******************************************************************************** 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 common/adh.s -oc results/meme44 -mod oops -protein -nmotifs 2 -objfun nz -w 12 -hsfrac 0.5 -shuf 2 -nostatus -mpi model: mod= oops nmotifs= 2 evt= inf objective function: em= Noise-injected mHG starts= log likelihood ratio (LLR) width: minw= 12 maxw= 12 nsites: minsites= 33 maxsites= 33 wnsites= 0.8 theta: spmap= pam spfuzz= 120 em: prior= dmix b= 0 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 VAJVTGAASGJG MEME-1 width = 12 sites = 33 llr = 599 p-value = 2.1e-005 E-value = 2.1e-005 ******************************************************************************** -------------------------------------------------------------------------------- Motif VAJVTGAASGJG MEME-1 Description -------------------------------------------------------------------------------- Simplified A 14::::5311:: pos.-specific C ::::::1:1::: probability D :::::::1:::: matrix E :::::::::::: F :::::::::::: G :::::a4228:9 H :::::::::::: I :124::::::5: K 1:::::::2::: L ::5:::::::3: M :::::::::::: N 2::::::1:::: P :::::::::::: Q ::::::::1::: R 1:::::::2::: S ::::1:123::1 T 11::9::::1:: V 4425::::::1: W :::::::::::: Y :::::::::::: bits 6.7 6.0 5.4 4.7 Relative 4.0 Entropy 3.4 ** * (26.2 bits) 2.7 *** * * 2.0 * **** *** 1.3 ************ 0.7 ************ 0.0 ------------ Multilevel VALVTGAASGIG consensus VII GG L sequence S -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif VAJVTGAASGJG MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ------------ DHES_HUMAN 4 4.89e-15 ART VVLITGCSSGIG LHLAVRLASD YINL_LISMO 7 5.52e-12 MTIKNK VIIITGASSGIG KATALLLAEK BUDC_KLETE 4 2.06e-11 MQK VALVTGAGQGIG KAIALRLVKD DHCA_HUMAN 6 3.37e-11 SSGIH VALVTGGNKGIG LAIVRDLCRL ENTA_ECOLI 7 3.96e-11 MDFSGK NVWVTGAGKGIG YATALAFVEA DHII_HUMAN 36 5.43e-11 EFRPEMLQGK KVIVTGASKGIG REMAYHLAKM FVT1_HUMAN 34 8.33e-11 SPKPLALPGA HVVVTGGSSGIG KCIAIECYKQ PCR_PEA 88 1.07e-10 SEGKKTLRKG NVVITGASSGLG LATAKALAES AP27_MOUSE 9 1.21e-10 MKLNFSGL RALVTGAGKGIG RDTVKALHAS YRTP_BACSU 8 1.55e-10 MQSLQHK TALITGGGRGIG RATALALAKE HDE_CANTR 10 2.16e-10 MSPVDFKDK VVIITGAGGGLG KYYSLEFAKL BPHB_PSEPS 7 2.69e-10 MKLKGE AVLITGGASGLG RALVDRFVAE 3BHD_COMTE 8 3.36e-10 TNRLQGK VALVTGGASGVG LEVVKLLLGE RIDH_KLEAE 16 3.74e-10 SSMNTSLSGK VAAITGAASGIG LECARTLLGA DHMA_FLAS1 16 4.15e-10 SRRPGRLAGK AAIVTGAAGGIG RATVEAYLRE HDHA_ECOLI 13 5.65e-10 NSDNLRLDGK CAIITGAGAGIG KEIAITFATA 2BHD_STREX 8 5.65e-10 MNDLSGK TVIITGGARGLG AEAARQAVAA DHB2_HUMAN 84 7.59e-10 GQELLPVDQK AVLVTGGDCGLG HALCKYLDEL DHB3_HUMAN 50 8.36e-10 PKSFLRSMGQ WAVITGAGDGIG KAYSFELAKR