******************************************************************************** MEME - Motif discovery tool ******************************************************************************** MEME version 5.4.0 (Release date: Tue Mar 9 17:38:20 2021 -0800) For further information on how to interpret these results please access https://meme-suite.org/meme. To get a copy of the MEME Suite software please access https://meme-suite.org. ******************************************************************************** ******************************************************************************** REFERENCE ******************************************************************************** If you use this program in your research, please cite: Timothy L. Bailey and Charles Elkan, "Fitting a mixture model by expectation maximization to discover motifs in biopolymers", Proceedings of the Second International Conference on Intelligent Systems for Molecular Biology, pp. 28-36, AAAI Press, Menlo Park, California, 1994. ******************************************************************************** ******************************************************************************** TRAINING SET ******************************************************************************** PRIMARY SEQUENCES= common/adh.s CONTROL SEQUENCES= Primary sequences shuffled preserving 2-mers ALPHABET= ACDEFGHIKLMNPQRSTVWY Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ 2BHD_STREX 1.0000 255 3BHD_COMTE 1.0000 253 ADH_DROME 1.0000 255 AP27_MOUSE 1.0000 244 BA72_EUBSP 1.0000 249 BDH_HUMAN 1.0000 343 BPHB_PSEPS 1.0000 275 BUDC_KLETE 1.0000 241 DHES_HUMAN 1.0000 327 DHGB_BACME 1.0000 262 DHII_HUMAN 1.0000 292 DHMA_FLAS1 1.0000 270 ENTA_ECOLI 1.0000 248 FIXR_BRAJA 1.0000 278 GUTD_ECOLI 1.0000 259 HDE_CANTR 1.0000 906 HDHA_ECOLI 1.0000 255 LIGD_PSEPA 1.0000 305 NODG_RHIME 1.0000 245 RIDH_KLEAE 1.0000 249 YINL_LISMO 1.0000 248 YRTP_BACSU 1.0000 238 CSGA_MYXXA 1.0000 166 DHB2_HUMAN 1.0000 387 DHB3_HUMAN 1.0000 310 DHCA_HUMAN 1.0000 276 FABI_ECOLI 1.0000 262 FVT1_HUMAN 1.0000 332 HMTR_LEIMA 1.0000 287 MAS1_AGRRA 1.0000 476 PCR_PEA 1.0000 399 RFBB_NEIGO 1.0000 346 YURA_MYXXA 1.0000 258 ******************************************************************************** ******************************************************************************** COMMAND LINE SUMMARY ******************************************************************************** This information can also be useful in the event you wish to report a problem with the MEME software. command: meme -nsites 27 common/adh.s -oc results/meme46 -mod anr -protein -nmotifs 2 -objfun nz -w 12 -hsfrac 0.5 -shuf 2 -nostatus -mpi model: mod= anr nmotifs= 2 evt= inf objective function: em= Noise-injected mHG