETERKIVDSL 72
                                      4699********************9999998888852555555555555 PP

  == domain 2  score: 1.7 bits;  conditional E-value: 0.41
                           DUF1492  61 rsvLrmvyidkltvwqvidklnisr 85 
                                         ++rm  i   + +q+i++l  sr
  gi|331746804|ref|YP_004422841.1| 121 TELIRMLGISADKLYQIINRLIASR 145
                                       3477888888888888888887776 PP

>> P4Ha_N  Prolyl 4-Hydroxylase alpha-subunit, N-terminal region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.2   0.9      0.23   1.6e+02      23      44 ..      25      46 ..      13      56 .. 0.53
   2 ?   10.4   2.5   0.00066      0.48       2      46 ..      55      99 ..      54     142 .. 0.88

  Alignments for each domain:
  == domain 1  score: 2.2 bits;  conditional E-value: 0.23
                            P4Ha_N 23 ieeeekkleklkrfleeleeeh 44
                                      ie++ek++ ++k+ ++el++  
  gi|331746804|ref|YP_004422841.1| 25 IENIEKEIREVKEHMKELQRLL 46
                                      3444444444444444444444 PP

  == domain 2  score: 10.4 bits;  conditional E-value: 0.00066
                            P4Ha_N  2 ladlekLlklErelveeLesyieeeekkleklkrfleeleeehes 46
                                      ++ l+k+l++Er++v+ Le+ ++e++ k ++l+   e  e++++s
  gi|331746804|ref|YP_004422841.1| 55 VDLLSKMLETERKIVDSLEQELKEIKLKFDTLELSSELAESHKVS 99
                                      56689***************************9888887777644 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (163 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2738  (0.152713); expected 358.6 (0.02)
Passed bias filter:                     1100  (0.0613531); expected 358.6 (0.02)
Passed Vit filter:                       165  (0.00920297); expected 17.9 (0.001)
Passed Fwd filter:                        26  (0.00145016); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              25  [number of targets reported over threshold]
# CPU time: 0.62u 0.32s 00:00:00.94 Elapsed: 00:00:00.48
# Mc/sec: 1023.26
//
Query:       gi|331746805|ref|YP_004422842.1|  [L=195]
Description: hypothetical protein TERMP_02227 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (195 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       373  (0.0208043); expected 358.6 (0.02)
Passed bias filter:                      328  (0.0182944); expected 358.6 (0.02)
Passed Vit filter:                        14  (0.000780858); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.45u 0.28s 00:00:00.73 Elapsed: 00:00:00.44
# Mc/sec: 1319.89
//
Query:       gi|331746806|ref|YP_004422843.1|  [L=240]
Description: hypothetical protein TERMP_02228 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (240 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       425  (0.0237046); expected 358.6 (0.02)
Passed bias filter:                      357  (0.0199119); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.49u 0.26s 00:00:00.75 Elapsed: 00:00:00.44
# Mc/sec: 1647.62
//
Query:       gi|331746807|ref|YP_004422844.1|  [L=123]
Description: hypothetical protein TERMP_02229 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
  ------ inclusion threshold ------
      0.032   13.8   0.2       0.52    9.9   0.1    2.9  2  HTH_24    Winged helix-turn-helix DNA-binding
       0.14   12.1   0.0        0.3   11.1   0.0    1.5  2  Cdc6_C    CDC6, C terminal winged helix domain


Domain annotation for each model (and alignments):
>> HTH_24  Winged helix-turn-helix DNA-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.2   0.0      0.17   1.5e+03      30      43 ..       5      18 ..       3      19 .. 0.74
   2 ?    9.9   0.1   5.8e-05      0.52      17      41 ..      46      70 ..      42      81 .. 0.81

  Alignments for each domain:
  == domain 1  score: -1.2 bits;  conditional E-value: 0.17
                            HTH_24 30 SpstvnrrlkrLee 43
                                      ++ +v r +  Le+
  gi|331746807|ref|YP_004422844.1|  5 TLRNVMRMIAALEN 18
                                      56678899999987 PP

  == domain 2  score: 9.9 bits;  conditional E-value: 5.8e-05
                            HTH_24 17 risqreLAerlglSpstvnrrlkrL 41
                                       +++  LAe lg+ p+t +r  ++L
  gi|331746807|ref|YP_004422844.1| 46 ELCNLALAEFLGVNPGTALRSWRNL 70
                                      58999************99975554 PP

>> Cdc6_C  CDC6, C terminal winged helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.8   0.0       1.5   1.3e+04      39      50 ..       6      17 ..       5      19 .. 0.71
   2 ?   11.1   0.0   3.3e-05       0.3      28      70 ..      52      94 ..      50     105 .. 0.77

  Alignments for each domain:
  == domain 1  score: -3.8 bits;  conditional E-value: 1.5
                                      HHHHHHHHHHHH CS
                            Cdc6_C 39 qrevsdllseLe 50
                                       r v+++++ Le
  gi|331746807|ref|YP_004422844.1|  6 LRNVMRMIAALE 17
                                      577888888877 PP

  == domain 2  score: 11.1 bits;  conditional E-value: 3.3e-05
                                      HHHHTT-----H.HHHHHHHHHHHHTTSEEEEEEE-CC.C-EEE CS
                            Cdc6_C 28 lCesegvdpltq.revsdllseLemlgileleksskGrregrtr 70
                                      l+e +gv+p t  r+ ++l+ e+e lgi+e++ + ++ r+   r
  gi|331746807|ref|YP_004422844.1| 52 LAEFLGVNPGTAlRSWRNLMFEMEELGIIETRLV-ENPRNRPRR 94
                                      789999999999899*****************87.333344444 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (123 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       558  (0.0311228); expected 358.6 (0.02)
Passed bias filter:                      420  (0.0234257); expected 358.6 (0.02)
Passed Vit filter:                        29  (0.00161749); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.27s 00:00:00.72 Elapsed: 00:00:00.44
# Mc/sec: 831.52
//
Query:       gi|331746808|ref|YP_004422845.1|  [L=199]
Description: hypothetical protein TERMP_02230 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
     0.0053   16.9   1.3       0.26   11.5   0.3    2.3  2  W2          eIF4-gamma/eIF5/eIF2-epsilon
  ------ inclusion threshold ------
      0.044   13.6   0.1       0.11   12.3   0.1    1.6  1  SGTA_dimer  Homodimerisation domain of SGTA


Domain annotation for each model (and alignments):
>> W2  eIF4-gamma/eIF5/eIF2-epsilon
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.5   0.3   2.9e-05      0.26      35      71 ..      77     110 ..      62     116 .. 0.89
   2 !    8.9   0.2   0.00019       1.7       4      38 ..     103     138 ..     101     142 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 2.9e-05
                                W2  35 ileEeailkWgekkskaekgkkkvrkkaepfvewLee 71 
                                       il++eai +++e +++ae   + +r+  ++++e L+e
  gi|331746808|ref|YP_004422845.1|  77 ILSDEAIREYYERTRSAE---EVLREVRRKLLEDLQE 110
                                       9***************77...4899999999999988 PP

  == domain 2  score: 8.9 bits;  conditional E-value: 0.00019
                                W2   4 allgalerlcaekee.llkllakilkaLYdeDileE 38 
                                       +ll  l++++ + +  + k + ki+k + ++D+l+E
  gi|331746808|ref|YP_004422845.1| 103 KLLEDLQEFKLKDDPfIAKTIKKIVKFYQNLDMLDE 138
                                       6899*****8888777999999999999999****9 PP

>> SGTA_dimer  Homodimerisation domain of SGTA
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.1   1.2e-05      0.11      28      43 ..     178     193 ..     173     197 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 1.2e-05
                        SGTA_dimer  28 ESleVAiqCIaeaFev 43 
                                       E +++Ai+CI+e F++
  gi|331746808|ref|YP_004422845.1| 178 EIVNIAIECIGEIFGI 193
                                       779***********98 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (199 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1037  (0.0578393); expected 358.6 (0.02)
Passed bias filter:                      669  (0.0373138); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.26s 00:00:00.71 Elapsed: 00:00:00.41
# Mc/sec: 1444.89
//
Query:       gi|331746809|ref|YP_004422846.1|  [L=308]
Description: hypothetical protein TERMP_02231 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (308 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       416  (0.0232026); expected 358.6 (0.02)
Passed bias filter:                      379  (0.0211389); expected 358.6 (0.02)
Passed Vit filter:                        23  (0.00128284); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.53u 0.29s 00:00:00.82 Elapsed: 00:00:00.47
# Mc/sec: 1953.59
//
Query:       gi|331746810|ref|YP_004422847.1|  [L=958]
Description: hypothetical protein TERMP_02232 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    0.00055   19.5   1.3      0.044   13.2   0.5    2.7  2  KTI12     Chromatin associated protein KTI12
    0.00077   19.5   0.0       0.16   11.9   0.0    3.3  3  AAA_5     AAA domain (dynein-related subfamily)
     0.0019   18.6   0.0       0.02   15.2   0.0    2.5  2  AAA_16    AAA ATPase domain
     0.0029   17.9   0.1      0.054   13.8   0.0    3.1  3  AAA_22    AAA domain
  ------ inclusion threshold ------
      0.034   13.6   0.1        0.1   12.0   0.1    1.8  1  PhoH      PhoH-like protein
      0.054   14.0   0.2       0.83   10.2   0.0    3.0  2  AAA_18    AAA domain
      0.071   13.2   0.0       0.27   11.3   0.0    2.4  1  CbiA      CobQ/CobB/MinD/ParA nucleotide binding domain
       0.14   12.5   0.0        0.5   10.7   0.0    2.0  1  AAA_19    AAA domain
        1.1    9.6   8.0          5    7.6   0.4    4.0  4  eIF3_N    eIF3 subunit 6 N terminal domain


Domain annotation for each model (and alignments):
>> KTI12  Chromatin associated protein KTI12
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.8   0.0     0.017        33       4      27 ..     399     422 ..     397     451 .. 0.86
   2 !   13.2   0.5   2.2e-05     0.044     117     206 ..     850     946 ..     822     952 .. 0.79

  Alignments for each domain:
  == domain 1  score: 3.8 bits;  conditional E-value: 0.017
                                       EEEE--TTSSHHHHHHHHHHHHHH CS
                             KTI12   4 vvltGlPssGKstrakeLakalee 27 
                                       v+l+Gl  +GK+++a e+a+ le+
  gi|331746810|ref|YP_004422847.1| 399 VILSGLSGTGKTKIALEFAELLED 422
                                       9*******************9998 PP

  == domain 2  score: 13.2 bits;  conditional E-value: 2.2e-05
                                       HHTT-S..S-HHHHHHHHHH---TTSS-GGGS-SEEEE..........TTS---HHHHHHHHHHHHTS--SSSTT-- CS
                             KTI12 117 eereekeeyekelldaLiqRyeePdsknrWDsPlftvls.........aeeklpldeilkaliekkklkpnqatlsk 184
                                       e++ ++e ++ +ll +++ ++    ++ + ++Pl+ vl+         ++ + ++de++k ++e ++ +++++++ k
  gi|331746810|ref|YP_004422847.1| 850 ENKVNNEIFDLALLMKILPKFH--GNRKKLEKPLLLVLKlakkgmldeKDADKDVDELFKEVFETENIQNKSDVVVK 924
                                       3333444477777777777786..578899*******998888887666667788********************** PP

                                       -----HHHHHHHHHHHHHHHHH CS
                             KTI12 185 plaeanflqeLdketseivkei 206
                                        la++ + ++L+++++++++ +
  gi|331746810|ref|YP_004422847.1| 925 VLANSTSNYTLQHTAKKVLRML 946
                                       ******************9876 PP

>> AAA_5  AAA domain (dynein-related subfamily)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.9   0.0   8.3e-05      0.16       2      26 ..     399     423 ..     398     444 .. 0.88
   2 ?    2.3   0.0     0.078   1.5e+02      66     124 ..     642     714 ..     616     731 .. 0.77
   3 ?    0.4   0.0      0.29   5.8e+02       5      48 ..     775     823 ..     775     851 .. 0.75

  Alignments for each domain:
  == domain 1  score: 11.9 bits;  conditional E-value: 8.3e-05
                                       EEEE--SSSSHHHHHHHGGGGBS-- CS
                             AAA_5   2 vlLvGppGtgKselaerlaaalnre 26 
                                       v+L G +GtgK+++a ++a++l+++
  gi|331746810|ref|YP_004422847.1| 399 VILSGLSGTGKTKIALEFAELLEDR 423
                                       89*******************9655 PP

  == domain 2  score: 2.3 bits;  conditional E-value: 0.078
                                       -SEEEEESGGG--.HHHHHHHHHHHHSSEEE..-SSSEEE---.....................-EEEEEESS-- CS
                             AAA_5  66 geilvlDEverae.sevlnsLlslleerrllleeggelvkaknddller...............frviatanpld 124
                                       +  ++lDE + a+    ++ +ls+le  r +  +g+++++ k  d  +                +++i+t n  +
  gi|331746810|ref|YP_004422847.1| 642 PYFIILDEMNLAHvEYYFADFLSVLESGRDD--SGFTRESIKLHDVDKVveeqgipkelklppnLYIIGTVNIDE 714
                                       67899********9999**********9999..777777777766444457789999999999999999999777 PP

  == domain 3  score: 0.4 bits;  conditional E-value: 0.29
                                       E--SSSSHHHHHHHGGGGB...S--EEEE..E--TT--HHHHH--B--. CS
                             AAA_5   5 vGppGtgKselaerlaaal...nreveyv..qltrdtteedlkgrreik 48 
                                       +G+ G +Ks + e l+++    n +++ +  ql++ +++ dl  ++++ 
  gi|331746810|ref|YP_004422847.1| 775 KGKDGLAKSDIEEALKELKnagNGKYWQIlqQLNKTLEPYDLHFGYRVV 823
                                       5999*******99999999888666665433788999999998888874 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.2   0.0     1e-05      0.02      24      51 ..     396     423 ..     383     457 .. 0.77
   2 ?   -0.2   0.0      0.58   1.2e+03     117     147 ..     620     653 ..     557     666 .. 0.77

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 1e-05
                            AAA_16  24 pelvllsGesGvGKsslvrellralekd 51 
                                        + v+lsG sG+GK++++ e+++ le++
  gi|331746810|ref|YP_004422847.1| 396 KGFVILSGLSGTGKTKIALEFAELLEDR 423
                                       379*******************877777 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.58
                            AAA_16 117 srllellkrll.allsrder..plvlvlDdlqwa 147
                                       + lle + r++ ++ +++e+  p  ++lD++  a
  gi|331746810|ref|YP_004422847.1| 620 TPLLEFILRAIkDYEQNREKamPYFIILDEMNLA 653
                                       67888888999777777666778******99876 PP

>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.8   0.0   2.7e-05     0.054       3      31 ..     394     422 ..     391     456 .. 0.83
   2 ?   -1.7   0.0       1.7   3.3e+03      80     101 ..     628     651 ..     611     672 .. 0.71
   3 ?   -2.2   0.0       2.2   4.5e+03      90      90 ..     767     767 ..     735     838 .. 0.60

  Alignments for each domain:
  == domain 1  score: 13.8 bits;  conditional E-value: 2.7e-05
                            AAA_22   3 ktagilvvtGesGtGKTtllrrlleqlde 31 
                                       kt+g++++ G sGtGKT  + +++e l+ 
  gi|331746810|ref|YP_004422847.1| 394 KTKGFVILSGLSGTGKTKIALEFAELLED 422
                                       589**********************9954 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 1.7
                            AAA_22  80 ealeqalrarav..ielliiDEaq 101
                                       +a+ ++ ++r +  + ++i+DE+ 
  gi|331746810|ref|YP_004422847.1| 628 RAIKDYEQNREKamPYFIILDEMN 651
                                       444444444444778999***996 PP

  == domain 3  score: -2.2 bits;  conditional E-value: 2.2
                            AAA_22  90 a 90 
                                       +
  gi|331746810|ref|YP_004422847.1| 767 G 767
                                       1 PP

>> PhoH  PhoH-like protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   0.1   5.2e-05       0.1      11      71 ..     388     452 ..     385     462 .. 0.70

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 5.2e-05
                                       HHHHHHHH-SEEEEE--TTSSTTHHHHHHHH...HHHHTTS-SEE.EEEE-S--TT----SS--- CS
                              PhoH  11 eylealkkndivfaiGpaGtGKtylavalav...ealkkkkvkri.iltrpaveageelGflpgd 71 
                                       ++++alk++ +v+  G +GtGKt +a+  a    + l  +k+ ++ + + p+ +a+ee+ + + +
  gi|331746810|ref|YP_004422847.1| 388 QFYTALKTKGFVILSGLSGTGKTKIALEFAElleDRLAGDKIPQLmVASGPNTKAEEEIKAIEKT 452
                                       67899**********************99841112233344444414455677777777666655 PP

>> AAA_18  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.0   0.00042      0.83       1      29 [.     399     430 ..     399     540 .. 0.84
   2 ?    0.1   0.2      0.55   1.1e+03      25      89 ..     830     895 ..     775     923 .. 0.70

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00042
                            AAA_18   1 IlltGtpGvGKttlakeLskrl.gf..gvnlr 29 
                                       ++l+G +G+GKt +a e +++l     g+++ 
  gi|331746810|ref|YP_004422847.1| 399 VILSGLSGTGKTKIALEFAELLeDRlaGDKIP 430
                                       79****************99984335555554 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 0.55
                            AAA_18  25 gvnlrdvakenglllevdpe.aldeskrldedkldklldaleenssaleegknlvidghlaelese 89 
                                        +n ++ +k + +++e++++    +++++d   l+k+l ++++n+++le++  lv+      +++e
  gi|331746810|ref|YP_004422847.1| 830 FENAKESWKARIIEFENNNDeNKVNNEIFDLALLMKILPKFHGNRKKLEKPLLLVLKLAKKGMLDE 895
                                       556666666677777777775555667778888888888888888877777777776655555555 PP

>> CbiA  CobQ/CobB/MinD/ParA nucleotide binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00014      0.27       2      26 ..     399     423 ..     398     928 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00014
                                       EEEESSTTSSHHHHHHHHHHHHHHT CS
                                       xxxxxxxxxxxxxxxxxxxxxxxxx RF
                              CbiA   2 aiastkGGvGKTtlaanLaralarr 26 
                                       +i s+ +G+GKT +a+ +a +l +r
  gi|331746810|ref|YP_004422847.1| 399 VILSGLSGTGKTKIALEFAELLEDR 423
                                       799******************9983 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.0   0.00025       0.5       9      61 ..     395     449 ..     388     659 .. 0.75

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00025
                            AAA_19   9 kekvllvtaGpGtGKTrvlkhivallvelggvkpeeillva..ftgrAakelrer 61 
                                       +++ +++ +  GtGKT++  +  +ll+++   +  + l+va  ++ +A +e++  
  gi|331746810|ref|YP_004422847.1| 395 TKGFVILSGLSGTGKTKIALEFAELLEDRLAGDKIPQLMVAsgPNTKAEEEIKAI 449
                                       4677899999****************99876665444444434999999999854 PP

>> eIF3_N  eIF3 subunit 6 N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.1       1.5   2.9e+03      52     120 ..      10      44 ..       3      52 .. 0.44
   2 ?    3.6   0.0     0.043        85      61     123 ..     220     285 ..     206     292 .. 0.83
   3 ?   -0.9   0.1         1   2.1e+03      50      81 ..     316     347 ..     303     375 .. 0.77
   4 ?    7.6   0.4    0.0025         5      60     119 ..     895     953 ..     884     957 .. 0.84

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 1.5
                            eIF3_N  52 dlykelegeeevpeelekkreevleeleeleeeaekvlelledeevvsnlrsdkkqnlefLkeehgitp 120
                                       d+ ke+++  +  ++lek r+e+                                   e   ++hg+++
  gi|331746810|ref|YP_004422847.1|  10 DVLKEIKDMYSPEQDLEKLRKEAT----------------------------------ERVAKRHGVEI 44 
                                       333444333333334444444444..................................44445555555 PP

  == domain 2  score: 3.6 bits;  conditional E-value: 0.043
                            eIF3_N  61 eevpeelekkreevleeleeleeeaekvlell..edeevvsnlrsdkkqnlefLkeeh.gitpemi 123
                                       e  p+e ++  +e++++ +  e+ ae + ++l  e +evvs+lr  k+    fL e + +++pe i
  gi|331746810|ref|YP_004422847.1| 220 EILPDEAKEYLNEAIKKGDISEKHAEYIAKVLsgEVNEVVSKLRGKKTLSTVFLPEAYvKFSPEEI 285
                                       457899999999********************777889*****99999888899887757777766 PP

  == domain 3  score: -0.9 bits;  conditional E-value: 1
                            eIF3_N  50 aadlykelegeeevpeelekkreevleeleel 81 
                                       a++ ++el ++ e p+e +++ e++++++e +
  gi|331746810|ref|YP_004422847.1| 316 AKQQHEELLNNPELPDEKRQEAEDIIKKIEWV 347
                                       56677777778888888888888888887754 PP

  == domain 4  score: 7.6 bits;  conditional E-value: 0.0025
                            eIF3_N  60 eeevpeelekkreevleeleeleeeaekvlelledeevvsnlrsdkkqnlefLkeehgit 119
                                       e+++ +++++  +ev+e  e+++++++ v+++l +++   +l+ + k++l++L + ++i 
  gi|331746810|ref|YP_004422847.1| 895 EKDADKDVDELFKEVFE-TENIQNKSDVVVKVLANSTSNYTLQHTAKKVLRMLRQLYEIG 953
                                       45566677777788877.68899*******************************999885 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (958 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1132  (0.0631379); expected 358.6 (0.02)
Passed bias filter:                      704  (0.039266); expected 358.6 (0.02)
Passed Vit filter:                        83  (0.00462937); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.90u 0.32s 00:00:01.22 Elapsed: 00:00:00.50
# Mc/sec: 5784.18
//
Query:       gi|331746811|ref|YP_004422848.1|  [L=554]
Description: hypothetical protein TERMP_02233 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.1e-37  128.2   4.2    4.1e-36  124.5   4.2    2.1  1  DUF2357   Domain of unknown function (DUF2357)
    3.2e-14   53.3   0.2    1.2e-13   51.4   0.2    2.0  1  PDDEXK_7  PD-(D/E)XK nuclease superfamily


Domain annotation for each model (and alignments):
>> DUF2357  Domain of unknown function (DUF2357)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  124.5   4.2   4.5e-40   4.1e-36       3     251 .]      77     348 ..      75     348 .. 0.85

  Alignments for each domain:
  == domain 1  score: 124.5 bits;  conditional E-value: 4.5e-40
                           DUF2357   3 rlnfgnevGkstleieydrk..kllkltveVfptK................ldykedykalldeiddeyaelifell 61 
                                       +++f+n++Gk+ +ei  ++k  +l+   +eV++ K                ++ +e y+all+ i+++  +l f++ 
  gi|331746811|ref|YP_004422848.1|  77 TFQFKNYIGKTHIEILEGTKpiSLEFKNFEVLSEKvgkiynvspenteeliQKHEELYNALLKYISEKSISLPFSVS 153
                                       689*************999998444445566666622222222222333322455669999999************* PP

                           DUF2357  62 kkteqsarkskakesselewfallrklreeLeqalklIlrqpherLveeeevvradklkkldsavleellkepeklg 138
                                        +t +++++s++  s+ +  ++l ++ re+ + a ++I r ph++Lve+ee++   +++++d ++ +++ ++pe l 
  gi|331746811|ref|YP_004422848.1| 154 APTAFGVEESEEPMSELFVYHFLVNN-RERIISAYEEIIRRPHRKLVEREEWLNFWEVSEVDEDTVMSIITHPEYLI 229
                                       **********6666666665555555.************************************************** PP

                           DUF2357 139 eve.......rlgkkllprrvrqekkeltvDTpENRFvKyvLerlekkle.dlkealkekereaetklseefleelk 207
                                       + e       +  ++ +p++v+q+ k++++DT ENRF+K++L++l +  e  + + l +++   +++++e++ ++l 
  gi|331746811|ref|YP_004422848.1| 230 KAEpssiavaEYLNNHVPTKVAQRIKYESFDTHENRFAKHFLNELITWGEkAIAAILTSSY--LTKEQKENATSKLT 304
                                       999****99999999********************************99945555555555..44455799****** PP

                           DUF2357 208 elekqlerllrhplfrevgeleglpseSlVLqkraGYrevYrif 251
                                       ++  +le+   +++f +vge+  +p  S+VL kr+GYr++ +++
  gi|331746811|ref|YP_004422848.1| 305 SILGELEYYATSDIFDDVGEMVIFPYTSQVLLKREGYRDLLQLW 348
                                       ******************************************99 PP

>> PDDEXK_7  PD-(D/E)XK nuclease superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   51.4   0.2   1.3e-17   1.2e-13       1     163 [.     372     508 ..     372     510 .. 0.79

  Alignments for each domain:
  == domain 1  score: 51.4 bits;  conditional E-value: 1.3e-17
                          PDDEXK_7   1 klYEyWcflelrkilkellglevkeqnllkvkekglrvqlekgraakllferlsdgeeielaynprfsrkeekqssy 77 
                                       klYEyWcf++l++ l ++lg +++ + +++ +      +l +  +   ++++   +  ++l+yn +++        y
  gi|331746811|ref|YP_004422848.1| 372 KLYEYWCFFKLVEELGKILG-QENLRIIVEPTG-----ELSERGH---VYAE--FDNGWRLYYNLKKR-------GY 430
                                       69***********9999986.555544444422.....4555555...3444..36689*****9998.......69 PP

                          PDDEXK_7  78 tvtqkPDivleitkkekkkvlivfDAKYRidaaeekleeeekeeedegp......kedalnkmhrYrdaivaeekke 148
                                       +v+ +PD +l     ++ +++ vfDAK+ +d  + +  +ee++e +++p      k ++++kmh+Yrda+       
  gi|331746811|ref|YP_004422848.1| 431 SVSLRPDFLLL----KGRNIIGVFDAKFKLDVVDVNEFAEEDREMERAPnfqtwaKLEDIYKMHTYRDAL------- 496
                                       9******9996....3444788**********999977777777777779****99**************....... PP

                          PDDEXK_7 149 kertvvgayvLyPgt 163
                                          ++  a vLyPg+
  gi|331746811|ref|YP_004422848.1| 497 ---NAKFAVVLYPGD 508
                                       ...566689999987 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (554 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       662  (0.0369234); expected 358.6 (0.02)
Passed bias filter:                      408  (0.0227564); expected 358.6 (0.02)
Passed Vit filter:                        38  (0.00211947); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.66u 0.29s 00:00:00.95 Elapsed: 00:00:00.47
# Mc/sec: 3529.63
//
Query:       gi|331746812|ref|YP_004422849.1|  [L=474]
Description: hypothetical protein TERMP_02234 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.6e-10   38.6   5.1    1.8e-05   25.0   0.6    4.2  3  TPR_12    Tetratricopeptide repeat
    8.1e-06   25.5   6.7       0.22   11.4   0.0    3.9  4  TPR_10    Tetratricopeptide repeat
    9.7e-06   25.3  11.9       0.34   11.1   0.0    4.9  4  TPR_2     Tetratricopeptide repeat
    3.4e-05   23.6   1.5       0.13   12.4   0.0    4.0  3  TPR_7     Tetratricopeptide repeat
    3.8e-05   23.3  14.7      0.065   13.1   0.1    4.7  5  TPR_1     Tetratricopeptide repeat
    0.00022   21.2  14.8       0.73   10.2   0.1    5.0  5  TPR_8     Tetratricopeptide repeat
     0.0079   16.9   3.1         18    6.5   0.0    4.5  5  TPR_14    Tetratricopeptide repeat
     0.0099   16.0   0.2      0.033   14.3   0.0    1.9  2  Rapsyn_N  Rapsyn N-terminal myristoylation and linker region
  ------ inclusion threshold ------
      0.013   16.1   0.0       0.25   12.0   0.0    2.4  2  TPR_16    Tetratricopeptide repeat
       0.02   15.2   0.9          3    8.4   0.2    3.1  3  TPR_17    Tetratricopeptide repeat
       0.14   12.8   6.5        4.8    8.0   0.1    4.6  4  TPR_6     Tetratricopeptide repeat
       0.31   10.8   2.6       0.82    9.4   0.3    3.0  3  TPR_11    TPR repeat


Domain annotation for each model (and alignments):
>> TPR_12  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.5   0.1     0.059        88      15      58 ..      21      65 ..      19      69 .. 0.82
   2 !    8.2   0.0     0.002         3      47      76 ..     105     135 ..      91     137 .. 0.73
   3 !   25.0   0.6   1.2e-08   1.8e-05       3      67 ..     148     207 ..     146     209 .. 0.90

  Alignments for each domain:
  == domain 1  score: 3.5 bits;  conditional E-value: 0.059
                            TPR_12 15 rlgrydeAlellekaleia.rrllGpdhpltattlrnLgrlyral 58
                                      + g  +++le leka+e a +r    + ++++  l  ++++y+++
  gi|331746812|ref|YP_004422849.1| 21 AEGFSEKSLEDLEKAYEEAwEREKLLYADGYIKLLVSIAEYYEKR 65
                                      678889**********98889988888888888888888888765 PP

  == domain 2  score: 8.2 bits;  conditional E-value: 0.002
                            TPR_12  47 tlrnLgrly.ralgryeeAlelleealaiae 76 
                                       +    + +y ++++++e+A+++l+ a+++ e
  gi|331746812|ref|YP_004422849.1| 105 IATSVSLIYlSQQNNPEKAEKYLKLAVELGE 135
                                       5555666663688999999999998888755 PP

  == domain 3  score: 25.0 bits;  conditional E-value: 1.2e-08
                            TPR_12   3 atalnnlaavlrrlgrydeAlellekaleiarrllGpdhpltattlrnLgrlyralgryeeAlel 67 
                                       +++ln l++ +++  r ++Al  l+kal+ a  +  p    ta tl+nL+ +y +lg  ++A+++
  gi|331746812|ref|YP_004422849.1| 148 SIILNILGTYYYETNRPEKALMVLKKALRYA-MT--PRE--TALTLYNLALTYAELGMNRKAIDF 207
                                       678855*************************.45..765..*********************986 PP

>> TPR_10  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.2       4.1   6.2e+03      23      30 ..      30      37 ..      26      44 .. 0.55
   2 !   11.4   0.0   0.00015      0.22      10      35 ..     112     137 ..     110     140 .. 0.92
   3 !    9.1   0.0   0.00079       1.2       5      30 ..     151     176 ..     149     178 .. 0.92
   4 !    6.4   0.2    0.0055       8.2       1      31 [.     184     214 ..     184     215 .. 0.83

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 4.1
                            TPR_10 23 alleeala 30
                                      ++le+a++
  gi|331746812|ref|YP_004422849.1| 30 EDLEKAYE 37
                                      55555544 PP

  == domain 2  score: 11.4 bits;  conditional E-value: 0.00015
                            TPR_10  10 nalrqrgrydeAealleealairrrl 35 
                                       ++l+q+++ ++Ae++l+ a+++ +++
  gi|331746812|ref|YP_004422849.1| 112 IYLSQQNNPEKAEKYLKLAVELGEKV 137
                                       578*******************9998 PP

  == domain 3  score: 9.1 bits;  conditional E-value: 0.00079
                            TPR_10   5 lnNLanalrqrgrydeAealleeala 30 
                                       ln L+ ++++++r ++A+  l++al+
  gi|331746812|ref|YP_004422849.1| 151 LNILGTYYYETNRPEKALMVLKKALR 176
                                       899******************99996 PP

  == domain 4  score: 6.4 bits;  conditional E-value: 0.0055
                            TPR_10   1 tAsslnNLanalrqrgrydeAealleealai 31 
                                       tA +l NLa ++ ++g   +A +++  a+ i
  gi|331746812|ref|YP_004422849.1| 184 TALTLYNLALTYAELGMNRKAIDFMVNAICI 214
                                       899************9888887777777665 PP

>> TPR_2  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.3      0.64   9.6e+02      17      29 ..      25      37 ..      17      39 .. 0.60
   2 !    8.1   0.2    0.0022       3.2      11      30 ..     114     133 ..     112     136 .. 0.89
   3 !   11.1   0.0   0.00023      0.34       3      31 ..     150     178 ..     148     181 .. 0.90
   4 !   10.3   0.1   0.00042      0.62       1      27 [.     185     211 ..     185     212 .. 0.88

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 0.64
                             TPR_2 17 yeeAleafekAle 29
                                       e+ le++ekA e
  gi|331746812|ref|YP_004422849.1| 25 SEKSLEDLEKAYE 37
                                      3666677777665 PP

  == domain 2  score: 8.1 bits;  conditional E-value: 0.0022
                             TPR_2  11 yyklgdyeeAleafekAlel 30 
                                       + +++++e+A+++++ A+el
  gi|331746812|ref|YP_004422849.1| 114 LSQQNNPEKAEKYLKLAVEL 133
                                       5689**************98 PP

  == domain 3  score: 11.1 bits;  conditional E-value: 0.00023
                             TPR_2   3 alynlGlayyklgdyeeAleafekAleld 31 
                                       +l+ lG  yy+ +++e+Al  ++kAl+++
  gi|331746812|ref|YP_004422849.1| 150 ILNILGTYYYETNRPEKALMVLKKALRYA 178
                                       6889**********************986 PP

  == domain 4  score: 10.3 bits;  conditional E-value: 0.00042
                             TPR_2   1 aealynlGlayyklgdyeeAleafekA 27 
                                       a  lynl+l y++lg   +A++++  A
  gi|331746812|ref|YP_004422849.1| 185 ALTLYNLALTYAELGMNRKAIDFMVNA 211
                                       5689*****************988766 PP

>> TPR_7  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.6   0.0     0.025        38      10      29 ..     115     132 ..     111     139 .. 0.78
   2 ?    2.9   0.0     0.088   1.3e+02       2      31 ..     151     178 ..     150     183 .. 0.85
   3 !   12.4   0.0   8.5e-05      0.13       1      31 [.     187     217 ..     187     222 .. 0.86

  Alignments for each domain:
  == domain 1  score: 4.6 bits;  conditional E-value: 0.025
                             TPR_7  10 srlGdyeeAielyeqsLalt 29 
                                       s++++ e+A+++++   a++
  gi|331746812|ref|YP_004422849.1| 115 SQQNNPEKAEKYLKL--AVE 132
                                       67***********99..554 PP

  == domain 2  score: 2.9 bits;  conditional E-value: 0.088
                             TPR_7   2 LlnLarlysrlGdyeeAielyeqsLaltkd 31 
                                       L+ L+  y + ++ e+A+ ++++  al+++
  gi|331746812|ref|YP_004422849.1| 151 LNILGTYYYETNRPEKALMVLKK--ALRYA 178
                                       6779999****************..87776 PP

  == domain 3  score: 12.4 bits;  conditional E-value: 8.5e-05
                             TPR_7   1 aLlnLarlysrlGdyeeAielyeqsLaltkd 31 
                                       +L+nLa +y +lG  ++Ai++   ++ ++++
  gi|331746812|ref|YP_004422849.1| 187 TLYNLALTYAELGMNRKAIDFMVNAICIHYS 217
                                       79******************98887777766 PP

>> TPR_1  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.1       1.8   2.6e+03      18      27 ..      26      35 ..      24      38 .. 0.70
   2 !    8.5   0.3    0.0012       1.8      12      30 ..     115     133 ..     113     136 .. 0.91
   3 !    9.6   0.1   0.00053      0.79       3      29 ..     150     176 ..     148     178 .. 0.91
   4 !   13.1   0.1   4.3e-05     0.065       1      23 [.     185     207 ..     185     212 .. 0.92
   5 ?   -2.8   0.1       4.4   6.6e+03      10      19 ..     372     381 ..     371     381 .. 0.86

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 1.8
                                      HHHHHHHHHH CS
                             TPR_1 18 deAleyyekA 27
                                      ++ le+ ekA
  gi|331746812|ref|YP_004422849.1| 26 EKSLEDLEKA 35
                                      5667777777 PP

  == domain 2  score: 8.5 bits;  conditional E-value: 0.0012
                                       HHTT-HHHHHHHHHHHHHH CS
                             TPR_1  12 fklgkydeAleyyekALel 30 
                                        +++++++A++y + A+el
  gi|331746812|ref|YP_004422849.1| 115 SQQNNPEKAEKYLKLAVEL 133
                                       69**************998 PP

  == domain 3  score: 9.6 bits;  conditional E-value: 0.00053
                                       HHHHHHHHHHHTT-HHHHHHHHHHHHH CS
                             TPR_1   3 alynlGnayfklgkydeAleyyekALe 29 
                                       +l+ lG  y++ +++++Al   +kAL+
  gi|331746812|ref|YP_004422849.1| 150 ILNILGTYYYETNRPEKALMVLKKALR 176
                                       57889********************96 PP

  == domain 4  score: 13.1 bits;  conditional E-value: 4.3e-05
                                       HHHHHHHHHHHHHTT-HHHHHHH CS
                             TPR_1   1 akalynlGnayfklgkydeAley 23 
                                       a +lynl+++y +lg+  +A+++
  gi|331746812|ref|YP_004422849.1| 185 ALTLYNLALTYAELGMNRKAIDF 207
                                       6789*****************85 PP

  == domain 5  score: -2.8 bits;  conditional E-value: 4.4
                                       HHHHTT-HHH CS
                             TPR_1  10 ayfklgkyde 19 
                                       +y+  g y+e
  gi|331746812|ref|YP_004422849.1| 372 CYYLVGSYEE 381
                                       9999999997 PP

>> TPR_8  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.2       1.9   2.8e+03      18      29 ..      26      37 ..      22      39 .. 0.69
   2 !   10.2   0.1   0.00049      0.73       9      30 ..     111     133 ..     107     136 .. 0.90
   3 !    9.1   0.1    0.0011       1.6       4      30 ..     151     177 ..     149     178 .. 0.91
   4 !    9.2   0.1   0.00099       1.5       3      25 ..     187     209 ..     185     212 .. 0.87
   5 ?   -2.7   0.2       6.7     1e+04      18      26 ..     263     271 ..     262     272 .. 0.86

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 1.9
                                      HHHHHHHHHHHH CS
                             TPR_8 18 eeAkeyyekale 29
                                      e++ e +eka e
  gi|331746812|ref|YP_004422849.1| 26 EKSLEDLEKAYE 37
                                      666677777755 PP

  == domain 2  score: 10.2 bits;  conditional E-value: 0.00049
                                       HHH.HHTT-HHHHHHHHHHHHHH CS
                             TPR_8   9 siy.lklgdyeeAkeyyekalel 30 
                                       +iy +++++ e+A++y++ a+el
  gi|331746812|ref|YP_004422849.1| 111 LIYlSQQNNPEKAEKYLKLAVEL 133
                                       67779****************97 PP

  == domain 3  score: 9.1 bits;  conditional E-value: 0.0011
                                       HHHHHHHHHHTT-HHHHHHHHHHHHHH CS
                             TPR_8   4 yynlgsiylklgdyeeAkeyyekalel 30 
                                       ++ lg  y ++++ e+A  +++kal++
  gi|331746812|ref|YP_004422849.1| 151 LNILGTYYYETNRPEKALMVLKKALRY 177
                                       67899*******************986 PP

  == domain 4  score: 9.2 bits;  conditional E-value: 0.00099
                                       HHHHHHHHHHHTT-HHHHHHHHH CS
                             TPR_8   3 ayynlgsiylklgdyeeAkeyye 25 
                                        +ynl+++y +lg   +A+ ++ 
  gi|331746812|ref|YP_004422849.1| 187 TLYNLALTYAELGMNRKAIDFMV 209
                                       58*****************9875 PP

  == domain 5  score: -2.7 bits;  conditional E-value: 6.7
                                       HHHHHHHHH CS
                             TPR_8  18 eeAkeyyek 26 
                                       eeAk+ +e+
  gi|331746812|ref|YP_004422849.1| 263 EEAKKLLEQ 271
                                       89**99997 PP