BA72_EUBSP 8 9.19e-10 MNLVQDK VTIITGGTRGIG FAAAKIFIDN FIXR_BRAJA 38 2.12e-09 NARVDRGEPK VMLLTGASRGIG HATAKLFSEA BDH_HUMAN 57 3.04e-09 ASAAEPVGSK AVLVTGCDSGFG FSLAKHLHSK HMTR_LEIMA 8 3.94e-09 MTAPTVP VALVTGAAKRLG RSIAEGLHAE DHGB_BACME 9 4.29e-09 MYKDLEGK VVVITGSSTGLG KSMAIRFATE RFBB_NEIGO 8 4.67e-09 MQTEGKK NILVTGGAGFIG SAVVRHIIQN NODG_RHIME 8 6.54e-09 MFELTGR KALVTGASGAIG GAIARVLHAQ LIGD_PSEPA 8 7.72e-09 MKDFQDQ VAFITGGASGAG FGQAKVFGQA MAS1_AGRRA 247 7.12e-08 HWTVEIHQSP VILVSGSNRGVG KAIAEDLIAH GUTD_ECOLI 4 2.15e-07 MNQ VAVVIGGGQTLG AFLCHGLAAE FABI_ECOLI 8 1.12e-06 MGFLSGK RILVTGVASKLS IAYGIAQAMH CSGA_MYXXA 19 2.72e-06 CTGPVDVLIN NAGVSGLWCALG DVDYADMART ADH_DROME 8 4.52e-06 SFTLTNK NVIFVAGLGGIG LDTSKELLKR YURA_MYXXA 118 5.64e-06 LPWERVRGII DTNVTGAAATLS AVLPQMVERK -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif VAJVTGAASGJG MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- DHES_HUMAN 4.9e-15 3_[1]_312 YINL_LISMO 5.5e-12 6_[1]_230 BUDC_KLETE 2.1e-11 3_[1]_226 DHCA_HUMAN 3.4e-11 5_[1]_259 ENTA_ECOLI 4e-11 6_[1]_230 DHII_HUMAN 5.4e-11 35_[1]_245 FVT1_HUMAN 8.3e-11 33_[1]_287 PCR_PEA 1.1e-10 87_[1]_300 AP27_MOUSE 1.2e-10 8_[1]_224 YRTP_BACSU 1.5e-10 7_[1]_219 HDE_CANTR 2.2e-10 9_[1]_885 BPHB_PSEPS 2.7e-10 6_[1]_257 3BHD_COMTE 3.4e-10 7_[1]_234 RIDH_KLEAE 3.7e-10 15_[1]_222 DHMA_FLAS1 4.1e-10 15_[1]_243 HDHA_ECOLI 5.6e-10 12_[1]_231 2BHD_STREX 5.6e-10 7_[1]_236 DHB2_HUMAN 7.6e-10 83_[1]_292 DHB3_HUMAN 8.4e-10 49_[1]_249 BA72_EUBSP 9.2e-10 7_[1]_230 FIXR_BRAJA 2.1e-09 37_[1]_229 BDH_HUMAN 3e-09 56_[1]_275 HMTR_LEIMA 3.9e-09 7_[1]_268 DHGB_BACME 4.3e-09 8_[1]_242 RFBB_NEIGO 4.7e-09 7_[1]_327 NODG_RHIME 6.5e-09 7_[1]_226 LIGD_PSEPA 7.7e-09 7_[1]_286 MAS1_AGRRA 7.1e-08 246_[1]_218 GUTD_ECOLI 2.2e-07 3_[1]_244 FABI_ECOLI 1.1e-06 7_[1]_243 CSGA_MYXXA 2.7e-06 18_[1]_136 ADH_DROME 4.5e-06 7_[1]_236 YURA_MYXXA 5.6e-06 117_[1]_129 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif VAJVTGAASGJG MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF VAJVTGAASGJG width=12 seqs=33 DHES_HUMAN ( 4) VVLITGCSSGIG 1 YINL_LISMO ( 7) VIIITGASSGIG 1 BUDC_KLETE ( 4) VALVTGAGQGIG 1 DHCA_HUMAN ( 6) VALVTGGNKGIG 1 ENTA_ECOLI ( 7) NVWVTGAGKGIG 1 DHII_HUMAN ( 36) KVIVTGASKGIG 1 FVT1_HUMAN ( 34) HVVVTGGSSGIG 1 PCR_PEA ( 88) NVVITGASSGLG 1 AP27_MOUSE ( 9) RALVTGAGKGIG 1 YRTP_BACSU ( 8) TALITGGGRGIG 1 HDE_CANTR ( 10) VVIITGAGGGLG 1 BPHB_PSEPS ( 7) AVLITGGASGLG 1 3BHD_COMTE ( 8) VALVTGGASGVG 1 RIDH_KLEAE ( 16) VAAITGAASGIG 1 DHMA_FLAS1 ( 16) AAIVTGAAGGIG 1 HDHA_ECOLI ( 13) CAIITGAGAGIG 1 2BHD_STREX ( 8) TVIITGGARGLG 1 DHB2_HUMAN ( 84) AVLVTGGDCGLG 1 DHB3_HUMAN ( 50) WAVITGAGDGIG 1 BA72_EUBSP ( 8) VTIITGGTRGIG 1 