starts= log likelihood ratio (LLR) width: minw= 12 maxw= 12 nsites: minsites= 27 maxsites= 27 wnsites= 0.8 theta: spmap= pam spfuzz= 120 em: prior= megap b= 74865 maxiter= 50 distance= 1e-05 data: n= 9996 N= 33 sample: seed= 0 hsfrac= 0.5 searchsize= 9996 norand= no csites= -1 Dirichlet mixture priors file: prior30.plib Letter frequencies in dataset: A 0.112 C 0.0116 D 0.0518 E 0.0549 F 0.036 G 0.0888 H 0.0178 I 0.0589 K 0.0527 L 0.0912 M 0.0255 N 0.0413 P 0.0407 Q 0.0306 R 0.0484 S 0.061 T 0.0574 V 0.0821 W 0.0103 Y 0.0266 Background letter frequencies (from file dataset with add-one prior applied): A 0.111 C 0.0122 D 0.0502 E 0.0553 F 0.0359 G 0.0898 H 0.0183 I 0.0566 K 0.0518 L 0.0919 M 0.0273 N 0.0405 P 0.0405 Q 0.0295 R 0.0494 S 0.0637 T 0.0565 V 0.083 W 0.00959 Y 0.0271 Background model order: 0 ******************************************************************************** ******************************************************************************** MOTIF LGRVDVLVNNAG MEME-1 width = 12 sites = 27 llr = 563 p-value = 3.8e-003 E-value = 3.8e-003 ******************************************************************************** -------------------------------------------------------------------------------- Motif LGRVDVLVNNAG MEME-1 Description -------------------------------------------------------------------------------- Simplified A :::::1::1:a1 pos.-specific C :::::::::::: probability D ::::9::::::: matrix E 11:::::::::: F 2::::::::::: G :81::1:::::9 H ::::1::::::: I :::1:213:::: K ::1::::::::: L 3::3:17::::: M ::::::1::::: N ::::1:::89:: P ::2::::::::: Q :::::::::::: R ::3::::::::: S :::::::::::: T 1:1::::::::: V :::4:4:6:::: W :::::::::::: Y 1::::::::::: bits 6.7 6.0 5.4 4.7 Relative 4.0 * Entropy 3.4 * ** (30.1 bits) 2.7 * * ***** 2.0 * ** ****** 1.3 ************ 0.7 ************ 0.0 ------------ Multilevel LGRVDVLVNNAG consensus F PL I sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif LGRVDVLVNNAG MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ------------ DHCA_HUMAN 80 4.56e-13 RALRDFLRKE YGGLDVLVNNAG IAFKVADPTP HDE_CANTR 393 8.26e-13 EAIIKNVIDK YGTIDILVNNAG ILRDRSFAKM CSGA_MYXXA 10 1.14e-12 MRAFATNVC TGPVDVLINNAG VSGLWCALGD HDHA_ECOLI 86 1.29e-12 SALADFAISK LGKVDILVNNAG GGGPKPFDMP BA72_EUBSP 83 1.97e-12 MAAVGQVAQK YGRLDVMINNAG ITSNNVFSRV MAS1_AGRRA 317 3.74e-12 AAWVTAAVEK FGRIDGLVNNAG YGEPVNLDKH DHGB_BACME 84 5.51e-12 INLVQSAIKE FGKLDVMINNAG MENPVSSHEM 2BHD_STREX 78 1.70e-11 QRVVAYAREE FGSVDGLVNNAG ISTGMFLETE HMTR_LEIMA 100 1.86e-11 AELVAACYTH WGRCDVLVNNAS SFYPTPLLRN YRTP_BACSU 81 2.89e-11 NQAVAQVKEQ LGDIDILINNAG ISKFGGFLDL 3BHD_COMTE 78 3.43e-11 TLVMAAVQRR LGTLNVLVNNAG ILLPGDMETG DHES_HUMAN 81 4.47e-11 SVAAARERVT EGRVDVLVCNAG LGLLGPLEAL NODG_RHIME 78 6.86e-11 KALGQRAEAD LEGVDILVNNAG