>> TPR_14  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.0   0.1       3.1   4.6e+03      13      34 ..      21      42 ..      16      48 .. 0.59
   2 ?    6.5   0.0     0.012        18      10      32 ..     113     135 ..     110     139 .. 0.87
   3 ?    6.0   0.0     0.017        25       7      35 ..     154     182 ..     150     192 .. 0.78
   4 ?    0.1   0.0       1.4     2e+03       4      22 ..     188     206 ..     186     212 .. 0.86
   5 ?   -0.9   0.1       2.8   4.2e+03      17      30 ..     262     275 ..     246     284 .. 0.66

  Alignments for each domain:
  == domain 1  score: -1.0 bits;  conditional E-value: 3.1
                            TPR_14 13 alGdpdeAiallrralalaPdd 34
                                      a G  +++++ l++a + a++ 
  gi|331746812|ref|YP_004422849.1| 21 AEGFSEKSLEDLEKAYEEAWER 42
                                      5555566666666666665655 PP

  == domain 2  score: 6.5 bits;  conditional E-value: 0.012
                            TPR_14  10 allalGdpdeAiallrralalaP 32 
                                       +l ++ +p++A+++l+ a++l+ 
  gi|331746812|ref|YP_004422849.1| 113 YLSQQNNPEKAEKYLKLAVELGE 135
                                       688999************99875 PP

  == domain 3  score: 6.0 bits;  conditional E-value: 0.017
                            TPR_14   7 laeallalGdpdeAiallrralalaPdda 35 
                                       l+ ++++  +p++A+ +l++al+ a +++
  gi|331746812|ref|YP_004422849.1| 154 LGTYYYETNRPEKALMVLKKALRYAMTPR 182
                                       78899*****************9554443 PP

  == domain 4  score: 0.1 bits;  conditional E-value: 1.4
                            TPR_14   4 llalaeallalGdpdeAia 22 
                                       l+ la  +++lG  ++Ai+
  gi|331746812|ref|YP_004422849.1| 188 LYNLALTYAELGMNRKAID 206
                                       577999**********997 PP

  == domain 5  score: -0.9 bits;  conditional E-value: 2.8
                            TPR_14  17 pdeAiallrralal 30 
                                        +eA +ll+++ ++
  gi|331746812|ref|YP_004422849.1| 262 AEEAKKLLEQIDRD 275
                                       57899999998554 PP

>> Rapsyn_N  Rapsyn N-terminal myristoylation and linker region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.5   0.0       7.6   1.1e+04      16      26 ..     114     124 ..     112     132 .. 0.72
   2 !   14.3   0.0   2.2e-05     0.033      15      71 ..     157     213 ..     153     219 .. 0.92

  Alignments for each domain:
  == domain 1  score: -3.5 bits;  conditional E-value: 7.6
                          Rapsyn_N  16 lyesndtekal 26 
                                       l ++n+ eka 
  gi|331746812|ref|YP_004422849.1| 114 LSQQNNPEKAE 124
                                       56889988885 PP

  == domain 2  score: 14.3 bits;  conditional E-value: 2.2e-05
                          Rapsyn_N  15 klyesndtekalrvWrkvLkktsdregkfrvLGcLitahsemGkykealefalaqld 71 
                                         ye n  ekal v +k+L+ +  + +    L  L   ++e+G  ++a++f +  + 
  gi|331746812|ref|YP_004422849.1| 157 YYYETNRPEKALMVLKKALRYAMTPRETALTLYNLALTYAELGMNRKAIDFMVNAIC 213
                                       579*********************999999999******************998775 PP

>> TPR_16  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.1   0.0      0.42   6.3e+02       7      24 ..     114     131 ..     111     136 .. 0.63
   2 ?   12.0   0.0   0.00016      0.25       3      53 ..     154     204 ..     154     209 .. 0.91

  Alignments for each domain:
  == domain 1  score: 1.1 bits;  conditional E-value: 0.42
                            TPR_16   7 alragdyddAaaaleaal 24 
                                       + +++++++A+++l+ a+
  gi|331746812|ref|YP_004422849.1| 114 LSQQNNPEKAEKYLKLAV 131
                                       456777777777765444 PP

  == domain 2  score: 12.0 bits;  conditional E-value: 0.00016
                            TPR_16   3 laraalragdyddAaaaleaalkrdpssPdaaeAllllgdaalrqgrlaeA 53 
                                       l++++++ +++++A+ +l+ al+++  + ++a  l++l++ ++++g   +A
  gi|331746812|ref|YP_004422849.1| 154 LGTYYYETNRPEKALMVLKKALRYAMTPRETALTLYNLALTYAELGMNRKA 204
                                       699****************************************99855555 PP

>> TPR_17  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.6   0.0       6.9     1e+04      23      33 ..     114     124 ..     112     125 .. 0.75
   2 ?    3.9   0.0     0.056        84      11      33 ..     146     168 ..     143     169 .. 0.89
   3 ?    8.4   0.2     0.002         3      13      33 ..     185     205 ..     171     206 .. 0.85

  Alignments for each domain:
  == domain 1  score: -2.6 bits;  conditional E-value: 6.9
                            TPR_17  23 llknGdlmtAr 33 
                                       l++++++++A+
  gi|331746812|ref|YP_004422849.1| 114 LSQQNNPEKAE 124
                                       67889999998 PP

  == domain 2  score: 3.9 bits;  conditional E-value: 0.056
                            TPR_17  11 nnadaynnLAelllknGdlmtAr 33 
                                       +++  +n L++++++ +++++A+
  gi|331746812|ref|YP_004422849.1| 146 DYSIILNILGTYYYETNRPEKAL 168
                                       57999***************997 PP

  == domain 3  score: 8.4 bits;  conditional E-value: 0.002
                            TPR_17  13 adaynnLAelllknGdlmtAr 33 
                                       a  ++nLA +++++G  ++A+
  gi|331746812|ref|YP_004422849.1| 185 ALTLYNLALTYAELGMNRKAI 205
                                       6789************99997 PP

>> TPR_6  Tetratricopeptide repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.0      0.86   1.3e+03       9      25 ..     112     129 ..     110     133 .. 0.79
   2 ?    4.0   0.1     0.064        96       6      28 ..     154     176 ..     153     178 .. 0.87
   3 ?    8.0   0.1    0.0032       4.8       3      22 ..     188     207 ..     187     212 .. 0.91
   4 ?   -1.4   0.0       3.2   4.8e+03      16      26 ..     262     272 ..     250     275 .. 0.85

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 0.86
                                       HHHH.HHHHHHHHHHHHH CS
                             TPR_6   9 syrk.lgdtdkAlealer 25 
                                        y++ +++++kA ++l+ 
  gi|331746812|ref|YP_004422849.1| 112 IYLSqQNNPEKAEKYLKL 129
                                       6887688*****999975 PP

  == domain 2  score: 4.0 bits;  conditional E-value: 0.064
                                       HHHHHHHHHHHHHHHHHHHHHHH CS
                             TPR_6   6 lalsyrklgdtdkAlealerlik 28 
                                       l+  y+++++++kAl  l++ ++
  gi|331746812|ref|YP_004422849.1| 154 LGTYYYETNRPEKALMVLKKALR 176
                                       678899999*********99886 PP

  == domain 3  score: 8.0 bits;  conditional E-value: 0.0032
                                       HHHHHHHHHHHHHHHHHHHH CS
                             TPR_6   3 lyklalsyrklgdtdkAlea 22 
                                       ly+lal y +lg  +kA++ 
  gi|331746812|ref|YP_004422849.1| 188 LYNLALTYAELGMNRKAIDF 207
                                       8*********99*****986 PP

  == domain 4  score: -1.4 bits;  conditional E-value: 3.2
                                       HHHHHHHHHHH CS
                             TPR_6  16 tdkAlealerl 26 
                                       +++A+++le++
  gi|331746812|ref|YP_004422849.1| 262 AEEAKKLLEQI 272
                                       479*****986 PP

>> TPR_11  TPR repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.4   0.0       2.8   4.1e+03       4      20 ..      19      35 ..      18      37 .. 0.79
   2 ?   -3.0   0.0       4.3   6.4e+03      24      35 ..     119     130 ..     116     131 .. 0.82
   3 ?    9.4   0.3   0.00055      0.82       4      42 .]     158     199 ..     155     199 .. 0.88

  Alignments for each domain:
  == domain 1  score: -2.4 bits;  conditional E-value: 2.8
                            TPR_11  4 yyeqGkyeeAieaYkkA 20
                                      +++ G  e+++e+++kA
  gi|331746812|ref|YP_004422849.1| 19 FFAEGFSEKSLEDLEKA 35
                                      67777779999999998 PP

  == domain 2  score: -3.0 bits;  conditional E-value: 4.3
                            TPR_11  24 dPdnaeayynLG 35 
                                       +P+ ae y++L+
  gi|331746812|ref|YP_004422849.1| 119 NPEKAEKYLKLA 130
                                       789999999987 PP

  == domain 3  score: 9.4 bits;  conditional E-value: 0.00055
                            TPR_11   4 yyeqGkyeeAieaYkkAlkld...PdnaeayynLGlayykqG 42 
                                       yye ++ e+A+ ++kkAl++     + a  +ynL+l+y+++G
  gi|331746812|ref|YP_004422849.1| 158 YYETNRPEKALMVLKKALRYAmtpRETALTLYNLALTYAELG 199
                                       9******************9644468999*********9998 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (474 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       785  (0.0437838); expected 358.6 (0.02)
Passed bias filter:                      523  (0.0291706); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                        12  (0.000669307); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              12  [number of targets reported over threshold]
# CPU time: 0.68u 0.32s 00:00:01.00 Elapsed: 00:00:00.51
# Mc/sec: 2778.01
//
Query:       gi|331746813|ref|YP_004422850.1|  [L=52]
Description: hypothetical protein TERMP_02235 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model      Description
    ------- ------ -----    ------- ------ -----   ---- --  --------   -----------
  ------ inclusion threshold ------
       0.05   13.9   0.1      0.052   13.9   0.1    1.0  1  Phage_Gp23  Protein gp23 (Bacteriophage A118)
       0.17   10.0   0.2       0.18   10.0   0.2    1.0  1  PsaA_PsaB   Photosystem I psaA/psaB protein


Domain annotation for each model (and alignments):
>> Phage_Gp23  Protein gp23 (Bacteriophage A118)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.1   5.8e-06     0.052      21      57 ..      13      49 ..       5      52 .] 0.87

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 5.8e-06
                        Phage_Gp23 21 alsvvlflillivtkriwddrkilkiemkeerekkee 57
                                      +l vvl+l ll ++++ w+    l +++ ee ek+ +
  gi|331746813|ref|YP_004422850.1| 13 LLWVVLLLFLLALGRSFWKALVELLADVCEEVEKRRK 49
                                      58899*************************9998765 PP

>> PsaA_PsaB  Photosystem I psaA/psaB protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.0   0.2     2e-05      0.18     646     674 ..       9      38 ..       3      46 .. 0.86

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 2e-05
                         PsaA_PsaB 646 laghlvwafslmflis.grGywqelieslv 674
                                       +ag l+w + l+fl++ gr +w+ l+e l 
  gi|331746813|ref|YP_004422850.1|   9 IAGFLLWVVLLLFLLAlGRSFWKALVELLA 38 
                                       6899*********99769*********875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (52 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       716  (0.0399353); expected 358.6 (0.02)
Passed bias filter:                      488  (0.0272185); expected 358.6 (0.02)
Passed Vit filter:                        46  (0.00256568); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.40u 0.25s 00:00:00.65 Elapsed: 00:00:00.42
# Mc/sec: 370.31
//
Query:       gi|331746814|ref|YP_004422851.1|  [L=313]
Description: ADP-ribosylglycohydrolase [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    1.5e-62  211.9   0.0    1.8e-62  211.7   0.0    1.0  1  ADP_ribosyl_GH  ADP-ribosylglycohydrolase


Domain annotation for each model (and alignments):
>> ADP_ribosyl_GH  ADP-ribosylglycohydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  211.7   0.0   9.9e-67   1.8e-62       1     291 []       8     286 ..       8     286 .. 0.95

  Alignments for each domain:
  == domain 1  score: 211.7 bits;  conditional E-value: 9.9e-67
                                       HHHHHHHHHHHHHGGGTT--HHHHHHHTSS--S-----STTTTTS-TT---HHHHHHHHHHHTEET.TEE-HHHHHH CS
                    ADP_ribosyl_GH   1 GallGaavGDAlGlpvefwsydeirrrygelgetpdktgfghfglkpgewtddtqmalllleslleaggldpedlar 77 
                                       G+l+G++vGDA+Gl ++f s+ +++  y++ +            +  g w+dd++++l+++++l e  g+++e +a+
  gi|331746814|ref|YP_004422851.1|   8 GGLWGVLVGDAFGLTFQFTSRLAMELNYPKPK---------EIPMLDGLWSDDSSLTLATAHALRE--GYSIERIAE 73 
                                       89*****************9999998998876.........89999********************..9******** PP

                                       HHHH.HHT......T--SS--HHHHHHHHHTTTT-...-S-B...---BTTTGGG-HHHHHHTSS...-HHHHHHHH CS
                    ADP_ribosyl_GH  78 rflaeWlee.p.gdteprgignttrealrnlksgepppeaganangsagngalmRaaplgllyag...dpeeaaela 149
                                       +fl+++++  + + ++ ++ gntt++a++++++g pp eag + + ++gng+lmR++p +++++    ++ee ++l+
  gi|331746814|ref|YP_004422851.1|  74 NFLRWYYDGeFtPRGYTFDQGNTTSRAIERIANGVPPLEAGGRGEWDNGNGSLMRIPPAAYYAYFklnSLEERLKLI 150
                                       ****88887668888899999**************************************999888899********* PP

                                       HHHHHTTB--HHHHHHHHHHHHHHHHHHTT--STHHHHHH..HHHHTTT-HHHHHHHGGGGG---HHH........H CS
                    ADP_ribosyl_GH 150 eeaarlTHnhpeavagaaayaaliaaalrgksleealdaaeeelavapaeeelaaalrkalaladsdkdvdvdaeea 226
                                       +e++++TH+hp+a+ g+++y++++  +l g ++ +a+ +a e +++   +e +a++l++ ++  +        ++ +
  gi|331746814|ref|YP_004422851.1| 151 HEVSMITHAHPRALIGCGIYSLIVWNILDGMDKLKAYHKAIETAEKFYLRESFAKELAHYERVLSGRI-----HKVE 222
                                       ****************************************888999999999**********999999.....8999 PP

                                       HHHH--SSBHHHHHHHHHHHHHH.-SSHHHHHHHHHTS-SSHHHHHHHHHHHHHHHH-GGGS-HH CS
                    ADP_ribosyl_GH 227 vdelgsggyavealaaalyallhaaddfeeallaavnlGgDtdttgaiaGallGalyGleaiPee 291
                                        +e++++gy+v++l+a+++a+l+ +++f  a+ ++++lG D+dttga++G+l+G +yG++aiP+e
  gi|331746814|ref|YP_004422851.1| 223 RSEIRGSGYVVHTLEASFWAFLR-NESFVNAIKEVISLGEDADTTGAVTGGLAGTYYGIGAIPQE 286
                                       9999*******************.9**************************************85 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (313 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       440  (0.0245412); expected 358.6 (0.02)
Passed bias filter:                      430  (0.0239835); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.52u 0.28s 00:00:00.80 Elapsed: 00:00:00.45
# Mc/sec: 2077.15
//
Query:       gi|331746815|ref|YP_004422852.1|  [L=113]
Description: hypothetical protein TERMP_02237 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    1.8e-12   47.9   0.4    2.1e-12   47.7   0.4    1.0  1  GGACT     Gamma-glutamyl cyclotransferase, AIG2-like


Domain annotation for each model (and alignments):
>> GGACT  Gamma-glutamyl cyclotransferase, AIG2-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   47.7   0.4   1.2e-16   2.1e-12       2     120 ..       4     106 ..       3     107 .. 0.80

  Alignments for each domain:
  == domain 1  score: 47.7 bits;  conditional E-value: 1.2e-16
                                       EESSTTSTTSCCCHHHHCSECEEEEEEEECCTBEEEE.ETTTEEEETTSSE.EEEEEEEE-HHHHHHHHHCT.TTTT CS
                             GGACT   2 FvYGtLkrgepnhqrlllgarflesgpatlkgyrlydlggkypalvpgdgekVkGelyevddeelarLDelEpeeps 78 
                                        vYGtL++g+p h  +l++++fl++   +++gy ly+     p++v+g+g+  k e+yevd+e+++r+ ++E   + 
  gi|331746815|ref|YP_004422852.1|   4 AVYGTLRKGKPLHD-YLRESKFLGE--DWIEGYDLYV--DVLPYAVKGEGR-LKVEIYEVDEETFERISRME--VNA 72 
                                       59*******99997.9977677754..47*******8..579********9.********************..789 PP

                                       SEEEEEEEEEC.TTS-EEEEEEEEETT..GGGCCS-S-SS-- CS
                             GGACT  79 eYereevkvevledgeqveawvYvyageeeegdrliesgdWr 120
                                        Y+ +  +v++ + g+++  w +v     e  ++++esgd++
  gi|331746815|ref|YP_004422852.1|  73 GYKPV--EVDT-KFGRAI-LWKWVH----EPSGERVESGDFD 106
                                       9****..6665.336655.555555....3456778888876 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (113 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       300  (0.0167327); expected 358.6 (0.02)
Passed bias filter:                      276  (0.0153941); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.37u 0.25s 00:00:00.62 Elapsed: 00:00:00.41
# Mc/sec: 834.05
//
Query:       gi|331746816|ref|YP_004422853.1|  [L=300]
Description: hypothetical protein TERMP_02238 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.7e-60  202.5   0.0      7e-60  202.2   0.0    1.1  1  GATase_4  Glutamine amidotransferases class-II
    0.00058   20.1   0.0     0.0019   18.4   0.0    1.8  1  GATase_6  Glutamine amidotransferase domain


Domain annotation for each model (and alignments):
>> GATase_4  Glutamine amidotransferases class-II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  202.2   0.0   7.8e-64     7e-60      32     258 ..       7     238 ..       1     250 [. 0.91

  Alignments for each domain:
  == domain 1  score: 202.2 bits;  conditional E-value: 7.8e-64
                          GATase_4  32 hadGwGiafye.....gkaarvfkdpepsaesplaelvreypiksknvvaHiRkatqGevklenthpFvRelwg... 100
                                          GwG+++y      ++aa+++k+p p+ +s++a  + + +iks+++++H+R at  e+++ nthpF+R  +    
  gi|331746816|ref|YP_004422853.1|   7 NPHGWGVGWYLtalhgKRAASLVKQPIPAYKSRIALTLPKLNIKSQVIISHVRFATS-EINYLNTHPFIRRIKSigq 82 
                                       567*******9999989999************************************9.************9864333 PP

                          GATase_4 101 .rewifAHnGdlkeykpklegrfePvGsTDsElafCelleelasrfekaepsaeeleralaelakeiaelGvfnlll 176
                                        +ewifAHnG l+++++    rf+P+G+TDsE afC+++e+l+        +++el++ l++l++e++++G++n+l+
  gi|331746816|ref|YP_004422853.1|  83 yDEWIFAHNGVLDGVEELP-RRFKPLGTTDSEAAFCYIMENLEGIR-----TIRELFTKLYQLLSELSDYGTLNVLI 153
                                       489*********9977666.8*********************8766.....799*********************** PP

                          GATase_4 177 sdgralfahas...trLvyilRkaPf.geaelkdedlevdfeevttkedrvavvatepLtrdetWkklepGellvfr 249
                                       s+gr+lfa+     + ++ + R++P+ g+a+l ded+ev++ +v+ +++++ +vat+ Lt de+W+k+e+ +l++fr
  gi|331746816|ref|YP_004422853.1| 154 SNGRYLFAYSYypgKGMWLLKRHPPHkGRARLLDEDFEVSIGDVKAEDEYAYLVATKRLT-DENWEKIEKKKLYIFR 229
                                       ********99766688**********889*******************************.89************** PP

                          GATase_4 250 dGalvatas 258
                                       dGal  ++ 
  gi|331746816|ref|YP_004422853.1| 230 DGALLLKVG 238
                                       ***987754 PP

>> GATase_6  Glutamine amidotransferase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.4   0.0   2.1e-07    0.0019      10      79 ..      49     117 ..      44     152 .. 0.77

  Alignments for each domain:
  == domain 1  score: 18.4 bits;  conditional E-value: 2.1e-07
                          GATase_6  10 vedevalaHvRlaivglaeeega.qPf......psedgrlllvhNGeiynykelreelpalkglafrsrsDtevlla 79 
                                       ++++v++ HvR a++  +    + +Pf        ++++++++hNG  + ++el ++++        +++D+e  + 
  gi|331746816|ref|YP_004422853.1|  49 IKSQVIISHVRFATSEIN--YLNtHPFirriksIGQYDEWIFAHNGVLDGVEELPRRFKP------LGTTDSEAAFC 117
                                       57889************8..4444***877665567777************877666665......33568877666 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (300 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       502  (0.0279993); expected 358.6 (0.02)
Passed bias filter:                      395  (0.0220313); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.56u 0.29s 00:00:00.85 Elapsed: 00:00:00.49
# Mc/sec: 1847.27
//
Query:       gi|331746817|ref|YP_004422854.1|  [L=424]
Description: hypothetical protein TERMP_02239 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
     0.0084   16.5   0.0          3    8.3   0.0    2.3  2  Aida_N          Aida N-terminus
  ------ inclusion threshold ------
      0.034   14.5   0.0       0.34   11.3   0.0    2.2  2  EndoU_bacteria  Bacterial EndoU nuclease
      0.041   13.9   0.0       0.17   11.9   0.0    2.0  2  HSDR_N_2        Type I restriction enzyme R protein N terminu


Domain annotation for each model (and alignments):
>> Aida_N  Aida N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.3   0.0   0.00051         3      44      95 ..      72     124 ..      56     128 .. 0.84
   2 !    5.9   0.0    0.0028        17      44      92 ..     202     251 ..     186     262 .. 0.84

  Alignments for each domain:
  == domain 1  score: 8.3 bits;  conditional E-value: 0.00051
                            Aida_N  44 elt.edqkktlekvatalelRakalqavdgeesitledlkkleevlksilsde 95 
                                       e+t ++ ++ lek+  ++e+R k +++++ ++    ++   l e+l++i +d+
  gi|331746817|ref|YP_004422854.1|  72 EFTsHEAARYLEKLGFVVEYREKHISDGKNHKPARISKYSPLGEYLSKIAKDT 124
                                       4541567899*******************999**************9998776 PP

  == domain 2  score: 5.9 bits;  conditional E-value: 0.0028
                            Aida_N  44 eltedqkktlekvatalelRakalqavdgee.sitledlkkleevlksil 92 
                                       e+ e+  ++ ek+at +e R ka+ ++ +e  +i +e+  +++ ++ + l
  gi|331746817|ref|YP_004422854.1| 202 EFDEKMYRVFEKFATLIEERLKAIAEGRSELeEIYQESEDTVRYMMFHSL 251
                                       78899999*******************99876888888888888776555 PP

>> EndoU_bacteria  Bacterial EndoU nuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.6   0.0      0.11   6.8e+02      69     111 ..      12      52 ..      11      63 .. 0.77
   2 ?   11.3   0.0   5.7e-05      0.34       3      71 ..      91     195 ..      89     246 .. 0.91

  Alignments for each domain:
  == domain 1  score: 0.6 bits;  conditional E-value: 0.11
                    EndoU_bacteria  69 PdtwsaekildaveeaaenknstesqangvvvggesdGvkirv 111
                                       P+++  e++l+a+e++ +n   +++     v++  ++G ++ v
  gi|331746817|ref|YP_004422854.1|  12 PENILREHVLKAIEDIDRNGTPKNRRF--RVWFLVYNGNRYPV 52 
                                       78888899********99999998843..46666678866655 PP

  == domain 2  score: 11.3 bits;  conditional E-value: 5.7e-05
                    EndoU_bacteria   3 kafeHilcGeikkkgkigGgHsagrylqaqes..............................irnteevdknGvyta 49 
                                       ++++Hi +G+++k+ +i++++  g+yl++  +                              ++++  +  +G  +a
  gi|331746817|ref|YP_004422854.1|  91 YREKHISDGKNHKPARISKYSPLGEYLSKIAKdtvvlrfrdieriigkelppaartykawwaNDKKHPQAVHGWLKA 167
                                       689****************************9***********************999999999999999999999* PP

                    EndoU_bacteria  50 kveikkvdgkt......kgkgstfFPdt 71 
                                       +++i++vd +       k +++ +FP++
  gi|331746817|ref|YP_004422854.1| 168 GWRIRHVDLRDeivwfeKIQKNRIFPEN 195
                                       ***9999998899999966666677765 PP

>> HSDR_N_2  Type I restriction enzyme R protein N terminus (HSDR_N)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.0      0.66     4e+03      52      67 ..      87     102 ..      71     120 .. 0.67
   2 ?   11.9   0.0   2.9e-05      0.17       2      59 ..     240     299 ..     239     307 .. 0.86

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 0.66
                          HSDR_N_2  52 livecKapsvkiseev 67 
                                        +ve+++++++  +++
  gi|331746817|ref|YP_004422854.1|  87 FVVEYREKHISDGKNH 102
                                       5677777777774433 PP

  == domain 2  score: 11.9 bits;  conditional E-value: 2.9e-05
                          HSDR_N_2   2 EEwvRqklikyLveelgypkeliavekelqlgskkkra..DivvykkdkkpllivecKap 59 
                                       E++vR  + + L++  g++ +++ +e++     +kk+a  D+ v  k+++p+l+ e+K +
  gi|331746817|ref|YP_004422854.1| 240 EDTVRYMMFHSLTTVGGVDPTDVYLEYPHPQVPNKKYAklDTFVAPKENRPALAFEMKFQ 299
                                       99**************************986655555444****************9965 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (424 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       629  (0.0350828); expected 358.6 (0.02)
Passed bias filter:                      559  (0.0311785); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.59u 0.28s 00:00:00.87 Elapsed: 00:00:00.48
# Mc/sec: 2665.77
//
Query:       gi|331746818|ref|YP_004422855.1|  [L=513]
Description: hypothetical protein TERMP_02240 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    6.7e-10   38.8   0.1    7.9e-06   25.5   0.0    2.9  3  Lactamase_B_2  Beta-lactamase superfamily domain
      1e-06   28.5   0.0    9.3e-06   25.5   0.0    2.5  3  RMMBL          Zn-dependent metallo-hydrolase RNA specificity
    6.3e-06   26.3   2.0    8.7e-05   22.6   2.0    2.4  1  Lactamase_B    Metallo-beta-lactamase superfamily
    0.00011   22.2   0.0      0.083   12.8   0.0    2.7  3  Lactamase_B_3  Beta-lactamase superfamily domain
  ------ inclusion threshold ------
      0.016   14.4   0.0      0.027   13.6   0.0    1.3  1  PDEase_II      cAMP phosphodiesterases class-II
      0.099   12.6   0.0       0.23   11.4   0.0    1.6  1  PaREP1         Archaeal PaREP1/PaREP8 family
       0.18   11.2   0.3       0.49    9.8   0.1    1.8  2  Lactamase_B_6  Metallo-beta-lactamase superfamily domain


Domain annotation for each model (and alignments):
>> Lactamase_B_2  Beta-lactamase superfamily domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.5   0.0   3.1e-09   7.9e-06      29      76 ..      87     130 ..      76     158 .. 0.81
   2 !    9.0   0.0   0.00035      0.89      88     191 ..     195     297 ..     177     302 .. 0.74
   3 ?    0.2   0.0      0.18   4.6e+02     175     200 ..     462     487 ..     442     488 .. 0.88

  Alignments for each domain:
  == domain 1  score: 25.5 bits;  conditional E-value: 3.1e-09
                                       .SEEEEE-SS--HHHHGGGGCCCCC--EEEEEEEEHHHHHHCCTTCGH CS
                     Lactamase_B_2  29 ppidaVllthaHyDHlaglltlrelrpkklplyapkgvlavleanfvy 76 
                                       p+++aVl++haH DH+ ++  l e    ++p+++++ ++a+l+a  + 
  gi|331746818|ref|YP_004422855.1|  87 PQVNAVLISHAHLDHVGNITLLDE----NIPIVGSPTTIAILKAINDT 130
                                       799*************77777777....59***********9987655 PP

  == domain 2  score: 9.0 bits;  conditional E-value: 0.00035
                                       EEE-TTSEEEE..CSTTEEEEEEEE-EE--CTCCE-TTTSEEEEEECTTEEEEEESS-S---...HHHH...HHHCT CS
                     Lactamase_B_2  88 heldwgesfel..gdggleitatparhksgrrldrnagdtlGlriegggkrvyyigDtgyip...eeig...erlgg 156
                                       +++ ++e  +l  +d g+e++a+ + h+           + +++ie g+ +++y+gD        +e +   +  ++
  gi|331746818|ref|YP_004422855.1| 195 KKIIPNEVKTLdeEDLGFEVKAFHVDHSIYG--------ATAYIIE-GDISLAYTGDFRLHGgkgDETRkfiKAAKN 262
                                       5555666666666678999********9999........*******.99**********777677555522266677 PP

                                       -SEEEEE-S-SSTTHHHHHHT---S...TSHHHHCTTS CS
                     Lactamase_B_2 157 adllllditayeddemirhmgHltp...eeaveaaadl 191
                                         +l+ ++t++  de   h  ++ +   e+a+++++d+
  gi|331746818|ref|YP_004422855.1| 263 SSVLITEGTRVGRDE---HGNTSEQevyENALKIVEDA 297
                                       99*******999999...43344434466677666665 PP

  == domain 3  score: 0.2 bits;  conditional E-value: 0.18
                                       HHT---STSHHHHCTTSSSSEEEEES CS
                     Lactamase_B_2 175 hmgHltpeeaveaaadlgakrlvliH 200
                                         gH++ ee  e+++++++  ++++H
  gi|331746818|ref|YP_004422855.1| 462 ASGHISREELREVIEEIDPDYVIPVH 487
                                       579*********************** PP

>> RMMBL  Zn-dependent metallo-hydrolase RNA specificity domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.3   0.0       1.7   4.5e+03      20      36 ..     251     267 ..     249     271 .. 0.80
   2 ?   -2.1   0.0       1.5   3.9e+03      35      43 ..     368     376 ..     359     378 .. 0.78
   3 !   25.5   0.0   3.6e-09   9.3e-06      12      41 ..     461     490 ..     458     498 .. 0.91

  Alignments for each domain:
  == domain 1  score: -2.3 bits;  conditional E-value: 1.7
                             RMMBL  20 nellelirklkprnvil 36 
                                       +e++++i+  k+  v +
  gi|331746818|ref|YP_004422855.1| 251 DETRKFIKAAKNSSVLI 267
                                       7999****999887655 PP

  == domain 2  score: -2.1 bits;  conditional E-value: 1.5
                             RMMBL  35 ilvHGeeea 43 
                                       i+vHG + +
  gi|331746818|ref|YP_004422855.1| 368 IIVHGNYAE 376
                                       89***9865 PP

  == domain 3  score: 25.5 bits;  conditional E-value: 3.6e-09
                             RMMBL  12 dfSgHadknellelirklkprnvilvHGee 41 
                                       + SgH  ++el+e+i+ + p +vi+vH e+
  gi|331746818|ref|YP_004422855.1| 461 HASGHISREELREVIEEIDPDYVIPVHTEK 490
                                       67**************************97 PP

>> Lactamase_B  Metallo-beta-lactamase superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   22.6   2.0   3.4e-08   8.7e-05      36     162 ..      80     254 ..      19     303 .. 0.69

  Alignments for each domain:
  == domain 1  score: 22.6 bits;  conditional E-value: 3.4e-08
                                       HHHTSGGGGEEEEE-SBSSHHHHTTGGGCTTHHCCEETCCEHHHHCCHCHHHHHHHHHCCHH............... CS
                       Lactamase_B  36 aalglkpkdvdavilTHlHlDHiGglgglveatdvpvgavaeeapalfmeeaddaasrkgll............... 97 
                                               +v av+++H+HlDH+G+   l e  +++     ++  + +++  +++ +++  l               
  gi|331746818|ref|YP_004422855.1|  80 EISQCSKPQVNAVLISHAHLDHVGNITLLDENIPIVGSPTTIAILKAINDTSKGGNHFGIELpyykirkikdsegyi 156
                                       555667789**********************9999988888888777777777766666555777777777777777 PP

                                       ..............................TTCHCGCCEEEEETTTEECCCTEEEEEHECTTSTSCCEEEEEE...T CS
                       Lactamase_B  98 ..............................lagvsadkpdvdeeeldgnaggrralyvtggpghghghgvvey...g 141
                                                                     + ++s++++ + ++e  + + ++++++v   ++ +++ g   y   g
  gi|331746818|ref|YP_004422855.1| 157 iesdrkadypsrkivlieyvqplheflfyrPGQESPKAKKIIPNEVKTLDEEDLGFEVKAFHVDHSIYGATAYiieG 233
                                       77777777777777777777777777777755555555555555555555555555554444444444443332225 PP

                                       TCCEEEECTTTSSHHCCCCCC CS
                       Lactamase_B 142 ggkvlftGDallagetgridl 162
                                       + ++++tGD+ l g  g+ ++
  gi|331746818|ref|YP_004422855.1| 234 DISLAYTGDFRLHGGKGDETR 254
                                       556677777777666666655 PP

>> Lactamase_B_3  Beta-lactamase superfamily domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.8   0.0   3.3e-05     0.083      34      73 ..      75     123 ..      12     164 .. 0.68
   2 ?   -2.3   0.0       1.4   3.7e+03      93     114 ..     223     243 ..     199     268 .. 0.74
   3 !    6.5   0.0    0.0028       7.1     142     163 .]     466     487 ..     448     487 .. 0.89

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 3.3e-05
                     Lactamase_B_3  34 a...........eeaDlvlisqaledHahletlkqlaenvkvleegeslev 73 
                                       +           +++++vlis+a+ dH    tl    en++++ ++ ++++
  gi|331746818|ref|YP_004422855.1|  75 KdlaleisqcskPQVNAVLISHAHLDHVGNITLLD--ENIPIVGSPTTIAI 123
                                       0555555555559**************98877766..89999999877664 PP

  == domain 2  score: -2.3 bits;  conditional E-value: 1.4
                     Lactamase_B_3  93 rgenngflleqdgltiyhlGhl 114
                                         + +++++ ++++++++ G+ 
  gi|331746818|ref|YP_004422855.1| 223 IYGATAYII-EGDISLAYTGDF 243
                                       445567777.468999999986 PP

  == domain 3  score: 6.5 bits;  conditional E-value: 0.0028
                     Lactamase_B_3 142 lgqeealelakrLkpklvlPmh 163
                                       +++ee  e++++++p++v+P+h
  gi|331746818|ref|YP_004422855.1| 466 ISREELREVIEEIDPDYVIPVH 487
                                       67999****************9 PP

>> PDEase_II  cAMP phosphodiesterases class-II
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.6   0.0   1.1e-05     0.027      74      99 ..      82     107 ..      62     127 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.6 bits;  conditional E-value: 1.1e-05
                                       HHHHHHTEEEEE-S---GGGTHHHHH CS
                         PDEase_II  74 tyeiknniksylItHsHLDHvsglvi 99 
                                       ++ +k +++  lI+H+HLDHv+ + +
  gi|331746818|ref|YP_004422855.1|  82 SQCSKPQVNAVLISHAHLDHVGNITL 107
                                       677889999************98866 PP

>> PaREP1  Archaeal PaREP1/PaREP8 family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.0   8.8e-05      0.23      62      97 ..     280     345 ..     255     354 .. 0.72

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 8.8e-05
                            PaREP1  62 e...............................llkavaklleelgdkevvdlwklAldLHeyqfhea 97 
                                       +                               +l+  +k++e++g +e+v   k A++LH+ q +++
  gi|331746818|ref|YP_004422855.1| 280 NtseqevyenalkivedakglviadfsprnfeRLESFKKIAENTG-RELVVTAKDAYFLHALQLVDG 345
                                       44444566666666666666677777777777899999*******.****************97765 PP

>> Lactamase_B_6  Metallo-beta-lactamase superfamily domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.9   0.0      0.75   1.9e+03     133     163 ..       3      33 ..       1      39 [. 0.74
   2 ?    9.8   0.1   0.00019      0.49      32      57 ..      85     110 ..      70     127 .. 0.79

  Alignments for each domain:
  == domain 1  score: -1.9 bits;  conditional E-value: 0.75
                     Lactamase_B_6 133 itaynaGhtlGGtiWkiskesekivYavdwn 163
                                       it y    t+GGt  +i+++ + ++    +n
  gi|331746818|ref|YP_004422855.1|   3 ITIYDGADTIGGTKIHIEENGNGLLLDFGMN 33 
                                       6777778899999999998877766655555 PP

  == domain 2  score: 9.8 bits;  conditional E-value: 0.00019
                     Lactamase_B_6  32 viptvdliLLshatlehlGayallya 57 
                                         p+v+++L+sha l+h+G  +ll  
  gi|331746818|ref|YP_004422855.1|  85 SKPQVNAVLISHAHLDHVGNITLLDE 110
                                       459****************8776654 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (513 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       485  (0.0270511); expected 358.6 (0.02)
Passed bias filter:                      443  (0.0247086); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         7  (0.000390429); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               7  [number of targets reported over threshold]
# CPU time: 0.68u 0.32s 00:00:01.00 Elapsed: 00:00:00.94
# Mc/sec: 1650.55
//
Query:       gi|331746819|ref|YP_004422856.1|  [L=343]
Description: hypothetical protein TERMP_02241 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    2.2e-12   47.3   0.0    4.1e-08   33.4   0.0    2.3  2  HSDR_N    Type I restriction enzyme R protein N terminus (HSD
    2.3e-06   27.5   0.0      4e-06   26.8   0.0    1.4  1  HSDR_N_2  Type I restriction enzyme R protein N terminus (HSD


Domain annotation for each model (and alignments):
>> HSDR_N  Type I restriction enzyme R protein N terminus (HSDR_N)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   13.5   0.0   5.6e-06      0.05       2      37 ..      27      62 ..      26      65 .. 0.92
   2 !   33.4   0.0   4.6e-12   4.1e-08     118     193 ..      60     129 ..      57     130 .. 0.85

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 5.6e-06
                                      SSHHHHHH.HHHHHHHHTT-EE.............. CS
                            HSDR_N  2 lsEaeleqelidellrelGyqvlskkdveiegrrpe 37
                                      ++E++++q+l++++l +l +++ +++dv +e +++e
  gi|331746819|ref|YP_004422856.1| 27 SNEEATKQHLVLPILSALEWDIFNPEDVIPEVSTEE 62
                                      69****************************998776 PP

  == domain 2  score: 33.4 bits;  conditional E-value: 4.6e-12
                                       SSS---EEEEEEETTEEEEEEEE--TT.-HHHHHHHHTSS---.---S.SSGGGGG-.....-EEEEE-SS-EEEEE CS
                            HSDR_N 118 gnqkrrpDivlfvnglplvviElKrpg.tieeAinQikryrkeksdvs.ipqlfrYl.....qfgvisngketrfya 187
                                        ++  r+D+ l++ng  ++++E+K+ g +               sd++ + ql +Y+     q+g+++ng ++ + +
  gi|331746819|ref|YP_004422856.1|  60 TEEGGRVDYALYINGECIAYVEAKSLGvN-------------IISDHNaLSQLGKYCfsdgvQLGILTNGIQWVVIN 123
                                       56778********************8644.............3444445*************************999 PP

                                       --SSSG CS
                            HSDR_N 188 ktkrre 193
                                        +++++
  gi|331746819|ref|YP_004422856.1| 124 AFEPKK 129
                                       988876 PP

>> HSDR_N_2  Type I restriction enzyme R protein N terminus (HSDR_N)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   26.8   0.0   4.4e-10     4e-06       2      96 ..      29     124 ..      28     135 .. 0.83

  Alignments for each domain:
  == domain 1  score: 26.8 bits;  conditional E-value: 4.4e-10
                          HSDR_N_2   2 EEwvRqklikyLveelgypkeliavekelqlgskkkraDivvykkdkkpllivecKapsvki..seevleqlksYle 76 
                                       EE + q+l+  +++ l+ +  + +  ++  ++++ +r+D+++y +  + +  ve+K+  v+i  ++++l+ql +Y+ 
  gi|331746819|ref|YP_004422856.1|  29 EEATKQHLVLPILSALEWDIFNPEDVIPEVSTEEGGRVDYALYING-ECIAYVEAKSLGVNIisDHNALSQLGKYCF 104
                                       899999999999999987653333333333558899********88.9************9997889********** PP