FIXR_BRAJA ( 38) VMLLTGASRGIG 1 BDH_HUMAN ( 57) AVLVTGCDSGFG 1 HMTR_LEIMA ( 8) VALVTGAAKRLG 1 DHGB_BACME ( 9) VVVITGSSTGLG 1 RFBB_NEIGO ( 8) NILVTGGAGFIG 1 NODG_RHIME ( 8) KALVTGASGAIG 1 LIGD_PSEPA ( 8) VAFITGGASGAG 1 MAS1_AGRRA ( 247) VILVSGSNRGVG 1 GUTD_ECOLI ( 4) VAVVIGGGQTLG 1 FABI_ECOLI ( 8) RILVTGVASKLS 1 CSGA_MYXXA ( 19) NAGVSGLWCALG 1 ADH_DROME ( 8) NVIFVAGLGGIG 1 YURA_MYXXA ( 118) DTNVTGAAATLS 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif VAJVTGAASGJG MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 20 w= 12 n= 14434 bayes= 8.19757 E= 2.1e-005 4 109 -51 -150 -341 -366 73 -320 43 -329 -268 172 -304 -103 32 -195 12 209 140 -279 184 -328 -685 -629 -415 -668 -559 121 -607 -334 17 -588 -610 -559 -621 -535 7 212 -519 -487 -156 -195 -497 -419 -13 -162 -304 198 -386 219 -166 -51 -407 -320 -380 -317 -250 86 149 -261 -547 -376 -768 -730 -26 -792 -729 278 -723 -129 -360 -697 -704 -685 -761 -682 -478 268 -628 -586 -390 -252 -434 -462 -434 -535 -366 -109 -376 -461 -320 -258 -438 -318 -391 22 386 -152 -407 -455 -198 -346 -337 -399 -504 336 -361 -524 -381 -566 -470 -293 -442 -394 -385 -309 -423 -506 -397 -450 205 225 -615 -593 -555 193 -535 -551 -602 -163 -503 -510 -489 -500 -570 4 -361 -139 -540 -582 134 -347 33 -243 -447 129 -233 -450 -238 -158 -389 68 -385 -205 -301 182 -73 -437 150 -375 -76 204 -48 -143 -362 53 -154 -366 148 -352 -285 -173 -301 112 146 204 -60 -358 -336 -284 -139 -337 -316 -378 -112 320 -341 -505 -140 -549 -452 -273 -427 -375 -136 -296 -74 -492 -378 -430 -188 -372 -690 -647 -23 -712 -570 323 -619 179 -254 -609 -627 -548 -629 -582 -453 -16 -467 -471 -346 -354 -349 -411 -515 334 -372 -535 -394 -577 -482 -305 -452 -405 -397 -53 -432 -517 -408 -461 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif VAJVTGAASGJG MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 20 w= 12 nsites= 33 E= 2.1e-005 0.121212 0.030303 0.030303 0.000000 0.000000 0.000000 0.030303 0.000000 0.060606 0.000000 0.000000 0.151515 0.000000 0.000000 0.060606 0.000000 0.060606 0.424242 0.030303 0.000000 0.424242 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.121212 0.000000 0.000000 0.030303 0.000000 0.000000 0.000000 0.000000 0.000000 0.060606 0.363636 0.000000 0.000000 0.030303 0.000000 0.000000 0.000000 0.030303 0.030303 0.000000 0.242424 0.000000 0.454545 0.000000 0.030303 0.000000 0.000000 0.000000 0.000000 0.000000 0.151515 0.030303 0.000000 0.000000 0.000000 0.000000 0.000000 0.030303 0.000000 0.000000 0.393939 0.000000 0.030303 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.545455 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.030303 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.060606 