ITKDGLFLHM FVT1_HUMAN 112 7.45e-11 ENVIKQAQEK LGPVDMLVNCAG MAVSGKFEDL HDE_CANTR 89 1.14e-10 DKIVETAVKN FGTVHVIINNAG ILRDASMKKM AP27_MOUSE 74 2.41e-10 WDATEKALGG IGPVDLLVNNAA LVIMQPFLEV BUDC_KLETE 77 1.24e-09 FAAVEQARKA LGGFNVIVNNAG IAPSTPIESI BPHB_PSEPS 76 1.43e-09 KQAASRCVAR FGKIDTLIPNAG IWDYSTALVD PCR_PEA 162 1.66e-09 RQFVDNFRRS EMPLDVLINNAA VYFPTAKEPS GUTD_ECOLI 79 4.23e-09 LALSRGVDEI FGRVDLLVYSAG IAKAAFISDF ADH_DROME 83 8.47e-09 TKLLKTIFAQ LKTVDVLINGAG ILDDHQIERT DHMA_FLAS1 195 1.27e-08 RHGILVNMIA PGPVDVTGNNTG YSEPRLAEQV FIXR_BRAJA 109 1.66e-08 AITEVKKRLA GAPLHALVNNAG VSPKTPTGDR RIDH_KLEAE 86 1.78e-08 DNLLQGILQL TGRLDIFHANAG AYIGGPVAEG ENTA_ECOLI 70 1.78e-08 AQVCQRLLAE TERLDALVNAAG ILRMGATDQL YINL_LISMO 80 2.17e-08 KKLVELAIER YGKVDAIFLNAG IMPNSPLSAL YURA_MYXXA 87 1.21e-07 LERIRALDAE AGGLDLVVANAG VGGTTNAKRL -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif LGRVDVLVNNAG MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- DHCA_HUMAN 4.6e-13 79_[1]_185 HDE_CANTR 1.1e-10 88_[1]_292_[1]_502 CSGA_MYXXA 1.1e-12 9_[1]_145 HDHA_ECOLI 1.3e-12 85_[1]_158 BA72_EUBSP 2e-12 82_[1]_155 MAS1_AGRRA 3.7e-12 316_[1]_148 DHGB_BACME 5.5e-12 83_[1]_167 2BHD_STREX 1.7e-11 77_[1]_166 HMTR_LEIMA 1.9e-11 99_[1]_176 YRTP_BACSU 2.9e-11 80_[1]_146 3BHD_COMTE 3.4e-11 77_[1]_164 DHES_HUMAN 4.5e-11 80_[1]_235 NODG_RHIME 6.9e-11 77_[1]_156 FVT1_HUMAN 7.4e-11 111_[1]_209 AP27_MOUSE 2.4e-10 73_[1]_159 BUDC_KLETE 1.2e-09 76_[1]_153 BPHB_PSEPS 1.4e-09 75_[1]_188 PCR_PEA 1.7e-09 161_[1]_226 GUTD_ECOLI 4.2e-09 78_[1]_169 ADH_DROME 8.5e-09 82_[1]_161 DHMA_FLAS1 1.3e-08 194_[1]_64 FIXR_BRAJA 1.7e-08 108_[1]_158 RIDH_KLEAE 1.8e-08 85_[1]_152 ENTA_ECOLI 1.8e-08 69_[1]_167 YINL_LISMO 2.2e-08 79_[1]_157 YURA_MYXXA 1.2e-07 86_[1]_160 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif LGRVDVLVNNAG MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF LGRVDVLVNNAG width=12 seqs=27 DHCA_HUMAN ( 80) YGGLDVLVNNAG 1 HDE_CANTR ( 393) YGTIDILVNNAG 1 CSGA_MYXXA ( 10) TGPVDVLINNAG 1 HDHA_ECOLI ( 86) LGKVDILVNNAG 1 BA72_EUBSP ( 83) YGRLDVMINNAG 1 MAS1_AGRRA ( 317) FGRIDGLVNNAG 1 DHGB_BACME ( 84) FGKLDVMINNAG 1 2BHD_STREX ( 78) FGSVDGLVNNAG 1 HMTR_LEIMA ( 100) WGRCDVLVNNAS 1 YRTP_BACSU ( 81) LGDIDILINNAG 1 3BHD_COMTE ( 78) LGTLNVLVNNAG 1 DHES_HUMAN ( 81) EGRVDVLVCNAG 1 NODG_RHIME ( 78) LEGVDILVNNAG 1 FVT1_HUMAN ( 112) LGPVDMLVNCAG 1 HDE_CANTR ( 89) FGTVHVIINNAG 1 AP27_MOUSE ( 74) IGPVDLLVNNAA 1 BUDC_KLETE ( 77) LGGFNVIVNNAG 1 BPHB_PSEPS ( 76) FGKIDTLIPNAG 1 PCR_PEA ( 162) EMPLDVLINNAA 1 GUTD_ECOLI ( 79) FGRVDLLVYSAG 1 ADH_DROME ( 83) LKTVDVLINGAG 1 DHMA_FLAS1 ( 195) PGPVDVTGNNTG 1 FIXR_BRAJA ( 109) GAPLHALVNNAG 1 RIDH_KLEAE ( 86) TGRLDIFHANAG 1 ENTA_ECOLI ( 70) TERLDALVNAAG 1 YINL_LISMO ( 80) YGKVDAIFLNAG 1 YURA_MYXXA ( 