                          HSDR_N_2  77 alkaeylvvtNglehivykv 96 
                                         +++++++tNg +  v++ 
  gi|331746819|ref|YP_004422856.1| 105 SDGVQLGILTNGIQWVVINA 124
                                       **************999885 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (343 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       332  (0.0185175); expected 358.6 (0.02)
Passed bias filter:                      308  (0.0171789); expected 358.6 (0.02)
Passed Vit filter:                        22  (0.00122706); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.54u 0.29s 00:00:00.83 Elapsed: 00:00:00.49
# Mc/sec: 2125.42
//
Query:       gi|331746820|ref|YP_004422857.1|  [L=182]
Description: hypothetical protein TERMP_02242 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    2.2e-22   80.1   0.1    2.7e-22   79.8   0.1    1.1  1  NYN            NYN domain
  ------ inclusion threshold ------
      0.039   14.1   0.0       0.25   11.5   0.0    2.0  2  Peptidase_S66  LD-carboxypeptidase N-terminal domain


Domain annotation for each model (and alignments):
>> NYN  NYN domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   79.8   0.1     3e-26   2.7e-22       1     138 [.       2     150 ..       2     158 .. 0.86

  Alignments for each domain:
  == domain 1  score: 79.8 bits;  conditional E-value: 3e-26
                               NYN   1 rvavfiDgenlpvpak.........gkevdyrklleeirs.kgelvraraygn.wedeeqnkfqdalsstgikvkhk 66 
                                       ++av+iDgen+ ++ +         +k+++ +k++++++s   e+++ar+y+n     ++  + + l+++gikv+  
  gi|331746820|ref|YP_004422857.1|   2 KAAVLIDGENVVMCLRdvvggkvhlDKDINWKKFFKYLESlDYEVTIARIYANpFIFLKNPHIANNLEKMGIKVVLA 78 
                                       68******************99987777************5555*********74444467778************9 PP

                               NYN  67 plkkrggsgkkavDvelavdalelaydnky.dtivLvsgDgDFaplveklrergkrVevllaeeastsseLis 138
                                       + + ++++ k  +D  ++vd ++++y+++  d iv+vsgD+DF pl+ek++e+g++V   +++ +st++  ++
  gi|331746820|ref|YP_004422857.1|  79 DSTMKENGPKSTTDATMIVDGISILYERPAiDAIVIVSGDRDFLPLAEKAKELGRTVLFAAFP-DSTANVIKN 150
                                       998888**********************88************************966555555.677776555 PP

>> Peptidase_S66  LD-carboxypeptidase N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.2   0.0     0.084   7.5e+02      17      37 ..      29      50 ..      21      62 .. 0.76
   2 ?   11.5   0.0   2.7e-05      0.25      23      85 ..      65     128 ..      60     157 .. 0.75

  Alignments for each domain:
  == domain 1  score: 0.2 bits;  conditional E-value: 0.084
                                      H.HHHHHHHHHHHCTEEEEEGC CS
                     Peptidase_S66 17 e.eleraievleelglevvlgk 37
                                      + + +++ ++le+l++ev++++
  gi|331746820|ref|YP_004422857.1| 29 DiNWKKFFKYLESLDYEVTIAR 50
                                      3377889999999999998765 PP

  == domain 2  score: 11.5 bits;  conditional E-value: 2.7e-05
                                       HHHHHHCTEEEEEGCTC--TTTTCSS.-HHHHHHHHHHHHC-TTECEEEES--SS-CHHCHHHH CS
                     Peptidase_S66  23 ievleelglevvlgksaaksagylag.tdeeRaadLnealadpeikaiicarGGygaarllpyl 85 
                                        + le++g++vvl++s++k++g  +  ++   ++ +  ++++p i+ai+ ++G ++   l ++ 
  gi|331746820|ref|YP_004422857.1|  65 ANNLEKMGIKVVLADSTMKENGPKSTtDATMIVDGISILYERPAIDAIVIVSGDRDFLPLAEKA 128
                                       6789********999886777755551555667889999**************88887777766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (182 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       480  (0.0267723); expected 358.6 (0.02)
Passed bias filter:                      408  (0.0227564); expected 358.6 (0.02)
Passed Vit filter:                        34  (0.00189637); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.45u 0.28s 00:00:00.73 Elapsed: 00:00:00.45
# Mc/sec: 1228.66
//
Query:       gi|331746821|ref|YP_004422858.1|  [L=123]
Description: hypothetical protein TERMP_02243 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (123 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       603  (0.0336327); expected 358.6 (0.02)
Passed bias filter:                      436  (0.0243181); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.49u 0.28s 00:00:00.77 Elapsed: 00:00:00.47
# Mc/sec: 790.31
//
Query:       gi|331746822|ref|YP_004422859.1|  [L=130]
Description: hypothetical protein TERMP_02244 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (130 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       566  (0.031569); expected 358.6 (0.02)
Passed bias filter:                      518  (0.0288917); expected 358.6 (0.02)
Passed Vit filter:                        33  (0.00184059); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.48u 0.28s 00:00:00.76 Elapsed: 00:00:00.46
# Mc/sec: 850.24
//
Query:       gi|331746823|ref|YP_004422860.1|  [L=496]
Description: hypothetical protein TERMP_02245 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
     0.0037   16.7   0.1      0.011   15.2   0.0    1.7  2  DUF562    Protein of unknown function (DUF562)
     0.0049   17.0   1.2      0.023   14.8   0.2    2.4  2  CtsR_C    CtsR C-terminal dimerization domain


Domain annotation for each model (and alignments):
>> DUF562  Protein of unknown function (DUF562)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.0      0.41   3.6e+03      31      48 ..      39      56 ..      34      57 .. 0.81
   2 !   15.2   0.0   1.2e-06     0.011      37      98 ..     120     186 ..     108     197 .. 0.79

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 0.41
                            DUF562 31 sleeeslsklieeLeesg 48
                                       +e++++++li eL ++g
  gi|331746823|ref|YP_004422860.1| 39 FIEKDKVQQLISELVKEG 56
                                      568899*******98876 PP

  == domain 2  score: 15.2 bits;  conditional E-value: 1.2e-06
                            DUF562  37 lsklieeLeesgY....SylNifsvksestivkeRrileedsegrsfTvil.aelplgsaDiRsLqL 98 
                                        + lieeL+e g      yl i    +   +++eRr ++ed egr + +i   e p++ +D++ ++ 
  gi|331746823|ref|YP_004422860.1| 120 AKSLIEELNETGTitprAYLLIKESLEGLEKLQERRTFNEDEEGRKYILIYeHEEPISVSDLKHIHY 186
                                       567889999888533337887766555559******************9984589*******98875 PP

>> CtsR_C  CtsR C-terminal dimerization domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.6   0.0      0.17   1.5e+03      17      35 ..      40      58 ..      38      71 .. 0.82
   2 !   14.8   0.2   2.5e-06     0.023      20      59 ..     118     164 ..     109     167 .. 0.87

  Alignments for each domain:
  == domain 1  score: -0.6 bits;  conditional E-value: 0.17
                            CtsR_C 17 iseqdaeaiiqrLleegli 35
                                      i+  +++++i+ L++eg  
  gi|331746823|ref|YP_004422860.1| 40 IEKDKVQQLISELVKEGKF 58
                                      66788999*****999875 PP

  == domain 2  score: 14.8 bits;  conditional E-value: 2.5e-06
                            CtsR_C  20 qdaeaiiqrLleegliterEakLmkaals.......drvLdlpleer 59 
                                       ++a+++i+ L e g it+r + L+k  l        +r++++++e r
  gi|331746823|ref|YP_004422860.1| 118 NAAKSLIEELNETGTITPRAYLLIKESLEgleklqeRRTFNEDEEGR 164
                                       579************************99888888888888877766 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (496 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       983  (0.0548274); expected 358.6 (0.02)
Passed bias filter:                      610  (0.0340231); expected 358.6 (0.02)
Passed Vit filter:                        48  (0.00267723); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.60u 0.29s 00:00:00.88 Elapsed: 00:00:00.44
# Mc/sec: 3405.15
//
Query:       gi|331746824|ref|YP_004422861.1|  [L=89]
Description: hypothetical protein TERMP_02246 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
  ------ inclusion threshold ------
       0.14   12.3   1.1       0.19   11.8   1.1    1.3  1  Fe_dep_repr_C  Iron dependent repressor, metal binding and di


Domain annotation for each model (and alignments):
>> Fe_dep_repr_C  Iron dependent repressor, metal binding and dimerisation domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   1.1   1.1e-05      0.19      15      43 ..      52      80 ..      45      87 .. 0.91

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 1.1e-05
                                      HHHHHHHHHHHCT--CCCHHHHCCCCGGG CS
                     Fe_dep_repr_C 15 hrllerfLvdvlgvdweeaheeAerlEha 43
                                      h++ e +L +++g++ e ah+ A +lE  
  gi|331746824|ref|YP_004422861.1| 52 HEVFEFYLEKYFGLSHEVAHQLALNLEEF 80
                                      999*********************99975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (89 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       825  (0.0460148); expected 358.6 (0.02)
Passed bias filter:                      464  (0.0258799); expected 358.6 (0.02)
Passed Vit filter:                        28  (0.00156172); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.39u 0.25s 00:00:00.64 Elapsed: 00:00:00.40
# Mc/sec: 662.69
//
Query:       gi|331746825|ref|YP_004422862.1|  [L=301]
Description: Transcription initiation factor B [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    6.1e-46  154.4   2.7    6.5e-24   83.8   0.1    2.3  2  TFIIB           Transcription factor TFIIB repeat
    2.2e-14   52.7   0.2    3.5e-14   52.0   0.2    1.3  1  TF_Zn_Ribbon    TFIIB zinc-binding
    0.00018   20.9   2.0     0.0033   16.9   0.5    3.4  4  Sigma70_r4      Sigma-70, region 4
    0.00087   19.3   0.0     0.0028   17.7   0.0    1.8  2  RB_B            Retinoblastoma-associated protein B domain
     0.0013   18.1   0.1       0.14   11.6   0.1    3.2  3  HTH_Tnp_ISL3    Helix-turn-helix domain of transposase family
      0.002   18.5   0.1        2.1    8.8   0.0    3.0  3  HARE-HTH        HB1, ASXL, restriction endonuclease HTH domai
     0.0021   17.7   0.3     0.0034   17.1   0.3    1.3  1  Ribosomal_S27e  Ribosomal protein S27
     0.0066   16.2   0.7       0.38   10.6   0.3    3.4  3  HTH_AsnC-type   AsnC-type helix-turn-helix domain
  ------ inclusion threshold ------
      0.026   14.8   1.0       0.58   10.5   0.1    2.9  3  UPF0253         Uncharacterised protein family (UPF0253)
      0.029   14.1   0.1        1.3    8.8   0.1    2.3  2  Cyclin_N        Cyclin, N-terminal domain
      0.054   13.5   0.0        0.1   12.6   0.0    1.5  1  Zn_Tnp_IS91     Transposase zinc-binding domain
      0.066   13.0   1.5       0.12   12.2   1.5    1.4  1  PADR1           PADR1 (NUC008) domain
      0.082   13.6   0.0       0.16   12.6   0.0    1.4  1  FYDLN_acid      Protein of unknown function (FYDLN_acid)
      0.089   12.6   1.2       0.17   11.7   1.2    1.5  1  zf-C4_Topoisom  Topoisomerase DNA binding C4 zinc finger
       0.13   13.0   0.3         19    6.1   0.0    2.7  2  Sel1            Sel1 repeat
       0.13   11.8   0.2       0.17   11.4   0.1    1.4  1  YceG            YceG-like family
       0.14   12.1   3.1         12    6.0   0.0    2.9  2  HTH_11          HTH domain
       0.23   11.2   1.1       0.39   10.5   1.1    1.3  1  A2L_zn_ribbon   A2L zinc ribbon domain
       0.24   11.6   0.6       0.48   10.6   0.6    1.5  1  Auto_anti-p27   Sjogren's syndrome/scleroderma autoantigen 1 
       0.24   11.1   0.7       0.62    9.8   0.7    1.7  1  zf-CCHC_4       Zinc knuckle
       0.65    9.5   4.6        8.8    5.9   4.9    2.1  2  zf-ribbon_3     zinc-ribbon domain
        1.8    8.4   4.0         28    4.6   1.0    2.3  2  zinc_ribbon_2   zinc-ribbon domain


Domain annotation for each model (and alignments):
>> TFIIB  Transcription factor TFIIB repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   70.7   0.4   9.6e-23   7.8e-20       2      71 .]     120     189 ..     119     189 .. 0.98
   2 !   83.8   0.1   7.9e-27   6.5e-24       1      71 []     215     285 ..     215     285 .. 0.98

  Alignments for each domain:
  == domain 1  score: 70.7 bits;  conditional E-value: 9.6e-23
                                       HHHHHHTT--HHHHHHHHHHHHHHTTSTTTTSGCTTHHHTTHHHHHHTTTTSS--HHHHHHHSS--SHHH CS
                             TFIIB   2 krfadaleLpekVadaAkelaklaleekvlkGrspagiaAAclyiAcrkeevkrtqkeissvlqVsekti 71 
                                        r+a++l+Lp  V+++A  l+++a +++++ Grs ++++AAc+y Acr+ +  rt+ ei+++++V +k+i
  gi|331746825|ref|YP_004422862.1| 120 DRIASQLKLPRHVEEEAARLYREAIRKGLIRGRSIESVIAACVYAACRLLKIPRTLDEIADIARVDKKEI 189
                                       689*****************************************************************98 PP

  == domain 2  score: 83.8 bits;  conditional E-value: 7.9e-27
                                       HHHHHHHTT--HHHHHHHHHHHHHHTTSTTTTSGCTTHHHTTHHHHHHTTTTSS--HHHHHHHSS--SHHH CS
                             TFIIB   1 ikrfadaleLpekVadaAkelaklaleekvlkGrspagiaAAclyiAcrkeevkrtqkeissvlqVsekti 71 
                                       +++fad+l+L+ekV+++A el+++a+++++++G+spag++AA+lyiA+++e++krtq+e+++v++V+e+t+
  gi|331746825|ref|YP_004422862.1| 215 VNKFADELGLSEKVRRRAIELLEEAYNRGLTSGKSPAGLVAAALYIASLLEGEKRTQREVAEVARVTEVTV 285
                                       689******************************************************************97 PP

>> TF_Zn_Ribbon  TFIIB zinc-binding
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   52.0   0.2   4.3e-17   3.5e-14       2      43 .]       9      50 ..       8      50 .. 0.98

  Alignments for each domain:
  == domain 1  score: 52.0 bits;  conditional E-value: 4.3e-17
                                      EETTTTCEECHEETSTTCEEESSSSBEEEECCCCCCCHHHHH CS
                      TF_Zn_Ribbon  2 kCPnCgstnlveDpergelvCtdCGlVlednsidegpewref 43
                                      kCP Cgs++l++D+erge++C  CG+++  +++d + ewr+f
  gi|331746825|ref|YP_004422862.1|  9 KCPSCGSSKLIYDYERGEIFCAVCGSIVTQDIVDLRQEWRAF 50
                                      9***************************************98 PP

>> Sigma70_r4  Sigma-70, region 4
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.4   0.0       9.1   7.4e+03      23      34 ..     119     130 ..     118     131 .. 0.83
   2 ?    0.6   0.0      0.51   4.2e+02      20      29 ..     172     181 ..     168     185 .. 0.88
   3 ?   -2.3   0.0       4.1   3.3e+03      27      40 ..     219     231 ..     219     238 .. 0.65
   4 !   16.9   0.5     4e-06    0.0033      18      48 ..     266     296 ..     257     297 .. 0.91

  Alignments for each domain:
  == domain 1  score: -3.4 bits;  conditional E-value: 9.1
                                       HHHHHHHHTS-H CS
                        Sigma70_r4  23 leEIgerlgiSr 34 
                                       l  I+ +l ++r
  gi|331746825|ref|YP_004422862.1| 119 LDRIASQLKLPR 130
                                       678999999998 PP

  == domain 2  score: 0.6 bits;  conditional E-value: 0.51
                                       T--HHHHHHH CS
                        Sigma70_r4  20 glTleEIger 29 
                                       ++Tl EI+++
  gi|331746825|ref|YP_004422862.1| 172 PRTLDEIADI 181
                                       68******97 PP

  == domain 3  score: -2.3 bits;  conditional E-value: 4.1
                                       HHHHTS-HHHHHHH CS
                        Sigma70_r4  27 gerlgiSrerVrqi 40 
                                       +++lg+S+  Vr++
  gi|331746825|ref|YP_004422862.1| 219 ADELGLSE-KVRRR 231
                                       67788884.46665 PP

  == domain 4  score: 16.9 bits;  conditional E-value: 4e-06
                                       TTT--HHHHHHHHTS-HHHHHHHHHHHHHHH CS
                        Sigma70_r4  18 geglTleEIgerlgiSrerVrqiekrAlrkL 48 
                                       ge++T+ E++e+  +++ +Vr + k+ ++kL
  gi|331746825|ref|YP_004422862.1| 266 GEKRTQREVAEVARVTEVTVRNRYKELVEKL 296
                                       89*************************9998 PP

>> RB_B  Retinoblastoma-associated protein B domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.7   0.0   3.4e-06    0.0028      10      91 ..     112     191 ..     103     207 .. 0.85
   2 ?   -1.5   0.0         3   2.4e+03      17      42 ..     215     240 ..     199     293 .. 0.62

  Alignments for each domain:
  == domain 1  score: 17.7 bits;  conditional E-value: 3.4e-06
                              RB_B  10 yklaavrlrdLcerLklsselrekiwtlfehvlveetellkdRhlDqillcavYvvakvtkeelsFkeiikaYrkqp 86 
                                       +  a + l ++ ++Lkl ++++e++  l ++++   + l++ R ++ ++ ++vY+ +++ k  +++ ei +  r  +
  gi|331746825|ref|YP_004422862.1| 112 LAFALSELDRIASQLKLPRHVEEEAARLYREAIR--KGLIRGRSIESVIAACVYAACRLLKIPRTLDEIADIARVDK 186
                                       6678899999*******************99996..58*******************************99888766 PP

                              RB_B  87 qassk 91 
                                       ++ ++
  gi|331746825|ref|YP_004422862.1| 187 KEIAR 191
                                       55555 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 3
                              RB_B  17 lrdLcerLklsselrekiwtlfehvl 42 
                                       +++  ++L ls+++r+++ +l+e++ 
  gi|331746825|ref|YP_004422862.1| 215 VNKFADELGLSEKVRRRAIELLEEAY 240
                                       56677777788888777777777653 PP

>> HTH_Tnp_ISL3  Helix-turn-helix domain of transposase family ISL3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.0   0.0      0.17   1.3e+02      18      46 ..     163     191 ..     160     197 .. 0.86
   2 ?    0.5   0.0      0.51   4.2e+02      28      41 ..     191     204 ..     188     207 .. 0.85
   3 !   11.6   0.1   0.00017      0.14      19      52 .]     259     293 ..     255     293 .. 0.92

  Alignments for each domain:
  == domain 1  score: 2.0 bits;  conditional E-value: 0.17
                      HTH_Tnp_ISL3  18 ayilelllesrsvkavArqlgvSwtTVwr 46 
                                       +++ +ll+  r+  ++A++ +v+ + + r
  gi|331746825|ref|YP_004422862.1| 163 YAACRLLKIPRTLDEIADIARVDKKEIAR 191
                                       7899999999************9988876 PP

  == domain 2  score: 0.5 bits;  conditional E-value: 0.51
                      HTH_Tnp_ISL3  28 rsvkavArqlgvSw 41 
                                       rs++ +Ar l++++
  gi|331746825|ref|YP_004422862.1| 191 RSFRFIARNLNLTP 204
                                       49*********987 PP

  == domain 3  score: 11.6 bits;  conditional E-value: 0.00017
                      HTH_Tnp_ISL3  19 yilellles.rsvkavArqlgvSwtTVwrildryv 52 
                                       yi+ ll    r+ ++vA+  +v++ TV+++++++v
  gi|331746825|ref|YP_004422862.1| 259 YIASLLEGEkRTQREVAEVARVTEVTVRNRYKELV 293
                                       7999999999********************99876 PP

>> HARE-HTH  HB1, ASXL, restriction endonuclease HTH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.9   0.0      0.02        16      23      53 ..     139     167 ..     132     178 .. 0.85
   2 ?   -1.1   0.0       3.1   2.5e+03      37      62 ..     186     211 ..     173     213 .. 0.71
   3 !    8.8   0.0    0.0026       2.1      22      50 ..     234     260 ..     231     270 .. 0.89

  Alignments for each domain:
  == domain 1  score: 5.9 bits;  conditional E-value: 0.02
                                       HHHHHHHHTTS-..GGHHGCHHH.HHHHHHH CS
                          HARE-HTH  23 Iwekiqekglikltgktpeatlaaqlytdik 53 
                                       + +++++kgli   g++ e  +aa+ y+ ++
  gi|331746825|ref|YP_004422862.1| 139 LYREAIRKGLIR--GRSIESVIAACVYAACR 167
                                       6689********..*************9996 PP

  == domain 2  score: -1.1 bits;  conditional E-value: 3.1
                                       GGHHGCHHH.HHHHHHH..HSTTEEES CS
                          HARE-HTH  37 gktpeatlaaqlytdik.gddslFvkv 62 
                                       +k+  ++ +  ++++++  +++lFvk 
  gi|331746825|ref|YP_004422862.1| 186 KKEIARSFR-FIARNLNlTPKKLFVKP 211
                                       444445555.88888889999999986 PP

  == domain 3  score: 8.8 bits;  conditional E-value: 0.0026
                                       HHHHHHHHHTTS-..GGHHGCHHH.HHHH CS
                          HARE-HTH  22 eIwekiqekglikltgktpeatlaaqlyt 50 
                                       e++e++  +gl +  gk+p   +aa+ly 
  gi|331746825|ref|YP_004422862.1| 234 ELLEEAYNRGLTS--GKSPAGLVAAALYI 260
                                       89***********..*************7 PP

>> Ribosomal_S27e  Ribosomal protein S27
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.1   0.3   4.1e-06    0.0034       9      38 ..       9      38 ..       2      39 .. 0.92

  Alignments for each domain:
  == domain 1  score: 17.1 bits;  conditional E-value: 4.1e-06
                                      E-TTTS-EEEEESS-SS-EEESSSTCEEEE CS
                    Ribosomal_S27e  9 kCpdCenetvvFshaatvvkCisCgkvLve 38
                                      kCp C+  + +++     + C  Cg+++ +
  gi|331746825|ref|YP_004422862.1|  9 KCPSCGSSKLIYDYERGEIFCAVCGSIVTQ 38
                                      9*************************9976 PP

>> HTH_AsnC-type  AsnC-type helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.5   0.0      0.68   5.5e+02      18      31 ..     191     204 ..     187     206 .. 0.89
   2 ?    0.4   0.0      0.73   5.9e+02      24      32 ..     219     227 ..     215     236 .. 0.78
   3 !   10.6   0.3   0.00046      0.38      12      41 ..     263     292 ..     260     293 .. 0.87

  Alignments for each domain:
  == domain 1  score: 0.5 bits;  conditional E-value: 0.68
                     HTH_AsnC-type  18 isyaeLAervGlSe 31 
                                       +s++ +A+ ++l++
  gi|331746825|ref|YP_004422862.1| 191 RSFRFIARNLNLTP 204
                                       79999*******97 PP

  == domain 2  score: 0.4 bits;  conditional E-value: 0.73
                     HTH_AsnC-type  24 AervGlSes 32 
                                       A+++GlSe 
  gi|331746825|ref|YP_004422862.1| 219 ADELGLSEK 227
                                       999****84 PP

  == domain 3  score: 10.6 bits;  conditional E-value: 0.00046
                     HTH_AsnC-type  12 LqedaRisyaeLAervGlSestvlrRvrrL 41 
                                       L e  +++ +e+Ae   ++e tv++R++ L
  gi|331746825|ref|YP_004422862.1| 263 LLEGEKRTQREVAEVARVTEVTVRNRYKEL 292
                                       556668999******************988 PP

>> UPF0253  Uncharacterised protein family (UPF0253)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.1   0.00071      0.58      27      52 ..     112     137 ..     105     143 .. 0.91
   2 ?    1.6   0.1      0.43   3.5e+02      32      58 ..     173     200 ..     154     203 .. 0.75
   3 ?   -2.5   0.0         8   6.5e+03      35      51 ..     216     232 ..     214     233 .. 0.80

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00071
                           UPF0253  27 iscalktLdevaanealpeevrekAA 52 
                                       ++ al  Ld++a++ +lp++v e+AA
  gi|331746825|ref|YP_004422862.1| 112 LAFALSELDRIASQLKLPRHVEEEAA 137
                                       678999*******************9 PP

  == domain 2  score: 1.6 bits;  conditional E-value: 0.43
                           UPF0253  32 ktLdevaanealpee.vrekAAyAAANL 58 
                                       +tLde+a+  +++++ +  +  + A NL
  gi|331746825|ref|YP_004422862.1| 173 RTLDEIADIARVDKKeIARSFRFIARNL 200
                                       79*****999998641555555666665 PP

  == domain 3  score: -2.5 bits;  conditional E-value: 8
                           UPF0253  35 devaanealpeevrekA 51 
                                       ++ a++  l+e+vr +A
  gi|331746825|ref|YP_004422862.1| 216 NKFADELGLSEKVRRRA 232
                                       77788888999999877 PP

>> Cyclin_N  Cyclin, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.8   0.1    0.0016       1.3      41     123 ..     122     201 ..      87     205 .. 0.82
   2 ?    3.3   0.0      0.08        65      37     103 ..     214     282 ..     206     298 .. 0.68

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.0016
                                       HHHHTT--TTHHHHHHHHHHHHHHHS---CCCHHHHHHHHHHHHHHHHSSS---HHHHHHHTTTSS-HHHHHHHHHH CS
                          Cyclin_N  41 vaekfkltpetlflavnyldRflskksvpkdklqlvgatcLllAaKveeisppkledlvyitdeafteeeilemErl 117
                                       +a+++kl + +   a++++   ++k  ++ + ++ v a+c++ A+++ +i p +l++++ i+   ++++ei +  r 
  gi|331746825|ref|YP_004422862.1| 122 IASQLKLPRHVEEEAARLYREAIRKGLIRGRSIESVIAACVYAACRLLKI-PRTLDEIADIA--RVDKKEIARSFRF 195
                                       566677777777777888888888888888899**************999.99999999995..4888888888777 PP

                                       HHHHTT CS
                          Cyclin_N 118 iLetLn 123
                                       i + Ln
  gi|331746825|ref|YP_004422862.1| 196 IARNLN 201
                                       777776 PP

  == domain 2  score: 3.3 bits;  conditional E-value: 0.08
                                       HHHHHHHHTT--TTHHHHHHHHHHHHHHHS---CCCHHHHHHHHHHHHHHHHSSS..---HHHHHHHTT CS
                          Cyclin_N  37 wlvevaekfkltpetlflavnyldRflskksvpkdklqlvgatcLllAaKveeis..ppkledlvyitd 103
                                       ++ + a ++ l++++   a+++l+  + +  ++ +    ++a++L++A+ +e  +    ++ +++ +t+
  gi|331746825|ref|YP_004422862.1| 214 YVNKFADELGLSEKVRRRAIELLEEAYNRGLTSGKSPAGLVAAALYIASLLEGEKrtQREVAEVARVTE 282
                                       556666666677777777777777777777777777788999*******98533322555666666654 PP

>> Zn_Tnp_IS91  Transposase zinc-binding domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0   0.00013       0.1      35      77 ..       3      46 ..       1      51 [. 0.86

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 0.00013
                       Zn_Tnp_IS91 35 lGfaryeCeeCghekivyfsCksrh.CpsCqkkateewlekqqe 77
                                      +G+ + +C++Cg++k++y   +    C  C++  t++ ++ +qe
  gi|331746825|ref|YP_004422862.1|  3 FGVDVGKCPSCGSSKLIYDYERGEIfCAVCGSIVTQDIVDLRQE 46
                                      688999*********99987777666**********99987775 PP

>> PADR1  PADR1 (NUC008) domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2   1.5   0.00014      0.12       8      33 ..       1      29 [.       1      34 [. 0.87

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 0.00014
                             PADR1  8 mlfGa.lekCpeCkegqlvfdss..gYkC 33
                                      m+fG+ ++kCp+C++++l++d +  ++ C
  gi|331746825|ref|YP_004422862.1|  1 MYFGVdVGKCPSCGSSKLIYDYErgEIFC 29
                                      67885589*************99888888 PP

>> FYDLN_acid  Protein of unknown function (FYDLN_acid)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.0    0.0002      0.16      12      60 ..      10      60 ..       8      86 .. 0.71

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 0.0002
                        FYDLN_acid 12 Cpscgak..FYDLnkdPivcpkcgeefepeevlksraaaaeaeeakkkkee 60
                                      Cpscg+    YD ++  i c  cg+ ++++ v  +++ +a ++++++k+++
  gi|331746825|ref|YP_004422862.1| 10 CPSCGSSklIYDYERGEIFCAVCGSIVTQDIVDLRQEWRAFDASQREKRSR 60
                                      ****953338********************994444444444444333333 PP

>> zf-C4_Topoisom  Topoisomerase DNA binding C4 zinc finger
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   1.2   0.00021      0.17       1      22 [.       7      29 ..       7      32 .. 0.86

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.00021
                                      -EE-SSS-.-EEEEEE-SSSEEE CS
                    zf-C4_Topoisom  1 vekCPkCg.gdLvlkrgkkGkFv 22
                                      v+kCP+Cg ++L++ + +   F 
  gi|331746825|ref|YP_004422862.1|  7 VGKCPSCGsSKLIYDYERGEIFC 29
                                      58***********9998887775 PP

>> Sel1  Sel1 repeat
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.3   0.1     0.084        68      19      37 ..     128     147 ..     107     148 .. 0.79
   2 ?    6.1   0.0     0.023        19      19      37 ..     225     243 ..     219     244 .. 0.84

  Alignments for each domain:
  == domain 1  score: 4.3 bits;  conditional E-value: 0.084
                              Sel1  19 vpk.DpekAiewyekAAeqG 37 
                                       +p+ ++e+A ++y+ A ++G
  gi|331746825|ref|YP_004422862.1| 128 LPRhVEEEAARLYREAIRKG 147
                                       678899**********9988 PP

  == domain 2  score: 6.1 bits;  conditional E-value: 0.023
                              Sel1  19 vpkDpekAiewyekAAeqG 37 
                                        +k++++Aie++e A ++G
  gi|331746825|ref|YP_004422862.1| 225 SEKVRRRAIELLEEAYNRG 243
                                       6789***********9988 PP

>> YceG  YceG-like family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.4   0.1   0.00021      0.17     130     182 ..     228     281 ..     115     297 .. 0.78

  Alignments for each domain:
  == domain 1  score: 11.4 bits;  conditional E-value: 0.00021
                                       HHHHHHHHHHHHTHHH........HCT--HHHHHHHHHHHHHH--SSS-HHHHHHHH CS
                              YceG 130 ilkrmlaefekvlkraek....akasgltpyevltlASivekEaakaeerpkvAsVf 182
                                       + +r+++  e+ +   ++     k++   +  +l +AS+ e E +++ e ++vA+V 
  gi|331746825|ref|YP_004422862.1| 228 VRRRAIELLEEAY---NRgltsGKSPAGLVAAALYIASLLEGEKRTQREVAEVARVT 281
                                       4444444444433...11222344555556899**********************95 PP

>> HTH_11  HTH domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.0   0.0     0.014        12      19      42 ..     216     239 ..     215     242 .. 0.91
   2 ?    5.6   0.2     0.018        15      11      46 ..     265     300 ..     257     301 .] 0.77

  Alignments for each domain:
  == domain 1  score: 6.0 bits;  conditional E-value: 0.014
                            HTH_11  19 eeLAeeLnvSrrtvrrdIkaLeel 42 
                                       ++ A+eL++S+++ rr I+ Lee+
  gi|331746825|ref|YP_004422862.1| 216 NKFADELGLSEKVRRRAIELLEEA 239
                                       578******************986 PP

  == domain 2  score: 5.6 bits;  conditional E-value: 0.018
                            HTH_11  11 eargpisgeeLAeeLnvSrrtvrrdIkaL.eelgvpI 46 
                                       e ++  +  e Ae   v++ tvr++ k+L e+lg+ I
  gi|331746825|ref|YP_004422862.1| 265 EGEK-RTQREVAEVARVTEVTVRNRYKELvEKLGLSI 300
                                       4444.68888899999*************88888665 PP

>> A2L_zn_ribbon  A2L zinc ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   1.1   0.00048      0.39       5      30 ..       9      35 ..       8      37 .. 0.94

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00048
                     A2L_zn_ribbon  5 vCsvCggngiln.seqgylvCieCgas 30
                                      +C  Cg+ ++++  e+g+ +C  Cg++
  gi|331746825|ref|YP_004422862.1|  9 KCPSCGSSKLIYdYERGEIFCAVCGSI 35
                                      6989*********************97 PP

>> Auto_anti-p27  Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.6   0.6   0.00059      0.48      18      40 .]      10      33 ..       8      33 .. 0.86

  Alignments for each domain:
  == domain 1  score: 10.6 bits;  conditional E-value: 0.00059
                     Auto_anti-p27 18 CpvC.gvPLmrdrkggkvyCvaCd 40
                                      Cp C ++ L  d ++g+++C++C+
  gi|331746825|ref|YP_004422862.1| 10 CPSCgSSKLIYDYERGEIFCAVCG 33
                                      ****87888888789********6 PP

>> zf-CCHC_4  Zinc knuckle
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   0.7   0.00076      0.62      15      39 ..      10      34 ..       3      36 .. 0.82

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.00076
                         zf-CCHC_4 15 kesGeeatiefkYErLrsfCyiCgv 39
                                      ++s  ++++  +YEr  +fC +Cg 
  gi|331746825|ref|YP_004422862.1| 10 CPSCGSSKLIYDYERGEIFCAVCGS 34
                                      556666777789***********96 PP

>> zf-ribbon_3  zinc-ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.9   4.9     0.011       8.8       4      23 ..       9      33 ..       7      34 .. 0.86
   2 ?    3.7   0.2     0.054        44       2      12 ..      26      36 ..      25      39 .. 0.63

  Alignments for each domain:
  == domain 1  score: 5.9 bits;  conditional E-value: 0.011
                       zf-ribbon_3  4 rCPnCGa.pl....ssddnvCpyCG 23
                                      +CP+CG+ +l    + + ++C+ CG
  gi|331746825|ref|YP_004422862.1|  9 KCPSCGSsKLiydyERGEIFCAVCG 33
                                      6******887688889999999999 PP

  == domain 2  score: 3.7 bits;  conditional E-value: 0.054
                       zf-ribbon_3  2 tvrCPnCGapl 12
                                      +++C  CG+++
  gi|331746825|ref|YP_004422862.1| 26 EIFCAVCGSIV 36
                                      56777777754 PP

>> zinc_ribbon_2  zinc-ribbon domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    4.6   1.0     0.035        28       1       7 [.       9      15 ..       9      16 .. 0.79
   2 ?    4.4   0.1     0.041        33      12      21 ..      25      34 ..      22      36 .. 0.84

  Alignments for each domain:
  == domain 1  score: 4.6 bits;  conditional E-value: 0.035
                     zinc_ribbon_2  1 fCpnCGa 7 
                                      +Cp+CG 
  gi|331746825|ref|YP_004422862.1|  9 KCPSCGS 15
                                      7999995 PP

  == domain 2  score: 4.4 bits;  conditional E-value: 0.041
                     zinc_ribbon_2 12 nakFCpyCGt 21
                                      ++ FC  CG+
  gi|331746825|ref|YP_004422862.1| 25 GEIFCAVCGS 34
                                      678*****96 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (301 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       810  (0.0451782); expected 358.6 (0.02)
Passed bias filter:                      672  (0.0374812); expected 358.6 (0.02)
Passed Vit filter:                       104  (0.00580066); expected 17.9 (0.001)
Passed Fwd filter:                        22  (0.00122706); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              22  [number of targets reported over threshold]
# CPU time: 0.61u 0.31s 00:00:00.92 Elapsed: 00:00:00.51
# Mc/sec: 1788.00
//
Query:       gi|331746826|ref|YP_004422863.1|  [L=644]
Description: hypothetical protein TERMP_02248 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.5e-08   34.8   0.0      3e-06   27.4   0.0    3.5  4  NPCBM_assoc      NPCBM-associated, NEW3 domain of alpha-galac
    5.4e-05   23.3   0.1       0.27   11.2   0.0    3.6  3  Wzt_C            Wzt C-terminal domain
    0.00013   22.2   0.4     0.0049   17.1   0.1    3.5  3  CARDB            CARDB
    0.00016   21.7   0.4        1.1    9.3   0.0    3.8  4  DUF3324          Protein of unknown function C-terminal (DUF3
    0.00021   21.5   0.0     0.0041   17.4   0.0    3.0  3  CarboxypepD_reg  Carboxypeptidase regulatory-like domain
    0.00025   21.0   5.0      0.035   14.1   0.0    5.6  8  CarbopepD_reg_2  CarboxypepD_reg-like domain
    0.00046   20.5   0.0     0.0034   17.7   0.0    2.6  2  Alpha_adaptinC2  Adaptin C-terminal domain
     0.0028   17.6   2.5       0.68   10.0   0.0    5.0  6  BsuPI            Intracellular proteinase inhibitor
  ------ inclusion threshold ------
      0.068   13.7   2.7        2.9    8.4   0.1    4.1  5  DUF4981          Domain of unknown function(DUF4981)
      0.083   12.8   0.4        1.4    8.8   0.0    3.0  4  DUF1533          Protein of unknown function (DUF1533)
        0.1   13.2   5.4        4.7    7.8   0.3    4.5  4  DUF1735          Domain of unknown function (DUF1735)
       0.16   12.0   1.1        7.2    6.6   0.0    3.5  3  DUF4426          Domain of unknown function (DUF4426)
       0.17   12.3   0.0       0.85   10.0   0.0    2.2  1  DUF4399          Domain of unknown function (DUF4399)
       0.26   11.4   3.2       0.93    9.6   0.1    3.4  4  DUF1573          Protein of unknown function (DUF1573)


Domain annotation for each model (and alignments):
>> NPCBM_assoc  NPCBM-associated, NEW3 domain of alpha-galactosidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    2.5   0.0      0.14   1.8e+02      28      76 ..     151     202 ..     141     204 .. 0.73
   2 ?   -1.5   0.0       2.4   3.1e+03      28      40 ..     259     271 ..     236     288 .. 0.74
   3 ?   -2.7   0.0       5.6   7.2e+03      24      55 ..     442     479 ..     426     500 .. 0.48
   4 !   27.4   0.0   2.3e-09     3e-06       7      73 ..     535     597 ..     530     600 .. 0.82

  Alignments for each domain:
  == domain 1  score: 2.5 bits;  conditional E-value: 0.14
                       NPCBM_assoc  28 lslPeGWtvvevspasaa.....slapGetveatvkVtppagaaaGdyevtaka 76 
                                       +++P  W++   + ++a       l p +  +  + V +pa+a + d +v++++
  gi|331746826|ref|YP_004422863.1| 151 VDVPNTWKAHFETSERAYslkqlLLGPEKNIRLYLIVDIPANART-D-KVRFRI 202
                                       679999994333333333355667889999999999****99996.3.577665 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 2.4
                       NPCBM_assoc  28 lslPeGWtvvevs 40 
                                       l+ P++W+v   +
  gi|331746826|ref|YP_004422863.1| 259 LEKPQNWNVDFYD 271
                                       788****975544 PP

  == domain 3  score: -2.7 bits;  conditional E-value: 5.6
                       NPCBM_assoc  24 vslslslPeG..Wt..vvevspasaa..slapGetvea 55 
                                       + ++ls+Pe+  W    + +s + ++  +l p+e    
  gi|331746826|ref|YP_004422863.1| 442 IMFDLSGPENirWWvlKSPTSEKALSilKLGPNEISVL 479
                                       55666666654444111222222222334444444444 PP