0.878788 0.030303 0.000000 0.000000 0.030303 0.000000 0.000000 0.000000 0.000000 0.969697 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 0.454545 0.060606 0.000000 0.000000 0.000000 0.363636 0.000000 0.000000 0.000000 0.030303 0.000000 0.000000 0.000000 0.000000 0.000000 0.060606 0.000000 0.030303 0.000000 0.000000 0.303030 0.000000 0.060606 0.000000 0.000000 0.242424 0.000000 0.000000 0.000000 0.030303 0.000000 0.060606 0.000000 0.000000 0.000000 0.242424 0.030303 0.000000 0.030303 0.000000 0.060606 0.060606 0.030303 0.000000 0.000000 0.151515 0.000000 0.000000 0.151515 0.000000 0.000000 0.000000 0.000000 0.060606 0.151515 0.303030 0.030303 0.000000 0.000000 0.000000 0.060606 0.000000 0.000000 0.000000 0.030303 0.787879 0.000000 0.000000 0.030303 0.000000 0.000000 0.000000 0.000000 0.000000 0.030303 0.000000 0.060606 0.000000 0.000000 0.000000 0.030303 0.000000 0.000000 0.000000 0.030303 0.000000 0.000000 0.545455 0.000000 0.333333 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.060606 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.939394 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.060606 0.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif VAJVTGAASGJG MEME-1 regular expression -------------------------------------------------------------------------------- V[AV][LI][VI]TG[AG][AGS]SG[IL]G -------------------------------------------------------------------------------- Time 0.23 secs. ******************************************************************************** ******************************************************************************** MOTIF GRLDVLVNNAGI MEME-2 width = 12 sites = 33 llr = 589 p-value = 1.8e-004 E-value = 1.8e-004 ******************************************************************************** -------------------------------------------------------------------------------- Motif GRLDVLVNNAGI MEME-2 Description -------------------------------------------------------------------------------- Simplified A ::::1::1181: pos.-specific C :::::::::::: probability D :::8:::::::: matrix E 1::::::::::: F ::1::1:::::: G 72::1:::::8: H :::::::1:::: I ::2:212::::4 K 12:::::::::: L ::3:27:1:::1 M ::::11:::::1 N :::1:::78::: P :2:::::::::: Q :::::::::::: R :2:::::::::: S ::::::::1::: T :1:1:::::::: V ::3:316::::2 W :::1:::::::: Y :::::::::::1 bits 6.7 6.0 5.4 4.7 Relative 4.0 Entropy 3.4 * * (25.7 bits) 2.7 * ** * 2.0 * * ****** 1.3 ************ 0.7 ************ 0.0 ------------ Multilevel GGLDVLVNNAGI consensus RV I sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GRLDVLVNNAGI MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ------------ DHCA_HUMAN 81 2.53e-13 ALRDFLRKEY GGLDVLVNNAGI AFKVADPTPF HDE_CANTR 394 4.82e-13 AIIKNVIDKY GTIDILVNNAGI LRDRSFAKMS MAS1_AGRRA 318 5.26e-12 AWVTAAVEKF GRIDGLVNNAGY GEPVNLDKHV BA72_EUBSP 84 5.89e-12 AAVGQVAQKY GRLDVMINNAGI TSNNVFSRVS 2BHD_STREX 79 6.43e-12 RVVAYAREEF GSVDGLVNNAGI STGMFLETES NODG_RHIME 79 1.17e-11 ALGQRAEADL EGVDILVNNAGI TKDGLFLHMA YRTP_BACSU 82 1.27e-11 QAVAQVKEQL GDIDILINNAGI SKFGGFLDLS 3BHD_COMTE 79 1.51e-11 LVMAAVQRRL GTLNVLVNNAGI LLPGDMETGR HDHA_ECOLI 87 2.80e-11 ALADFAISKL GKVDILVNNAGG GGPKPFDMPM DHGB_BACME 85 4.73e-11 NLVQSAIKEF GKLDVMINNAGM ENPVSSHEMS FVT1_HUMAN 113 1.01e-10 NVIKQAQEKL GPVDMLVNCAGM AVSGKFEDLE DHES_HUMAN 82 1.76e-10 VAAARERVTE GRVDVLVCNAGL GLLGPLEALG BUDC_KLETE 78 3.28e-10 AAVEQARKAL GGFNVIVNNAGI APSTPIESIT AP27_MOUSE 75 3.83e-10 DATEKALGGI GPVDLLVNNAAL VIMQPFLEVT HMTR_LEIMA 101 6.49e-10 ELVAACYTHW GRCDVLVNNASS FYPTPLLRND BDH_HUMAN 136 1.25e-09 DCPFEPEGPE KGMWGLVNNAGI STFGEVEFTS BPHB_PSEPS 77 2.54e-09 QAASRCVARF GKIDTLIPNAGI WDYSTALVDL GUTD_ECOLI 80 3.35e-09 ALSRGVDEIF GRVDLLVYSAGI AKAAFISDFQ PCR_PEA 163 3.59e-09 QFVDNFRRSE MPLDVLINNAAV YFPTAKEPSF ENTA_ECOLI 71 3.85e-09 QVCQRLLAET ERLDALVNAAGI LRMGATDQLS ADH_DROME 84 7.57e-09 KLLKTIFAQL KTVDVLINGAGI LDDHQIERTI FIXR_BRAJA 110 1.13e-08 ITEVKKRLAG APLHALVNNAGV SPKTPTGDRM YURA_MYXXA 88 1.66e-08 ERIRALDAEA GGLDLVVANAGV GGTTNAKRLP DHMA_FLAS1 196 4.56e-08 HGILVNMIAP GPVDVTGNNTGY SEPRLAEQVL YINL_LISMO 81 4.85e-08 KLVELAIERY GKVDAIFLNAGI MPNSPLSALK DHB2_HUMAN 159 1.35e-07 YSKVAAMLQD RGLWAVINNAGV LGFPTDGELL RIDH_KLEAE 87 1.35e-07 NLLQGILQLT GRLDIFHANAGA YIGGPVAEGD DHB3_HUMAN 123 7.43e-07 YEHIKEKLAG LEIGILVNNVGM LPNLLPSHFL DHII_HUMAN 111 1.67e-06 QFVAQAGKLM GGLDMLILNHIT NTSLNLFHDD FABI_ECOLI 83 1.45e-05 TMFAELGKVW PKFDGFVHSIGF APGDQLDGDY LIGD_PSEPA 83 3.85e-05 AADEVEAVFG QAPTLLSNTAGV NSFGPIEKTT RFBB_NEIGO 109 9.74e-05 AGEFIRTNIV GTFDLLEAARAY WQQMPSEKRE CSGA_MYXXA 110 1.02e-04 RSMSTDLRPE GFVTVLLHPGWV QTDMGGPDAT -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GRLDVLVNNAGI MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- DHCA_HUMAN 2.5e-13 80_[2]_184 HDE_CANTR 4.8e-13 393_[2]_501 MAS1_AGRRA 5.3e-12 317_[2]_147 BA72_EUBSP 5.9e-12 83_[2]_154 2BHD_STREX 6.4e-12 78_[2]_165 NODG_RHIME 1.2e-11 78_[2]_155 YRTP_BACSU 1.3e-11 81_[2]_145 3BHD_COMTE 1.5e-11 78_[2]_163 HDHA_ECOLI 2.8e-11 86_[2]_157 DHGB_BACME 4.7e-11 84_[2]_166 FVT1_HUMAN 1e-10 112_[2]_208 DHES_HUMAN 1.8e-10 81_[2]_234 BUDC_KLETE 3.3e-10 77_[2]_152 AP27_MOUSE 3.8e-10 74_[2]_158 HMTR_LEIMA 6.5e-10 100_[2]_175 BDH_HUMAN 1.2e-09 135_[2]_196 BPHB_PSEPS 2.5e-09 76_[2]_187 GUTD_ECOLI 3.4e-09 79_[2]_168 PCR_PEA 3.6e-09 162_[2]_225 