87) AGGLDLVVANAG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif LGRVDVLVNNAG MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 20 w= 12 n= 14434 bayes= 8.9365 E= 3.8e-003 -137 -164 -392 12 241 -148 -122 -27 -317 123 -158 -313 -39 -267 -318 -261 72 -183 166 273 -190 -324 -302 -54 -473 323 -327 -492 -127 -536 -59 -259 -413 -361 -350 -282 -399 -478 -364 -417 -320 -354 -25 -185 -411 54 -178 -412 149 -396 -333 -165 223 -127 222 -51 124 -406 -374 -323 -488 153 -692 -632 6 -683 -548 145 -610 181 -263 -595 -605 -538 -614 -555 -418 237 -463 -459 -406 -330 408 -109 -420 -420 45 -431 -378 -463 -419 11 -446 -307 -392 -318 -383 -446 -367 -362 -17 -164 -449 -386 -225 -63 -284 153 -364 19 39 -358 -375 -307 -354 -304 -52 244 -269 -264 -424 -269 -508 -422 -33 -553 -342 44 -399 302 97 -436 -401 -296 -368 -407 -125 -125 -294 -318 -242 -164 -424 -381 -42 -185 38 187 -377 -232 -216 -382 -370 -337 -359 -339 -219 291 -326 -326 -238 -32 -218 -399 -362 -402 -64 -331 -305 -284 -356 437 -188 -227 -345 -175 -261 -412 -285 -134 -285 -11 -224 -404 -370 -259 -72 -340 -312 -431 -364 440 -372 -234 -352 -120 -265 -418 -293 -334 306 -243 -595 -577 -547 -395 -521 -548 -586 -564 -498 -497 -479 -489 -556 -262 -55 -434 -526 -572 -113 -316 -316 -377 -482 328 -340 -500 -360 -543 -446 -271 -418 -371 -363 -120 -393 -479 -376 -428 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif LGRVDVLVNNAG MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 20 w= 12 nsites= 27 E= 3.8e-003 0.037037 0.000000 0.000000 0.074074 0.222222 0.037037 0.000000 0.037037 0.000000 0.259259 0.000000 0.000000 0.037037 0.000000 0.000000 0.000000 0.111111 0.000000 0.037037 0.148148 0.037037 0.000000 0.000000 0.074074 0.000000 0.814815 0.000000 0.000000 0.037037 0.000000 0.037037 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.037037 0.000000 0.000000 0.148148 0.000000 0.000000 0.148148 0.000000 0.000000 0.000000 0.222222 0.000000 0.259259 0.037037 0.148148 0.000000 0.000000 0.000000 0.000000 0.037037 0.000000 0.000000 0.037037 0.000000 0.000000 0.148148 0.000000 0.333333 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.444444 0.000000 0.000000 0.000000 0.000000 0.851852 0.000000 0.000000 0.000000 0.074074 0.000000 0.000000 0.000000 0.000000 0.074074 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.111111 0.000000 0.000000 0.000000 0.000000 0.074074 0.000000 0.185185 0.000000 0.111111 0.037037 0.000000 0.000000 0.000000 0.000000 0.000000 0.037037 0.444444 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.037037 0.000000 0.000000 0.111111 0.000000 0.703704 0.074074 0.000000 0.000000 0.000000 0.000000 0.000000 0.037037 0.037037 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.037037 0.037037 0.037037 0.296296 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.592593 0.000000 