  == domain 4  score: 27.4 bits;  conditional E-value: 2.3e-09
                       NPCBM_assoc   7 vtltltvtndgtaaatnvslslslPeGWtvvevspasaaslapGetveatvkVtppagaaaGdyevt 73 
                                        t+ + v n g++ ++n+sl +++PeGW+  evs  ++ +l+pGet+e ++k++   +   G+y v+
  gi|331746826|ref|YP_004422863.1| 535 ITIPVKVRNAGNTKLENLSLVAEVPEGWS-YEVSQSNF-ALEPGETQEIEIKIKT--DRREGEYSVQ 597
                                       5788999**********************.77777776.6*******99888874..4455666665 PP

>> Wzt_C  Wzt C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   11.2   0.0   0.00021      0.27      24     113 ..     305     383 ..     299     396 .. 0.71
   2 ?    0.4   0.0      0.46   5.9e+02      87     114 ..     478     506 ..     458     520 .. 0.67
   3 !    6.5   0.0    0.0063       8.1      74     119 ..     569     609 ..     529     622 .. 0.85

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00021
                             Wzt_C  24 etstfesgeevtlrikvkahedvedpvfgfaikdrngqevfgtntelekksfeleelkagervevefefklpLapGe 100
                                       + +++  g ++++ +++  + + ++  + + + +++ + +     ++     ++++l + +  e ++ef+  L+pG+
  gi|331746826|ref|YP_004422863.1| 305 KIKVLINGNRYQFNVSFLGECRTQHISVKIRVFNEDLVPI-----KYPIV--KFGNLTKIGDSEGRVEFE--LNPGT 372
                                       5566677777778877766666677778888888888888.....33333..377775555578889995..***** PP

                             Wzt_C 101 Ylltvaledrdge 113
                                       Y++t+a+  ++++
  gi|331746826|ref|YP_004422863.1| 373 YTMTLAA--KGYR 383
                                       ******9..4444 PP

  == domain 2  score: 0.4 bits;  conditional E-value: 0.46
                             Wzt_C  87 evefef..klpLapGeYlltvaledrdgee 114
                                       +  +++  k +++ G+Y lt+ +  +++ +
  gi|331746826|ref|YP_004422863.1| 478 VLYLKLkaK-DMHSGTYNLTFRVLTTENIT 506
                                       444444436.899*********97776653 PP

  == domain 3  score: 6.5 bits;  conditional E-value: 0.0063
                             Wzt_C  74 sfeleelkagervevefefklpLapGeYlltvaledrdgeeneiyd 119
                                       s  + +l++ge+ e+e+++k + ++GeY+++v + ++ +e   ++d
  gi|331746826|ref|YP_004422863.1| 569 S--NFALEPGETQEIEIKIKTDRREGEYSVQVCVLNEVKE---TCD 609
                                       3..67899***********7799*********99888777...555 PP

>> CARDB  CARDB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.0         3   3.8e+03      36      64 ..     263     289 ..     260     335 .. 0.68
   2 ?    0.1   0.0      0.75   9.6e+02      42      92 ..     456     507 ..     419     510 .. 0.75
   3 !   17.1   0.1   3.8e-06    0.0049      16      93 ..     530     607 ..     518     609 .. 0.79

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 3
                                       EEEEEEEEETTEEEEEEEESEE-CTEEEE CS
                             CARDB  36 gatkvalyldgelvgtvtvpsLaagestt 64 
                                       ++++v++y +++++  + v  L+++e++ 
  gi|331746826|ref|YP_004422863.1| 263 QNWNVDFYDSENQK--TRVLFLKPNEKKV 289
                                       57788888777773..3444455555444 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 0.75
                                       EEETTEEEEEEEESEE-CTEEEEEEEEEE-S.-S-CEEEEEEEESTT-SS-- CS
                             CARDB  42 lyldgelvgtvtvpsLaagesttvsftwtte.ategevtltvvvDpdnevaE 92 
                                       +  + ++ +  ++ +L ++e +   ++ +++ +++g++ lt+ v ++  ++E
  gi|331746826|ref|YP_004422863.1| 456 VLKSPTSEKALSILKLGPNEISVLYLKLKAKdMHSGTYNLTFRVLTTENITE 507
                                       5555555566677778888888888888888889999999999888888887 PP

  == domain 3  score: 17.1 bits;  conditional E-value: 3.8e-06
                                       ETTSEEEEEEEEEE-SSS-EEEEEEEEEETTEEEEEEEE....SEE-CTEEEEEEEEEE-S-S-CEEEEEEEESTT- CS
                             CARDB  16 fvgeentitvtvkNqGtaasgatkvalyldgelvgtvtv....psLaagesttvsftwtteategevtltvvvDpdn 88 
                                       ++++++ti v+v+N G+ + ++ ++   + +      +v     +L++ge+ +++++++t++ ege+ ++v+v   n
  gi|331746826|ref|YP_004422863.1| 530 ETQDKITIPVKVRNAGNTKLENLSLVAEVPEGWS--YEVsqsnFALEPGETQEIEIKIKTDRREGEYSVQVCV--LN 602
                                       67889**************999888777765543..333333368**********************988887..67 PP

                                       SS--S CS
                             CARDB  89 evaEs 93 
                                       ev+E+
  gi|331746826|ref|YP_004422863.1| 603 EVKET 607
                                       77776 PP

>> DUF3324  Protein of unknown function C-terminal (DUF3324)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.8   0.0       2.1   2.7e+03      79     103 ..     118     142 ..     101     160 .. 0.71
   2 ?    4.1   0.0     0.032        42     101     118 ..     367     384 ..     363     396 .. 0.85
   3 !    9.3   0.0   0.00083       1.1      20     116 ..     405     502 ..     396     517 .. 0.85
   4 ?    3.5   0.0     0.051        65      42     116 ..     534     603 ..     515     612 .. 0.84

  Alignments for each domain:
  == domain 1  score: -1.8 bits;  conditional E-value: 2.1
                           DUF3324  79 ekenlqmAPnSnfnfpislkgeelk 103
                                       +   ++  P +++++pi++++ ++ 
  gi|331746826|ref|YP_004422863.1| 118 QPLVVEATPRTTLKLPIEIENPTMD 142
                                       4445677899999999999887665 PP

  == domain 2  score: 4.1 bits;  conditional E-value: 0.032
                           DUF3324 101 elkaGtYtlkvtakskkk 118
                                       el++GtYt+++ ak+ ++
  gi|331746826|ref|YP_004422863.1| 367 ELNPGTYTMTLAAKGYRN 384
                                       799**********98754 PP

  == domain 3  score: 9.3 bits;  conditional E-value: 0.00083
                           DUF3324  20 enekkvkpkLklekvkpkqvngrnviqaklqN...pqaailnklkveakvtkkgskkvlyksekenlqmAPnSnfnf 93 
                                       ++    k +L++e+  ++++++++++++ l+N   ++  i+ +l+   +++    k++  ++  + l++ Pn    +
  gi|331746826|ref|YP_004422863.1| 405 KE--PSKVELSFETLDVELNEEYTTVKFILKNlgyEEREIMFDLSGPENIRWWVLKSPTSEKALSILKLGPNEISVL 479
                                       43..467788888888888888888888888866678999999999999999999999999**************** PP

                           DUF3324  94 pislkgeelkaGtYtlkvtaksk 116
                                        ++lk + +  GtY+l+ ++ ++
  gi|331746826|ref|YP_004422863.1| 480 YLKLKAKDMHSGTYNLTFRVLTT 502
                                       ****************9987655 PP

  == domain 4  score: 3.5 bits;  conditional E-value: 0.051
                           DUF3324  42 rnviqaklqNpqaailnklkveakvtkkgskkvlyksekenlqmAPnSnfnfpislkgeelkaGtYtlkvtaksk 116
                                       + +i +k++N  ++ l++l++ a+v +  s    y+ +++n+ + P  + +++i++k++  ++G+Y+++v + ++
  gi|331746826|ref|YP_004422863.1| 534 KITIPVKVRNAGNTKLENLSLVAEVPEGWS----YEVSQSNFALEPGETQEIEIKIKTD-RREGEYSVQVCVLNE 603
                                       56789999****************998876....77799999****9999999999886.589***999977655 PP

>> CarboxypepD_reg  Carboxypeptidase regulatory-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.4   0.0   3.2e-06    0.0041      35      81 ..     359     403 ..     332     404 .. 0.91
   2 ?   -1.3   0.0       2.2   2.8e+03      46      69 ..     489     512 ..     485     524 .. 0.75
   3 ?   -0.6   0.0       1.3   1.6e+03      51      80 ..     553     584 ..     537     586 .. 0.69

  Alignments for each domain:
  == domain 1  score: 17.4 bits;  conditional E-value: 3.2e-06
                   CarboxypepD_reg  35 dadGafrlrglppgtysvtvsapGyatatreevtltagqtttlditL 81 
                                       d++G+  ++ l pgty++t  a+Gy+  t+ +++l+  ++++ld+ L
  gi|331746826|ref|YP_004422863.1| 359 DSEGRVEFE-LNPGTYTMTLAAKGYRNKTI-NLSLSLAENRELDVIL 403
                                       899*****8.*******************9.7****99999999977 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 2.2
                   CarboxypepD_reg  46 ppgtysvtvsapGyatatreevtl 69 
                                         gty++t++    +  t + ++l
  gi|331746826|ref|YP_004422863.1| 489 HSGTYNLTFRVLTTENITEKVLRL 512
                                       5699***99988888877766555 PP

  == domain 3  score: -0.6 bits;  conditional E-value: 1.3
                   CarboxypepD_reg  51 svtvsapGyatatr..eevtltagqtttldit 80 
                                       s++++ p   ++++  +++ l++g+t++++i+
  gi|331746826|ref|YP_004422863.1| 553 SLVAEVPEGWSYEVsqSNFALEPGETQEIEIK 584
                                       55555555555543337899999999998876 PP

>> CarbopepD_reg_2  CarboxypepD_reg-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.8   0.0      0.38   4.9e+02      34      70 ..      79     115 ..      77     125 .. 0.84
   2 ?   -0.9   0.0       1.3   1.6e+03      16      73 ..     221     278 ..     212     290 .. 0.73
   3 ?   -1.1   0.0       1.5   1.9e+03      43      64 ..     312     334 ..     303     342 .. 0.70
   4 !   14.1   0.0   2.8e-05     0.035      29      79 ..     357     406 ..     348     413 .. 0.77
   5 ?    0.5   0.0      0.48   6.2e+02      42      75 ..     424     457 ..     420     466 .. 0.76
   6 ?   -0.6   0.0         1   1.3e+03      40      62 ..     487     509 ..     484     526 .. 0.84
   7 ?   -3.1   0.0       6.2   7.9e+03      41      65 ..     515     538 ..     511     553 .. 0.58
   8 ?   -3.3   0.0       7.2   9.2e+03      56      67 ..     577     588 ..     564     596 .. 0.59

  Alignments for each domain:
  == domain 1  score: 0.8 bits;  conditional E-value: 0.38
                   CarbopepD_reg_2  34 GnFelknlpagkytLvvsyvGyktqekkvtvskektl 70 
                                       GnF+l   +  + +L+v  +G +t+ +kv+ +++ ++
  gi|331746826|ref|YP_004422863.1|  79 GNFTLIIGKWANERLHVLIYGPDTKVQKVQRAEKFRV 115
                                       99***98888999************999998776655 PP

  == domain 2  score: -0.9 bits;  conditional E-value: 1.3
                   CarbopepD_reg_2  16 gatVyvkgtkkgtvTdenGnFelknlpagkytLvvsyvGyktqekkvtvskektldvn 73 
                                         t+++  ++  +++de  +F +   ++g+ t+ +  v  k+q+ +v++ + ++++++
  gi|331746826|ref|YP_004422863.1| 221 NTTITIPYSQLRVSCDERAEFPIIVENYGEETFAIFRVLEKPQNWNVDFYDSENQKTR 278
                                       5688899999999999999999988888999998888888888888887544444333 PP

  == domain 3  score: -1.1 bits;  conditional E-value: 1.5
                   CarbopepD_reg_2  43 agkytLvvsyvG.yktqekkvtv 64 
                                        ++y+++vs++G  +tq ++v++
  gi|331746826|ref|YP_004422863.1| 312 GNRYQFNVSFLGeCRTQHISVKI 334
                                       46899******944555555554 PP

  == domain 4  score: 14.1 bits;  conditional E-value: 2.8e-05
                   CarbopepD_reg_2  29 vTdenGnFelknlpagkytLvvsyvGyktqekkvtvskektldvnillkee 79 
                                       + d++G+ e++ l++g+yt++  + Gy+++++++++s  ++ ++++ l++e
  gi|331746826|ref|YP_004422863.1| 357 IGDSEGRVEFE-LNPGTYTMTLAAKGYRNKTINLSLSLAENRELDVILEKE 406
                                       56999999996.899*****************9999866666666555544 PP

  == domain 5  score: 0.5 bits;  conditional E-value: 0.48
                   CarbopepD_reg_2  42 pagkytLvvsyvGyktqekkvtvskektldvnil 75 
                                       ++ +++++ + +Gy+++e+  ++s+ +++   +l
  gi|331746826|ref|YP_004422863.1| 424 EYTTVKFILKNLGYEEREIMFDLSGPENIRWWVL 457
                                       56778889999********999999888876554 PP

  == domain 6  score: -0.6 bits;  conditional E-value: 1
                   CarbopepD_reg_2  40 nlpagkytLvvsyvGyktqekkv 62 
                                       ++++g+y L+++++  ++ ++kv
  gi|331746826|ref|YP_004422863.1| 487 DMHSGTYNLTFRVLTTENITEKV 509
                                       67899*******99999988776 PP

  == domain 7  score: -3.1 bits;  conditional E-value: 6.2
                   CarbopepD_reg_2  41 lpagkytLvvsyvGyktqekkvtvs 65 
                                       l++ k +++  ++ y+tq  k+t+ 
  gi|331746826|ref|YP_004422863.1| 515 LENPKIKIILDSYYYETQD-KITIP 538
                                       5566677777777788863.45543 PP

  == domain 8  score: -3.3 bits;  conditional E-value: 7.2
                   CarbopepD_reg_2  56 ktqekkvtvske 67 
                                       +tqe++++++++
  gi|331746826|ref|YP_004422863.1| 577 ETQEIEIKIKTD 588
                                       344455554443 PP

>> Alpha_adaptinC2  Adaptin C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.7   0.0       5.5   7.1e+03      11      40 ..     317     344 ..     314     345 .. 0.73
   2 !   17.7   0.0   2.6e-06    0.0034       4      81 ..     513     587 ..     510     620 .. 0.84

  Alignments for each domain:
  == domain 1  score: -2.7 bits;  conditional E-value: 5.5
                                       EEEEEEEEETTSTTEEEEEEEEEE-SSS-E CS
                   Alpha_adaptinC2  11 lqIgfkfekperpgqiritlsftNkssqpi 40 
                                       ++++f  e   r ++i ++++ +N    pi
  gi|331746826|ref|YP_004422863.1| 317 FNVSFLGEC--RTQHISVKIRVFNEDLVPI 344
                                       456666666..9999999999999766665 PP

  == domain 2  score: 17.7 bits;  conditional E-value: 2.6e-06
                                       EEEEETTEEEEEEEEETTSTTEEEEEEEEEE-SSS-EEEEEEEEEEBTTCEEEEEEES-S-B-TTCEEEEEEEEEEE CS
                   Alpha_adaptinC2   4 vlyekddlqIgfkfekperpgqiritlsftNkssqpisnfsfqaavpkslklqlqppsstvlppnpggqitqvllie 80 
                                        ++e+  ++I + + + e++++i+i ++  N  +++++n+s+ a vp+++  ++++ +   +p   g++ + +++i 
  gi|331746826|ref|YP_004422863.1| 513 HVLENPKIKIILDSYYYETQDKITIPVKVRNAGNTKLENLSLVAEVPEGWSYEVSQSNFALEP---GETQEIEIKIK 586
                                       68999*********************************************7777776666666...77777777776 PP

                                       S CS
                   Alpha_adaptinC2  81 n 81 
                                       +
  gi|331746826|ref|YP_004422863.1| 587 T 587
                                       6 PP

>> BsuPI  Intracellular proteinase inhibitor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.7   0.0      0.42   5.3e+02      11      32 ..     127     148 ..     121     150 .. 0.85
   2 ?   -2.5   0.0       4.1   5.2e+03      83      93 ..     367     377 ..     361     381 .. 0.77
   3 ?   -1.5   0.0       2.1   2.6e+03       5      32 ..     417     444 ..     415     447 .. 0.83
   4 ?    0.8   0.0      0.38   4.9e+02      63      98 ..     466     502 ..     463     504 .. 0.80
   5 ?   -1.3   0.0       1.8   2.3e+03       6      27 ..     527     548 ..     523     550 .. 0.83
   6 !   10.0   0.0   0.00053      0.68      64      97 ..     569     602 ..     556     605 .. 0.86

  Alignments for each domain:
  == domain 1  score: 0.7 bits;  conditional E-value: 0.42
                                       SS-EEEEEEEEE-SSS-EEEEE CS
                             BsuPI  11 geavelaltvtNesdeavtlqF 32 
                                         +++l ++++N++ ++ tl+F
  gi|331746826|ref|YP_004422863.1| 127 RTTLKLPIEIENPTMDNLTLTF 148
                                       4578999**************9 PP

  == domain 2  score: -2.5 bits;  conditional E-value: 4.1
                                       ---SEEEEEEE CS
                             BsuPI  83 dlepGeYtlea 93 
                                       +l+pG+Yt++ 
  gi|331746826|ref|YP_004422863.1| 367 ELNPGTYTMTL 377
                                       6899***9875 PP

  == domain 3  score: -1.5 bits;  conditional E-value: 2.1
                                       EEEEE-SS-EEEEEEEEE-SSS-EEEEE CS
                             BsuPI   5 leaeasgeavelaltvtNesdeavtlqF 32 
                                       l++e ++e   +++ ++N + e+ ++ F
  gi|331746826|ref|YP_004422863.1| 417 LDVELNEEYTTVKFILKNLGYEEREIMF 444
                                       5677778889999*******99999998 PP

  == domain 4  score: 0.8 bits;  conditional E-value: 0.38
                                       -EEEEE-TT-EEEEEEEE..S---SEEEEEEEEE--E CS
                             BsuPI  63 lssetlepgesatyeetwd.edlepGeYtleaelvae 98 
                                       ls  +l p+e  +   +++ +d+ +G+Y+l++ + ++
  gi|331746826|ref|YP_004422863.1| 466 LSILKLGPNEISVLYLKLKaKDMHSGTYNLTFRVLTT 502
                                       666788899988888889878********99887766 PP

  == domain 5  score: -1.3 bits;  conditional E-value: 1.8
                                       EEEE-SS-EEEEEEEEE-SSS- CS
                             BsuPI   6 eaeasgeavelaltvtNesdea 27 
                                        ++++++++ + ++v N+++++
  gi|331746826|ref|YP_004422863.1| 527 YYYETQDKITIPVKVRNAGNTK 548
                                       5789999***********9976 PP

  == domain 6  score: 10.0 bits;  conditional E-value: 0.00053
                                       EEEEE-TT-EEEEEEEE.S---SEEEEEEEEE-- CS
                             BsuPI  64 ssetlepgesatyeetwdedlepGeYtleaelva 97 
                                       s+  lepge++  e +++ d ++GeY++++ + +
  gi|331746826|ref|YP_004422863.1| 569 SNFALEPGETQEIEIKIKTDRREGEYSVQVCVLN 602
                                       56789************99*********998865 PP

>> DUF4981  Domain of unknown function(DUF4981)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.2   0.0        10   1.3e+04      37      62 ..     122     148 ..     109     154 .. 0.63
   2 ?    1.2   0.0      0.42   5.4e+02      34      65 ..     278     322 ..     259     331 .. 0.77
   3 ?   -1.0   0.0         2   2.5e+03      43      67 ..     408     433 ..     360     435 .. 0.64
   4 ?   -0.6   0.0       1.5   1.9e+03      16      68 ..     451     503 ..     444     506 .. 0.73
   5 ?    8.4   0.1    0.0023       2.9      26      64 ..     564     600 ..     528     608 .. 0.73

  Alignments for each domain:
  == domain 1  score: -3.2 bits;  conditional E-value: 10
                                       --TT-EEEEE--S.---TSS.EEEEEE CS
                           DUF4981  37 vaPgesatvtlpetkeaees.eyfltv 62 
                                       v++  ++t++lp + e+++    +lt+
  gi|331746826|ref|YP_004422863.1| 122 VEATPRTTLKLPIEIENPTMdNLTLTF 148
                                       556666677777666655434444444 PP

  == domain 2  score: 1.2 bits;  conditional E-value: 0.42
                                       EE-.--TT-EEEEE--S.---TSS............EEEEEEEEE CS
                           DUF4981  34 elp.vaPgesatvtlpetkeaees............eyfltvsfr 65 
                                        +  ++P e+++v l  +k+ +++             y  +vsf 
  gi|331746826|ref|YP_004422863.1| 278 RVLfLKPNEKKVVYLVAEKPYTGPnegkikvlingnRYQFNVSFL 322
                                       333699********9877776555777798888888888888885 PP

  == domain 3  score: -1.0 bits;  conditional E-value: 2
                                       EEEE--S.---TSS.EEEEEEEEEES CS
                           DUF4981  43 atvtlpetkeaees.eyfltvsfrlk 67 
                                        +v+l +++ + e  e + tv+f lk
  gi|331746826|ref|YP_004422863.1| 408 SKVELSFETLDVELnEEYTTVKFILK 433
                                       33444444443333678888888887 PP

  == domain 4  score: -0.6 bits;  conditional E-value: 1.5
                                       EEEEEEEETTEEEEEEEEEE-.--TT-EEEEE--S.---TSS.EEEEEEEEEESS CS
                           DUF4981  16 dlswellkdGkvvasgelelp.vaPgesatvtlpetkeaees.eyfltvsfrlke 68 
                                       +++w +lk    ++++ l++  + P e  ++ l+ ++++ +s  y lt+++ + e
  gi|331746826|ref|YP_004422863.1| 451 NIRWWVLKSP--TSEKALSILkLGPNEISVLYLKLKAKDMHSgTYNLTFRVLTTE 503
                                       5677777663..5566777778999998888888777766667888999887765 PP

  == domain 5  score: 8.4 bits;  conditional E-value: 0.0023
                                       EEEEEEEEEE---TT-EEEEE--S.---TSSEEEEEEEE CS
                           DUF4981  26 kvvasgelelpvaPgesatvtlpetkeaeeseyfltvsf 64 
                                        +v++ +++  ++Pge+++++++ ++++ e+ey ++v +
  gi|331746826|ref|YP_004422863.1| 564 YEVSQSNFA--LEPGETQEIEIKIKTDRREGEYSVQVCV 600
                                       334433344..89**********9999999999998855 PP

>> DUF1533  Protein of unknown function (DUF1533)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.1   0.0       0.7     9e+02      10      40 ..     307     339 ..     306     340 .. 0.57
   2 ?    8.8   0.0    0.0011       1.4      41      59 ..     370     388 ..     368     389 .. 0.92
   3 ?   -2.9   0.0       5.3   6.8e+03      31      47 ..     481     496 ..     469     498 .. 0.72
   4 ?   -3.4   0.0       7.5   9.6e+03      31      46 ..     583     596 ..     577     598 .. 0.49

  Alignments for each domain:
  == domain 1  score: -0.1 bits;  conditional E-value: 0.7
                           DUF1533  10 evtvNGkklennkyslssigk..Lklkasvfnk 40 
                                       +v++NG +++ n   l++     ++ k  vfn+
  gi|331746826|ref|YP_004422863.1| 307 KVLINGNRYQFNVSFLGECRTqhISVKIRVFNE 339
                                       699999999544444433222236666666665 PP

  == domain 2  score: 8.8 bits;  conditional E-value: 0.0011
                           DUF1533  41 aGentIvIkakGYeDvtit 59 
                                        G++t ++ akGY+++ti+
  gi|331746826|ref|YP_004422863.1| 370 PGTYTMTLAAKGYRNKTIN 388
                                       69***************97 PP

  == domain 3  score: -2.9 bits;  conditional E-value: 5.3
                           DUF1533  31 LklkasvfnkaGentIv 47 
                                       Lklka+    +G+++++
  gi|331746826|ref|YP_004422863.1| 481 LKLKAKDM-HSGTYNLT 496
                                       78888888.78888887 PP

  == domain 4  score: -3.4 bits;  conditional E-value: 7.5
                           DUF1533  31 LklkasvfnkaGentI 46 
                                       +k+k++    +Ge+++
  gi|331746826|ref|YP_004422863.1| 583 IKIKTD--RREGEYSV 596
                                       444443..34666665 PP

>> DUF1735  Domain of unknown function (DUF1735)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.3   0.0       1.2   1.5e+03      29      98 ..     130     204 ..     102     232 .. 0.56
   2 ?    0.5   0.0      0.69   8.8e+02      25      54 ..     311     342 ..     284     347 .. 0.66
   3 ?    2.3   0.1      0.19   2.5e+02      17      55 ..     374     411 ..     355     438 .. 0.58
   4 ?    7.8   0.3    0.0037       4.7      41      98 ..     533     587 ..     474     602 .. 0.70

  Alignments for each domain:
  == domain 1  score: -0.3 bits;  conditional E-value: 1.2
                                       EEEEEEECC--TT-EEEEEEE.-.CHHHCCHCCCCT--...E...E--GGGEEE.GCGCEEECCGGTEEEEEEEEE- CS
                           DUF1735  29 ieltvylsgsnpkdvtvtlev.d.eslldeyNaangtny..k...llPeeyytlpsstvtikaGeessasveiklkp 98 
                                        +l++ + +++  + t t+ + d + + +++ ++++  y  k   l Pe++  l    v i+a    +++v++ +++
  gi|331746826|ref|YP_004422863.1| 130 LKLPIEIENPTMDNLTLTFDLvDvPNTWKAHFETSERAYslKqllLGPEKNIRLY-LIVDIPAN-ARTDKVRFRINS 204
                                       3344444444446666666555555555555444444442213334455556663.55777766.555666666665 PP

  == domain 2  score: 0.5 bits;  conditional E-value: 0.69
                                       SECEEEEEEEECC.--TT-EEEEEEE.-CHHH CS
                           DUF1735  25 eektieltvylsg.snpkdvtvtlev.desll 54 
                                       + + ++++v++ g   ++ ++v++ v +e+l+
  gi|331746826|ref|YP_004422863.1| 311 NGNRYQFNVSFLGeCRTQHISVKIRVfNEDLV 342
                                       445567999977745669******99999997 PP

  == domain 3  score: 2.3 bits;  conditional E-value: 0.19
                                       CEEECEESSECEEEEEEEECC--TT-EEEEEEE-CHHHC CS
                           DUF1735  17 sltlddlgeektieltvylsgsnpkdvtvtlevdeslld 55 
                                       ++tl  +g  ++ +++++ls++++++ +v le ++s ++
  gi|331746826|ref|YP_004422863.1| 374 TMTLAAKGYRNK-TINLSLSLAENRELDVILEKEPSKVE 411
                                       333332222222.36666666666666666666666655 PP

  == domain 4  score: 7.8 bits;  conditional E-value: 0.0037
                                       T-EEEEEEE-CHHHCCHCCCCT--..EE--GGG.EEE.GCGCEEECCGGTEEEEEEEEE- CS
                           DUF1735  41 kdvtvtlevdeslldeyNaangtn.ykllPeey.ytlpsstvtikaGeessasveiklkp 98 
                                         +t+ ++v ++  +++    + +    +Pe+  y++++s+  ++ Ge++  ++eik+k 
  gi|331746826|ref|YP_004422863.1| 533 DKITIPVKVRNAGNTKLE---NLSlVAEVPEGWsYEVSQSNFALEPGETQ--EIEIKIKT 587
                                       356666666666655553...23335699**999*************555..66666666 PP

>> DUF4426  Domain of unknown function (DUF4426)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.5   0.0       1.9   2.4e+03      74     107 ..     216     251 ..     179     256 .. 0.74
   2 ?    6.6   0.0    0.0056       7.2      65     114 ..     273     321 ..     262     325 .. 0.85
   3 ?    1.7   0.1      0.19   2.4e+02       5     104 ..     491     587 ..     487     598 .. 0.49

  Alignments for each domain:
  == domain 1  score: -1.5 bits;  conditional E-value: 1.9
                                       EEEEETTEEEE.EEEEE--SSEEEEEEEEE.EETTS CS
                           DUF4426  74 revkegdaiyy.laefpieneetltfeiev.kegee 107
                                       +e ke+++i    ++++++ +e  +f i v + gee
  gi|331746826|ref|YP_004422863.1| 216 KEHKENTTITIpYSQLRVSCDERAEFPIIVeNYGEE 251
                                       555666665432588899999999999999555544 PP

  == domain 2  score: 6.6 bits;  conditional E-value: 0.0056
                                       T--EEEE--EEEEETTEEEEEEEEE--SSEEEEEEEEEEETTS--EEEEE CS
                           DUF4426  65 lgqskeLefrevkegdaiyylaefpieneetltfeievkegeekklklkF 114
                                        +q++++ f + +e++ +y +ae p++  ++ ++++ ++ g++ +++++F
  gi|331746826|ref|YP_004422863.1| 273 ENQKTRVLFLKPNEKKVVYLVAEKPYTGPNEGKIKVLIN-GNRYQFNVSF 321
                                       5789999999***********************999995.5555888887 PP

  == domain 3  score: 1.7 bits;  conditional E-value: 0.19
                                       TTEEEEEEEEEGGGS-HHHHHHTT----TTEEEEEEEEEE.TTE...E--EEEEEEEE-TT--EEEE--.EEEEETT CS
                           DUF4426   5 gdlevhYsalnstfLtpevAkaygieRskykglvnisvlkksekgkeavsakvsgkaknllgqskeLef.revkegd 80 
                                       g +++ + +l+++ +t++v +   +e  k k ++     ++++k   ++++kv+   +++l   ++L++  ev eg 
  gi|331746826|ref|YP_004422863.1| 491 GTYNLTFRVLTTENITEKVLRLHVLENPKIKIILDSYYYETQDK--ITIPVKVRNAGNTKL---ENLSLvAEVPEGW 562
                                       56666666666666666666666666555555555444433222..233333333333333...3333213555543 PP

                                       EEEEEEE..EE--SSEEEEEEEEEEE CS
                           DUF4426  81 aiyylae..fpieneetltfeievke 104
                                         y +++  f +e  et ++ei++k+
  gi|331746826|ref|YP_004422863.1| 563 -SYEVSQsnFALEPGETQEIEIKIKT 587
                                       .3444431255666777777777743 PP

>> DUF4399  Domain of unknown function (DUF4399)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.0   0.0   0.00067      0.85      28      73 ..     338     383 ..     318     393 .. 0.82

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 0.00067
                           DUF4399  28 deeapeagepipaddqvlHfgkgqtetelelppGkhtLqlqlgdaa 73 
                                       +e+ ++ ++pi +  + +  g+ + ++e el+pG++t++l    ++
  gi|331746826|ref|YP_004422863.1| 338 NEDLVPIKYPIVKFGNLTKIGDSEGRVEFELNPGTYTMTLAAKGYR 383
                                       388899999999999999*********************9876655 PP

>> DUF1573  Protein of unknown function (DUF1573)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.2   0.0       3.4   4.4e+03      60      81 ..     207     226 ..     206     240 .. 0.73
   2 ?   -0.2   0.1      0.79     1e+03      24      96 ..     244     323 ..     226     325 .. 0.56
   3 ?   -3.2   0.0       6.8   8.7e+03      15      30 ..     422     437 ..     405     441 .. 0.70
   4 ?    9.6   0.1   0.00073      0.93      16      88 ..     532     607 ..     521     616 .. 0.69

  Alignments for each domain:
  == domain 1  score: -2.2 bits;  conditional E-value: 3.4
                           DUF1573  60 gkikvtfnakgrpgefnktvtv 81 
                                       g+ik++f  k+   + n t+t+
  gi|331746826|ref|YP_004422863.1| 207 GEIKIEFPDKE--HKENTTITI 226
                                       68999998888..444566666 PP

  == domain 2  score: -0.2 bits;  conditional E-value: 0.79
                           DUF1573  24 eftNtgkaplvitnvktsCgCttpey.....pkep...iapGesgkikvtfnakgrpgefnktvtvyantekepttl 92 
                                        ++N g++++ i +v  +    ++++     +k+    ++p+e+ ++ +  ++    g  + +++v  n +  ++++
  gi|331746826|ref|YP_004422863.1| 244 IVENYGEETFAIFRVLEKPQNWNVDFydsenQKTRvlfLKPNEKKVVYLVAEKPY-TGPNEGKIKVLINGNRYQFNV 319
                                       5666666666666665555555555444443333322234444444444433333.677777777777777777776 PP

                           DUF1573  93 kikg 96 
                                       ++ g
  gi|331746826|ref|YP_004422863.1| 320 SFLG 323
                                       6665 PP

  == domain 3  score: -3.2 bits;  conditional E-value: 6.8
                           DUF1573  15 egekvtatFeftNtgk 30 
                                       ++e +t++F ++N g 
  gi|331746826|ref|YP_004422863.1| 422 NEEYTTVKFILKNLGY 437
                                       4466778888888875 PP

  == domain 4  score: 9.6 bits;  conditional E-value: 0.00073
                           DUF1573  16 gekvtatFeftNtgkaplv.itnvktsCgCttpeypke..piapGesgkikvtfnakgrpgefnktvtvyanteke 88 
                                       ++k+t+  +++N g+++l  ++ v    +  + e++++  +++pGe+ +i+++ ++++r+ge + +v v  + +++
  gi|331746826|ref|YP_004422863.1| 532 QDKITIPVKVRNAGNTKLEnLSLVAEVPEGWSYEVSQSnfALEPGETQEIEIKIKTDRREGEYSVQVCVLNEVKET 607
                                       556666666666666666324444444444444444442279*********************9999997766554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (644 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       642  (0.0358079); expected 358.6 (0.02)
Passed bias filter:                      532  (0.0296726); expected 358.6 (0.02)
Passed Vit filter:                        49  (0.002733); expected 17.9 (0.001)
Passed Fwd filter:                        14  (0.000780858); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              14  [number of targets reported over threshold]
# CPU time: 0.74u 0.31s 00:00:01.05 Elapsed: 00:00:00.52
# Mc/sec: 3730.79
//
Query:       gi|331746827|ref|YP_004422864.1|  [L=309]
Description: hypothetical protein TERMP_02249 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
    2.4e-31  108.4   7.1    3.1e-31  108.0   7.1    1.1  1  YdjM         LexA-binding, inner membrane-associated putative
     0.0018   18.3   0.0     0.0032   17.5   0.0    1.3  1  Zn_dep_PLPC  Zinc dependent phospholipase C
  ------ inclusion threshold ------
       0.13   12.4   1.4       0.45   10.7   0.1    2.5  2  DUF4234      Domain of unknown function (DUF4234)


Domain annotation for each model (and alignments):
>> YdjM  LexA-binding, inner membrane-associated putative hydrolase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  108.0   7.1   5.3e-35   3.1e-31       1     165 [.       1     157 [.       1     166 [. 0.90

  Alignments for each domain:
  == domain 1  score: 108.0 bits;  conditional E-value: 5.3e-35
                              YdjM   1 MdgltHallGaalglalaallgaakeavllavavlgAllPDiDhpsstlgrklgllskklaklvgHRgftHSllfla 77 
                                       M+gltH+++++    a a+  + +    +la++++gAl+PDiD p+s++g  + +lsk+++k++gHR++tHSl+f++
  gi|331746827|ref|YP_004422864.1|   1 MMGLTHIVFSIFFYGATASIFNLPITRGILAIVAFGALVPDIDNPTSSIGMLFLPLSKWINKRYGHRTITHSLWFWL 77 
                                       9***********************99*************************************************** PP

                              YdjM  78 llalvlllllrlfgrsalrlglllllgvlsHlllDlltkyGvpllwPfskkkvrlsllfiiidplltllsrrglval 154
                                       + +++ l+++  +g    ++++++ +g lsHl++D +tk Gv l+wP s   ++++  ++ +++     sr++lv +
  gi|331746827|ref|YP_004422864.1|  78 GGTCLSLAIAYPVGEL--TYAVAFSMGTLSHLIADGMTKTGVMLFWPNSRPVYFIPQRLTVKTN-----SRQELV-V 146
                                       **************88..88999*************************9999999999998888.....555555.5 PP

                              YdjM 155 elvllvlylvi 165
                                        +++++l+++ 
  gi|331746827|ref|YP_004422864.1| 147 FIIFSFLAVST 157
                                       55555554433 PP

>> Zn_dep_PLPC  Zinc dependent phospholipase C
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.5   0.0   5.4e-07    0.0032      29     106 ..      33     112 ..      15     115 .. 0.75

  Alignments for each domain:
  == domain 1  score: 17.5 bits;  conditional E-value: 5.4e-07
                                       HHHHHHGGGG.........-TT...........-GGG--BTTTTB-HHHHS-HHHHHHHHHHHHHHHHHC.....T- CS
                       Zn_dep_PLPC  29 lllGsvaPDl.......eylfn...........asshsykthtkagllgedhhweetgkfllllikklrelyksegs 87 
                                       + +G+  PD+       +   +           +  h ++th+          ++  g+ l+l+i +        + 
  gi|331746827|ref|YP_004422864.1|  33 VAFGALVPDIdnptssiG---MlflplskwinkRYGHRTITHS--------LWFWLGGTCLSLAIAYPVG-----EL 93 
                                       679*******65555552...0555655555445555666666........444899***********99.....79 PP

                                       HHHHHHHHHHHHHHHHHHT CS
                       Zn_dep_PLPC  88 lklaafllGvlsHyvaDvf 106
                                       +  +af +G lsH++aD  
  gi|331746827|ref|YP_004422864.1|  94 TYAVAFSMGTLSHLIADGM 112
                                       999**************86 PP

>> DUF4234  Domain of unknown function (DUF4234)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.5   0.1      0.23   1.4e+03      48      60 ..       9      34 ..       1      60 [. 0.72
   2 ?   10.7   0.1   7.5e-05      0.45       7      33 ..     151     177 ..     142     201 .. 0.82

  Alignments for each domain:
  == domain 1  score: -0.5 bits;  conditional E-value: 0.23
                           DUF4234 48 lsl.............itcgiysivw 60
                                      +s+             it gi+ iv 
  gi|331746827|ref|YP_004422864.1|  9 FSIffygatasifnlpITRGILAIVA 34
                                      44444455555566668888888876 PP

  == domain 2  score: 10.7 bits;  conditional E-value: 7.5e-05
                           DUF4234   7 ilLsivTlGIYslyWlykltrelnrls 33 
                                        +L + T GIY++ W  ++++++ ++ 
  gi|331746827|ref|YP_004422864.1| 151 SFLAVSTVGIYYIGWRSVFRSAMPTFV 177
                                       467788************999987765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (309 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       532  (0.0296726); expected 358.6 (0.02)
Passed bias filter:                      380  (0.0211947); expected 358.6 (0.02)
Passed Vit filter:                        24  (0.00133861); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.56u 0.27s 00:00:00.83 Elapsed: 00:00:00.48
# Mc/sec: 1918.77
//
Query:       gi|331746828|ref|YP_004422865.1|  [L=285]
Description: hypothetical protein TERMP_02250 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
      9e-11   42.2   0.0      3e-10   40.5   0.0    1.7  2  AAA_22           AAA domain
    2.3e-09   37.9   0.0      1e-08   35.7   0.0    1.9  1  AAA_16           AAA ATPase domain
    9.9e-06   24.9   0.3    1.6e-05   24.3   0.3    1.3  1  NB-ARC           NB-ARC domain
    0.00012   22.0   0.3    0.00061   19.7   0.3    1.9  1  NACHT            NACHT domain
    0.00016   22.1   0.0    0.00028   21.3   0.0    1.4  1  AAA              ATPase family associated with various cellul
    0.00017   21.6   3.7      0.026   14.4   3.7    2.8  1  ATPase_2         ATPase domain predominantly from Archaea
    0.00019   21.4   0.1     0.0007   19.6   0.1    2.0  1  AAA_14           AAA domain
    0.00027   20.2   0.2       0.12   11.5   0.1    2.3  2  DAP3             Mitochondrial ribosomal death-associated pro
    0.00045   20.0   4.1    0.00085   19.1   3.9    1.6  1  DNA_pol3_delta   DNA polymerase III, delta subunit
     0.0013   18.7   0.0     0.0027   17.6   0.0    1.5  1  RsgA_GTPase      RsgA GTPase
     0.0024   17.4   0.0      0.005   16.4   0.0    1.5  1  AAA_7            P-loop containing dynein motor region
     0.0067   16.1   0.0      0.017   14.8   0.0    1.7  1  Sigma54_activat  Sigma-54 interaction domain
      0.008   16.2   0.0      0.015   15.3   0.0    1.5  1  TsaE             Threonylcarbamoyl adenosine biosynthesis pro
  ------ inclusion threshold ------
      0.013   14.7   0.1       0.23   10.7   0.0    2.1  2  KAP_NTPase       KAP family P-loop domain
      0.015   14.4   0.0       0.14   11.3   0.0    2.1  2  DUF815           Protein of unknown function (DUF815)
      0.062   13.7   0.0       0.24   11.8   0.0    2.2  1  RNA_helicase     RNA helicase
       0.11   13.0   0.1       0.18   12.3   0.1    1.7  1  ABC_tran         ABC transporter