ENTA_ECOLI 3.8e-09 70_[2]_166 ADH_DROME 7.6e-09 83_[2]_160 FIXR_BRAJA 1.1e-08 109_[2]_157 YURA_MYXXA 1.7e-08 87_[2]_159 DHMA_FLAS1 4.6e-08 195_[2]_63 YINL_LISMO 4.9e-08 80_[2]_156 DHB2_HUMAN 1.4e-07 158_[2]_217 RIDH_KLEAE 1.4e-07 86_[2]_151 DHB3_HUMAN 7.4e-07 122_[2]_176 DHII_HUMAN 1.7e-06 110_[2]_170 FABI_ECOLI 1.4e-05 82_[2]_168 LIGD_PSEPA 3.8e-05 82_[2]_211 RFBB_NEIGO 9.7e-05 108_[2]_226 CSGA_MYXXA 0.0001 109_[2]_45 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GRLDVLVNNAGI MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF GRLDVLVNNAGI width=12 seqs=33 DHCA_HUMAN ( 81) GGLDVLVNNAGI 1 HDE_CANTR ( 394) GTIDILVNNAGI 1 MAS1_AGRRA ( 318) GRIDGLVNNAGY 1 BA72_EUBSP ( 84) GRLDVMINNAGI 1 2BHD_STREX ( 79) GSVDGLVNNAGI 1 NODG_RHIME ( 79) EGVDILVNNAGI 1 YRTP_BACSU ( 82) GDIDILINNAGI 1 3BHD_COMTE ( 79) GTLNVLVNNAGI 1 HDHA_ECOLI ( 87) GKVDILVNNAGG 1 DHGB_BACME ( 85) GKLDVMINNAGM 1 FVT1_HUMAN ( 113) GPVDMLVNCAGM 1 DHES_HUMAN ( 82) GRVDVLVCNAGL 1 BUDC_KLETE ( 78) GGFNVIVNNAGI 1 AP27_MOUSE ( 75) GPVDLLVNNAAL 1 HMTR_LEIMA ( 101) GRCDVLVNNASS 1 BDH_HUMAN ( 136) KGMWGLVNNAGI 1 BPHB_PSEPS ( 77) GKIDTLIPNAGI 1 GUTD_ECOLI ( 80) GRVDLLVYSAGI 1 PCR_PEA ( 163) MPLDVLINNAAV 1 ENTA_ECOLI ( 71) ERLDALVNAAGI 1 ADH_DROME ( 84) KTVDVLINGAGI 1 FIXR_BRAJA ( 110) APLHALVNNAGV 1 YURA_MYXXA ( 88) GGLDLVVANAGV 1 DHMA_FLAS1 ( 196) GPVDVTGNNTGY 1 YINL_LISMO ( 81) GKVDAIFLNAGI 1 DHB2_HUMAN ( 159) RGLWAVINNAGV 1 RIDH_KLEAE ( 87) GRLDIFHANAGA 1 DHB3_HUMAN ( 123) LEIGILVNNVGM 1 DHII_HUMAN ( 111) GGLDMLILNHIT 1 FABI_ECOLI ( 83) PKFDGFVHSIGF 1 LIGD_PSEPA ( 83) QAPTLLSNTAGV 1 RFBB_NEIGO ( 109) GTFDLLEAARAY 1 CSGA_MYXXA ( 110) GFVTVLLHPGWV 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GRLDVLVNNAGI MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 20 w= 12 n= 14434 bayes= 8.19757 E= 1.8e-004 -199 -338 -307 -56 -474 309 -315 -489 -43 -230 -64 -264 -114 -60 -123 -287 -385 -477 -376 -414 -142 -319 -47 -28 -40 98 -150 -361 148 -348 -281 -170 164 -92 190 -61 97 -354 -332 -280 -368 126 -550 -473 127 -516 -357 141 -441 179 32 -430 -51 -371 -435 -372 -299 192 -314 -308 -414 -339 403 -117 -429 -262 -46 -439 -386 -471 -427 2 -454 -315 -401 -326 -126 -454 110 -370 6 -201 -507 -429 -239 26 -314 164 -396 72 114 -385 -418 -332 -392 -325 -67 190 -281 -270 -438 -283 -521 -434 22 -567 -355 -12 -412 304 81 -449 -414 -309 -381 -421 -141 -80 -308 -331 -198 -134 -379 -169 -106 -249 -31 129 -344 -160 -217 -356 -331 -311 -321 -175 -185 300 -329 -358 -196 -35 -224 -403 -366 -409 54 -336 -311 -218 -360 433 -192 -233 -351 -183 -268 -415 -291 -137 -222 -17 -233 -413 -379 -265 -81 -349 -321 -439 -372 435 -176 -243 -360 -85 -169 -426 -301 -343 280 -64 -390 -343 -321 -160 -21 -145 -343 -321 -260 -348 -436 -313 -143 -102 -118 -123 -309 -359 -93 -336 -318 -380 -488 323 -343 -172 -362 -551 -453 -275 -428 -377 -366 -143 -412 -492 75 -432 -191 -214 -453 -410 -48 -202 -325 306 -372 -32 129 -365 -415 -327 -386 -132 -100 101 -286 116 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GRLDVLVNNAGI MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 20 w= 12 nsites= 33 E= 1.8e-004 0.030303 0.000000 0.000000 0.060606 0.000000 0.696970 0.000000 0.000000 0.060606 0.030303 0.030303 0.000000 0.030303 0.030303 0.030303 0.000000 0.000000 0.000000 0.000000 0.000000 0.030303 0.000000 0.030303 0.030303 0.030303 0.212121 0.000000 0.000000 0.151515 0.000000 0.000000 0.000000 0.151515 0.000000 0.212121 0.030303 0.121212 0.000000 0.000000 0.000000 0.000000 0.030303 0.000000 0.000000 0.090909 0.000000 0.000000 0.151515 0.000000 0.333333 0.030303 0.000000 0.030303 0.000000 0.000000 0.000000 0.000000 0.333333 0.000000 0.000000 0.000000 0.000000 0.757576 0.000000 0.000000 0.030303 0.030303 0.000000 0.000000 0.000000 0.000000 0.060606 0.000000 0.000000 0.000000 0.000000 0.060606 0.000000 0.060606 0.000000 0.121212 0.000000 0.000000 0.000000 0.000000 0.121212 0.000000 0.181818 0.000000 0.151515 0.060606 0.000000 0.000000 0.000000 0.000000 0.000000 0.030303 0.333333 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.060606 0.000000 0.000000 0.060606 0.000000 0.727273 0.060606 0.000000 0.000000 0.000000 0.000000 0.000000 0.030303 0.060606 0.000000 0.000000 0.000000 0.000000 0.000000 0.030303 0.030303 0.030303 0.030303 0.242424 0.000000 0.030303 0.000000 0.000000 0.000000 0.000000 0.000000 0.030303 0.000000 0.575758 0.000000 0.000000 0.090909 0.030303 0.000000 0.000000 0.000000 0.000000 0.060606 0.000000 0.000000 0.060606 0.000000 0.696970 0.030303 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.030303 0.060606 0.030303 0.000000 0.000000 0.000000 0.030303 0.000000 0.000000 0.000000 0.000000 0.000000 0.757576 0.030303 0.000000 0.000000 0.060606 0.030303 0.000000 0.000000 0.000000 0.818182 0.000000 0.000000 0.000000 0.000000 0.030303 0.030303 0.030303 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.030303 0.000000 0.030303 0.030303 0.000000 0.000000 0.090909 0.000000 0.000000 0.000000 0.000000 0.818182 0.000000 0.030303 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.030303 0.000000 0.000000 0.030303 0.000000 0.030303 0.000000 0.000000 0.000000 0.030303 0.030303 0.000000 0.424242 0.000000 0.060606 0.090909 0.000000 0.000000 0.000000 0.000000 0.030303 0.030303 0.181818 0.000000 0.090909 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif GRLDVLVNNAGI MEME-2 regular expression -------------------------------------------------------------------------------- G[GR][LV]DVL[VI]NNAGI -------------------------------------------------------------------------------- Time 0.42 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 2BHD_STREX 8.01e-15 7_[1(5.65e-10)]_59_[2(6.43e-12)]_\ 165 3BHD_COMTE 1.09e-14 7_[1(3.36e-10)]_59_[2(1.51e-11)]_\ 163 ADH_DROME 4.28e-08 7_[1(4.52e-06)]_64_[2(7.57e-09)]_32_\ [2(7.51e-05)]_116 AP27_MOUSE 8.73e-14 8_[1(1.21e-10)]_54_[2(3.83e-10)]_\ 158 BA72_EUBSP 1.13e-14 7_[1(9.19e-10)]_64_[2(5.89e-12)]_49_\ [1(2.11e-05)]_4_[1(3.14e-05)]_77 BDH_HUMAN 1.23e-11 56_[1(3.04e-09)]_67_[2(1.25e-09)]_\ 196 BPHB_PSEPS 1.51e-12 6_[1(2.69e-10)]_58_[2(2.54e-09)]_\ 187 BUDC_KLETE 1.31e-14 3_[1(2.06e-11)]_62_[2(3.28e-10)]_\ 152 DHES_HUMAN 3.87e-18 3_[1(4.89e-15)]_66_[2(1.76e-10)]_42_\ [1(1.08e-05)]_180 DHGB_BACME 4.21e-13 8_[1(4.29e-09)]_64_[2(4.73e-11)]_\ 166 DHII_HUMAN 1.91e-10 35_[1(5.43e-11)]_63_[2(1.67e-06)]_\ 170 DHMA_FLAS1 3.60e-11 15_[1(4.15e-10)]_57_[2(1.52e-05)]_\ 99_[2(4.56e-08)]_63 ENTA_ECOLI 2.86e-13 6_[1(3.96e-11)]_52_[2(3.85e-09)]_\ 166 FIXR_BRAJA 4.79e-11 37_[1(2.12e-09)]_60_[2(1.13e-08)]_\ 157 GUTD_ECOLI 1.10e-09 3_[1(2.15e-07)]_64_[2(3.35e-09)]_\ 168 HDE_CANTR 3.18e-15 9_[1(2.16e-10)]_68_[2(1.08e-09)]_\ 222_[1(5.65e-10)]_58_[2(4.82e-13)]_126_[1(8.96e-05)]_363 HDHA_ECOLI 3.35e-14 12_[1(5.65e-10)]_62_[2(2.80e-11)]_\ 157 LIGD_PSEPA 4.71e-07 7_[1(7.72e-09)]_63_[2(3.85e-05)]_\ 211 NODG_RHIME 1.42e-13 7_[1(6.54e-09)]_59_[2(1.17e-11)]_43_\ [1(6.18e-05)]_100 RIDH_KLEAE 7.89e-11 15_[1(3.74e-10)]_59_[2(1.35e-07)]_\ 151 YINL_LISMO 4.94e-13 6_[1(5.52e-12)]_62_[2(4.85e-08)]_\ 156 YRTP_BACSU 3.82e-15 7_[1(1.55e-10)]_62_[2(1.27e-11)]_\ 145 CSGA_MYXXA 1.02e-11 10_[2(5.26e-12)]_144 DHB2_HUMAN 3.77e-10 83_[1(7.59e-10)]_63_[2(1.35e-07)]_\ 217 DHB3_HUMAN 1.37e-09 49_[1(8.36e-10)]_61_[2(7.43e-07)]_\ 176 DHCA_HUMAN 2.57e-17 5_[1(3.37e-11)]_63_[2(2.53e-13)]_\ 184 FABI_ECOLI 1.51e-05 7_[1(1.12e-06)]_63_[2(1.45e-05)]_\ 168 FVT1_HUMAN 3.09e-14 33_[1(8.33e-11)]_67_[2(1.01e-10)]_\ 208 HMTR_LEIMA 5.90e-12 7_[1(3.94e-09)]_81_[2(6.49e-10)]_\ 175 MAS1_AGRRA 2.52e-12 246_[1(7.12e-08)]_59_[2(5.26e-12)]_\ 147 PCR_PEA 1.83e-12 87_[1(1.07e-10)]_63_[2(3.59e-09)]_\ 225 RFBB_NEIGO 8.94e-07 7_[1(4.67e-09)]_89_[2(9.74e-05)]_\ 226 YURA_MYXXA 1.14e-07 87_[2(1.66e-08)]_18_[1(5.64e-06)]_\ 129 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (2) found. ******************************************************************************** CPU: Timothys-Mac-Mini.local ********************************************************************************