0.000000 0.074074 0.037037 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.037037 0.000000 0.777778 0.037037 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.037037 0.037037 0.037037 0.000000 0.000000 0.000000 0.037037 0.000000 0.000000 0.000000 0.000000 0.000000 0.851852 0.000000 0.000000 0.000000 0.037037 0.000000 0.000000 0.000000 0.000000 0.962963 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.037037 0.000000 0.000000 0.000000 0.074074 0.000000 0.000000 0.000000 0.000000 0.888889 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.037037 0.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif LGRVDVLVNNAG MEME-1 regular expression -------------------------------------------------------------------------------- [LF]G[RP][VL]DVL[VI]NNAG -------------------------------------------------------------------------------- Time 0.34 secs. ******************************************************************************** ******************************************************************************** MOTIF VLVTGAGSGIGK MEME-2 width = 12 sites = 27 llr = 552 p-value = 3.4e-003 E-value = 3.4e-003 ******************************************************************************** -------------------------------------------------------------------------------- Motif VLVTGAGSGIGK MEME-2 Description -------------------------------------------------------------------------------- Simplified A 4::::531:::: pos.-specific C :::::1:::::: probability D ::::::1::::: matrix E :::::::::::: F :::::::::::1 G ::::a3319:a: H :::::::::::1 I 135::::::6:: K :::::::2:::3 L :5:::::::3:2 M :::::::::::: N ::::::1::::: P :::::::::::: Q :::::::::::: R :::::::2:::2 S :::::133:::: T :::a:::::::: V 415::::::1:: W :::::::::::: Y :::::::::::: bits 6.7 6.0 5.4 4.7 Relative 4.0 * Entropy 3.4 ** * * (29.5 bits) 2.7 *** *** 2.0 ****** **** 1.3 ************ 0.7 ************ 0.0 ------------ Multilevel VLITGAGSGIGK consensus AIV GA L R sequence S -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif VLVTGAGSGIGK MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ------------ DHES_HUMAN 5 2.52e-12 ARTV VLITGCSSGIGL HLAVRLASDP YINL_LISMO 8 3.95e-12 MTIKNKV IIITGASSGIGK ATALLLAEKG DHII_HUMAN 37 5.58e-12 FRPEMLQGKK VIVTGASKGIGR EMAYHLAKMG YRTP_BACSU 9 1.14e-11 MQSLQHKT ALITGGGRGIGR ATALALAKEG FVT1_HUMAN 35 1.57e-11 PKPLALPGAH VVVTGGSSGIGK CIAIECYKQG AP27_MOUSE 10 1.57e-11 MKLNFSGLR ALVTGAGKGIGR DTVKALHASG BUDC_KLETE 5 2.82e-11 MQKV ALVTGAGQGIGK AIALRLVKDG BPHB_PSEPS 8 4.80e-11 MKLKGEA VLITGGASGLGR ALVDRFVAEA HDHA_ECOLI 14 7.68e-11 SDNLRLDGKC AIITGAGAGIGK EIAITFATAG ENTA_ECOLI 8 9.62e-11 MDFSGKN VWVTGAGKGIGY ATALAFVEAG HDE_CANTR 11 1.19e-10 MSPVDFKDKV VIITGAGGGLGK YYSLEFAKLG DHCA_HUMAN 7 1.46e-10 SSGIHV ALVTGGNKGIGL AIVRDLCRLF HDE_CANTR 325 