Domain annotation for each model (and alignments):
>> AAA_22  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   40.5   0.0   2.9e-13     3e-10       4     126 ..      15     134 ..      11     145 .. 0.87
   2 ?   -0.8   0.0       1.7   1.8e+03      41      84 ..     159     200 ..     139     212 .. 0.71

  Alignments for each domain:
  == domain 1  score: 40.5 bits;  conditional E-value: 2.9e-13
                            AAA_22   4 tagilvvtGesGtGKTtllrrlleqldeeakaeeerpevvfvtlpsstsskdllrellralglelka.......erl 73 
                                       + +++++ G+ G+GKT+l+++ll+++d        r++++  + p+++ +k +l e+l+ + ++++a       +r+
  gi|331746828|ref|YP_004422865.1|  15 KGNHILLRGQHGVGKTYLVNELLQEND--------RASQIWLYFPQPKPPKAILLEILKMVLEDGEAnekwksyKRG 83 
                                       5789**********************8........*******************************9******99** PP

                            AAA_22  74 sseellealeqalraravielliiDEaqhlr..seealeeLrsllnlsrkgvqli 126
                                       s  +l +++++ l++r    ++i+D+++ ++  s++a++ L    + ++k+v+l+
  gi|331746828|ref|YP_004422865.1|  84 SIPQLAQYIANELNRREFSMVIILDDFHTITttSATAFRLL---IE-GTKKVKLL 134
                                       **************999999**********65556666666...33.46666665 PP

  == domain 2  score: -0.8 bits;  conditional E-value: 1.7
                            AAA_22  41 evvfvtlpsstsskdllrellralglelkaerlsseellealeq 84 
                                       +++++++  +++ k++ +e  + lgl+l++  + +e++l+ +++
  gi|331746828|ref|YP_004422865.1| 159 KTIEMEPFTEEEAKKFIEEESSRLGLSLSK--QMKERILKNCNR 200
                                       567777777888888888888888888888..555555555544 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.7   0.0   9.9e-12     1e-08      13     164 ..       7     130 ..       2     136 .. 0.70

  Alignments for each domain:
  == domain 1  score: 35.7 bits;  conditional E-value: 9.9e-12
                            AAA_16  13 lsalervrsgrpelvllsGesGvGKsslvrellralekdggiflrgkcdqlesaipysalaqalareellrqlldea 89 
                                       +++l+ +++g  + +ll+G+ GvGK+ lv+ell++  ++  i+l+    +           +a+   e+l+ +l++ 
  gi|331746828|ref|YP_004422865.1|   7 QEILKELNKG--NHILLRGQHGVGKTYLVNELLQENDRASQIWLYFPQPKP---------PKAILL-EILKMVLEDG 71 
                                       6778888888..89*******************977776444444444443.........344533.6666666664 PP

                            AAA_16  90 esaeleawrekleealaavpelagaeasrllellkrllallsrderplvlvlDdlqwadeaslqllaaLlrlles 164
                                       e+   e w+   ++++            +l++ +++ l   +r e   v++lDd++ + ++s++++++L + ++ 
  gi|331746828|ref|YP_004422865.1|  72 EA--NEKWKSYKRGSIP-----------QLAQYIANEL--NRR-EFSMVIILDDFHTITTTSATAFRLLIEGTKK 130
                                       44..7899997777666...........4555555555..444.445**********************998765 PP

>> NB-ARC  NB-ARC domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.3   0.3   1.5e-08   1.6e-05       6     203 ..       3     207 ..       1     228 [. 0.71

  Alignments for each domain:
  == domain 1  score: 24.3 bits;  conditional E-value: 1.5e-08
                                       HHHHHHHHCTTTSCSEEEEEEESTTSSHHHHHHHHCCSHCCCCCCBTEEEEEEEESXXHHHHHHHXXHHHHHCCCTT CS
                            NB-ARC   6 ekviekLlekdelqslvvalvGmgGvGKttlakqilnksdevegrFdsvawvvvsktdkseeiletilkeLslsedd 82 
                                       e+++++ l++ + +   + l G  GvGKt l+++ l++ d       s +w+   +    + il +ilk + +   +
  gi|331746828|ref|YP_004422865.1|   3 EELKQEILKELNKG-NHILLRGQHGVGKTYLVNELLQENDR-----ASQIWLYFPQPKPPKAILLEILKMVLED-GE 72 
                                       45566666555555.5678******************9444.....478********************99554.55 PP

                                       SSSS-STTS......HHHHHHHHCCCT..TEEEEEEEE-SHHHH......HHHHCHTTSEEEEEESBCCCCCCS-S- CS
                            NB-ARC  83 leekeeves......lkrklvrlLltk..rfllvlDDVweeedwdkigv.vlparenrlrvllTTRdeevanavsat 150
                                        +ek ++++      l++ + + L+++   ++++lDD  +  +  ++    l +  ++++ l    de v +  +++
  gi|331746828|ref|YP_004422865.1|  73 ANEKWKSYKrgsipqLAQYIANELNRRefSMVIILDDFHTITTTSATAFrLLIEGTKKVKLLCVANDEYVDKLYKKP 149
                                       555555555588999************8888******9988775444431445678888888888888887666665 PP

                                       .E.......EEEEESS--HHHHHHHHHHCCTS-GGCHH..CHHHHHHHHHHCTT-HHHHHH CS
                            NB-ARC 151 .s.......ekievelLekdeawellenkvfekkleekesleevakeivekckGlPlalkv 203
                                                ++ie+e ++++ea +++e++  +  l+ +   +++ ++i ++c+ + l +k+
  gi|331746828|ref|YP_004422865.1| 150 eMkrlvwelKTIEMEPFTEEEAKKFIEEESSRLGLSLS---KQMKERILKNCNRNALCIKS 207
                                       32222222235666667777777777776666666543...56777777777777776665 PP

>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.7   0.3   5.8e-07   0.00061       3     162 ..      19     178 ..      17     181 .. 0.76

  Alignments for each domain:
  == domain 1  score: 19.7 bits;  conditional E-value: 5.8e-07
                                       EEEEC-TTTCHHHHHHHHHHHHCTS-SCCCC-SEEEEEETTTTTTS-...-HCHHHCCCCTS--SSS-C........ CS
                             NACHT   3 vilqGeaGsGKTtLlqklalawaegklpqgafklvFflslrelsrsgnarsladllfsqlpepaapvse........ 71 
                                       ++l+G+ G+GKT+L+ +l ++  +        +  +++++ + ++      l ++l  +l + +a+ +         
  gi|331746828|ref|YP_004422865.1|  19 ILLRGQHGVGKTYLVNELLQENDRAS------QIWLYFPQPKPPKA----ILLEILKMVLEDGEANEKWksykrgsi 85 
                                       79**************9987655544......78889988777765....355555555544444444455577888 PP

                                       ......CHHHHCCSCCCEEEEEE-STT-SS-TCH.........HHHHHCTTTTT--EEEEEEECCCHHH......HC CS
                             NACHT  72 ......vwavllelperlLlilDglDelvtdlgqkekqpvrtlLselirkkllpeasllltvrpralrd......le 136
                                             + ++l +++ ++++ilD++  + t             ++ li++   ++++ll  +  + + +      ++
  gi|331746828|ref|YP_004422865.1|  86 pqlaqyIANELNRREFSMVIILDDFHTITTTSAT--------AFRLLIEG--TKKVKLLCVANDEYVDKlykkpeMK 152
                                       8888877778888888999**********94444........67778999..9999999999999998866666666 PP

                                       TTSSCE..EEEE--TCCHHHHHHHHC CS
                             NACHT 137 eqleeaivlevegfsesrrkqlvrky 162
                                       +++ e + +e+e+f+e+++k+++++ 
  gi|331746828|ref|YP_004422865.1| 153 RLVWELKTIEMEPFTEEEAKKFIEEE 178
                                       666666****************9986 PP

>> AAA  ATPase family associated with various cellular activities (AAA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.3   0.0   2.6e-07   0.00028       1     111 [.      19     139 ..      19     155 .. 0.66

  Alignments for each domain:
  == domain 1  score: 21.3 bits;  conditional E-value: 2.6e-07
                                       EEEESSTTSSHHHHHHHHHHH........HTHE...............EEEEETTTCSSSSTTHHHHHHHHHHHH.H CS
                               AAA   1 vllyGppGtGKTllakavake........lgve...............fleisgsellskyvgesekkirelfke.a 53 
                                       +ll G  G+GKT+l++ + +e        l  +                + ++  e  +k+ + +  +i +l +  a
  gi|331746828|ref|YP_004422865.1|  19 ILLRGQHGVGKTYLVNELLQEndrasqiwL--YfpqpkppkailleilKMVLEDGEANEKWKSYKRGSIPQLAQYiA 93 
                                       6999*****************555444431..044455555554443223334444445688888888888888833 PP

                                       HHTS..TS.EEEEEETGGGHHHHHTTCCCHHHHHHHHHHHHHHHHTTTSSSTEEEEEEESS CS
                               AAA  54 keka..kp.silfiDEidalaksrsgseseeeervvnqLlteldgvkkkeskvivigatnr 111
                                        e +  +   ++++D+++ +++++           + ++   ++g kk    v +++++n+
  gi|331746828|ref|YP_004422865.1|  94 NELNrrEFsMVIILDDFHTITTTS-----------ATAFRLLIEGTKK----VKLLCVAND 139
                                       4444774459***********999...........7777777777766....566666665 PP

>> ATPase_2  ATPase domain predominantly from Archaea
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.4   3.7   2.5e-05     0.026      10     221 ..       8     196 ..       2     206 .. 0.66

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 2.5e-05
                          ATPase_2  10 eleeilerepneiyfiYGpegsGKtaLlkeiienledkdkyviyyialreesiskldefieeeeekkklekalgiav 86 
                                       e+++ l++   + +++ G  g+GKt L++e++++ +  ++  +y+ + +     k+            l + l+ ++
  gi|331746828|ref|YP_004422865.1|   8 EILKELNK--GNHILLRGQHGVGKTYLVNELLQENDRASQIWLYFPQPKP---PKAI-----------LLEILKMVL 68 
                                       45555555..6678899****************99887776666543322...2222...........223333334 PP

                          ATPase_2  87 pkaeleeilk.eksklvfkaielllekikkkgkkiiiiiDelqklidlglngaellvkeLlnliesltkekhlcvvi 162
                                       +  e++e  k  k+  + +  +++ ++++++   ++ii+D++  +   +        +  ++l+ + tk+ +l   +
  gi|331746828|ref|YP_004422865.1|  69 EDGEANEKWKsYKRGSIPQLAQYIANELNRREFSMVIILDDFHTIT--TTS------ATAFRLLIEGTKKVKL---L 134
                                       44444444555566677888888999*******************9..444......4456666665555544...4 PP

                          ATPase_2 163 clsSeglfiervynese...legrhkyilvddldketalnflkegfkel.eelskedfeeiyr 221
                                       c   +  + + +y++ e   l+   k+i++++++ e+a++f++e +  l  +lsk+ +e+i +
  gi|331746828|ref|YP_004422865.1| 135 CVANDEYVDK-LYKKPEmkrLVWELKTIEMEPFTEEEAKKFIEEESSRLgLSLSKQMKERILK 196
                                       4455555555.5554431113334566888999999999999998888877778888888876 PP

>> AAA_14  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.6   0.1   6.7e-07    0.0007       4      99 ..      18     137 ..      15     172 .. 0.62

  Alignments for each domain:
  == domain 1  score: 19.6 bits;  conditional E-value: 6.7e-07
                            AAA_14   4 ilvitGaRrvGKTtllkqlikellvkkesilyinldderd....................kkladpe.......kll 53 
                                        ++++G   vGKT+l+++l++e+   ++  ly+   ++++                    k     +       +l 
  gi|331746828|ref|YP_004422865.1|  18 HILLRGQHGVGKTYLVNELLQENDRASQIWLYFPQPKPPKailleilkmvledgeanekwK-----SykrgsipQLA 89 
                                       6899******************993333344444444444555555555555444343331.....03345556788 PP

                            AAA_14  54 elileklke.ekktylflDEiqevpewekalkslvdeg.knldvivtG 99 
                                       ++i ++l++ e   +++lD  + +++ + +  +l+ eg k++++++  
  gi|331746828|ref|YP_004422865.1|  90 QYIANELNRrEFSMVIILDDFHTITTTSATAFRLLIEGtKKVKLLCVA 137
                                       899888544467788999**9999988877777766665667666655 PP

>> DAP3  Mitochondrial ribosomal death-associated protein 3
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    6.8   0.0    0.0031       3.2      14      43 ..       5      36 ..       1      54 [. 0.81
   2 !   11.5   0.1   0.00011      0.12     206     277 ..     100     176 ..      75     201 .. 0.84

  Alignments for each domain:
  == domain 1  score: 6.8 bits;  conditional E-value: 0.0031
                                      HTTS..-SSS---EEEEE-SSSSSTTTTHHHH CS
                              DAP3 14 lkka..dkkkkvkrlvltGekgsGKSvlLlqa 43
                                      lk++  ++ +k + ++l G+ g+GK+ l++ +
  gi|331746828|ref|YP_004422865.1|  5 LKQEilKELNKGNHILLRGQHGVGKTYLVNEL 36
                                      55555556678999************998765 PP

  == domain 2  score: 11.5 bits;  conditional E-value: 0.00011
                                       S-EEEEE---SS-SS--SS---HHHHHTTTTT....GGG-S-E.................EEE-----GGGTHHHHH CS
                              DAP3 206 nggvvvaLaatsssntpksatlevallqeear....pqldpYvkk.ydkrvaealkgkvepieveglskeEarslle 277
                                       +  +v++L+  ++  t+++ ++++ ++++++      + d+Yv k y+k  +++l  ++++ie+e++++eEa++++e
  gi|331746828|ref|YP_004422865.1| 100 EFSMVIILDDFHTITTTSATAFRLLIEGTKKVkllcVANDEYVDKlYKKPEMKRLVWELKTIEMEPFTEEEAKKFIE 176
                                       556777888888888888888888888888878888889*****9*99999999999*****************997 PP

>> DNA_pol3_delta  DNA polymerase III, delta subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.1   3.9   8.1e-07   0.00085      96     173 ..     133     213 ..     102     214 .. 0.78

  Alignments for each domain:
  == domain 1  score: 19.1 bits;  conditional E-value: 8.1e-07
                                       EEEEES..S--HHHH..HHHHHTTTEEEEEE----TTTHHHHHHHHHHHTT-EE-HHHHHHHHHHHTT-HHHHHHHH CS
                    DNA_pol3_delta  96 Liliap.kklderkk..lvklLkkkatvveaktlkeeelkkwiqkraqelglkiekealelLlelvennlsaikqel 169
                                       L+ +a+ +  d+  k   +k L  + + +e+++ +eee kk+i++ +++lgl ++k+  e +l++++ n + ik++l
  gi|331746828|ref|YP_004422865.1| 133 LLCVANdEYVDKLYKkpEMKRLVWELKTIEMEPFTEEEAKKFIEEESSRLGLSLSKQMKERILKNCNRNALCIKSQL 209
                                       44444434444433345556666666679************************************************ PP

                                       HHHH CS
                    DNA_pol3_delta 170 ekLa 173
                                       e L+
  gi|331746828|ref|YP_004422865.1| 210 EALK 213
                                       *996 PP

>> RsgA_GTPase  RsgA GTPase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.6   0.0   2.6e-06    0.0027      91     125 ..       7      42 ..       1      47 [. 0.77

  Alignments for each domain:
  == domain 1  score: 17.6 bits;  conditional E-value: 2.6e-06
                                       HHHHHHCTT.SEEEEECSTTSSHHHHHHHHCTT--- CS
                       RsgA_GTPase  91 eelkellkd.ktsvlvGqSGvGKStLinallpelel 125
                                       +e+ ++l++ + ++l Gq GvGK+ L+n+ll+e++ 
  gi|331746828|ref|YP_004422865.1|   7 QEILKELNKgNHILLRGQHGVGKTYLVNELLQENDR 42 
                                       4555555554999******************98765 PP

>> AAA_7  P-loop containing dynein motor region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.4   0.0   4.7e-06     0.005      30      61 ..      13      44 ..       5      52 .. 0.85

  Alignments for each domain:
  == domain 1  score: 16.4 bits;  conditional E-value: 4.7e-06
                             AAA_7 30 lknkkpvllvGptGtGKtviikdllkkldkek 61
                                      l++++++ll G+ G+GKt ++++ll++ d+ +
  gi|331746828|ref|YP_004422865.1| 13 LNKGNHILLRGQHGVGKTYLVNELLQENDRAS 44
                                      67899********************9988655 PP

>> Sigma54_activat  Sigma-54 interaction domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   0.0   1.6e-05     0.017      11      55 ..       5      49 ..       1      64 [. 0.82

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 1.6e-05
                                      HHHHHHHHCTSSS-EEEECSTTSSHHHHHHHHHHHSTTTTS-EEE CS
                   Sigma54_activat 11 lleqikkvaktdlsvlitGesGtGKellaraiheaskrkekpfva 55
                                      l ++i k  ++  ++l++G+ G+GK++l + + ++++r+++ ++ 
  gi|331746828|ref|YP_004422865.1|  5 LKQEILKELNKGNHILLRGQHGVGKTYLVNELLQENDRASQIWLY 49
                                      5666777778889***********************999987665 PP

>> TsaE  Threonylcarbamoyl adenosine biosynthesis protein TsaE
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   0.0   1.4e-05     0.015      10      42 ..       5      39 ..       1      46 [. 0.77

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 1.4e-05
                                      HHHHHHHCH..TEEEEEEESTTSSHHHHHHHHHHH CS
                              TsaE 10 lgkklakal..gdvilLeGdLGaGKTtlvrglaka 42
                                      l +++ k+l  g+ ilL+G+ G+GKT lv +l+++
  gi|331746828|ref|YP_004422865.1|  5 LKQEILKELnkGNHILLRGQHGVGKTYLVNELLQE 39
                                      44444444455889*****************9987 PP

>> KAP_NTPase  KAP family P-loop domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.0   0.00021      0.23      17      47 ..      13      43 ..       4      77 .. 0.83
   2 ?    1.4   0.1      0.14   1.5e+02     158     219 ..      86     144 ..      74     154 .. 0.79

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00021
                        KAP_NTPase 17 latpivvgLygkWGsGKssllnkledelkef 47
                                      l ++  + L g+ G+GK++l+n+l +e +  
  gi|331746828|ref|YP_004422865.1| 13 LNKGNHILLRGQHGVGKTYLVNELLQENDRA 43
                                      45777899****************9986655 PP

  == domain 2  score: 1.4 bits;  conditional E-value: 0.14
                        KAP_NTPase 158 eelladmektLdalqkrlVvviDdLDrceteevlqlleavkllfsl.kpvvfilavDphviak 219
                                        +l + ++++L + +   V+++Dd   +    +++ + a +ll +  k+v+++ +++++ ++k
  gi|331746828|ref|YP_004422865.1|  86 PQLAQYIANELNRREFSMVIILDDFHTI----TTTSATAFRLLIEGtKKVKLLCVANDEYVDK 144
                                       5677888899999999999999998774....4455678888888889999999999998877 PP

>> DUF815  Protein of unknown function (DUF815)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.3   0.0   0.00013      0.14      51      78 ..      14      41 ..       2      50 .. 0.84
   2 ?    0.4   0.0      0.28     3e+02      97     135 ..      91     128 ..      80     133 .. 0.71

  Alignments for each domain:
  == domain 1  score: 11.3 bits;  conditional E-value: 0.00013
                            DUF815 51 lpannvLLwGarGtGKSslvkallneya 78
                                      ++ n++LL G+ G+GK  lv  ll+e  
  gi|331746828|ref|YP_004422865.1| 14 NKGNHILLRGQHGVGKTYLVNELLQEND 41
                                      678*******************999865 PP

  == domain 2  score: 0.4 bits;  conditional E-value: 0.28
                            DUF815  97 klvellrerperfilfvDDLsFeeeeeeyksLksvLeGs 135
                                        + ++l++r+  +++ +DD   + + +++ +++ ++eG+
  gi|331746828|ref|YP_004422865.1|  91 YIANELNRREFSMVIILDDFH-TITTTSATAFRLLIEGT 128
                                       47788999999********74.44555666777777775 PP

>> RNA_helicase  RNA helicase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.8   0.0   0.00023      0.24       1      36 [.      19      50 ..      19     133 .. 0.83

  Alignments for each domain:
  == domain 1  score: 11.8 bits;  conditional E-value: 0.00023
                      RNA_helicase  1 iwlyGpsgeGKStlakeLakallkklklkkkdsvys 36
                                      i+l G++g+GK++l++eL ++        ++ ++y+
  gi|331746828|ref|YP_004422865.1| 19 ILLRGQHGVGKTYLVNELLQEND----RASQIWLYF 50
                                      6899*************665544....444555555 PP

>> ABC_tran  ABC transporter
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.3   0.1   0.00017      0.18       7      42 ..      12      46 ..       7     229 .. 0.75

  Alignments for each domain:
  == domain 1  score: 12.3 bits;  conditional E-value: 0.00017
                                      EEETTSEEEEEESTTSSHHHHHHHHTTSS--SEEEE CS
                                      xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF
                          ABC_tran  7 klkegekvaivGenGaGKStLlkllagllkpteGei 42
                                      +l++g+ + + G+ G GK+ L++ l+++ +  + +i
  gi|331746828|ref|YP_004422865.1| 12 ELNKGNHILLRGQHGVGKTYLVNELLQENDR-ASQI 46
                                      689**********************999874.5555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (285 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       784  (0.043728); expected 358.6 (0.02)
Passed bias filter:                      571  (0.0318478); expected 358.6 (0.02)
Passed Vit filter:                        95  (0.00529868); expected 17.9 (0.001)
Passed Fwd filter:                        17  (0.000948185); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              17  [number of targets reported over threshold]
# CPU time: 0.71u 0.35s 00:00:01.06 Elapsed: 00:00:00.55
# Mc/sec: 1569.10
//
Query:       gi|331746829|ref|YP_004422866.1|  [L=280]
Description: hypothetical protein TERMP_02251 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    0.00036   21.0   0.1     0.0024   18.3   0.1    2.3  1  Lectin_C_term   Ricin-type beta-trefoil lectin C-terminal dom
     0.0018   18.3   2.0        0.1   12.6   1.4    2.3  2  DUF2400         Protein of unknown function (DUF2400)
     0.0033   17.9   0.4      0.027   15.0   0.4    2.4  1  Agglutinin_C    Agglutinin C-terminal
     0.0055   17.3   6.8     0.0055   17.3   6.8    3.0  3  SlyX            SlyX
     0.0093   16.0   9.7      0.015   15.3   9.7    1.3  1  PRP9_N          Pre-mRNA-splicing factor PRP9 N-terminus
  ------ inclusion threshold ------
       0.01   16.3   6.0      0.016   15.6   6.0    1.3  1  Fez1            Fez1
      0.019   15.1   4.8      0.019   15.1   4.8    1.9  2  GCN5L1          GCN5-like protein 1 (GCN5L1)
       0.03   13.2   6.5      0.038   12.8   6.5    1.1  1  CALCOCO1        Calcium binding and coiled-coil domain (CALCO
      0.037   13.9   2.6      0.053   13.4   0.2    2.5  2  PKcGMP_CC       Coiled-coil N-terminus of cGMP-dependent prot
       0.04   13.9  12.1       0.13   12.2  12.2    1.8  2  CENP-F_leu_zip  Leucine-rich repeats of kinetochore protein C
      0.075   13.1   4.1      0.094   12.8   2.6    1.7  2  T2SSM           Type II secretion system (T2SS), protein M
      0.078   12.7   8.8       0.12   12.1   8.8    1.2  1  DUF745          Protein of unknown function (DUF745)
       0.15   11.3   8.3       0.22   10.8   8.3    1.3  1  DUF3450         Protein of unknown function (DUF3450)
       0.18   12.4   5.7       0.41   11.2   5.7    1.6  1  Syntaxin-6_N    Syntaxin 6, N-terminal
       0.25   11.6   9.9       0.39   11.0   1.9    2.4  2  DUF948          Bacterial protein of unknown function (DUF948
       0.27   10.0   3.9       0.38    9.5   3.9    1.3  1  DUF3573         Protein of unknown function (DUF3573)
       0.28   11.7   6.4       0.54   10.8   5.2    2.1  3  Cep57_MT_bd     Centrosome microtubule-binding domain of Cep5
        0.3   10.6   8.3        0.4   10.2   8.3    1.1  1  Exonuc_VII_L    Exonuclease VII, large subunit
        0.3   11.0   6.6       0.19   11.7   4.2    1.9  1  DUF4446         Protein of unknown function (DUF4446)
        0.4   10.8  11.9       0.63   10.1  11.9    1.3  1  DHR10           Designed helical repeat protein 10 domain
       0.67    9.8   5.3        7.2    6.5   0.9    2.7  2  DASH_Dam1       DASH complex subunit Dam1
       0.68   10.2  11.8       0.18   12.0   7.8    2.0  2  FliJ            Flagellar FliJ protein
       0.68   10.3   3.5       0.85   10.0   1.9    1.9  2  Tli4_N          Tle cognate immunity protein 4 N-terminal dom
        1.2    9.0  10.9        2.7    7.9  10.9    1.7  1  DUF2570         Protein of unknown function (DUF2570)
        1.5    8.3  11.2        1.8    7.9  10.1    1.5  1  Rogdi_lz        Rogdi leucine zipper containing protein
        1.9    8.9  11.3        2.7    8.5   8.6    2.6  1  Staphylokinase  Staphylokinase/Streptokinase family
          2    8.8   9.0         11    6.4   9.0    2.1  1  TBCA            Tubulin binding cofactor A
        2.6    7.7   9.4        9.4    5.9   2.8    3.1  3  RPW8            Arabidopsis broad-spectrum mildew resistance 
        5.3    7.1  10.1        3.5    7.7   6.5    2.2  2  DUF1664         Protein of unknown function (DUF1664)


Domain annotation for each model (and alignments):
>> Lectin_C_term  Ricin-type beta-trefoil lectin C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   18.3   0.1   3.9e-06    0.0024       2     101 ..     169     259 ..     168     260 .. 0.82

  Alignments for each domain:
  == domain 1  score: 18.3 bits;  conditional E-value: 3.9e-06
                     Lectin_C_term   2 spdklylivdsekiksiwanaglgnklsqeyrknkyDcddfAlalkgelakWrndnlraeefgllvGvmfgrqaene 78 
                                       ++d +y+ ++ e i+++    +  +  + ey+ ++ DcddfA  l +e           +   l +Gv +     ++
  gi|331746829|ref|YP_004422866.1| 169 TSDIVYITPPIENIDKLEIFINWTKIPELEYKAELNDCDDFAWRLYSESK--------THYSLLALGVAYS----KN 233
                                       78999**********98777777888899****************99865........4445678899999....56 PP

                     Lectin_C_term  79 hAYnvv...lddqdkskvyffEPqng 101
                                       h +n++   ++++++ +vy+ EPq+g
  gi|331746829|ref|YP_004422866.1| 234 HVFNIIifkINSTNQLSVYIIEPQTG 259
                                       7777651116779999********98 PP

>> DUF2400  Protein of unknown function (DUF2400)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   12.6   1.4   0.00017       0.1      74     127 ..      43     100 ..      14     138 .. 0.81
   2 ?    4.4   0.0     0.054        33      54     101 ..     196     243 ..     179     271 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 0.00017
                           DUF2400  74 sedllallkalkelleksgsLeeaflkaeeeeeeleealeafreafle.....kekrtr 127
                                       ++d+ + ++ +++l ++++sL++++l++++e ++l+++l++f++++ e     + ++ +
  gi|331746829|ref|YP_004422866.1|  43 HKDINKSITQMQTLKSSQESLNQIILQQQKEIQSLHAQLHKFNQTLRElehviN-TTAQ 100
                                       5799999999*****************999999999999999999999665531.2222 PP

  == domain 2  score: 4.4 bits;  conditional E-value: 0.054
                           DUF2400  54 eeeeekdlkelekfkyRffnsedllallkalkelleksgsLeeaflka 101
                                       e e++++l+++++f +R+++++++++ l al   ++k++ ++ ++ k 
  gi|331746829|ref|YP_004422866.1| 196 ELEYKAELNDCDDFAWRLYSESKTHYSLLALGVAYSKNHVFNIIIFKI 243
                                       5577889999999***********************999888888774 PP

>> Agglutinin_C  Agglutinin C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.0   0.4   4.3e-05     0.027      16      92 ..     192     260 ..     174     261 .. 0.79

  Alignments for each domain:
  == domain 1  score: 15.0 bits;  conditional E-value: 4.3e-05
                      Agglutinin_C  16 sglkkqklrkelFdcddfalvfkaavakwandrfradgfaiLfGvvfgestkgkkayNvvl....sqdlskvvffdp 88 
                                       +++ + ++++el dcddfa ++ ++  ++ +       +++L    +g + +++++ N+++    s+++ +v +++p
  gi|331746829|ref|YP_004422866.1| 192 TKIPELEYKAELNDCDDFAWRLYSE--SKTH-------YSLLA---LGVAYSKNHVFNIIIfkinSTNQLSVYIIEP 256
                                       6677889999********9998888..4444.......55544...555567889*********999********** PP

                      Agglutinin_C  89 qtgk 92 
                                       qtg+
  gi|331746829|ref|YP_004422866.1| 257 QTGS 260
                                       **97 PP

>> SlyX  SlyX
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.7   0.3       1.3   8.3e+02      31      50 ..      37      56 ..      26      61 .. 0.47
   2 !   17.3   6.8   8.9e-06    0.0055      16      52 ..      57      93 ..      50     104 .. 0.85
   3 ?    0.5   0.3       1.5   9.5e+02       9      24 ..     103     118 ..      96     139 .. 0.76

  Alignments for each domain:
  == domain 1  score: 0.7 bits;  conditional E-value: 1.3
                                      HHHHHHHHHHHHHHHT-XXX CS
                              SlyX 31 qqidrlqrqlrllaerlkel 50
                                      qq+d +++ +++   ++++l
  gi|331746829|ref|YP_004422866.1| 37 QQLDDIHKDINKSITQMQTL 56
                                      33444444444444444444 PP

  == domain 2  score: 17.3 bits;  conditional E-value: 8.9e-06
                                      HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-XXXXX CS
                              SlyX 16 edtieeLndvvaeqqqqidrlqrqlrllaerlkelee 52
                                          e+Ln+++ +qq++i+ l++ql + ++ l+ele 
  gi|331746829|ref|YP_004422866.1| 57 KSSQESLNQIILQQQKEIQSLHAQLHKFNQTLRELEH 93
                                      556799****************************996 PP

  == domain 3  score: 0.5 bits;  conditional E-value: 1.5
                                       HHHHHHHHHHHHHHHH CS
                              SlyX   9 EiklafqedtieeLnd 24 
                                       E kl+ +e+ ie  n+
  gi|331746829|ref|YP_004422866.1| 103 EFKLMELEQIIEHTNE 118
                                       7888888888888776 PP

>> PRP9_N  Pre-mRNA-splicing factor PRP9 N-terminus
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.3   9.7   2.5e-05     0.015      46     138 ..      41     140 ..      27     154 .. 0.78

  Alignments for each domain:
  == domain 1  score: 15.3 bits;  conditional E-value: 2.5e-05
                            PRP9_N  46 eipkksdisknkiykskkskrsrkqillQq.hEinlFledykkklksleklkeeadseelkdkekslekfkelleei 121
                                       +i k+ ++s  ++++ k s+ s  qi+lQq +Ei+ +  + +k +++l++l++  +++ ++ +e +l ++++ +e+ 
  gi|331746829|ref|YP_004422866.1|  41 DIHKDINKSITQMQTLKSSQESLNQIILQQqKEIQSLHAQLHKFNQTLRELEHVINTTAQR-TEFKLMELEQIIEHT 116
                                       3677778888899999999******9997527*******************8776766666.999999999999999 PP

                            PRP9_N 122 kekekd.......seseeldinek 138
                                       +e+ +        +++++l+i+ek
  gi|331746829|ref|YP_004422866.1| 117 NENTNLvlrkisnNKNQTLPIEEK 140
                                       987766666676566666677665 PP

>> Fez1  Fez1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.6   6.0   2.7e-05     0.016      15     109 ..      35     130 ..      31     176 .. 0.67

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 2.7e-05
                              Fez1  15 LKqQLkdsqaevtqklseivalkaqlrelrakleekeeeikeleesleektlelevcenelqrkkseaellrekvek 91 
                                       L qQL d+ +++++ +  + +lk++   l++ + ++++ei++l+++l++ ++ l ++e+ ++ + +++e +  ++e+
  gi|331746829|ref|YP_004422866.1|  35 LLQQLDDIHKDINKSITQMQTLKSSQESLNQIILQQQKEIQSLHAQLHKFNQTLRELEHVINTTAQRTEFKLMELEQ 111
                                       55999999999999999999999999999999999999999999999988888887777777665555443332332 PP

                              Fez1  92 l.eeelkelreelselsle 109
                                       + e+  +++   l++ s++
  gi|331746829|ref|YP_004422866.1| 112 IiEHTNENTNLVLRKISNN 130
                                       2022222222223332222 PP

>> GCN5L1  GCN5-like protein 1 (GCN5L1)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.1   4.8   3.1e-05     0.019      34     113 ..      38     118 ..      32     119 .. 0.90
   2 ?   -1.5   0.0       4.5   2.8e+03      94     111 ..     165     182 ..     137     185 .. 0.70

  Alignments for each domain:
  == domain 1  score: 15.1 bits;  conditional E-value: 3.1e-05
                            GCN5L1  34 lvdklnsgvaeayanqkklekeakalqanvakfakqtdqWlalvesfnsalkeiGDvenW.aktienDlksiteale 109
                                        +d++ +++++++++ + l++   +l++ + + +k+ ++  a  ++fn+ l+e+  v n  a++ e+ l+++++ +e
  gi|331746829|ref|YP_004422866.1|  38 QLDDIHKDINKSITQMQTLKSSQESLNQIILQQQKEIQSLHAQLHKFNQTLRELEHVINTtAQRTEFKLMELEQIIE 114
                                       57999***************************************************988537889999999999888 PP

                            GCN5L1 110 yvyk 113
                                         ++
  gi|331746829|ref|YP_004422866.1| 115 HTNE 118
                                       7765 PP

  == domain 2  score: -1.5 bits;  conditional E-value: 4.5
                            GCN5L1  94 aktienDlksitealeyv 111
                                       ak+i +D+  it  +e++
  gi|331746829|ref|YP_004422866.1| 165 AKIITSDIVYITPPIENI 182
                                       677777777777777776 PP

>> CALCOCO1  Calcium binding and coiled-coil domain (CALCOCO1) like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   6.5   6.2e-05     0.038      78     164 ..      35     121 ..      26     152 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 6.2e-05
                          CALCOCO1  78 lesrveelkeelkesrekveeleekqkelerlseelaeeksalleakeesearirELEeDiktltqralekEteLeR 154
                                       l ++++++++++++s  ++++l++ q+ l+++  + ++e + l ++ ++ ++ +rELE+ i+t +qr+  k  eLe 
  gi|331746829|ref|YP_004422866.1|  35 LLQQLDDIHKDINKSITQMQTLKSSQESLNQIILQQQKEIQSLHAQLHKFNQTLRELEHVINTTAQRTEFKLMELEQ 111
                                       55688899999999999999999999999999888899999999999****************************** PP

                          CALCOCO1 155 lkerakkala 164
                                       + e+ +  ++
  gi|331746829|ref|YP_004422866.1| 112 IIEHTNENTN 121
                                       9998874443 PP

>> PKcGMP_CC  Coiled-coil N-terminus of cGMP-dependent protein kinase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.4   0.2   8.7e-05     0.053      16      34 ..      66      84 ..      62      85 .. 0.87
   2 ?   -2.2   0.0       6.4   3.9e+03      11      18 ..      89      96 ..      88      97 .. 0.78

  Alignments for each domain:
  == domain 1  score: 13.4 bits;  conditional E-value: 8.7e-05
                         PKcGMP_CC 16 rlaekdeEIqELrskLDKf 34
                                       + ++ +EIq L ++L+Kf
  gi|331746829|ref|YP_004422866.1| 66 IILQQQKEIQSLHAQLHKF 84
                                      567899************9 PP

  == domain 2  score: -2.2 bits;  conditional E-value: 6.4
                         PKcGMP_CC 11 RELEkrla 18
                                      RELE  ++
  gi|331746829|ref|YP_004422866.1| 89 RELEHVIN 96
                                      9**98765 PP

>> CENP-F_leu_zip  Leucine-rich repeats of kinetochore protein Cenp-F/LEK1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.2  12.2   0.00022      0.13      57     137 ..      35     115 ..      20     118 .. 0.88
   2 ?   -1.8   0.0       4.6   2.9e+03       7      70 ..     153     167 ..     146     199 .. 0.64

  Alignments for each domain:
  == domain 1  score: 12.2 bits;  conditional E-value: 0.00022
                    CENP-F_leu_zip  57 lkeeieelaeelreleldLvalrsekeeLekelqkkqervseLeslnsslenlleekEqekvqmkeeskaaveeLqt 133
                                       l ++++ + +  ++  +++++l+s +e+L++ + ++q+++++L +   +++++l+e+E+      ++++ ++ eL++
  gi|331746829|ref|YP_004422866.1|  35 LLQQLDDIHKDINKSITQMQTLKSSQESLNQIILQQQKEIQSLHAQLHKFNQTLRELEHVINTTAQRTEFKLMELEQ 111
                                       7799999****************************************************999999999888888876 PP

                    CENP-F_leu_zip 134 qlke 137
                                        ++ 
  gi|331746829|ref|YP_004422866.1| 112 IIEH 115
                                       6655 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 4.6
                    CENP-F_leu_zip   7 hvlekLKeserkadsLkdkvenLerelemseenqekvileaEtskaevetlkeeieelaeelre 70 
                                        ++ekLKe+  ka                                                 + 
  gi|331746829|ref|YP_004422866.1| 153 DIKEKLKEIFPKA-------------------------------------------------KI 167
                                       4555555554443.................................................33 PP

>> T2SSM  Type II secretion system (T2SS), protein M
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.4   0.1         1   6.2e+02      35      85 ..      31      65 ..       5      70 .. 0.47
   2 ?   12.8   2.6   0.00015     0.094      39     109 ..      63     135 ..      60     142 .. 0.83

  Alignments for each domain:
  == domain 1  score: 0.4 bits;  conditional E-value: 1
                                      XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX--HHH CS
                             T2SSM 35 lwqPlserieraqaelqklraqlawveeqaaevralraapasalsgaaleq 85
                                      ++ Pl ++ ++  + ++k+  q++++++                  ++l+q
  gi|331746829|ref|YP_004422866.1| 31 ILMPLLQQLDDIHKDINKSITQMQTLKSSQ----------------ESLNQ 65
                                      333444444444444444444444444333................34444 PP