1.46e-10 APTVSLKDKV VLITGAGAGLGK EYAKWFAKYG DHB3_HUMAN 51 1.78e-10 KSFLRSMGQW AVITGAGDGIGK AYSFELAKRG DHMA_FLAS1 17 1.97e-10 RRPGRLAGKA AIVTGAAGGIGR ATVEAYLREG PCR_PEA 89 2.17e-10 EGKKTLRKGN VVITGASSGLGL ATAKALAESG DHB2_HUMAN 85 2.62e-10 QELLPVDQKA VLVTGGDCGLGH ALCKYLDELG BDH_HUMAN 58 6.71e-10 SAAEPVGSKA VLVTGCDSGFGF SLAKHLHSKG FIXR_BRAJA 39 8.52e-10 ARVDRGEPKV MLLTGASRGIGH ATAKLFSEAG RIDH_KLEAE 17 1.07e-09 SMNTSLSGKV AAITGAASGIGL ECARTLLGAG DHGB_BACME 10 1.25e-09 MYKDLEGKV VVITGSSTGLGK SMAIRFATEK 3BHD_COMTE 9 1.25e-09 TNRLQGKV ALVTGGASGVGL EVVKLLLGEG 2BHD_STREX 9 1.25e-09 MNDLSGKT VIITGGARGLGA EAARQAVAAG BA72_EUBSP 9 1.93e-09 MNLVQDKV TIITGGTRGIGF AAAKIFIDNG HMTR_LEIMA 9 3.64e-09 MTAPTVPV ALVTGAAKRLGR SIAEGLHAEG RFBB_NEIGO 9 2.10e-08 MQTEGKKN ILVTGGAGFIGS AVVRHIIQNT MAS1_AGRRA 248 2.39e-08 WTVEIHQSPV ILVSGSNRGVGK AIAEDLIAHG -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif VLVTGAGSGIGK MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- DHES_HUMAN 2.5e-12 4_[2]_311 YINL_LISMO 4e-12 7_[2]_229 DHII_HUMAN 5.6e-12 36_[2]_244 YRTP_BACSU 1.1e-11 8_[2]_218 FVT1_HUMAN 1.6e-11 34_[2]_286 AP27_MOUSE 1.6e-11 9_[2]_223 BUDC_KLETE 2.8e-11 4_[2]_225 BPHB_PSEPS 4.8e-11 7_[2]_256 HDHA_ECOLI 7.7e-11 13_[2]_230 ENTA_ECOLI 9.6e-11 7_[2]_229 HDE_CANTR 1.2e-10 10_[2]_302_[2]_570 DHCA_HUMAN 1.5e-10 6_[2]_258 DHB3_HUMAN 1.8e-10 50_[2]_248 DHMA_FLAS1 2e-10 16_[2]_242 PCR_PEA 2.2e-10 88_[2]_299 DHB2_HUMAN 2.6e-10 84_[2]_291 BDH_HUMAN 6.7e-10 57_[2]_274 FIXR_BRAJA 8.5e-10 38_[2]_228 RIDH_KLEAE 1.1e-09 16_[2]_221 DHGB_BACME 1.2e-09 9_[2]_241 3BHD_COMTE 1.2e-09 8_[2]_233 2BHD_STREX 1.2e-09 8_[2]_235 BA72_EUBSP 1.9e-09 8_[2]_229 HMTR_LEIMA 3.6e-09 8_[2]_267 RFBB_NEIGO 2.1e-08 8_[2]_326 MAS1_AGRRA 2.4e-08 247_[2]_217 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif VLVTGAGSGIGK MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF VLVTGAGSGIGK width=12 seqs=27 DHES_HUMAN ( 5) VLITGCSSGIGL 1 YINL_LISMO ( 8) IIITGASSGIGK 1 DHII_HUMAN ( 37) VIVTGASKGIGR 1 YRTP_BACSU ( 9) ALITGGGRGIGR 1 FVT1_HUMAN ( 35) VVVTGGSSGIGK 1 AP27_MOUSE ( 10) ALVTGAGKGIGR 1 BUDC_KLETE ( 5) ALVTGAGQGIGK 1 BPHB_PSEPS ( 8) VLITGGASGLGR 1 HDHA_ECOLI ( 14) AIITGAGAGIGK 1 ENTA_ECOLI ( 8) VWVTGAGKGIGY 1 HDE_CANTR ( 11) VIITGAGGGLGK 1 DHCA_HUMAN ( 7) ALVTGGNKGIGL 1 HDE_CANTR ( 325) VLITGAGAGLGK 1 DHB3_HUMAN ( 51) AVITGAGDGIGK 1 DHMA_FLAS1 ( 17) AIVTGAAGGIGR 1 PCR_PEA ( 89) VVITGASSGLGL 1 DHB2_HUMAN ( 85) VLVTGGDCGLGH 1 BDH_HUMAN ( 58) VLVTGCDSGFGF 1 FIXR_BRAJA ( 39) MLLTGASRGIGH 1 RIDH_KLEAE ( 17) AAITGAASGIGL 1 DHGB_BACME ( 10) VVITGSSTGLGK 1 3BHD_COMTE ( 9) ALVTGGASGVGL 1 2BHD_STREX ( 9) VIITGGARGLGA 1 BA72_EUBSP ( 9) TIITGGTRGIGF 1 HMTR_LEIMA ( 9) ALVTGAAKRLGR 1 RFBB_NEIGO ( 9) ILVTGGAGFIGS 1 MAS1_AGRRA ( 248) ILVSGSNRGVGK 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif VLVTGAGSGIGK MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 20 w= 12 n= 14434 bayes= 8.9365 E= 3.4e-003 162 -293 -641 -583 -376 -626 -507 112 -561 -301 44 -544 -566 -512 -571 -492 -58 239 -471 -444 -154 -288 -610 -535 -265 -589 -426 211 -506 244 -192 -500 -512 -424 -496 -449 -359 83 179 -365 -516 -344 -733 -700 -446 -764 -725 305 -693 -107 -354 -666 -680 -675 -744 -653 -446 251 -644 -576 -369 -263 -460 -490 -463 -501 -394 -384 -411 -493 -356 -292 -450 -350 -422 -24 398 -379 -434 -481 -543 -516 -527 -593 -662 345 -530 -712 -574 -725 -665 -492 -593 -574 -569 -510 -610 -699 -553 -615 220 256 -629 -624 -590 184 -549 -606 -640 -618 -543 -505 -467 -505 -587 33 -349 -480 -566 -611 114 -392 67 -325 -570 163 -271 -641 -357 -632 -591 104 -446 -312 -438 196 -54 -598 -556 -461 -53 131 -25 -118 -337 7 -130 -341 171 -328 -261 -150 -277 66 169 197 -37 -334 -312 -260 -315 -326 -306 -368 -94 332 -330 -495 -350 -538 -441 -262 -416 -365 -120 -285 -402 -482 -366 -416 -525 -368 -648 -621 0 -701 -555 335 -588 160 -204 -583 -606 -517 -604 -570 -444 8 -430 -441 -543 -516 -527 -593 -662 345 -530 -712 -574 -725 -665 -492 -593 -574 -569 -510 -610 -699 -553 -615 -135 -322 -273 -193 84 -401 187 -340 255 82 -288 -217 -342 -117 203 -56 -248 -348 -338 33 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif VLVTGAGSGIGK MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 20 w= 12 nsites= 27 E= 3.4e-003 0.370370 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.111111 0.000000 0.000000 0.037037 0.000000 0.000000 0.000000 0.000000 0.000000 0.037037 0.444444 0.000000 0.000000 0.037037 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.259259 0.000000 0.518519 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.148148 0.037037 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.481481 0.000000 0.037037 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.481481 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.037037 0.962963 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.518519 0.074074 0.000000 0.000000 0.000000 0.333333 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.074074 0.000000 0.000000 0.000000 0.000000 0.259259 0.000000 0.074074 0.000000 0.000000 0.296296 0.000000 0.000000 0.000000 0.000000 0.000000 0.074074 0.000000 0.000000 0.000000 0.259259 0.037037 0.000000 0.000000 0.000000 0.074074 0.037037 0.037037 0.000000 0.000000 0.111111 0.000000 0.000000 0.185185 0.000000 0.000000 0.000000 0.000000 0.037037 0.185185 0.296296 0.037037 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.037037 0.925926 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.037037 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.037037 0.000000 0.000000 0.592593 0.000000 0.296296 