  == domain 2  score: 12.8 bits;  conditional E-value: 0.00015
                                       XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX-..-HHHHHHHHHHHCT--EEEEEEETT.EE CS
                             T2SSM  39 lserieraqaelqklraqlawveeqaaevralraapasalsga..aleqvvtrsarqagLalarlqpqgdgsv 109
                                       l++ i ++q+e+q+l aql +++++++e++   ++ a+ ++ +  +leq+++ + ++ +L l ++ +  ++++
  gi|331746829|ref|YP_004422866.1|  63 LNQIILQQQKEIQSLHAQLHKFNQTLRELEHVINTTAQRTEFKlmELEQIIEHTNENTNLVLRKISNNKNQTL 135
                                       66778899*********************9988555554444456********************99998766 PP

>> DUF745  Protein of unknown function (DUF745)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.1   8.8   0.00019      0.12      62     160 ..      30     132 ..      27     145 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.1 bits;  conditional E-value: 0.00019
                            DUF745  62 qlveqleqelreaeavvqeekkslqsseanakaaakaakqaqqqlealkallkaakenlenaeqvaagaqq....el 134
                                       +++  l q+l + ++ +++  +++q+ +++ ++ +++  q q+++++l+a l++++++l+++e+v +  +q    +l
  gi|331746829|ref|YP_004422866.1|  30 TILMPLLQQLDDIHKDINKSITQMQTLKSSQESLNQIILQQQKEIQSLHAQLHKFNQTLRELEHVINTTAQrtefKL 106
                                       677789999**************************************************999998877666233357 PP

                            DUF745 135 aektqlleaAkkRveeLkkqlkeark 160
                                       +e +q++e+ ++  + + +++++ ++
  gi|331746829|ref|YP_004422866.1| 107 MELEQIIEHTNENTNLVLRKISNNKN 132
                                       78899999999999998888887766 PP

>> DUF3450  Protein of unknown function (DUF3450)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.8   8.3   0.00036      0.22      46     108 ..      39     101 ..      24     129 .. 0.78

  Alignments for each domain:
  == domain 1  score: 10.8 bits;  conditional E-value: 0.00036
                           DUF3450  46 kqellaeyralkeeleslevyneqlerlvasqeqeiasleeqieeieeierelvpllekmidr 108
                                        +++ +++++  ++ + l+  +e l++++ +q++ei+sl  q+ +++++ rel+ ++ ++ +r
  gi|331746829|ref|YP_004422866.1|  39 LDDIHKDINKSITQMQTLKSSQESLNQIILQQQKEIQSLHAQLHKFNQTLRELEHVINTTAQR 101
                                       455566666677778888888888888888888888888888888888888888887776655 PP

>> Syntaxin-6_N  Syntaxin 6, N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.2   5.7   0.00066      0.41       7      78 ..      43     108 ..      36     142 .. 0.70

  Alignments for each domain:
  == domain 1  score: 11.2 bits;  conditional E-value: 0.00066
                      Syntaxin-6_N   7 keeVqkslnkaeslyrrwerlledtssstseeldetrteLrkalrsiewdledLeetvriveknpskfkide 78 
                                        ++++ks+ ++++l ++ e+l +        + ++  + L+++l++ +++l++Le+++++  + +++fk+ e
  gi|331746829|ref|YP_004422866.1|  43 HKDINKSITQMQTLKSSQESLNQI-----ILQQQKEIQSLHAQLHKFNQTLRELEHVINTTAQ-RTEFKLME 108
                                       678888888888888887765444.....3344444556888888999999999999966655.35555543 PP

>> DUF948  Bacterial protein of unknown function (DUF948)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.9   1.2     0.024        15       6      75 ..       8      79 ..       5      84 .. 0.76
   2 ?   11.0   1.9   0.00063      0.39      21      66 ..      81     126 ..      76     136 .. 0.86

  Alignments for each domain:
  == domain 1  score: 5.9 bits;  conditional E-value: 0.024
                            DUF948  6 aAiAFvvLviflivvllkl..kktldeaaatieelekqvdpilkevedllakvnelledvneklekvdplte 75
                                       Ai F+ L ++  v+      + +l  + ++++++ k++++ ++++++l +  + l + + ++ +++++l +
  gi|331746829|ref|YP_004422866.1|  8 GAIVFATLLVVSQVTPHDTtqETILMPLLQQLDDIHKDINKSITQMQTLKSSQESLNQIILQQQKEIQSLHA 79
                                      577787777777777766666777888999999999999999999998888888777777777777777655 PP

  == domain 2  score: 11.0 bits;  conditional E-value: 0.00063
                            DUF948  21 llklkktldeaaatieelekqvdpilkevedllakvnelledvnek 66 
                                       l k ++tl+e+++ i+++ ++++  l e+e++++++ne ++ v +k
  gi|331746829|ref|YP_004422866.1|  81 LHKFNQTLRELEHVINTTAQRTEFKLMELEQIIEHTNENTNLVLRK 126
                                       77899********************************966655554 PP

>> DUF3573  Protein of unknown function (DUF3573)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.5   3.9   0.00061      0.38       7      77 ..      10     104 ..       5     170 .. 0.66

  Alignments for each domain:
  == domain 1  score: 9.5 bits;  conditional E-value: 0.00061
                           DUF3573   7 livssllvlsilayseds....................asyaesneqtsksnlidkelilklqkqikelqaeinhlk 63 
                                       +++++llv+s ++  + +                    +s +++++  s s+   ++ il+ qk+i+ l a++++++
  gi|331746829|ref|YP_004422866.1|  10 IVFATLLVVSQVTPHDTTqetilmpllqqlddihkdinKSITQMQTLKS-SQESLNQIILQQQKEIQSLHAQLHKFN 85 
                                       7888888888876655557888888888888888544333333333332.555667999*****************9 PP

                           DUF3573  64 etkns.....nesaqftty 77 
                                       +t        n +aq t +
  gi|331746829|ref|YP_004422866.1|  86 QTLRElehviNTTAQRTEF 104
                                       9977655555555555444 PP

>> Cep57_MT_bd  Centrosome microtubule-binding domain of Cep57
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.4   0.0       5.2   3.2e+03      25      42 ..      37      54 ..      36      57 .. 0.81
   2 ?   10.8   5.2   0.00087      0.54       6      53 ..      56     104 ..      51     118 .. 0.83
   3 ?   -1.0   0.0       4.1   2.6e+03      28      56 ..     103     131 ..      98     135 .. 0.77

  Alignments for each domain:
  == domain 1  score: -1.4 bits;  conditional E-value: 5.2
                       Cep57_MT_bd 25 ehlklelqelaaqynald 42
                                      ++l  ++++ ++ + +++
  gi|331746829|ref|YP_004422866.1| 37 QQLDDIHKDINKSITQMQ 54
                                      688889999999999987 PP

  == domain 2  score: 10.8 bits;  conditional E-value: 0.00087
                       Cep57_MT_bd   6 sqspkeaLaevlkeLedEfehlklelqelaaqynaldpsl.gkrkRkdL 53 
                                        +s++e+L  ++ + ++E++ l+++l ++++++++l+  + + ++R++ 
  gi|331746829|ref|YP_004422866.1|  56 LKSSQESLNQIILQQQKEIQSLHAQLHKFNQTLRELEHVInTTAQRTEF 104
                                       5799********************************9888666677665 PP

  == domain 3  score: -1.0 bits;  conditional E-value: 4.1
                       Cep57_MT_bd  28 klelqelaaqynaldpslgkrkRkdLaee 56 
                                        ++l el++ ++ ++  ++   Rk+ +++
  gi|331746829|ref|YP_004422866.1| 103 EFKLMELEQIIEHTNENTNLVLRKISNNK 131
                                       57788999999999988888888876665 PP

>> Exonuc_VII_L  Exonuclease VII, large subunit
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   8.3   0.00064       0.4     143     247 ..      33     140 ..      17     170 .. 0.47

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00064
                      Exonuc_VII_L 143 aeleeqleelerrlekaikrll..eekkqrleklasrlkspeellerkrqrldeleerleralkkqlkkkrerleel 217
                                         l++ql+++++ ++k+i+++   +++++ l+++  + ++  + l+++ ++++++ ++le+ +++++++ + +l el
  gi|331746829|ref|YP_004422866.1|  33 MPLLQQLDDIHKDINKSITQMQtlKSSQESLNQIILQQQKEIQSLHAQLHKFNQTLRELEHVINTTAQRTEFKLMEL 109
                                       45688888888888888876441144444444443333333334444444444444444444444444444444444 PP

                      Exonuc_VII_L 218 kerlkekleekkerl....kklkerle.lleekke 247
                                       ++ ++    +++e++    +k++++ + +l  +++
  gi|331746829|ref|YP_004422866.1| 110 EQIIE----HTNENTnlvlRKISNNKNqTLPIEEK 140
                                       42222....22222211222222222223333333 PP

>> DUF4446  Protein of unknown function (DUF4446)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   4.2    0.0003      0.19      25      83 ..      44     103 ..      30     108 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 0.0003
                           DUF4446  25 kklkkkykklmk.gkdgksleellkekleeveelkeeseelekeieeleeklkkslqkvg 83 
                                       k ++k+++++++ +++++sl++++ ++ +e+++l+++ ++ +++++ele+ ++++ q+++
  gi|331746829|ref|YP_004422866.1|  44 KDINKSITQMQTlKSSQESLNQIILQQQKEIQSLHAQLHKFNQTLRELEHVINTTAQRTE 103
                                       5678888888884559**************************************999876 PP

>> DHR10  Designed helical repeat protein 10 domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.1  11.9     0.001      0.63      27     105 ..      38     120 ..      35     132 .. 0.89

  Alignments for each domain:
  == domain 1  score: 10.1 bits;  conditional E-value: 0.001
                             DHR10  27 alqvvekdlrsciklleeieaelaklee....akkklkelrdaleekeielrelerkeerlqrqlenaeeklerlre 99 
                                        l+++ kd+++ i++++++++ +++l++    ++k++++l+++l++ +++lrele+ +    ++ e +  +le+  e
  gi|331746829|ref|YP_004422866.1|  38 QLDDIHKDINKSITQMQTLKSSQESLNQiilqQQKEIQSLHAQLHKFNQTLRELEHVINTTAQRTEFKLMELEQIIE 114
                                       5889*********************99544449***********************************999999999 PP

                             DHR10 100 qaeekr 105
                                       + +e  
  gi|331746829|ref|YP_004422866.1| 115 HTNENT 120
                                       998865 PP

>> DASH_Dam1  DASH complex subunit Dam1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.5   0.9     0.012       7.2       2      33 ..      33      64 ..      32      67 .. 0.86
   2 ?    4.9   0.1     0.036        22      20      36 ..      72      88 ..      66     107 .. 0.73

  Alignments for each domain:
  == domain 1  score: 6.5 bits;  conditional E-value: 0.012
                         DASH_Dam1  2 epafaeLaDsletLdknledLqqihesLsdfN 33
                                       p +++L D  ++++k ++++q ++ s +++N
  gi|331746829|ref|YP_004422866.1| 33 MPLLQQLDDIHKDINKSITQMQTLKSSQESLN 64
                                      67899999999*****9999999998887777 PP

  == domain 2  score: 4.9 bits;  conditional E-value: 0.036
                         DASH_Dam1 20 edLqqihesLsdfNeSF 36
                                      +++q++h +L +fN+ +
  gi|331746829|ref|YP_004422866.1| 72 KEIQSLHAQLHKFNQTL 88
                                      67899999999999866 PP

>> FliJ  Flagellar FliJ protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.0   7.8   0.00029      0.18      17      84 ..      28      90 ..      18      98 .. 0.90
   2 ?   -1.3   0.1       3.8   2.4e+03      20      70 ..     105     122 ..      92     135 .. 0.54

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 0.00029
                              FliJ 17 aeekleeleqyrqeyqkqlsgeaqglsaaelrnyqafisaldeaiaqqkqelaqaekqvekareewqe 84
                                      +e  l+ l q++++ +k ++++       +++++++  ++l++ i qq++e++ +++q++k  + + e
  gi|331746829|ref|YP_004422866.1| 28 QETILMPLLQQLDDIHKDINKSI-----TQMQTLKSSQESLNQIILQQQKEIQSLHAQLHKFNQTLRE 90
                                      677788899999***99999999.....********************************98888766 PP

  == domain 2  score: -1.3 bits;  conditional E-value: 3.8
                              FliJ  20 kleeleqyrqeyqkqlsgeaqglsaaelrnyqafisaldeaiaqqkqelaq 70 
                                       k                                 ++ l++ i+++ ++ + 
  gi|331746829|ref|YP_004422866.1| 105 K---------------------------------LMELEQIIEHTNENTNL 122
                                       3.................................34455555555555444 PP

>> Tli4_N  Tle cognate immunity protein 4 N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.0   1.9    0.0014      0.85      15     107 ..      58     150 ..      53     161 .. 0.87
   2 ?   -1.0   0.0       3.4   2.1e+03      69      96 ..     251     276 ..     214     280 .] 0.77

  Alignments for each domain:
  == domain 1  score: 10.0 bits;  conditional E-value: 0.0014
                            Tli4_N  15 saeislesyeyigdvkieskrvspeafrqriakreqeLkaekrikekdepllkkavslpdnkgrifirnesvskeda 91 
                                       s++ sl++ +  +  +i+s  ++  +f q +++ e  ++++ +++e +   l+++++ +++++ ++ r+ s +k++ 
  gi|331746829|ref|YP_004422866.1|  58 SSQESLNQIILQQQKEIQSLHAQLHKFNQTLRELEHVINTTAQRTEFKLMELEQIIEHTNENTNLVLRKISNNKNQT 134
                                       77888888889999999999999**************************************9999999998885444 PP

                            Tli4_N  92 areleayvydngvaft 107
                                           e  +y+ng+aft
  gi|331746829|ref|YP_004422866.1| 135 LPIEEKDIYKNGTAFT 150
                                       4444677999999997 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 3.4
                            Tli4_N  69 avslpdnkgrifirnesvskedaarele 96 
                                       ++ ++++ g if +ne+   ++++re+e
  gi|331746829|ref|YP_004422866.1| 251 VYIIEPQTGSIFPFNETL--PEYYREIE 276
                                       444555668888888888..67888777 PP

>> DUF2570  Protein of unknown function (DUF2570)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.9  10.9    0.0043       2.7      23      87 ..      51     115 ..      44     142 .. 0.90

  Alignments for each domain:
  == domain 1  score: 7.9 bits;  conditional E-value: 0.0043
                           DUF2570  23 qkidsLraenkaqaqlieeqqkanqrLteqLeqerqavekqqkianelkakveeekeevktilkq 87 
                                        ++++L+  +++ +q+i +qqk  q L  qL++  q  ++ +++ n   ++ e +  e+ +i+++
  gi|331746829|ref|YP_004422866.1|  51 TQMQTLKSSQESLNQIILQQQKEIQSLHAQLHKFNQTLRELEHVINTTAQRTEFKLMELEQIIEH 115
                                       57899*************************************99999999999999999999875 PP

>> Rogdi_lz  Rogdi leucine zipper containing protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.9  10.1     0.003       1.8      84     142 ..      35     100 ..      16     122 .. 0.81

  Alignments for each domain:
  == domain 1  score: 7.9 bits;  conditional E-value: 0.003
                          Rogdi_lz  84 vleqLtdlrtlltqaldlLdltlktgdelsks.......aqflssqLrllleslseAkalLkgppe 142
                                        l+qL+d+++ ++++++++++  +++++l++         q+l +qL+++ ++l+e  ++++++++
  gi|331746829|ref|YP_004422866.1|  35 LLQQLDDIHKDINKSITQMQTLKSSQESLNQIilqqqkeIQSLHAQLHKFNQTLRELEHVINTTAQ 100
                                       69******************6666667776669999999999999999999999998888888776 PP

>> Staphylokinase  Staphylokinase/Streptokinase family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.5   8.6    0.0043       2.7      10      65 ..      20      77 ..      14     159 .. 0.79

  Alignments for each domain:
  == domain 1  score: 8.5 bits;  conditional E-value: 0.0043
                    Staphylokinase 10 nfvdvdgkkeellsplavelaikngkigekltseeLlkaieeqLda..rdpaytiyqn 65
                                      ++++ d ++e  l pl ++l++  + i+  +t  + lk ++e L++  +++++ i + 
  gi|331746829|ref|YP_004422866.1| 20 QVTPHDTTQETILMPLLQQLDDIHKDINKSITQMQTLKSSQESLNQiiLQQQKEIQSL 77
                                      89999*****************************************664444444444 PP

>> TBCA  Tubulin binding cofactor A
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    6.4   9.0     0.019        11      16      80 ..      40     118 ..      29     123 .. 0.78

  Alignments for each domain:
  == domain 1  score: 6.4 bits;  conditional E-value: 0.019
                              TBCA  16 asYekEleeqearleklkadgde.deydlkkq.............eevleetkamipdlkkrlekavekLeelleee 78 
                                          +k++++   ++++lk+ +++ ++  l++q             ++ l e + +i ++ +r e  + +Le+++e  
  gi|331746829|ref|YP_004422866.1|  40 DDIHKDINKSITQMQTLKSSQESlNQIILQQQkeiqslhaqlhkfNQTLRELEHVINTTAQRTEFKLMELEQIIEHT 116
                                       556888888888888888844333667777777777777777777*****************************988 PP

                              TBCA  79 ee 80 
                                       +e
  gi|331746829|ref|YP_004422866.1| 117 NE 118
                                       65 PP

>> RPW8  Arabidopsis broad-spectrum mildew resistance protein RPW8
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    5.9   2.8     0.015       9.4      13      67 ..      39      90 ..       5     100 .. 0.50
   2 ?    5.3   1.1     0.024        15      15      51 ..      62      98 ..      59     131 .. 0.72
   3 ?    3.2   0.1       0.1        63      22      55 ..     153     186 ..     150     199 .. 0.88

  Alignments for each domain:
  == domain 1  score: 5.9 bits;  conditional E-value: 0.015
                              RPW8 13 lgellkaileakkksldfksilkrLestleritPvvkeieklnkeldrpreeiee 67
                                      l++++k i +   +  + ks+ ++L++ + +     kei++l+++l ++++ + e
  gi|331746829|ref|YP_004422866.1| 39 LDDIHKDINKSITQMQTLKSSQESLNQIILQ---QQKEIQSLHAQLHKFNQTLRE 90
                                      3333333333333334444444444433322...234444444444444444444 PP

  == domain 2  score: 5.3 bits;  conditional E-value: 0.024
                              RPW8 15 ellkaileakkksldfksilkrLestleritPvvkei 51
                                      +l ++il+++k+  + + +l++ ++tl +++ v++  
  gi|331746829|ref|YP_004422866.1| 62 SLNQIILQQQKEIQSLHAQLHKFNQTLRELEHVINTT 98
                                      5778899999999999999999999999998887654 PP

  == domain 3  score: 3.2 bits;  conditional E-value: 0.1
                              RPW8  22 eakkksldfksilkrLestleritPvvkeiekln 55 
                                       + k+k +++ ++ k + s +  itP +++i+kl+
  gi|331746829|ref|YP_004422866.1| 153 DIKEKLKEIFPKAKIITSDIVYITPPIENIDKLE 186
                                       6678888888999999999*************96 PP

>> DUF1664  Protein of unknown function (DUF1664)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.7   6.5    0.0057       3.5      51     116 ..      40     101 ..      27     112 .. 0.73
   2 ?   -0.3   0.1       1.7   1.1e+03      78     113 ..     147     182 ..     108     187 .. 0.59

  Alignments for each domain:
  == domain 1  score: 7.7 bits;  conditional E-value: 0.0057
                           DUF1664  51 eqvseslaatkrhLssridrvdkkldeqkeiskeikeevtevredlseigedvesvkeaveglesk 116
                                       +++ +++++       +++++ +++++ ++i+ + ++e+++++ +l+++++ ++++++++++ +++
  gi|331746829|ref|YP_004422866.1|  40 DDIHKDINK----SITQMQTLKSSQESLNQIILQQQKEIQSLHAQLHKFNQTLRELEHVINTTAQR 101
                                       333333332....24456788899999999999999999999999999999999999999876554 PP

  == domain 2  score: -0.3 bits;  conditional E-value: 1.7
                           DUF1664  78 qkeiskeikeevtevredlseigedvesvkeavegl 113
                                       ++ +  +ike+++e+  + + i +d+  +   +e++
  gi|331746829|ref|YP_004422866.1| 147 TAFTNLDIKEKLKEIFPKAKIITSDIVYITPPIENI 182
                                       444455667777777777777777777666666655 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (280 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      2414  (0.134642); expected 358.6 (0.02)
Passed bias filter:                      764  (0.0426125); expected 358.6 (0.02)
Passed Vit filter:                       145  (0.00808746); expected 17.9 (0.001)
Passed Fwd filter:                        32  (0.00178482); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              29  [number of targets reported over threshold]
# CPU time: 0.78u 0.30s 00:00:01.08 Elapsed: 00:00:00.52
# Mc/sec: 1626.12
//
Query:       gi|331746830|ref|YP_004422867.1|  [L=198]
Description: hypothetical protein TERMP_02252 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (198 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       615  (0.034302); expected 358.6 (0.02)
Passed bias filter:                      560  (0.0312343); expected 358.6 (0.02)
Passed Vit filter:                        43  (0.00239835); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.53u 0.30s 00:00:00.83 Elapsed: 00:00:00.48
# Mc/sec: 1227.75
//
Query:       gi|331746831|ref|YP_004422868.1|  [L=332]
Description: hypothetical protein TERMP_02253 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (332 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       643  (0.0358637); expected 358.6 (0.02)
Passed bias filter:                      486  (0.0271069); expected 358.6 (0.02)
Passed Vit filter:                        36  (0.00200792); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.52u 0.29s 00:00:00.81 Elapsed: 00:00:00.45
# Mc/sec: 2198.78
//
Query:       gi|331746832|ref|YP_004422869.1|  [L=304]
Description: phospholipase D/Transphosphatidylase [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    2.2e-25   89.1   3.2    2.3e-25   89.0   0.2    2.3  3  PLDc_2          PLD-like domain
    7.9e-06   25.8   0.1    2.4e-05   24.3   0.1    1.8  1  PLDc            Phospholipase D Active site motif
    0.00032   20.3   0.3    0.00053   19.6   0.3    1.5  1  PP_kinase_C_1   Polyphosphate kinase C-terminal domain 1
  ------ inclusion threshold ------
      0.041   13.5   7.7      0.069   12.7   7.7    1.3  1  Snf7            Snf7
      0.058   12.6   0.3       0.12   11.6   0.1    1.6  2  Regulator_TrmB  Archaeal transcriptional regulator TrmB
       0.16   11.7   2.4       0.67    9.6   0.1    2.7  3  Glyco_transf_5  Starch synthase catalytic domain
       0.18   12.2   4.6       0.14   12.5   1.3    2.2  2  FAD_SOX         Flavin adenine dinucleotide (FAD)-dependent s
       0.44   10.7   6.0      0.096   12.8   1.9    2.0  2  MbeD_MobD       MbeD/MobD like
        1.6    9.1   9.9       0.99    9.8   3.2    2.6  2  Tup_N           Tup N-terminal


Domain annotation for each model (and alignments):
>> PLDc_2  PLD-like domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.7   0.1      0.59   1.2e+03      99     124 ..      73     102 ..      72     111 .. 0.75
   2 ?   -2.4   0.0       2.1   4.1e+03       9      31 ..     109     130 ..     101     140 .. 0.64
   3 !   89.0   0.2   1.2e-28   2.3e-25       4     130 ..     176     301 ..     174     304 .] 0.84

  Alignments for each domain:
  == domain 1  score: -0.7 bits;  conditional E-value: 0.59
                            PLDc_2  99 sNltkrgl....dlnlElnvviedkelake 124
                                       +Nltk++     +ln El ++i + +++ +
  gi|331746832|ref|YP_004422869.1|  73 YNLTKEAYdnltKLNKELELKIRNLTVQLQ 102
                                       588888887777889999999888765555 PP

  == domain 2  score: -2.4 bits;  conditional E-value: 2.1
                            PLDc_2   9 kksidiatyyfvsdreildallk 31 
                                       +ks+ + + +f  +++ +++l+k
  gi|331746832|ref|YP_004422869.1| 109 QKSVNMTVKFF-KEKTYYEKLYK 130
                                       56777777777.66666666655 PP

  == domain 3  score: 89.0 bits;  conditional E-value: 1.2e-28
                            PLDc_2   4 liksAkksidiatyyf........vsdreildallkaakrgvkvrilldskkddagavdeaslkelkellleagvev 72 
                                       li++A++si++++y              ++++al+ka++rgv+v ++ld+     + v+       ke+l+++g++v
  gi|331746832|ref|YP_004422869.1| 176 LINQANESIYLIMYVAkydagdsfDWANDLINALIKAKQRGVDVHVILDN---Y-PNVN----EATKEYLAKYGIDV 244
                                       79************9987777654445558*******************8...3.3333....4445555888**** PP

                            PLDc_2  73 rvfetllgslHaKlylidgktvivGSsNltkrgldlnlElnvviedkelakeleeeFe 130
                                       r+  + +++ HaK+++idgk+v++GS+N+t+++l +n+E+ v ++++++akel ++F 
  gi|331746832|ref|YP_004422869.1| 245 RFDSP-SKTTHAKILIIDGKVVLIGSHNWTESALYYNHEVSVLVYSEDFAKELISYFY 301
                                       *7333.4789*********************************************996 PP

>> PLDc  Phospholipase D Active site motif
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   24.3   0.1   1.2e-08   2.4e-05       5      26 ..     253     274 ..     251     276 .. 0.91

  Alignments for each domain:
  == domain 1  score: 24.3 bits;  conditional E-value: 1.2e-08
                                       E---EEEETTTEEEEE---SSH CS
                              PLDc   5 hHqKivivDdrvafvGgaNLcd 26 
                                        H+Ki+i+D++v+++G+ N++ 
  gi|331746832|ref|YP_004422869.1| 253 THAKILIIDGKVVLIGSHNWTE 274
                                       6*******************97 PP

>> PP_kinase_C_1  Polyphosphate kinase C-terminal domain 1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   19.6   0.3   2.7e-07   0.00053      50     158 ..     203     300 ..     155     304 .] 0.77

  Alignments for each domain:
  == domain 1  score: 19.6 bits;  conditional E-value: 2.7e-07
                                       -HHHHHHHHHHHTT-EEEEEES--SSS--HHHHHHH..HHHHHHT-EEEE--TT--B--EEEEEEE---S---EEEE CS
                     PP_kinase_C_1  50 skivkaLieAaengkqvtvlvElkArfdeenNiewa..kkleeagvkvvygvvglkvhaklllvvrreeeklrryvh 124
                                        ++++aLi+A+++g +v v++      d+  N++ a  + l + g++v +  ++  +hak+l++  +        v 
  gi|331746832|ref|YP_004422869.1| 203 NDLINALIKAKQRGVDVHVIL------DNYPNVNEAtkEYLAKYGIDVRFDSPSKTTHAKILIIDGK-------VVL 266
                                       468999999999999999986......5666665551167**********************99754.......367 PP

                                       EESS-SS---SS-EEEEEEEE--HHHHHHHHHHH CS
                     PP_kinase_C_1 125 lgtGnynektaklYtDlslltadeelgedveklf 158
                                       +g+ n+ e+      ++s+l  +e++++++ + f
  gi|331746832|ref|YP_004422869.1| 267 IGSHNWTESALYYNHEVSVLVYSEDFAKELISYF 300
                                       7777777766666667777777777777776666 PP

>> Snf7  Snf7
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   7.7   3.5e-05     0.069       7      81 ..      77     153 ..      72     162 .. 0.85

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 3.5e-05
                                       HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTT-..HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                              Snf7   7 rkaerkldkkqeslekkikkleaelkklakkgn..kdralllLKqkkryekqldqldnqlanleqvslaienlksnk 81 
                                       ++a ++l k  ++le ki +l  +l+ ++++ +    +  ++ K+k +yek++++ ++ l +l+   l+ +++ s+ 
  gi|331746832|ref|YP_004422869.1|  77 KEAYDNLTKLNKELELKIRNLTVQLQIMNQSLQksVNMTVKFFKEKTYYEKLYKSCSANLTKLNRSYLSCKSQLSQL 153
                                       57889********************99999866336789999******************99998887777766654 PP

>> Regulator_TrmB  Archaeal transcriptional regulator TrmB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -2.8   0.0       1.5   2.9e+03      33      53 ..      81     100 ..      44     120 .. 0.60
   2 ?   11.6   0.1     6e-05      0.12      38     126 ..     205     302 ..     201     304 .] 0.74

  Alignments for each domain:
  == domain 1  score: -2.8 bits;  conditional E-value: 1.5
                                       GGHHHHHHHHHHHHHTT-EEE CS
                    Regulator_TrmB  33 elLeelreeliaaaergvtVl 53 
                                        +L +l +el+ +++   tV 
  gi|331746832|ref|YP_004422869.1|  81 DNLTKLNKELELKIR-NLTVQ 100
                                       334444444433332.44444 PP

  == domain 2  score: 11.6 bits;  conditional E-value: 6e-05
                                       HHHHHHHHHHTT-EEEEEESS..----GGGSSS.SEEEEEE-S---S....EEEEETTTEEEEE-SSS-...EEEE- CS
                    Regulator_TrmB  38 lreeliaaaergvtVllliyp..dedleeldle.evatevrvrrsga...pllvivDrkrgvvaprevl...rdkee 105
                                       l   li+a++rgv V +++ +  + ++++++++ +   +vr+ +  +     ++i D+k +++ +++        + 
  gi|331746832|ref|YP_004422869.1| 205 LINALIKAKQRGVDVHVILDNypNVNEATKEYLaKYGIDVRFDSPSKtthAKILIIDGKVVLIGSHNWTesaLYYNH 281
                                       6789***************9977444444444404447899876654213567*************95544444566 PP

                                       -HHHHHHHHHHHHHH...... CS
                    Regulator_TrmB 106 eyaiifkekelihvlshyFlt 126
                                       e ++++ +++++  l+ yF++
  gi|331746832|ref|YP_004422869.1| 282 EVSVLVYSEDFAKELISYFYS 302
                                       779999999999999999997 PP

>> Glyco_transf_5  Starch synthase catalytic domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.7   0.2      0.18   3.5e+02     164     202 ..      45      83 ..      36     138 .. 0.66
   2 ?   -1.7   0.0      0.98   1.9e+03      75      94 ..     149     170 ..      97     194 .. 0.54
   3 ?    9.6   0.1   0.00034      0.67      30      95 ..     213     273 ..     200     302 .. 0.60

  Alignments for each domain:
  == domain 1  score: 0.7 bits;  conditional E-value: 0.18
                    Glyco_transf_5 164 ktvftiHNlayqgrfpkdelaalglpaedfekldglefy 202
                                       +t+   HN  y + +++++++ l+l++++  +++ +++ 
  gi|331746832|ref|YP_004422869.1|  45 QTITQTHNDNYSKELQYWKSKYLELERKYNLTKEAYDNL 83 
                                       566677777777777777777777775443333333333 PP

  == domain 2  score: -1.7 bits;  conditional E-value: 0.98
                    Glyco_transf_5  75 kvaklkk.dgvdvyf.ldnpef 94 
                                       ++ +l++ +  ++y+ +d++++
  gi|331746832|ref|YP_004422869.1| 149 QLSQLQNqESTKTYLlIDQEYY 170
                                       2222222334444442444444 PP

  == domain 3  score: 9.6 bits;  conditional E-value: 0.00034
                    Glyco_transf_5  30 aklghdvrvilPrygaikeekkeleevaelskaaed.evevev.ekvkvaklkkdgvdvyfldnpeff 95 
                                       +++g+dv+vil +y++++e  k  e +a+      + +v++    k++ ak+   + +v+++  +++ 
  gi|331746832|ref|YP_004422869.1| 213 KQRGVDVHVILDNYPNVNEATK--EYLAKY-----GiDVRFDSpSKTTHAKILIIDGKVVLIGSHNWT 273
                                       789***************9874..344332.....223333323444444444445566666655544 PP

>> FAD_SOX  Flavin adenine dinucleotide (FAD)-dependent sulfhydryl oxidase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.6   0.1      0.86   1.7e+03      55      87 ..      54      86 ..      47      99 .. 0.72
   2 ?   12.5   1.3   7.2e-05      0.14      34      94 ..     106     166 ..     100     171 .. 0.91

  Alignments for each domain:
  == domain 1  score: -0.6 bits;  conditional E-value: 0.86
                           FAD_SOX 55 kllksldewLkslkkkkisyseleelldnkkea 87
                                      ++ k+l+ w +++ + + +y+ ++e++dn ++ 
  gi|331746832|ref|YP_004422869.1| 54 NYSKELQYWKSKYLELERKYNLTKEAYDNLTKL 86
                                      666778888888777788888888888876655 PP

  == domain 2  score: 12.5 bits;  conditional E-value: 7.2e-05
                           FAD_SOX  34 kalkkyvsvlakyfpgrplvkkllksldewLkslkkkkisyseleelldnkkeaseavlpe 94 
                                       ++l+k v++ +k+f  + + +kl ks +  L++l+++ +s+++  + l+n++++++ +l +
  gi|331746832|ref|YP_004422869.1| 106 QSLQKSVNMTVKFFKEKTYYEKLYKSCSANLTKLNRSYLSCKSQLSQLQNQESTKTYLLID 166
                                       579999*********************************************9998877655 PP

>> MbeD_MobD  MbeD/MobD like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.8   1.9   4.8e-05     0.096      18      66 ..      54     109 ..      48     113 .. 0.83
   2 ?   -1.9   0.1       1.9   3.8e+03       2      17 ..     137     152 ..     128     160 .. 0.61

  Alignments for each domain:
  == domain 1  score: 12.8 bits;  conditional E-value: 4.8e-05
                         MbeD_MobD  18 dYeqrlqeWesafaelqrmfeltqrena.......aLseqvtgLsqQVesLseqvr 66 
                                       +Y++ lq W+s + el r ++lt+            L+ ++ +L+ Q + +++ ++
  gi|331746832|ref|YP_004422869.1|  54 NYSKELQYWKSKYLELERKYNLTKEAYDnltklnkELELKIRNLTVQLQIMNQSLQ 109
                                       7*********************9987665677777888888888888888887665 PP

  == domain 2  score: -1.9 bits;  conditional E-value: 1.9
                         MbeD_MobD   2 telekqLLsAlEqLQq 17 
                                       t+l++  Ls   qL q
  gi|331746832|ref|YP_004422869.1| 137 TKLNRSYLSCKSQLSQ 152
                                       5666666655444333 PP

>> Tup_N  Tup N-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    9.8   3.2    0.0005      0.99      37      74 ..      55      91 ..      32      94 .. 0.84
   2 ?    5.4   3.2     0.011        23      22      65 ..      82     128 ..      76     140 .. 0.73

  Alignments for each domain:
  == domain 1  score: 9.8 bits;  conditional E-value: 0.0005
                             Tup_N 37 qiqElqqirqtlyeLeeahrkikqqYEeeiarLkaeLe 74
                                        +Elq  +++  eLe++++  k++Y+ ++++L++eLe
  gi|331746832|ref|YP_004422869.1| 55 YSKELQYWKSKYLELERKYNLTKEAYD-NLTKLNKELE 91
                                      568***********************7.6999999998 PP

  == domain 2  score: 5.4 bits;  conditional E-value: 0.011
                             Tup_N  22 slkaqkdeyelkiqsqiqElqqirqtl...yeLeeahrkikqqYEee 65 
                                       +l + ++e+elki++ +  lq + q+l    ++  ++ k k+ YE+ 
  gi|331746832|ref|YP_004422869.1|  82 NLTKLNKELELKIRNLTVQLQIMNQSLqksVNMTVKFFKEKTYYEKL 128
                                       5677889*****88877777777776622268999999999999975 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (304 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1904  (0.106197); expected 358.6 (0.02)
Passed bias filter:                      504  (0.0281109); expected 358.6 (0.02)
Passed Vit filter:                        63  (0.00351386); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.61u 0.31s 00:00:00.92 Elapsed: 00:00:00.50
# Mc/sec: 1836.82
//
Query:       gi|331746833|ref|YP_004422870.1|  [L=111]
Description: metal-dependent phosphohydrolase [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
    3.1e-13   50.0   1.1    3.3e-13   49.9   1.1    1.1  1  HD_3           HD domain
    1.2e-05   25.2   1.0    1.2e-05   25.2   1.0    1.1  1  HD_2           HD containing hydrolase-like enzyme
      0.007   16.5   1.5      0.011   15.9   1.5    1.3  1  DUF4441        Domain of unknown function (DUF4441)
  ------ inclusion threshold ------
      0.041   14.5   0.0      0.072   13.7   0.0    1.4  1  T_Ag_DNA_bind  Origin of replication binding protein
      0.061   13.8   0.1        0.1   13.1   0.1    1.3  1  DUF668         Protein of unknown function (DUF668)
       0.65   10.1   3.1       0.94    9.6   1.9    1.8  2  DUF4337        Domain of unknown function (DUF4337)


Domain annotation for each model (and alignments):
>> HD_3  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   49.9   1.1   1.1e-16   3.3e-13      59     142 ..       1      84 [.       1     105 [. 0.91

  Alignments for each domain:
  == domain 1  score: 49.9 bits;  conditional E-value: 1.1e-16
                              HD_3  59 lvEiltgDiispdelakeekeeeekeaaerilkllpeelaeellalweEFeeretkeakfakdlDklepllqaleke 135
                                       ++E+   D+++ ++   + kee eke++++++ +lp ++++ + ++++E++e+++kea +++d Dkl++llqa+e++
  gi|331746833|ref|YP_004422870.1|   1 MAEVRLLDLPARAKKYIKNKEELEKEIMKDLIDNLPTSIKRIFFDTFNEYQEKKSKEAIITHDADKLDMLLQAIEYS 77 
                                       789999*****999999************************************************************ PP

                              HD_3 136 gdslaaf 142
                                       ++ ++  
  gi|331746833|ref|YP_004422870.1|  78 KQGYNTE 84 
                                       9987754 PP

>> HD_2  HD containing hydrolase-like enzyme
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   25.2   1.0   3.9e-09   1.2e-05      77     150 ..      12      82 ..       1     104 [. 0.81

  Alignments for each domain:
  == domain 1  score: 25.2 bits;  conditional E-value: 3.9e-09
                              HD_2  77 pvKyanpeireaykevEeeaeekllelLpeelreeyeella.deeaeeeekklvkaaDklsalikcleelkagnk 150
                                         K +     ++ +e+E+e  + l++ Lp+++++ + + ++  +e++++e  + + aDkl+ l++++e  k+g +
  gi|331746833|ref|YP_004422870.1|  12 RAKKY----IKNKEELEKEIMKDLIDNLPTSIKRIFFDTFNeYQEKKSKEAIITHDADKLDMLLQAIEYSKQGYN 82 
                                       44433....3567899************************6477777788889999************9999865 PP

>> DUF4441  Domain of unknown function (DUF4441)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   1.5   3.6e-06     0.011      42     112 ..      11      88 ..       4      92 .. 0.86

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 3.6e-06
                           DUF4441  42 kkfkryikkkk.fnnstlklLikh......knygkiFkyfLeneakewLenskvkdkeshikiiefllkcfedkkll 111
                                        + k+yik+k+   + ++k+Li++      + +   F+++ e+++ke +     ++++  +++ie+ ++ ++ ++ +
  gi|331746833|ref|YP_004422870.1|  11 ARAKKYIKNKEeLEKEIMKDLIDNlptsikRIFFDTFNEYQEKKSKEAIITHDADKLDMLLQAIEYSKQGYNTEEWI 87 
                                       6789*******999********9844333345667899*********************************999877 PP

                           DUF4441 112 d 112
                                       +
  gi|331746833|ref|YP_004422870.1|  88 K 88 
                                       6 PP

>> T_Ag_DNA_bind  Origin of replication binding protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.7   0.0   2.4e-05     0.072       3      78 ..      35     110 ..      33     111 .] 0.79