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.074074 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.037037 0.000000 0.000000 0.000000 0.074074 0.000000 0.074074 0.000000 0.333333 0.185185 0.000000 0.000000 0.000000 0.000000 0.222222 0.037037 0.000000 0.000000 0.000000 0.037037 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif VLVTGAGSGIGK MEME-2 regular expression -------------------------------------------------------------------------------- [VA][LI][IV]TG[AG][GAS]SG[IL]G[KR] -------------------------------------------------------------------------------- Time 0.61 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 2BHD_STREX 4.45e-14 8_[2(1.25e-09)]_57_[1(1.70e-11)]_\ 166 3BHD_COMTE 8.69e-14 8_[2(1.25e-09)]_57_[1(3.43e-11)]_\ 164 ADH_DROME 3.50e-06 82_[1(8.47e-09)]_161 AP27_MOUSE 7.62e-15 9_[2(1.57e-11)]_52_[1(2.41e-10)]_\ 159 BA72_EUBSP 8.01e-15 8_[2(1.93e-09)]_62_[1(1.97e-12)]_\ 155 BDH_HUMAN 2.60e-09 57_[2(6.71e-10)]_65_[1(1.47e-06)]_\ 197 BPHB_PSEPS 1.63e-13 7_[2(4.80e-11)]_56_[1(1.43e-09)]_\ 188 BUDC_KLETE 6.45e-14 4_[2(2.82e-11)]_60_[1(1.24e-09)]_\ 153 DHES_HUMAN 4.49e-16 4_[2(2.52e-12)]_64_[1(4.47e-11)]_44_\ [2(6.15e-05)]_179 DHGB_BACME 1.58e-14 9_[2(1.25e-09)]_62_[1(5.51e-12)]_\ 167 DHII_HUMAN 7.93e-10 36_[2(5.58e-12)]_61_[1(7.21e-05)]_\ 171 DHMA_FLAS1 5.11e-12 16_[2(1.97e-10)]_55_[1(1.68e-05)]_\ 99_[1(1.27e-08)]_64 ENTA_ECOLI 2.98e-12 7_[2(9.62e-11)]_50_[1(1.78e-08)]_\ 167 FIXR_BRAJA 2.89e-11 38_[2(8.52e-10)]_58_[1(1.66e-08)]_\ 158 GUTD_ECOLI 5.39e-08 4_[2(9.99e-06)]_62_[1(4.23e-09)]_\ 169 HDE_CANTR 2.99e-15 10_[2(1.19e-10)]_66_[1(1.14e-10)]_\ 224_[2(1.46e-10)]_56_[1(8.26e-13)]_502 HDHA_ECOLI 2.39e-16 13_[2(7.68e-11)]_60_[1(1.29e-12)]_\ 158 LIGD_PSEPA 3.34e-04 8_[2(2.70e-07)]_285 NODG_RHIME 1.79e-11 8_[2(1.64e-07)]_57_[1(6.86e-11)]_\ 156 RIDH_KLEAE 3.09e-11 16_[2(1.07e-09)]_57_[1(1.78e-08)]_\ 152 YINL_LISMO 1.64e-13 7_[2(3.95e-12)]_60_[1(2.17e-08)]_\ 157 YRTP_BACSU 6.72e-16 8_[2(1.14e-11)]_60_[1(2.89e-11)]_\ 146 CSGA_MYXXA 1.65e-09 9_[1(1.14e-12)]_145 DHB2_HUMAN 2.38e-08 84_[2(2.62e-10)]_61_[1(2.99e-05)]_\ 218 DHB3_HUMAN 3.43e-08 50_[2(1.78e-10)]_248 DHCA_HUMAN 1.92e-16 6_[2(1.46e-10)]_61_[1(4.56e-13)]_\ 185 FABI_ECOLI 1.49e-02 262 FVT1_HUMAN 4.54e-15 34_[2(1.57e-11)]_65_[1(7.45e-11)]_\ 209 HMTR_LEIMA 1.75e-13 8_[2(3.64e-09)]_79_[1(1.86e-11)]_\ 176 MAS1_AGRRA 6.29e-13 247_[2(2.39e-08)]_57_[1(3.74e-12)]_\ 148 PCR_PEA 1.71e-12 88_[2(2.17e-10)]_61_[1(1.66e-09)]_\ 226 RFBB_NEIGO 3.17e-05 8_[2(2.10e-08)]_326 YURA_MYXXA 3.13e-05 86_[1(1.21e-07)]_160 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (2) found. ******************************************************************************** CPU: Timothys-Mac-Mini.local ********************************************************************************