  Alignments for each domain:
  == domain 1  score: 13.7 bits;  conditional E-value: 2.4e-05
                     T_Ag_DNA_bind   3 lPaeleaylsa..aifsnktleafliyttkeKlkeLykkllekfkvkfkllakyeekavlllitakkhRvsavknfc 77 
                                       lP++++         + +k  +  +i   ++Kl  L + +  +++ +++ + ++ ++ +  lit++ +R++ v   c
  gi|331746833|ref|YP_004422870.1|  35 LPTSIKRIFFDtfNEYQEKKSKEAIITHDADKLDMLLQAI--EYSKQGYNTEEWIKDVLSSLITPTAKRIADVILRC 109
                                       5666665443311346666666777888899*********..9****************************998777 PP

                     T_Ag_DNA_bind  78 k 78 
                                       k
  gi|331746833|ref|YP_004422870.1| 110 K 110
                                       6 PP

>> DUF668  Protein of unknown function (DUF668)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.1   0.1   3.4e-05       0.1      18      78 ..      13      72 ..       8      75 .. 0.86

  Alignments for each domain:
  == domain 1  score: 13.1 bits;  conditional E-value: 3.4e-05
                            DUF668 18 ieklvarsssvpesardeLYqmLpasvrsalrakLrslekkeavdellaaeikeevekiLe 78
                                      ++k+++++++++++  ++L ++Lp+s++  +    +++++k + +e  +++ +++++  L+
  gi|331746833|ref|YP_004422870.1| 13 AKKYIKNKEELEKEIMKDLIDNLPTSIKRIFFDTFNEYQEK-KSKEAIITHDADKLDMLLQ 72
                                      67899999*******************************99.5577777777777777776 PP

>> DUF4337  Domain of unknown function (DUF4337)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    0.1   0.2      0.26   7.7e+02      84      99 ..      11      26 ..       3      34 .. 0.75
   2 ?    9.6   1.9   0.00031      0.94      37      68 ..      44      76 ..      17     100 .. 0.80

  Alignments for each domain:
  == domain 1  score: 0.1 bits;  conditional E-value: 0.26
                           DUF4337 84 kkiarykkekkeikkk 99
                                      +++++y k+k+e++k+
  gi|331746833|ref|YP_004422870.1| 11 ARAKKYIKNKEELEKE 26
                                      6778888888877764 PP

  == domain 2  score: 9.6 bits;  conditional E-value: 0.00031
                           DUF4337 37 sdqWafYQAksikehlaeleleqlelllkak.a 68
                                       d+++ YQ k+ ke ++  ++++l++ll+a   
  gi|331746833|ref|YP_004422870.1| 44 FDTFNEYQEKKSKEAIITHDADKLDMLLQAIeY 76
                                      699***********************9988641 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (111 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1117  (0.0623013); expected 358.6 (0.02)
Passed bias filter:                      528  (0.0294495); expected 358.6 (0.02)
Passed Vit filter:                        54  (0.00301188); expected 17.9 (0.001)
Passed Fwd filter:                         6  (0.000334653); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               6  [number of targets reported over threshold]
# CPU time: 0.45u 0.28s 00:00:00.73 Elapsed: 00:00:00.44
# Mc/sec: 750.45
//
Query:       gi|331746834|ref|YP_004422871.1|  [L=745]
Description: hypothetical protein TERMP_02256 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    4.7e-10   39.6   0.0    2.2e-09   37.4   0.0    2.1  2  NACHT     NACHT domain
     0.0093   16.4   0.0      0.028   14.8   0.0    1.8  1  AAA_16    AAA ATPase domain
  ------ inclusion threshold ------
      0.074   13.4   0.0          3    8.2   0.0    3.1  3  AAA_19    AAA domain


Domain annotation for each model (and alignments):
>> NACHT  NACHT domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   37.4   0.0   3.7e-13   2.2e-09       8     163 ..     139     293 ..     134     295 .. 0.80
   2 ?   -2.7   0.0      0.83     5e+03      79      97 ..     401     419 ..     379     435 .. 0.74

  Alignments for each domain:
  == domain 1  score: 37.4 bits;  conditional E-value: 3.7e-13
                                       -TTTCHHHHHHHHHHHHCTS-SCCCC-SEEEEEETTTTTTS-.......-HCHHHCCCCTS--SSS-C....CHHHH CS
                             NACHT   8 eaGsGKTtLlqklalawaegklpqgafklvFflslrelsrsgna....rsladllfsqlpepaapvse....vwavl 76 
                                        +G+GK++Ll+k+ ++ ++++ ++ +   ++f++ r++s   +      s+++ll + l e++ p  +     ++++
  gi|331746834|ref|YP_004422871.1| 139 NPGQGKSILLKKIFSKVKDQYKKNRE-FIPLFIEIRKISSFFEKhnngKSFKTLLWKYLTEEEIPKFPlsykEFENR 214
                                       68*******************99986.8999999999987655566789*******999999888877554444444 PP

                                       CCSCCCEEEEEE-STT-SS-TCH.........HHHHHCTTTTT--EEEEEEECCCHHH..HCTTSSCE........E CS
                             NACHT  77 lelperlLlilDglDelvtdlgqkekqpvrtlLselirkkllpeasllltvrpralrd..leeqleea......ivl 145
                                       + ++ ++ +ilDglDe++  l         t L++ i++  l  ++ll+++r +  +          +      + +
  gi|331746834|ref|YP_004422871.1| 215 I-NKGKIIFILDGLDEAPPSL--------LTSLNKDIEA--LGHCPLLISCRKNEYQLyvKN-----SeldqitEKI 275
                                       4.456788**********844........4589999999..*************99554423.....2233457889 PP

                                       EEE--TCCHHHHHHHHCT CS
                             NACHT 146 evegfsesrrkqlvrkyf 163
                                       e+ ++ +++++++v+ y+
  gi|331746834|ref|YP_004422871.1| 276 EILPMDYEKIETFVSNYI 293
                                       **************9986 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 0.83
                                       SCCCEEEEEE-STT-SS-T CS
                             NACHT  79 lperlLlilDglDelvtdl 97 
                                        ++r+ +++D l e+ + +
  gi|331746834|ref|YP_004422871.1| 401 KQNRTYFTIDELKEITNRF 419
                                       3566668888888877655 PP

>> AAA_16  AAA ATPase domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   14.8   0.0   4.7e-06     0.028      25     164 ..     132     244 ..     117     252 .. 0.80

  Alignments for each domain:
  == domain 1  score: 14.8 bits;  conditional E-value: 4.7e-06
                            AAA_16  25 elvllsGesGvGKsslvrellralekdggiflrgkcdqlesaipysalaqalareellrqlldeaesaeleawrekl 101
                                        + l+  ++G GKs l+++++  ++++     + k++++   ip+ +  ++ + ++++++ ++ ++  +   w+   
  gi|331746834|ref|YP_004422871.1| 132 KSYLVLSNPGQGKSILLKKIFSKVKDQ-----YKKNREF---IPLFI--EIRKISSFFEKHNNGKSF-KTLLWKYLT 197
                                       6789999**************988888.....9999999...88855..44444599****999777.888899999 PP

                            AAA_16 102 eealaavpelagaeasrllellkrllallsrderplvlvlDdlqwadeaslqllaaLlrlles 164
                                       ee++             +    k++ +++ + ++ ++++lD l+ a +   +ll +L ++ e+
  gi|331746834|ref|YP_004422871.1| 198 EEEIP-----------KFPLSYKEFENRINK-GK-IIFILDGLDEAPP---SLLTSLNKDIEA 244
                                       99999...........9*********99999.88.******9997666...666666666665 PP

>> AAA_19  AAA domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.2   0.0   0.00051         3       7      41 ..     128     162 ..     122     243 .. 0.86
   2 ?    0.1   0.0      0.15     9e+02      69     115 ..     340     416 ..     271     423 .. 0.65
   3 ?    0.5   0.0      0.12   7.1e+02      53      93 ..     526     603 ..     452     649 .. 0.77

  Alignments for each domain:
  == domain 1  score: 8.2 bits;  conditional E-value: 0.00051
                            AAA_19   7 alkekvllvtaGpGtGKTrvlkhivallvelggvk 41 
                                       ++k+k  lv+  pG GK+ +lk+i + ++++ + +
  gi|331746834|ref|YP_004422871.1| 128 TMKNKSYLVLSNPGQGKSILLKKIFSKVKDQYKKN 162
                                       678999*******************9999887654 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 0.15
                            AAA_19  69 atTiH.rlal.................................ldfddll...tealelleeaeeekklqeeelliv 108
                                        +TiH +l++                                 ld+d+++   t+ +++l +       q+++++ +
  gi|331746834|ref|YP_004422871.1| 340 SMTIHlYLSEpqrlkhwniyqlyfhyvtniiayetnkkqkhakLDIDTKQkilTDLAGFLFK-------QNRTYFTI 409
                                       66777444446777777777766666666766666666655553333322000222222222.......45568888 PP

                            AAA_19 109 DEfqdvd 115
                                       DE  +++
  gi|331746834|ref|YP_004422871.1| 410 DELKEIT 416
                                       8887776 PP

  == domain 3  score: 0.5 bits;  conditional E-value: 0.12
                            AAA_19  53 rAakelrerlaalgaeatTiHrlal........................................ldfddllteale 89 
                                       +  +e++e +    ++ +T H+la+                                         + +d+l+e l 
  gi|331746834|ref|YP_004422871.1| 526 KTKREISEII---MGKQQTAHYLAIlipylsedikedienfligklrtetnkfitrgirvglfrhANRKDILKEYLR 599
                                       4455666666...6778999999988888888877777777777777777777777777776666555566655555 PP

                            AAA_19  90 llee 93 
                                       lle+
  gi|331746834|ref|YP_004422871.1| 600 LLEK 603
                                       5554 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (745 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1404  (0.0783089); expected 358.6 (0.02)
Passed bias filter:                      527  (0.0293937); expected 358.6 (0.02)
Passed Vit filter:                        53  (0.0029561); expected 17.9 (0.001)
Passed Fwd filter:                         3  (0.000167327); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               3  [number of targets reported over threshold]
# CPU time: 0.71u 0.30s 00:00:01.01 Elapsed: 00:00:00.45
# Mc/sec: 5004.72
//
Query:       gi|331746835|ref|YP_004422872.1|  [L=257]
Description: hypothetical protein TERMP_02257 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.5e-09   35.7   0.0    1.6e-08   35.0   0.0    1.3  1  AbiEi_1   AbiEi antitoxin C-terminal domain
     0.0013   18.7   0.0     0.0034   17.4   0.0    1.7  2  HTH_20    Helix-turn-helix domain
  ------ inclusion threshold ------
      0.014   15.5   0.0       0.03   14.5   0.0    1.6  1  AbiEi_4   Transcriptional regulator, AbiEi antitoxin
      0.014   15.5   0.0      0.084   13.0   0.0    2.3  2  Mrr_N     Mrr N-terminal domain
      0.023   14.6   0.0       0.06   13.2   0.0    1.7  1  TrmB      Sugar-specific transcriptional regulator TrmB
      0.068   12.7   0.1       0.97    8.9   0.0    2.1  2  MMTV_SAg  Mouse mammary tumour virus superantigen
      0.071   12.5   0.0       0.13   11.7   0.0    1.4  1  RepL      Firmicute plasmid replication protein (RepL)
       0.11   12.4   0.0       0.27   11.1   0.0    1.7  1  HTH_5     Bacterial regulatory protein, arsR family
       0.16   11.9   0.0       0.39   10.7   0.0    1.6  1  MarR_2    MarR family
       0.18   11.8   1.1       0.59   10.2   0.0    2.3  3  HTH_45    Winged helix-turn-helix


Domain annotation for each model (and alignments):
>> AbiEi_1  AbiEi antitoxin C-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   35.0   0.0     9e-12   1.6e-08      23     140 ..      83     202 ..      67     205 .. 0.81

  Alignments for each domain:
  == domain 1  score: 35.0 bits;  conditional E-value: 9e-12
                           AbiEi_1  23 llsAawlhGaahrqpqriqvlvpk..pakkipkglarvefvvrinvaa.lptkdvaaeaggvpvssPeatavdlatr 96 
                                         sA  ++G+ ++ p+   v  p+    +ki + + r + +v+++ ++    +  +  +  v ++ Pe t+vd   +
  gi|331746835|ref|YP_004422872.1|  83 YWSALNYYGLTEQIPNITFVQTPRkrGYEKIVEFNNRKFKIVTVKPSKfFGLNTAKIGRRKVNITDPEKTIVDCLDK 159
                                       569*************999999974444677777777777766544331333344468999**************** PP

                           AbiEi_1  97 psavggldnvlevLdelaeevkpeeLeellsgrp.asvlqRlgyL 140
                                       p ++gg  +v+++L++  ++ ++e+L + ++ ++ ++ l+Rlgy+
  gi|331746835|ref|YP_004422872.1| 160 PRYCGGIIEVVKALKN--ASFNQEKLLQYAQRMEnKAILKRLGYI 202
                                       *******999999997..689**********99999********7 PP

>> HTH_20  Helix-turn-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.4   0.0   1.9e-06    0.0034      19      59 ..      11      51 ..       3      53 .. 0.88
   2 ?   -2.7   0.0       3.6   6.4e+03      19      34 ..     157     170 ..     152     184 .. 0.60

  Alignments for each domain:
  == domain 1  score: 17.4 bits;  conditional E-value: 1.9e-06
                                      HSTCTTB-HHHHHHHHTS-HHHHHHHHHHHHHCTTEEEECT CS
                            HTH_20 19 LaraegltaselaerldlskntlsyHLrvLeeagLvevvre 59
                                      L  +e++t  e  + l +++n l y L++L+eag++++ + 
  gi|331746835|ref|YP_004422872.1| 11 LELGEAFTIQEALDHLKIDRNLLKYYLKTLSEAGFIKRIGK 51
                                      4679********************************99875 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 3.6
                                       HSTCTTB-HHHHHHHH CS
                            HTH_20  19 Laraegltaselaerl 34 
                                       L  ++++ ++ + e +
  gi|331746835|ref|YP_004422872.1| 157 L--DKPRYCGGIIEVV 170
                                       5..6666665554444 PP

>> AbiEi_4  Transcriptional regulator, AbiEi antitoxin
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.5   0.0   1.7e-05      0.03      10      49 .]      14      57 ..       5      57 .. 0.84

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 1.7e-05
                           AbiEi_4 10 qvGlfttrelea.aGispsa....lrrLvrkGwLvrlrrGvYali 49
                                      +   ft +e+   + i+++     l  L ++G + r+++G+Ya++
  gi|331746835|ref|YP_004422872.1| 14 G-EAFTIQEALDhLKIDRNLlkyyLKTLSEAGFIKRIGKGIYAIT 57
                                      4.68*****988899999778999*******************85 PP

>> Mrr_N  Mrr N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.0   4.7e-05     0.084      51      79 ..      30      58 ..      11      60 .. 0.91
   2 ?   -1.2   0.0       1.2   2.2e+03      27      38 ..     210     221 ..     179     228 .. 0.60

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 4.7e-05
                             Mrr_N 51 knrvgWartyLkkagllespkrgvwkiTe 79
                                      +n + +++++L++ag++++  +g++ iT+
  gi|331746835|ref|YP_004422872.1| 30 RNLLKYYLKTLSEAGFIKRIGKGIYAITP 58
                                      5678899*********************7 PP

  == domain 2  score: -1.2 bits;  conditional E-value: 1.2
                             Mrr_N  27 vaerfglseeer 38 
                                       ++e+++ls+++r
  gi|331746835|ref|YP_004422872.1| 210 LEEKIQLSDKDR 221
                                       334445555544 PP

>> TrmB  Sugar-specific transcriptional regulator TrmB
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   3.3e-05      0.06      11      57 ..       4      51 ..       2      62 .. 0.87

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 3.3e-05
                                      CCHCHHHHHHCCC.HHCHHCCCTTSSCHCHHHHHHHHHHCTSEEEESS CS
                              TrmB 11 akvYlaLlklgpa.tadeiaeelgvprskvYevLrsLedkGlVerekg 57
                                      ++v ++Ll+lg+a t++e   +l+++r+    +L+ L+++G+++r+ +
  gi|331746835|ref|YP_004422872.1|  4 MEVLTKLLELGEAfTIQEALDHLKIDRNLLKYYLKTLSEAGFIKRIGK 51
                                      68999***8887549*****************************9854 PP

>> MMTV_SAg  Mouse mammary tumour virus superantigen
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    8.9   0.0   0.00054      0.97      46     104 ..     155     215 ..     133     226 .. 0.74
   2 ?    1.6   0.0     0.096   1.7e+02     146     167 ..     226     247 ..     215     251 .. 0.85

  Alignments for each domain:
  == domain 1  score: 8.9 bits;  conditional E-value: 0.00054
                          MMTV_SAg  46 esvePlkfctselelvtqlrneslsikdlllqlqkleveqrmgie..kskrksssveeqvr 104
                                       +  +  ++c   +e+v  l+n s   ++ll   q++e +  +  +   s+r +  +ee+++
  gi|331746835|ref|YP_004422872.1| 155 DCLDKPRYCGGIIEVVKALKNASFNQEKLLQYAQRMENKAILKRLgyISERLGLGLEEKIQ 215
                                       344444******************************9766555442146777777777765 PP

  == domain 2  score: 1.6 bits;  conditional E-value: 0.096
                          MMTV_SAg 146 fddaPLPYtGaYdedgdrwvnv 167
                                         d+ +P  G+++ ++ ++vnv
  gi|331746835|ref|YP_004422872.1| 226 LLDPTMPAKGKFNYKWGLLVNV 247
                                       56999***************98 PP

>> RepL  Firmicute plasmid replication protein (RepL)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.7   0.0   7.4e-05      0.13      94     118 ..      35      59 ..      18      60 .. 0.89

  Alignments for each domain:
  == domain 1  score: 11.7 bits;  conditional E-value: 7.4e-05
                              RepL  94 etlkileeanilkkkanGvlvinPd 118
                                         lk l ea+++k++ +G++ i Pd
  gi|331746835|ref|YP_004422872.1|  35 YYLKTLSEAGFIKRIGKGIYAITPD 59 
                                       569*********************8 PP

>> HTH_5  Bacterial regulatory protein, arsR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.0   0.00015      0.27       5      46 ..       4      47 ..       2      48 .. 0.88

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 0.00015
                                      HHHHHHHTT.SS.EEHHHHHHHHTS-HHHHHHHHHHHHHTTSEE CS
                             HTH_5  5 lkILklLae.ge.lcvcelaeelglsqstvShHLkkLreaGLVe 46
                                       ++L  L e ge  ++ e  ++l++ +  + ++Lk L eaG+++
  gi|331746835|ref|YP_004422872.1|  4 MEVLTKLLElGEaFTIQEALDHLKIDRNLLKYYLKTLSEAGFIK 47
                                      57788888888878999999**********************96 PP

>> MarR_2  MarR family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.7   0.0   0.00022      0.39      15      53 ..      14      48 ..       4      52 .. 0.86

  Alignments for each domain:
  == domain 1  score: 10.7 bits;  conditional E-value: 0.00022
                                      HCTTTSEEEHHHHHHHHTSSHHHHHHHHHHHHHTTSEEE CS
                            MarR_2 15 grrpgrdltvgelarrlglsksavsrilkrLvaaGLver 53
                                      g +    +t++e  ++l++++  + + lk L++aG++ r
  gi|331746835|ref|YP_004422872.1| 14 GEA----FTIQEALDHLKIDRNLLKYYLKTLSEAGFIKR 48
                                      333....9*****************************88 PP

>> HTH_45  Winged helix-turn-helix
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.2   0.0   0.00033      0.59      31      59 ..      28      57 ..       3      60 .. 0.87
   2 ?   -2.9   0.0         4   7.2e+03      21      35 ..      77      91 ..      76      98 .. 0.75
   3 ?   -1.5   0.1       1.5   2.6e+03      26      49 ..     173     196 ..     164     201 .. 0.78

  Alignments for each domain:
  == domain 1  score: 10.2 bits;  conditional E-value: 0.00033
                            HTH_45 31 LsykllnkYLdmLvekglikk.skekYvlT 59
                                      ++ +ll+ YL++L e g+ik   k+ Y +T
  gi|331746835|ref|YP_004422872.1| 28 IDRNLLKYYLKTLSEAGFIKRiGKGIYAIT 57
                                      56678999***********988999***99 PP

  == domain 2  score: -2.9 bits;  conditional E-value: 4
                            HTH_45 21 kkTkimykanLsykl 35
                                      k+++i y + L+y  
  gi|331746835|ref|YP_004422872.1| 77 KPSAIAYWSALNYYG 91
                                      578899999999865 PP

  == domain 3  score: -1.5 bits;  conditional E-value: 1.5
                            HTH_45  26 mykanLsykllnkYLdmLvekgli 49 
                                       +++a  + + l +Y + + +k ++
  gi|331746835|ref|YP_004422872.1| 173 LKNASFNQEKLLQYAQRMENKAIL 196
                                       577888888888998888887665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (257 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       611  (0.0340789); expected 358.6 (0.02)
Passed bias filter:                      525  (0.0292822); expected 358.6 (0.02)
Passed Vit filter:                        50  (0.00278878); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):              10  [number of targets reported over threshold]
# CPU time: 0.59u 0.28s 00:00:00.87 Elapsed: 00:00:00.49
# Mc/sec: 1562.86
//
Query:       gi|331746836|ref|YP_004422873.1|  [L=275]
Description: hypothetical protein TERMP_02258 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    9.6e-31  107.6   1.0    1.2e-30  107.2   1.0    1.1  1  AbiEii    Nucleotidyl transferase AbiEii toxin, Type IV TA sy


Domain annotation for each model (and alignments):
>> AbiEii  Nucleotidyl transferase AbiEii toxin, Type IV TA system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  107.2   1.0   6.8e-35   1.2e-30       1     237 [.      28     259 ..      28     261 .. 0.85

  Alignments for each domain:
  == domain 1  score: 107.2 bits;  conditional E-value: 6.8e-35
                            AbiEii   1 rlLfalslsaladklvFkGGTaLslayglipRfSeDIDlsllr.gdrkellealkealeeiaaalaeeglkvklaas 76 
                                       ++L++ ++s l ++l+FkGGT+L +ay+ ++RfSeD+D +l+   + ++l e+l++ le + a ++e +  +++   
  gi|331746836|ref|YP_004422873.1|  28 WILYGVWRSGLWKDLAFKGGTCLKKAYFSDYRFSEDLDYTLTGkVSEDKLKERLERMLEFANAGPVEFLGLEFELRY 104
                                       5899999999******************************9889999999999999999999999997776555433 PP

                            AbiEii  77 igege...dyeglrlrypaef..ggyarqkikieigfreav...ppaerreippyleel.ggpafevpvysleella 144
                                        g++    +  g+ +++p ++    + ++kik++i+++      +p +++e+ + +++  ++  ++++ yslee++ 
  gi|331746836|ref|YP_004422873.1| 105 -GVRNfegELLGFEVKIPFRLvrRTGTPSKIKMDITLEKYEkivLPLQEKELLHEYSDAdKFSLVRLKSYSLEEIFT 180
                                       .33334576677777999999**999999******9876556678887777777777779***************** PP

                            AbiEii 145 eKllalldrgrdrsraRDlyDlalLle.aeldaealaeallaylasrgrpgelrlaplellreaeadealradwkaf 220
                                       eK+++l+    +r+r+RDlyD++ L +  el+++    +l ++++ ++   +++l+    ++e++++   ++ w++ 
  gi|331746836|ref|YP_004422873.1| 181 EKVRSLF----QRTRPRDLYDVWKLKDiIELETAF--SILPEKFRLKNV--QFELEI---FKERRIYY--ERAWERS 244
                                       *******....****************98888888..999999999999..999999...77777755..7799999 PP

                            AbiEii 221 lamllggepdpafdaal 237
                                       la++   +p+  fd+++
  gi|331746836|ref|YP_004422873.1| 245 LAHQINPLPE--FDKVW 259
                                       9998877777..88765 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (275 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       397  (0.0221429); expected 358.6 (0.02)
Passed bias filter:                      300  (0.0167327); expected 358.6 (0.02)
Passed Vit filter:                        31  (0.00172904); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.53u 0.27s 00:00:00.80 Elapsed: 00:00:00.47
# Mc/sec: 1765.24
//
Query:       gi|331746837|ref|YP_004422874.1|  [L=59]
Description: hypothetical protein TERMP_02259 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    9.1e-12   45.3   0.0    9.7e-12   45.2   0.0    1.0  1  Resolvase       Resolvase, N terminal domain
  ------ inclusion threshold ------
      0.017   14.4   0.0      0.017   14.4   0.0    1.0  1  Glyco_hydro_97  Glycoside hydrolase 97


Domain annotation for each model (and alignments):
>> Resolvase  Resolvase, N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   45.2   0.0   1.1e-15   9.7e-12       1      55 [.       5      58 ..       5      59 .] 0.93

  Alignments for each domain:
  == domain 1  score: 45.2 bits;  conditional E-value: 1.1e-15
                                      EEEEEEES-----THHHHHHHHHHHH-S--..SE...EEEE.S-TT-..TT-HHHHH CS
                         Resolvase  1 aigYaRvSteeqddslerQkealrayakenglkivkefeDkgvSGak..leRpglkr 55
                                      a++Y RvSteeq+   ++Q+e + +ya+e+g+ +vk+fe++ +SG++  leRp +k+
  gi|331746837|ref|YP_004422874.1|  5 AVVYSRVSTEEQN--PKAQLEVVLQYAQERGYGVVKIFEEH-ISGSTdpLERPVFKS 58
                                      699**********..*******************9******.*****6557**9986 PP

>> Glyco_hydro_97  Glycoside hydrolase 97
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.4   0.0   1.9e-06     0.017      71     115 ..      11      55 ..       4      59 .] 0.87

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 1.9e-06
                    Glyco_hydro_97  71 fdftkpypdfdleelvaYakekgvgvelwlhsetsgnvanlekql 115
                                        ++ +++p+ +le +++Ya+e+g gv+ + +++ sg++++le+ +
  gi|331746837|ref|YP_004422874.1|  11 VSTEEQNPKAQLEVVLQYAQERGYGVVKIFEEHISGSTDPLERPV 55 
                                       677899*********************999999999999999875 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (59 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       480  (0.0267723); expected 358.6 (0.02)
Passed bias filter:                      440  (0.0245412); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.27s 00:00:00.77 Elapsed: 00:00:00.48
# Mc/sec: 367.53
//
Query:       gi|331746838|ref|YP_004422875.1|  [L=115]
Description: hypothetical protein TERMP_02260 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
  ------ inclusion threshold ------
      0.012   15.7   0.1      0.066   13.3   0.0    1.9  2  Resolvase  Resolvase, N terminal domain


Domain annotation for each model (and alignments):
>> Resolvase  Resolvase, N terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.3   0.0   3.7e-06     0.066     117     145 ..       3      31 ..       1      32 [. 0.93
   2 ?    0.4   0.0     0.036   6.4e+02      17      41 ..      53      76 ..      45      96 .. 0.69

  Alignments for each domain:
  == domain 1  score: 13.3 bits;  conditional E-value: 3.7e-06
                                       HHHHHHHHHHHHHHCT-TTHHHHHHHHHH CS
                         Resolvase 117 ilaalaeferelirertkeglaaakakGk 145
                                       + +++a +er +i+ rtk gl + k++Gk
  gi|331746838|ref|YP_004422875.1|   3 VKSWFASYERLQISLRTKYGLMRLKKEGK 31 
                                       5689************************8 PP

  == domain 2  score: 0.4 bits;  conditional E-value: 0.036
                                      HHHHHHHHHH-S--..SE...EEEE CS
                         Resolvase 17 erQkealrayakenglkivkefeDk 41
                                      e  ke+l+ + k+  +kivk++ D+
  gi|331746838|ref|YP_004422875.1| 53 ELTKEELESARKQL-VKIVKKYWDN 76
                                      55566777777555.6677777776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (115 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       950  (0.0529868); expected 358.6 (0.02)
Passed bias filter:                      620  (0.0345808); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.45u 0.28s 00:00:00.73 Elapsed: 00:00:00.44
# Mc/sec: 777.97
//
Query:       gi|331746839|ref|YP_004422876.1|  [L=271]
Description: hypothetical protein TERMP_02261 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model           Description
    ------- ------ -----    ------- ------ -----   ---- --  --------        -----------
    1.2e-07   32.3   1.2    2.1e-07   31.6   1.2    1.4  1  DUF3800          Protein of unknown function (DUF3800)
     0.0014   17.4   0.0     0.0019   16.9   0.0    1.1  1  Arena_glycoprot  Arenavirus glycoprotein


Domain annotation for each model (and alignments):
>> DUF3800  Protein of unknown function (DUF3800)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   31.6   1.2   2.3e-11   2.1e-07       1     117 [.       4     209 ..       4     212 .. 0.73

  Alignments for each domain:
  == domain 1  score: 31.6 bits;  conditional E-value: 2.3e-11
                           DUF3800   1 liYiDESGdnklkdgsspyfvlggkkie..eikkleekikelkkky............................... 44 
                                       +i+ DE+G      g ++y++ + ++i   e+ + ++++ +lk++y                               
  gi|331746839|ref|YP_004422876.1|   4 FIFSDEAGR----IGVGNYYLRSVVVIPekEYFEASNEFLSLKEEYgipkdeelktsdiwflkicqeknspnlekrc 76 
                                       69******7....99999******6666799999****************************************999 PP

                           DUF3800  45 .......................................krlleriakflkkn....dlik.........sdeesde 69 
                                                                              ++++er++k  ++        +         ++e++++
  gi|331746839|ref|YP_004422876.1|  77 nkrlkkylvdskkgyeyymeflekslkliprssviivvwTYFFERVFKNQRDIerdfL--QtimlriedeLKEQGKR 151
                                       9999999999988887777777777777777777777776666666666555222210..02222333334444444 PP

                           DUF3800  70 silivldkkkkkekakkeleilld.........................esvkfvdSkesrglQlADlvagai 117
                                       +i++++                                           +s+ f+ S  s g+Q+AD++++++
  gi|331746839|ref|YP_004422876.1| 152 GIILYDVA---------------FlkplsrfyseiflrgefvekyshikDSIAFEVSTYSFGIQVADYISNIV 209
                                       55544444...............03344444445555556666667777*********************997 PP

>> Arena_glycoprot  Arenavirus glycoprotein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.9   0.0   2.2e-07    0.0019     370     458 ..      94     185 ..      87     190 .. 0.81

  Alignments for each domain:
  == domain 1  score: 16.9 bits;  conditional E-value: 2.2e-07
                                       EEEETTTXXBXXXEEX.XBSSSSBXXGGGSHHHHHHHHHHHHHHHHC.CXXXXXXXXXXXXXXXXXXXX.XXXXXXX CS
                   Arena_glycoprot 370 ylnhtktGetslpkcw.lvsngsylnetefsdeieqeadnlitemlr.keyierqGktplalvdlllfs.tsfylvs 443
                                       y++      + +p+   ++   +y+ e  f+++   e d+l t mlr  + ++ qGk  + l d+ +    s + + 
  gi|331746839|ref|YP_004422876.1|  94 YMEFLEKSLKLIPRSSvIIVVWTYFFERVFKNQRDIERDFLQTIMLRiEDELKEQGKRGIILYDVAFLKpLSRFYSE 170
                                       66666677777888651456789***********************9345789************88762688999* PP

                                       XXXXXXXXXXXXXXX CS
                   Arena_glycoprot 444 iflhlvkipthrhik 458
                                       ifl    +  + hik
  gi|331746839|ref|YP_004422876.1| 171 IFLRGEFVEKYSHIK 185
                                       **9887777777776 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (271 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       496  (0.0276647); expected 358.6 (0.02)
Passed bias filter:                      358  (0.0199677); expected 358.6 (0.02)
Passed Vit filter:                        20  (0.00111551); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.50u 0.26s 00:00:00.76 Elapsed: 00:00:00.45
# Mc/sec: 1816.29
//
Query:       gi|331746840|ref|YP_004422877.1|  [L=109]
Description: hypothetical protein TERMP_02262 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model       Description
    ------- ------ -----    ------- ------ -----   ---- --  --------    -----------
      7e-10   38.9   1.3    8.8e-10   38.6   1.3    1.0  1  Mrr_cat      Restriction endonuclease
     0.0021   18.3   0.5     0.0036   17.5   0.5    1.4  1  UPF0102      Uncharacterised protein family UPF0102
     0.0037   17.4   0.2     0.0051   17.0   0.2    1.3  1  MTES_1575    REase_MTES_1575
     0.0082   16.1   0.2     0.0096   15.9   0.2    1.1  1  SPOUT_MTase  Predicted SPOUT methyltransferase
  ------ inclusion threshold ------
      0.019   14.3   1.2      0.023   14.0   1.2    1.0  1  NucS         Endonuclease NucS
      0.053   14.0   0.1      0.075   13.5   0.1    1.3  1  DUF234       Archaea bacterial proteins of unknown function
      0.055   13.2   0.0      0.068   12.9   0.0    1.1  1  YfmQ         Uncharacterised protein from bacillus cereus gro
      0.067   13.3   0.5       0.11   12.7   0.1    1.5  2  DUF4143      Domain of unknown function (DUF4143)
      0.069   12.7   1.4       0.16   11.5   1.4    1.7  1  AHJR-like    REase_AHJR-like


Domain annotation for each model (and alignments):
>> Mrr_cat  Restriction endonuclease
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   38.6   1.3   4.4e-13   8.8e-10       6     104 ..       8     103 ..       4     107 .. 0.90

  Alignments for each domain:
  == domain 1  score: 38.6 bits;  conditional E-value: 4.4e-13
                                       TTCHHHHHHHHHHHHSSSEEE---B-TTSSB--EEEETTEEEEEEEEEEE--TS-B-HHHHHHHHHHCTTS..SEEE CS
                           Mrr_cat   6 pkeFeklvaellealGykeveltgrsgDggiDliakkdplgserilvqaKryknkvgvkeVqeligalkkrgadkgi 82 
                                       +  Fek +a+ +++ Gy  +e+++ ++   iD+iakk++  ++++++++K  k+ v + ++++l+ ++ + + +  +
  gi|331746840|ref|YP_004422877.1|   8 GSGFEKKIASRYKRAGYF-IERNKVKNGTEIDIIAKKKR--QKKLVIETKAGKQVVTSSVIRKLAEVARSIKGKPVL 81 
                                       678**************9.*****************976..47***************************9999999 PP

                                       EEESS-.B-HHHHHHHHTT--EE CS
                           Mrr_cat  83 fvttsd.ftkaAreeaeelnkie 104
                                       ++     +tk+A++ea++  +i+
  gi|331746840|ref|YP_004422877.1|  82 VIGPRVsLTKPAKKEAKK-RNIR 103
                                       9986544**********9.7665 PP

>> UPF0102  Uncharacterised protein family UPF0102
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.5   0.5   1.8e-06    0.0036       2      64 ..      12      68 ..      11      77 .. 0.71

  Alignments for each domain:
  == domain 1  score: 17.5 bits;  conditional E-value: 1.8e-06
                                      HHHHHHHHHHTT-EEEEEEEEETTEEEEEEE...TTEEEEEEEEE-......-------HHHHHHH CS
                           UPF0102  2 EelaaeyLekkgyeilernwrcragEiDiia...tevlvfvEVKtRssekfgspaeavtprKqrrl 64
                                      E+  a+  +++gy i  ++++ +  EiDiia   ++  +++E K+         ++ vt + +r+l
  gi|331746840|ref|YP_004422877.1| 12 EKKIASRYKRAGYFIERNKVK-NGTEIDIIAkkkRQKKLVIETKAG--------KQVVTSSVIRKL 68
                                      777888889999977666664.568*******99667889999984........344444444444 PP

>> MTES_1575  REase_MTES_1575
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   17.0   0.2   2.5e-06    0.0051       1      46 [.      11      56 ..      11      76 .. 0.89

  Alignments for each domain:
  == domain 1  score: 17.0 bits;  conditional E-value: 2.5e-06
                         MTES_1575  1 FeeeVaeaLrergykvkpqvgvggfriDlvvedpgkyllaIecdgd 46
                                      Fe+++a++ ++ gy ++++   +g +iD++ +++++++l+Ie+   
  gi|331746840|ref|YP_004422877.1| 11 FEKKIASRYKRAGYFIERNKVKNGTEIDIIAKKKRQKKLVIETKAG 56
                                      9******************999********************9765 PP

>> SPOUT_MTase  Predicted SPOUT methyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.9   0.2   4.8e-06    0.0096      50     119 ..      28      99 ..      10     105 .. 0.82

  Alignments for each domain:
  == domain 1  score: 15.9 bits;  conditional E-value: 4.8e-06
                                       HHHHHHHH..T--....TT-EEEEE-TTSEE--HHHHHHHHHHHHHHT-.-EEEEE--TT---GGGGGG-SE CS
                       SPOUT_MTase  50 kakekege..rilkklkkkayvillderGkelsSeelakkleklaeegkselvfvIGGsdGlseevkkrade 119
                                       ++k k+g+   i++k k+++ +++ ++ Gk++ + +  +kl+++a++ k + v+vIG    l++  kk+a++
  gi|331746840|ref|YP_004422877.1|  28 RNKVKNGTeiDIIAKKKRQKKLVIETKAGKQVVTSSVIRKLAEVARSIKGKPVLVIGPRVSLTKPAKKEAKK 99 
                                       3444444412666888999999999*********************************99999999998876 PP

>> NucS  Endonuclease NucS
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   14.0   1.2   1.2e-05     0.023     129     211 ..      27     107 ..      17     108 .. 0.76

  Alignments for each domain:
  == domain 1  score: 14.0 bits;  conditional E-value: 1.2e-05
                              NucS 129 areyavaiGivdiLgkdeegklvivelkrrkaevdaveqLkryvellkedsvldkvrGvlvapsittdaekllkeeg 205
                                       +r+       +di++k +++k +++e k  k  v + + + r + ++ +    ++v  +    s+t+ a+k +k+++
  gi|331746840|ref|YP_004422877.1|  27 ERNKVKNGTEIDIIAKKKRQKKLVIETKAGKQ-VVTSSVI-RKLAEVARSIKGKPVLVIGPRVSLTKPAKKEAKKRN 101
                                       5555555557******************9954.4444445.55555555555478887777889************* PP

                              NucS 206 lefkel 211
                                       ++++++
  gi|331746840|ref|YP_004422877.1| 102 IRIRKV 107
                                       **9986 PP

>> DUF234  Archaea bacterial proteins of unknown function
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.5   0.1   3.8e-05     0.075      51      89 ..      13      55 ..       7      67 .. 0.77

  Alignments for each domain:
  == domain 1  score: 13.5 bits;  conditional E-value: 3.8e-05
                            DUF234 51 gklpfrftkvGrwW.....kkeeeiDivaldeeekkalfgEvKw 89
                                      +k+  r+++ G +      k+++eiDi+a ++++k  l++E K 
  gi|331746840|ref|YP_004422877.1| 13 KKIASRYKRAGYFIernkvKNGTEIDIIAKKKRQK-KLVIETKA 55
                                      55666777777777666556899**********97.78899985 PP

>> YfmQ  Uncharacterised protein from bacillus cereus group
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.9   0.0   3.4e-05     0.068      62     111 ..      16      66 ..       7      81 .. 0.83

  Alignments for each domain:
  == domain 1  score: 12.9 bits;  conditional E-value: 3.4e-05
                              YfmQ  62 iqefn.eaiflekyyiyPgdeelflepeeggtPlvietkkGkkdvklfvys 111
                                        +++   + f+e+  +  g e   +  ++ +  lvietk Gk+ v+ +v +
  gi|331746840|ref|YP_004422877.1|  16 ASRYKrAGYFIERNKVKNGTEIDIIAKKKRQKKLVIETKAGKQVVTSSVIR 66 
                                       445541458**********************************99988765 PP

>> DUF4143  Domain of unknown function (DUF4143)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.7   0.1   5.4e-05      0.11      93     122 .]      24      56 ..       7      56 .. 0.77
   2 ?   -1.8   0.0       1.6   3.2e+03      27      44 ..      90     108 ..      65     109 .] 0.63

  Alignments for each domain:
  == domain 1  score: 12.7 bits;  conditional E-value: 5.4e-05
                                       xxxxxx...xxxxxxxxxxxxxxxxxxxxxxxx RF
                           DUF4143  93 yyyrdk...ngaEvDfvielkggkivpiEvKss 122
                                       y+ +++   ng E+D++ ++k +k   iE K++
  gi|331746840|ref|YP_004422877.1|  24 YFIERNkvkNGTEIDIIAKKKRQKKLVIETKAG 56 
                                       4444445757*********************85 PP

  == domain 2  score: -1.8 bits;  conditional E-value: 1.6
                                       xxx.xxxxxxxxxxxxxxx RF
                           DUF4143  27 wse.spnskkrlrkspKly 44 
                                       +++  ++ kkr ++  K+y
  gi|331746840|ref|YP_004422877.1|  90 TKPaKKEAKKRNIRIRKVY 108
                                       3334566667777777776 PP

>> AHJR-like  REase_AHJR-like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.5   1.4     8e-05      0.16      44      83 ..      36      79 ..      11      99 .. 0.82

  Alignments for each domain:
  == domain 1  score: 11.5 bits;  conditional E-value: 8e-05
                         AHJR-like 44 rpDliarkdee.aviiEvksrrs...saseqyLqelakaveqhp 83
                                      + D+ia+k+ + +++iE k+ ++   s+  ++L e+a++++ +p
  gi|331746840|ref|YP_004422877.1| 36 EIDIIAKKKRQkKLVIETKAGKQvvtSSVIRKLAEVARSIKGKP 79
                                      57****9876549******9888554555588999999988877 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (109 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       787  (0.0438954); expected 358.6 (0.02)
Passed bias filter:                      367  (0.0204696); expected 358.6 (0.02)
Passed Vit filter:                        40  (0.00223102); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.49u 0.29s 00:00:00.78 Elapsed: 00:00:00.49
# Mc/sec: 670.00
//
Query:       gi|331746841|ref|YP_004422878.1|  [L=119]
Description: hypothetical protein TERMP_02263 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    7.1e-09   35.3   7.1    4.3e-08   32.8   0.1    3.2  4  RHH_1           Ribbon-helix-helix protein, copG family
    3.3e-05   24.0   0.1    4.4e-05   23.6   0.1    1.3  1  RHH_8           Ribbon-Helix-Helix transcriptional regulator 
     0.0025   17.7   5.9      0.012   15.6   1.3    3.1  2  RHH_3           Ribbon-helix-helix domain
     0.0076   16.6   0.0      0.015   15.7   0.0    1.6  2  ParD_antitoxin  Bacterial antitoxin of ParD toxin-antitoxin t
     0.0093   16.3   0.8        2.1    8.8   0.0    2.7  3  GHMP_kinases_C  GHMP kinases C terminal
  ------ inclusion threshold ------
      0.011   16.2   1.2       0.18   12.3   0.0    2.5  3  CopG_antitoxin  CopG antitoxin of type II toxin-antitoxin sys
      0.019   14.8   1.6        4.6    7.2   0.3    2.7  2  RHH_5           CopG-like RHH_1 or ribbon-helix-helix domain,
      0.049   13.6   0.8        0.1   12.6   0.8    1.6  1  DUF4315         Domain of unknown function (DUF4315)
      0.054   13.4   0.1      0.071   13.0   0.1    1.2  1  Sigma70_ECF     ECF sigma factor


Domain annotation for each model (and alignments):
>> RHH_1  Ribbon-helix-helix protein, copG family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   32.8   0.1   2.2e-11   4.3e-08       2      33 ..       8      40 ..       7      44 .. 0.94
   2 ?   -2.7   0.0       3.2   6.5e+03       3      12 ..      50      59 ..      50      61 .. 0.66
   3 !    5.5   0.0    0.0087        17      10      30 ..      68      89 ..      65      91 .. 0.85
   4 ?   -1.0   0.1      0.96   1.9e+03      14      19 ..     101     106 ..      93     115 .. 0.48

  Alignments for each domain:
  == domain 1  score: 32.8 bits;  conditional E-value: 2.2e-11
                                      EEEEEEHHHHHHHHHHHHHHT.SSHHHHHHHHH CS
                             RHH_1  2 vsirldeellerLdelarrrg.rSrSelIReAl 33
                                      +si+l+ el+e+Ld l++++   +rSe+IReAl
  gi|331746841|ref|YP_004422878.1|  8 LSISLPPELVELLDVLVEKGLyATRSEIIREAL 40
                                      79******************************9 PP

  == domain 2  score: -2.7 bits;  conditional E-value: 3.2
                                      EEEEEHHHHH CS
                             RHH_1  3 sirldeelle 12
                                      s+ ++e++++
  gi|331746841|ref|YP_004422878.1| 50 SVEIYEKVAK 59
                                      5777777766 PP

  == domain 3  score: 5.5 bits;  conditional E-value: 0.0087
                                      HHHHHHHHHHHHT.SSHHHHHH CS
                             RHH_1 10 llerLdelarrrg.rSrSelIR 30
                                      l+e +del+++ + + + elIR
  gi|331746841|ref|YP_004422878.1| 68 LDEYIDELIEKAEsSDVVELIR 89
                                      67889********888888888 PP

  == domain 4  score: -1.0 bits;  conditional E-value: 0.96
                                       HHHHHH CS
                             RHH_1  14 Ldelar 19 
                                       L ++++
  gi|331746841|ref|YP_004422878.1| 101 LKKKIK 106
                                       333333 PP

>> RHH_8  Ribbon-Helix-Helix transcriptional regulator family
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   23.6   0.1   2.2e-08   4.4e-05       5      86 ..       7      92 ..       4     114 .. 0.69

  Alignments for each domain:
  == domain 1  score: 23.6 bits;  conditional E-value: 2.2e-08
                             RHH_8  5 kvtinlgvvDLgqiDlLveeGfYsnRtDlirtairaqLakhddalk..qavkrkslvlGv..tklsraeleevqaenkq 79
                                      k++i l +  +  +D+Lve+G Y+ R+++ir+a+   L +  d+++  + v+++++  Gv   ++  + +e++++++  
  gi|331746841|ref|YP_004422878.1|  7 KLSISLPPELVELLDVLVEKGLYATRSEIIREALYLLLWDLVDSVEiyEKVAKEASEKGVplDEYIDELIEKAESSDVV 85
                                      55555555445568*********************99998777654227788887766652256666666666666544 PP

                             RHH_8 80 lelkvvG 86
                                        ++  G
  gi|331746841|ref|YP_004422878.1| 86 ELIRLSG 92
                                      4445444 PP

>> RHH_3  Ribbon-helix-helix domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.6   1.3     6e-06     0.012       5      40 ..       8      44 ..       6      46 .. 0.91
   2 ?    2.4   0.2      0.08   1.6e+02      19      37 ..      60      77 ..      52      78 .. 0.71

  Alignments for each domain:
  == domain 1  score: 15.6 bits;  conditional E-value: 6e-06
                             RHH_3  5 ttvsidpelaekLkaLSek.TrIprSklldeAiellL 40
                                       ++s++pel+e L+ L ek +   rS++++eA+ llL
  gi|331746841|ref|YP_004422878.1|  8 LSISLPPELVELLDVLVEKgLYATRSEIIREALYLLL 44
                                      689*************99878999*********9998 PP

  == domain 2  score: 2.4 bits;  conditional E-value: 0.08
                             RHH_3 19 aLSekTrIprSklldeAie 37
                                      + Sek ++p+ +++de ie
  gi|331746841|ref|YP_004422878.1| 60 EASEK-GVPLDEYIDELIE 77
                                      45555.8999999999666 PP

>> ParD_antitoxin  Bacterial antitoxin of ParD toxin-antitoxin type II system and RHH
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.7   0.0   7.5e-06     0.015       3      40 ..       6      43 ..       4      84 .. 0.76
   2 ?   -1.0   0.0       1.2   2.4e+03      17      39 ..      72      95 ..      63     114 .. 0.56

  Alignments for each domain:
  == domain 1  score: 15.7 bits;  conditional E-value: 7.5e-06
                                      X-EEE---HHHHHHHHHHHCTTS-SSHHHHHHHHHHHH CS
                    ParD_antitoxin  3 kntsvvLgehfsafidsqvaaGrYgsaseviraaLrLL 40
                                      k  s+ L +     +d  v++G Y + se+ir aL LL
  gi|331746841|ref|YP_004422878.1|  6 KKLSISLPPELVELLDVLVEKGLYATRSEIIREALYLL 43
                                      567899999999999********************987 PP

  == domain 2  score: -1.0 bits;  conditional E-value: 1.2
                                      HHHHHCTTS-SSHHHHHH.HHHHH CS
                    ParD_antitoxin 17 idsqvaaGrYgsasevir.aaLrL 39
                                      id  +++       e ir ++L L
  gi|331746841|ref|YP_004422878.1| 72 IDELIEKAESSDVVELIRlSGLSL 95
                                      444444444444455555445544 PP

>> GHMP_kinases_C  GHMP kinases C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !    8.8   0.0    0.0011       2.1      31      82 ..      11      60 ..       5      64 .. 0.83
   2 ?    2.5   0.1     0.096   1.9e+02      31      47 ..      67      83 ..      33      95 .. 0.66
   3 ?    5.1   0.2     0.014        28       2      46 ..      76     115 ..      72     117 .. 0.79

  Alignments for each domain:
  == domain 1  score: 8.8 bits;  conditional E-value: 0.0011
                    GHMP_kinases_C 31 ilppeleellealselGalgaklsGaGgGptvfalfkdkdeaeqvaralree 82
                                      +lppel ell+ l e G ++ +        +++ l +d  +  ++++++++e
  gi|331746841|ref|YP_004422878.1| 11 SLPPELVELLDVLVEKGLYATRSEII--REALYLLLWDLVDSVEIYEKVAKE 60
                                      79***************999998888..888888888888888888888655 PP

  == domain 2  score: 2.5 bits;  conditional E-value: 0.096
                    GHMP_kinases_C 31 ilppeleellealselG 47
                                      +l + ++el+e++++ +
  gi|331746841|ref|YP_004422878.1| 67 PLDEYIDELIEKAESSD 83
                                      44556677777776665 PP

  == domain 3  score: 5.1 bits;  conditional E-value: 0.014
                    GHMP_kinases_C   2 lealergdlellgellnlsqrselkavvgilppeleellealsel 46 
                                       +e +e  d+ +l +l  ls +     +++il+  ++++ ++l+++
  gi|331746841|ref|YP_004422878.1|  76 IEKAESSDVVELIRLSGLSLD-----EIRILKKKIKKIQRKLERN 115
                                       566666777777777777777.....9***********9999875 PP

>> CopG_antitoxin  CopG antitoxin of type II toxin-antitoxin system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -1.7   0.1       2.2   4.4e+03      44      57 ..       7      20 ..       5      26 .. 0.74
   2 ?   12.3   0.0   9.1e-05      0.18      51      78 ..      51      78 ..      47      79 .. 0.91
   3 ?    2.2   0.1      0.14   2.8e+02      17      52 ..      80     115 ..      77     117 .. 0.78

  Alignments for each domain:
  == domain 1  score: -1.7 bits;  conditional E-value: 2.2
                    CopG_antitoxin 44 sislrlpedlLeal 57
                                      ++s+ lp +l+e l
  gi|331746841|ref|YP_004422878.1|  7 KLSISLPPELVELL 20
                                      67888999998866 PP

  == domain 2  score: 12.3 bits;  conditional E-value: 9.1e-05
                    CopG_antitoxin 51 edlLealkekAnkrdvpyqslikellee 78
                                      +++ e++ ++A++++vp +++i el+e+
  gi|331746841|ref|YP_004422878.1| 51 VEIYEKVAKEASEKGVPLDEYIDELIEK 78
                                      67889******************99987 PP

  == domain 3  score: 2.2 bits;  conditional E-value: 0.14
                    CopG_antitoxin  17 ekhDlseyldlskakkvrfpeLkkktksislrlped 52 
                                       e+ D+ e + ls +   ++  Lkkk k+i  +l+ +
  gi|331746841|ref|YP_004422878.1|  80 ESSDVVELIRLSGLSLDEIRILKKKIKKIQRKLERN 115
                                       567888888888887777777999999998888766 PP

>> RHH_5  CopG-like RHH_1 or ribbon-helix-helix domain, RHH_5
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    7.2   0.3    0.0023       4.6       2      19 ..       6      23 ..       5      26 .. 0.89
   2 ?    6.2   0.1    0.0049       9.7      10      27 ..      51      68 ..      50      79 .. 0.79

  Alignments for each domain:
  == domain 1  score: 7.2 bits;  conditional E-value: 0.0023
                             RHH_5  2 kRvnvtLPeelleeLeew 19
                                      k+ +++LP el e L+++
  gi|331746841|ref|YP_004422878.1|  6 KKLSISLPPELVELLDVL 23
                                      6889***********975 PP

  == domain 2  score: 6.2 bits;  conditional E-value: 0.0049
                             RHH_5 10 eelleeLeewAdeegRsv 27
                                       e++e+++++A+e g+++
  gi|331746841|ref|YP_004422878.1| 51 VEIYEKVAKEASEKGVPL 68
                                      69*************987 PP

>> DUF4315  Domain of unknown function (DUF4315)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.6   0.8     5e-05       0.1      30      62 ..      76     108 ..      52     115 .. 0.81

  Alignments for each domain:
  == domain 1  score: 12.6 bits;  conditional E-value: 5e-05
                           DUF4315  30 ktEaENleIvqlVramklspeeLaallkamkeg 62 
                                       +  aE +++v+l+r   ls++e++ l+k++k+ 
  gi|331746841|ref|YP_004422878.1|  76 IEKAESSDVVELIRLSGLSLDEIRILKKKIKKI 108
                                       5669************************99975 PP

>> Sigma70_ECF  ECF sigma factor
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.0   0.1   3.6e-05     0.071     115     174 ..      57     118 ..      41     119 .] 0.75

  Alignments for each domain:
  == domain 1  score: 13.0 bits;  conditional E-value: 3.6e-05
                       Sigma70_ECF 115 vdsdspdelleLdealerllsldpeqarlvelrkleGlsveEi...Aeklgvskrtverrlal 174
                                       v +++ ++ + Lde +++l + + e+  +vel +l+Gls +Ei    +k++  +r  er+l +
  gi|331746841|ref|YP_004422878.1|  57 VAKEASEKGVPLDEYIDELIE-KAESSDVVELIRLSGLSLDEIrilKKKIKKIQRKLERNLYY 118
                                       44578899999*******997.567889**************832246666677777777665 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (119 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1060  (0.0591221); expected 358.6 (0.02)
Passed bias filter:                      631  (0.0351944); expected 358.6 (0.02)
Passed Vit filter:                        66  (0.00368119); expected 17.9 (0.001)
Passed Fwd filter:                         9  (0.00050198); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.57u 0.32s 00:00:00.88 Elapsed: 00:00:00.51
# Mc/sec: 698.21
//
Query:       gi|331746842|ref|YP_004422879.1|  [L=149]
Description: hypothetical protein TERMP_02264 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
  ------ inclusion threshold ------
      0.028   14.9   0.1       0.12   12.9   0.0    2.0  2  CopG_antitoxin  CopG antitoxin of type II toxin-antitoxin sys


Domain annotation for each model (and alignments):
>> CopG_antitoxin  CopG antitoxin of type II toxin-antitoxin system
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.8   0.1      0.13   2.3e+03      21      40 ..      50      69 ..      43      73 .. 0.74
   2 ?   12.9   0.0   6.7e-06      0.12      40      76 ..     107     143 ..      91     145 .. 0.89

  Alignments for each domain:
  == domain 1  score: -0.8 bits;  conditional E-value: 0.13
                    CopG_antitoxin 21 lseyldlskakkvrfpeLkk 40
                                      lse+   ++ ++ +f e+kk
  gi|331746842|ref|YP_004422879.1| 50 LSEFSKYNNENEETFQEFKK 69
                                      56777777777777777776 PP

  == domain 2  score: 12.9 bits;  conditional E-value: 6.7e-06
                    CopG_antitoxin  40 kktksislrlpedlLealkekAnkrdvpyqslikell 76 
                                       ++tk is+r+ e+  +++ e+Ank ++ ++++i++ l
  gi|331746842|ref|YP_004422879.1| 107 RRTKWISIRVTEEEYNKILEEANKEGLDVSNYIRKKL 143
                                       67899****************************9865 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (149 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1018  (0.0567795); expected 358.6 (0.02)
Passed bias filter:                      607  (0.0338558); expected 358.6 (0.02)
Passed Vit filter:                        70  (0.00390429); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.44u 0.27s 00:00:00.71 Elapsed: 00:00:00.44
# Mc/sec: 1011.32
//
Query:       gi|331746843|ref|YP_004422880.1|  [L=164]
Description: hypothetical protein TERMP_02265 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (164 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1030  (0.0574488); expected 358.6 (0.02)
Passed bias filter:                      426  (0.0237604); expected 358.6 (0.02)
Passed Vit filter:                        32  (0.00178482); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.55u 0.26s 00:00:00.81 Elapsed: 00:00:00.48
# Mc/sec: 1026.40
//
Query:       gi|331746844|ref|YP_004422881.1|  [L=76]
Description: hypothetical protein TERMP_02266 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    0.00025   20.9   0.1    0.00033   20.5   0.1    1.3  1  DUF4428   Domain of unknown function (DUF4428)
     0.0066   16.6   0.6     0.0092   16.2   0.6    1.2  1  LIM       LIM domain
  ------ inclusion threshold ------
      0.017   15.4   0.1       0.02   15.2   0.1    1.2  1  DUF2175   Uncharacterized protein conserved in archaea (DUF21
       0.05   13.5   0.6       0.28   11.1   0.3    2.1  2  ADD_ATRX  Cysteine Rich ADD domain
      0.051   13.4   0.0      0.058   13.2   0.0    1.1  1  RecO_C    Recombination protein O C terminal


Domain annotation for each model (and alignments):
>> DUF4428  Domain of unknown function (DUF4428)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.5   0.1   9.3e-08   0.00033       1      30 [.       5      36 ..       5      56 .. 0.84

  Alignments for each domain:
  == domain 1  score: 20.5 bits;  conditional E-value: 9.3e-08
                           DUF4428  1 iCaiCgkKigllkr.lkleDg.yvCkdClkKl 30
                                      +CaiCg++i+  +  + ++Dg ++C  Cl ++
  gi|331746844|ref|YP_004422881.1|  5 RCAICGQEITHNEVgFIFKDGeVMCVYCLDEA 36
                                      5**********877799****99******997 PP

>> LIM  LIM domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.2   0.6   2.6e-06    0.0092      27      53 ..       4      32 ..       1      36 [. 0.91

  Alignments for each domain:
  == domain 1  score: 16.2 bits;  conditional E-value: 2.6e-06
                                      SB-TTT-SB-CTT...CEEETTEEEEHHH CS
                               LIM 27 FtCsdCqkeLkegs..fyekdgklyCkkd 53
                                      ++C+ C++e+++++  f+ kdg+++C ++
  gi|331746844|ref|YP_004422881.1|  4 LRCAICGQEITHNEvgFIFKDGEVMCVYC 32
                                      79************99**********998 PP

>> DUF2175  Uncharacterized protein conserved in archaea (DUF2175)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   15.2   0.1   5.5e-06      0.02       2      43 ..       3      46 ..       2      69 .. 0.68

  Alignments for each domain:
  == domain 1  score: 15.2 bits;  conditional E-value: 5.5e-06
                           DUF2175  2 kwkCyiCgkeivegek.FTftkkgvvHyeClvekarkklkes.e 43
                                      + +C+iCg+ei+++e+ F f    v+   Cl e++ +  +e+  
  gi|331746844|ref|YP_004422881.1|  3 ELRCAICGQEITHNEVgFIFKDGEVMCVYCLDEALLEIQDEEiP 46
                                      679*********99973555555555789999998776666552 PP

>> ADD_ATRX  Cysteine Rich ADD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   11.1   0.3   7.7e-05      0.28      10      31 ..       2      23 ..       1      33 [. 0.86
   2 ?    0.5   0.0      0.16   5.8e+02      20      30 ..      49      59 ..      47      65 .. 0.87

  Alignments for each domain:
  == domain 1  score: 11.1 bits;  conditional E-value: 7.7e-05
                          ADD_ATRX 10 eivsCtaCgqqvnhfqkdslyk 31
                                      + + C+ Cgq++ h++  +++k
  gi|331746844|ref|YP_004422881.1|  2 KELRCAICGQEITHNEVGFIFK 23
                                      5699***********9988886 PP

  == domain 2  score: 0.5 bits;  conditional E-value: 0.16
                          ADD_ATRX 20 qvnhfqkdsly 30
                                      +vnh+ +++l+
  gi|331746844|ref|YP_004422881.1| 49 EVNHMIREFLK 59
                                      79*****9997 PP

>> RecO_C  Recombination protein O C terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.2   0.0   1.6e-05     0.058      70     110 ..       5      45 ..       4      63 .. 0.94

  Alignments for each domain:
  == domain 1  score: 13.2 bits;  conditional E-value: 1.6e-05
                                       B-TTT--BS--EE-TTT.....SSEE-TTT-SS----HHHH CS
                            RecO_C  70 sCaacgekialaafspswggllcsecaakapagrplspetl 110
                                       +Ca cg++i ++ + +  ++ +  + ++ ++a +++++e++
  gi|331746844|ref|YP_004422881.1|   5 RCAICGQEITHNEVGFIFKDGEVMCVYCLDEALLEIQDEEI 45 
                                       7*******************999999999999999999886 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (76 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       866  (0.0483016); expected 358.6 (0.02)
Passed bias filter:                      749  (0.0417759); expected 358.6 (0.02)
Passed Vit filter:                        91  (0.00507558); expected 17.9 (0.001)
Passed Fwd filter:                         5  (0.000278878); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               5  [number of targets reported over threshold]
# CPU time: 0.37u 0.24s 00:00:00.61 Elapsed: 00:00:00.39
# Mc/sec: 581.09
//
Query:       gi|331746845|ref|YP_004422882.1|  [L=123]
Description: hypothetical protein TERMP_02267 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model (and alignments):

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (123 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       494  (0.0275531); expected 358.6 (0.02)
Passed bias filter:                      317  (0.0176809); expected 358.6 (0.02)
Passed Vit filter:                        15  (0.000836633); expected 17.9 (0.001)
Passed Fwd filter:                         0  (0); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               0  [number of targets reported over threshold]
# CPU time: 0.46u 0.28s 00:00:00.74 Elapsed: 00:00:00.46
# Mc/sec: 797.86
//
Query:       gi|331746846|ref|YP_004422883.1|  [L=334]
Description: hypothetical protein TERMP_02268 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    5.5e-07   30.0   0.3    1.6e-06   28.5   0.2    1.8  1  Transglut_core  Transglutaminase-like superfamily


Domain annotation for each model (and alignments):
>> Transglut_core  Transglutaminase-like superfamily
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.5   0.2     9e-11   1.6e-06      36     104 ..     104     159 ..      91     187 .. 0.82

  Alignments for each domain:
  == domain 1  score: 28.5 bits;  conditional E-value: 9e-11
                    Transglut_core  36 rtpgsrdaeavletgkGncedfaslfvallRalGipaRvvtgylsgeeekeqsvasedaHawvevyleg 104
                                       +t  +  ++++l ++ +nce++a +fv ++ ++G++aR+v    ++             Haw+e+y +g
  gi|331746846|ref|YP_004422883.1| 104 PTFYPTPVSWILHSKLANCEEYARVFVFIMTHAGVKARIVRAPGED-------------HAWAEYYYNG 159
                                       5555667999******************************665553.............*******944 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (334 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       676  (0.0377043); expected 358.6 (0.02)
Passed bias filter:                      509  (0.0283898); expected 358.6 (0.02)
Passed Vit filter:                        45  (0.0025099); expected 17.9 (0.001)
Passed Fwd filter:                         1  (5.57756e-05); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.57u 0.27s 00:00:00.84 Elapsed: 00:00:00.46
# Mc/sec: 2169.72
//
Query:       gi|331746847|ref|YP_004422884.1|  [L=157]
Description: hypothetical protein TERMP_02269 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model     Description
    ------- ------ -----    ------- ------ -----   ---- --  --------  -----------
    0.00025   21.2   1.9    0.00025   21.2   1.9    1.4  2  FliJ       Flagellar FliJ protein
     0.0016   17.9   0.6     0.0037   16.7   0.6    1.6  1  DUF2353    Uncharacterized coiled-coil protein (DUF2353)
     0.0093   15.5   4.1     0.0096   15.5   1.7    1.9  2  4HB_MCP_1  Four helix bundle sensory module for signal transd
  ------ inclusion threshold ------
      0.012   15.8   6.8       0.53   10.5   0.1    2.3  2  DASH_Dad1  DASH complex subunit Dad1
      0.058   13.9   0.5      0.058   13.9   0.5    1.5  2  APG6_N     Apg6 coiled-coil region
      0.077   13.0   0.8       0.12   12.4   0.8    1.2  1  DUF1664    Protein of unknown function (DUF1664)
       0.32   10.8   6.1      0.062   13.1   1.1    2.3  3  CdvA       CdvA-like coiled-coil domain
       0.38   11.2   4.2       0.42   11.1   0.9    2.1  2  NPV_P10    Nucleopolyhedrovirus P10 protein
       0.44   10.3   1.8         14    5.5   0.1    2.5  2  DDDD       Putative mitochondrial precursor protein


Domain annotation for each model (and alignments):
>> FliJ  Flagellar FliJ protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   21.2   1.9   1.3e-07   0.00025       3      77 ..      35     109 ..      33     115 .. 0.88
   2 ?   -3.3   0.6       5.2     1e+04      84      97 ..     141     154 ..     138     156 .. 0.49

  Alignments for each domain:
  == domain 1  score: 21.2 bits;  conditional E-value: 1.3e-07
                              FliJ   3 aareLaeaqrelqqaeekleeleqyrqeyqkqlsgeaqglsaaelrnyqafisaldeaiaqqkqelaqaekqvek 77 
                                       + ++Lae+ ++l   ++ le+++++r+ y++  ++ + +++  el ++++ i+ l+++i+q+ +++  +++ +  
  gi|331746847|ref|YP_004422884.1|  35 IDQALAECYQQLLILNKTLENVTKERDYYKSLYENISVNVTNFELIQIRNNINILNQRIEQLSSQVLSLKNSIRL 109
                                       6799*************************666666668****************************999988765 PP

  == domain 2  score: -3.3 bits;  conditional E-value: 5.2
                              FliJ  84 earqerkklekLke 97 
                                       +a  e+kk++  +e
  gi|331746847|ref|YP_004422884.1| 141 KAPEEKKKVKQSDE 154
                                       45555555554444 PP

>> DUF2353  Uncharacterized coiled-coil protein (DUF2353)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   16.7   0.6   1.8e-06    0.0037       9      46 ..      44      81 ..      37     113 .. 0.77

  Alignments for each domain:
  == domain 1  score: 16.7 bits;  conditional E-value: 1.8e-06
                           DUF2353  9 eALliLskeLekcrqerdqyklmaeqLqerlsalkkql 46
                                      + LliL+k Le++ +erd yk  +e++  ++ + +  +
  gi|331746847|ref|YP_004422884.1| 44 QQLLILNKTLENVTKERDYYKSLYENISVNVTNFELIQ 81
                                      679************************99998876544 PP

>> 4HB_MCP_1  Four helix bundle sensory module for signal transduction
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   15.5   1.7   4.8e-06    0.0096       2      97 ..       1      99 [.       1     105 [. 0.91
   2 ?    0.1   0.0      0.25   4.9e+02       2      27 ..     109     135 ..     108     152 .. 0.77

  Alignments for each domain:
  == domain 1  score: 15.5 bits;  conditional E-value: 4.8e-06
                         4HB_MCP_1  2 lkirkKLillflllallliivGvvGlysl...kkinknletmYedrllpikdlgeikanlrelradlleliltkdkaek 77
                                      +k+r +L  +f++++ ++ ++ v+G+  +   ++i+++l + Y++ l+  k+l++++++ + ++++ +++ ++ +  e 
  gi|331746847|ref|YP_004422884.1|  1 MKVRFRLFWIFVFVVSFVSVLLVYGIPTTpisENIDQALAECYQQLLILNKTLENVTKERDYYKSLYENISVNVTNFEL 79
                                      7999999999999988888888888877644489********************************************* PP

                         4HB_MCP_1 78 dellkdieeleaeidkllek 97
                                       ++ ++i+ l+++i++l ++
  gi|331746847|ref|YP_004422884.1| 80 IQIRNNINILNQRIEQLSSQ 99
                                      ***************99776 PP

  == domain 2  score: 0.1 bits;  conditional E-value: 0.25
                         4HB_MCP_1   2 lkirkKLillflllallliivG.vvGl 27 
                                       l++r+ ++l++++ +++  +vG +v++
  gi|331746847|ref|YP_004422884.1| 109 LTMRRYFVLGITFGSVFGSVVGtLVSI 135
                                       778888999999999999999964444 PP

>> DASH_Dad1  DASH complex subunit Dad1
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   10.5   0.1   0.00027      0.53      10      36 ..      32      58 ..      29      68 .. 0.89
   2 ?    7.5   2.4    0.0024       4.8      18      34 ..      80      96 ..      64     100 .. 0.83

  Alignments for each domain:
  == domain 1  score: 10.5 bits;  conditional E-value: 0.00027
                         DASH_Dad1 10 iqeIaesmeevlnnlnaLNRsLEevia 36
                                       ++I + + e+ ++l  LN+ LE+v++
  gi|331746847|ref|YP_004422884.1| 32 SENIDQALAECYQQLLILNKTLENVTK 58
                                      589*********************975 PP

  == domain 2  score: 7.5 bits;  conditional E-value: 0.0024
                         DASH_Dad1 18 eevlnnlnaLNRsLEev 34
                                       ++ nn+n LN+++E++
  gi|331746847|ref|YP_004422884.1| 80 IQIRNNINILNQRIEQL 96
                                      5789***********97 PP

>> APG6_N  Apg6 coiled-coil region
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   13.9   0.5   2.9e-05     0.058       5      63 ..      41     100 ..      40     110 .. 0.71
   2 ?   -2.6   0.1       3.7   7.3e+03      35      96 ..     142     151 ..     135     156 .. 0.39

  Alignments for each domain:
  == domain 1  score: 13.9 bits;  conditional E-value: 2.9e-05
                            APG6_N   5 eCtdlLleeldkqleqaekerdaYeeflkklkkekkeeek..qdeeleeleeeleklekee 63 
                                       eC + Ll  l+k le+++kerd Y++  +++  + ++ e    +++++ l++++e+l+++ 
  gi|331746847|ref|YP_004422884.1|  41 ECYQQLL-ILNKTLENVTKERDYYKSLYENISVNVTNFELiqIRNNINILNQRIEQLSSQV 100
                                       7887777.799*********************99555443555555555555555555443 PP

  == domain 2  score: -2.6 bits;  conditional E-value: 3.7
                            APG6_N  35 lkkekkeeekqdeeleeleeeleklekeeeelleeLkelekereeleaelaaleeelealee 96 
                                         +ekk+                                                    +++
  gi|331746847|ref|YP_004422884.1| 142 APEEKKK----------------------------------------------------VKQ 151
                                       2222222....................................................222 PP

>> DUF1664  Protein of unknown function (DUF1664)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   12.4   0.8   6.1e-05      0.12      46     121 ..      31     104 ..      28     108 .. 0.87

  Alignments for each domain:
  == domain 1  score: 12.4 bits;  conditional E-value: 6.1e-05
                           DUF1664  46 vskqleqvseslaatkrhLssridrvdkkldeqkeiskeikeevtevredlseigedvesvkeaveglesklerie 121
                                       +s++++q  ++  ++   L++ +++v k+ d  k + ++i+ +vt+   +l +i+++++ +++ +e+l s++ +++
  gi|331746847|ref|YP_004422884.1|  31 ISENIDQALAECYQQLLILNKTLENVTKERDYYKSLYENISVNVTNF--ELIQIRNNINILNQRIEQLSSQVLSLK 104
                                       7888999999999999999*********************9999876..688999999999999999999988775 PP

>> CdvA  CdvA-like coiled-coil domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.3   0.0      0.14   2.8e+02      41      62 ..      31      52 ..      27      53 .. 0.86
   2 ?   13.1   1.1   3.1e-05     0.062       4      62 ..      51     106 ..      49     118 .. 0.82
   3 ?   -2.6   0.1       2.4   4.7e+03      91     103 ..     139     151 ..     134     155 .. 0.60

  Alignments for each domain:
  == domain 1  score: 1.3 bits;  conditional E-value: 0.14
                              CdvA 41 lkeklkkrlkeledqiksleka 62
                                      ++e++++ l+e+ +q+  l+k+
  gi|331746847|ref|YP_004422884.1| 31 ISENIDQALAECYQQLLILNKT 52
                                      78999*********99998886 PP

  == domain 2  score: 13.1 bits;  conditional E-value: 3.1e-05
                              CdvA   4 kALeeLvsegdipkstyeeikeklee.alkklkekakelkeklkkrlkeledqiksleka 62 
                                       k+Le++ +e d +ks ye+i  ++++ +l +++++     + l++r+++l +q+ sl+ +
  gi|331746847|ref|YP_004422884.1|  51 KTLENVTKERDYYKSLYENISVNVTNfELIQIRNNI----NILNQRIEQLSSQVLSLKNS 106
                                       89*******************999864566665554....58899999999999999876 PP

  == domain 3  score: -2.6 bits;  conditional E-value: 2.4
                              CdvA  91 lesaleekeeikk 103
                                       l++a eek+ +k+
  gi|331746847|ref|YP_004422884.1| 139 LKKAPEEKKKVKQ 151
                                       5555666666665 PP

>> NPV_P10  Nucleopolyhedrovirus P10 protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    1.0   0.1      0.29   5.8e+02      39      62 ..      34      57 ..      28      70 .. 0.63
   2 ?   11.1   0.9   0.00021      0.42       6      33 ..      79     106 ..      70     111 .. 0.90

  Alignments for each domain:
  == domain 1  score: 1.0 bits;  conditional E-value: 0.29
                           NPV_P10 39 elnekLdaqsaqLaeletkvenIq 62
                                      ++ + L +  +qL  l++++en++
  gi|331746847|ref|YP_004422884.1| 34 NIDQALAECYQQLLILNKTLENVT 57
                                      345555555555555555555554 PP

  == domain 2  score: 11.1 bits;  conditional E-value: 0.00021
                           NPV_P10   6 LlvIradikavddkVdalqqqvddvqen 33 
                                       L++Ir++i+ ++++++ l++qv ++++ 
  gi|331746847|ref|YP_004422884.1|  79 LIQIRNNINILNQRIEQLSSQVLSLKNS 106
                                       89********************998875 PP

>> DDDD  Putative mitochondrial precursor protein
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?    3.9   0.2     0.023        46      31      49 ..       2      20 ..       1      42 [. 0.73
   2 ?    5.5   0.1    0.0071        14      34      56 ..     114     136 ..      94     140 .. 0.90

  Alignments for each domain:
  == domain 1  score: 3.9 bits;  conditional E-value: 0.023
                              DDDD 31 ktpFgLlrvilvVipgllv 49
                                      k++F L+ +++ V+ ++ v
  gi|331746847|ref|YP_004422884.1|  2 KVRFRLFWIFVFVVSFVSV 20
                                      789*********9999755 PP

  == domain 2  score: 5.5 bits;  conditional E-value: 0.0071
                              DDDD  34 FgLlrvilvVipgllvGtliSkn 56 
                                       + +l++ +  ++g++vGtl+S n
  gi|331746847|ref|YP_004422884.1| 114 YFVLGITFGSVFGSVVGTLVSIN 136
                                       5579999999**********976 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (157 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                      1803  (0.100563); expected 358.6 (0.02)
Passed bias filter:                      757  (0.0422221); expected 358.6 (0.02)
Passed Vit filter:                        71  (0.00396006); expected 17.9 (0.001)
Passed Fwd filter:                        10  (0.000557756); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               9  [number of targets reported over threshold]
# CPU time: 0.54u 0.32s 00:00:00.86 Elapsed: 00:00:00.49
# Mc/sec: 967.50
//
Query:       gi|331746848|ref|YP_004422885.1|  [L=143]
Description: hypothetical protein TERMP_02270 [Thermococcus barophilus MP]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
    5.4e-27   94.6   0.6      6e-27   94.4   0.6    1.0  1  EVE             EVE domain
    0.00027   20.8   0.0    0.00034   20.5   0.0    1.2  1  Dev_Cell_Death  Development and cell death domain


Domain annotation for each model (and alignments):
>> EVE  EVE domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   94.4   0.6   6.7e-31     6e-27       1     144 [.       2     141 ..       2     142 .. 0.84

  Alignments for each domain:
  == domain 1  score: 94.4 bits;  conditional E-value: 6.7e-31
                                       -EEEEEEBHHTSHHHHHCHHHCEEE-EE-GHHHHHHHCC--TT-EEEEE....ETSSS..S-EEEEEEEEECEEEE- CS
                               EVE   1 ayWllksepdefsiddlkrkkeegWdgvrnyqarnllramkkGDlvlfY....hsgek..lqaivgiaeVvseaypd 71 
                                       ayWl+++++d  +++ +  kke++W gv++ ++rn++ ++k GD++++Y     ++++  +++ivgi+eVvse+y+d
  gi|331746848|ref|YP_004422885.1|   2 AYWLCITNRD--NWEVI--KKENVW-GVPK-RHRNTIAKVKLGDKLVIYvkqeRKDKQilEPKIVGIFEVVSEPYQD 72 
                                       6*********..*****..******.****.******************887544444999**************** PP

                                       GGGG-TTSTT--TTTBTTS-.-EEEEEEEE.......EEEEEEEEHHHHTTHGTCTTSHHHHCCT-SEEEE-HHHHH CS
                               EVE  72 etqfdpkskyydpkskkekp.wlrvdvkpv.......kklkrplslkelkaepelegmkllrkgrlsvrpvteedwe 140
                                       +t++ ++ ++      +e + +lrv++kpv       k+l ++l++ ++k+  +++g  +      ++r+++eed++
  gi|331746848|ref|YP_004422885.1|  73 STKIFKSPPH-----LNE-TyPLRVKIKPVklgevefKPLIPKLKFITNKK--KWSGHLM----GKAMRELPEEDYK 137
                                       ****555333.....323.3389*******777777777888888877777..5677777....999********** PP

                                       HHHH CS
                               EVE 141 lile 144
                                       li++
  gi|331746848|ref|YP_004422885.1| 138 LIES 141
                                       **97 PP

>> Dev_Cell_Death  Development and cell death domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   20.5   0.0   3.7e-08   0.00034       8     100 ..       9     107 ..       3     133 .. 0.75

  Alignments for each domain:
  == domain 1  score: 20.5 bits;  conditional E-value: 3.7e-08
                    Dev_Cell_Death   8 nketkkecfrkklfglpaeklslvkkikpglkLfLfdyderkLyGvfeAasdGglniepkafts..........eks 74 
                                       n++  +   ++++ g+p+++ +++ k+k g kL ++  +erk   + e +  G +++ ++ +++           ++
  gi|331746848|ref|YP_004422885.1|   9 NRDNWEVIKKENVWGVPKRHRNTIAKVKLGDKLVIYVKQERKDKQILEPKIVGIFEVVSEPYQDstkifkspphLNE 85 
                                       555566667889*****************************999999999999999999999876767766777677 PP

                    Dev_Cell_Death  75 kfpaQvrfkikkkckPLaesefkeai 100
                                       ++p  v++k +k    L e efk++i
  gi|331746848|ref|YP_004422885.1|  86 TYPLRVKIKPVK----LGEVEFKPLI 107
                                       777777777432....4455555555 PP



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (143 residues searched)
Target model(s):                       17929  (3037991 nodes)
Passed MSV filter:                       361  (0.020135); expected 358.6 (0.02)
Passed bias filter:                      285  (0.015896); expected 358.6 (0.02)
Passed Vit filter:                        19  (0.00105974); expected 17.9 (0.001)
Passed Fwd filter:                         2  (0.000111551); expected 0.2 (1e-05)
Initial search space (Z):              17929  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.51u 0.30s 00:00:00.81 Elapsed: 00:00:00.50
# Mc/sec: 866.35
//
[ok]
