******************************************************************************** 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/meme32 -mod zoops -protein -nmotifs 2 -objfun se -w 12 -hsfrac 0.6 -shuf 2 -nostatus -mpi model: mod= zoops nmotifs= 2 evt= inf objective function: em= Selective 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= 49975 maxiter= 50 distance= 1e-05 data: n= 9996 N= 33 sample: seed= 0 hsfrac= 0.6 searchsize= 9996 norand= no csites= -1 Dirichlet mixture priors file: prior30.plib Letter frequencies in dataset: A 0.111 C 0.0121 D 0.0502 E 0.0553 F 0.0359 G 0.0898 H 0.0182 I 0.0566 K 0.0518 L 0.0919 M 0.0272 N 0.0405 P 0.0405 Q 0.0294 R 0.0494 S 0.0637 T 0.0565 V 0.083 W 0.0095 Y 0.027 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 XDLKGKNVLVTG MEME-1 width = 12 sites = 27 llr = 400 p-value = 8.3e-006 E-value = 8.3e-006 ******************************************************************************** -------------------------------------------------------------------------------- Motif XDLKGKNVLVTG MEME-1 Description -------------------------------------------------------------------------------- Simplified A :::1::12:::: pos.-specific C :::::::::::: probability D :2:::::::::: matrix E 12:::::::::: F 1::::::::::: G 1::15:1::::9 H ::::::1::::: I ::1::::313:: K 1::1161::::: L 1:7::1::4::: M 1::::::::::: N 1:::::2:::2: P :1::1::::::: Q 1::1:::::::: R 11:1::::2::: S :1:1:::::::: T 11:1::1:::8: V 1:1:::2416:: W :::::::::::: Y :::::::::::: bits 6.7 6.0 5.4 4.7 Relative 4.0 Entropy 3.4 ** (21.4 bits) 2.7 *** 2.0 * * * *** 1.3 ** ** ***** 0.7 ************ 0.0 ------------ Multilevel XDLXGKXVLVTG consensus I I sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif XDLKGKNVLVTG MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ------------ ENTA_ECOLI 1 1.88e-10 . MDFSGKNVWVTG AGKGIGYATA DHII_HUMAN 30 1.88e-10 YYSANEEFRP EMLQGKKVIVTG ASKGIGREMA 2BHD_STREX 2 2.22e-10 M NDLSGKTVIITG GARGLGAEAA 3BHD_COMTE 2 8.45e-10 T NRLQGKVALVTG GASGVGLEVV DHGB_BACME 3 1.87e-09 MY KDLEGKVVVITG SSTGLGKSMA YRTP_BACSU 2 3.45e-09 M QSLQHKTALITG GGRGIGRATA HDHA_ECOLI 175 3.89e-09 AASHLVRNMA FDLGEKNIRVNG IAPGAILTDA FABI_ECOLI 2 6.90e-09 M GFLSGKRILVTG VASKLSIAYG BPHB_PSEPS 1 7.72e-09 . MKLKGEAVLITG GASGLGRALV HDE_CANTR 318 9.61e-09 PANDASGAPT VSLKDKVVLITG AGAGLGKEYA YINL_LISMO 1 1.47e-08 . MTIKNKVIIITG ASSGIGKATA RFBB_NEIGO 2 2.73e-08 M QTEGKKNILVTG GAGFIGSAVV NODG_RHIME 2 3.68e-08 M FELTGRKALVTG ASGAIGGAIA DHMA_FLAS1 10 5.41e-08 TTAGVSRRP GRLAGKAAIVTG AAGGIGRATV RIDH_KLEAE 10 7.89e-08 MKHSVSSMN TSLSGKVAAITG AASGIGLECA PCR_PEA 82 2.10e-07 AVNKSSSEGK KTLRKGNVVITG ASSGLGLATA BDH_HUMAN 51 3.47e-07 IGRRTYASAA EPVGSKAVLVTG CDSGFGFSLA AP27_MOUSE 165 3.47e-07 AMTMLTKAMA MELGPHKIRVNS VNPTVVLTDM HMTR_LEIMA 209 3.77e-07 ALEGLTRSAA LELAPLQIRVNG VGPGLSVLVD DHB2_HUMAN 78 4.08e-07 MYTYLSGQEL LPVDQKAVLVTG GDCGLGHALC YURA_MYXXA 176 4.80e-07 FLSTFMESLR VDLRGTGVRVTC IYPGFVKSEL FVT1_HUMAN 28 7.67e-07 MVSPLISPKP LALPGAHVVVTG GSSGIGKCIA BUDC_KLETE 168 2.00e-06 AVRGLTQTAA RDLAPLGITVNG FCPGIVKTPM BA72_EUBSP 173 2.15e-06 SVIGLTHGLG REIIRKNIRVVG VAPGVVNTDM GUTD_ECOLI 243 2.65e-06 MLLFYASPKA SYCTGQSINVTG GQVMF ADH_DROME 81 5.56e-06 ETTKLLKTIF AQLKTVDVLING AGILDDHQIE MAS1_AGRRA 359 1.53e-05 YINCVAPLRM TELCLPHLYETG SGRIVNINSM -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif XDLKGKNVLVTG MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- ENTA_ECOLI 1.9e-10 [1]_236 DHII_HUMAN 1.9e-10 29_[1]_251 2BHD_STREX 2.2e-10 1_[1]_242 3BHD_COMTE 8.4e-10 1_[1]_240 DHGB_BACME 1.9e-09 2_[1]_248 YRTP_BACSU 3.5e-09 1_[1]_225 HDHA_ECOLI 3.9e-09 174_[1]_69 FABI_ECOLI 6.9e-09 1_[1]_249 BPHB_PSEPS 7.7e-09 [1]_263 HDE_CANTR 9.6e-09 317_[1]_577 YINL_LISMO 1.5e-08 [1]_236 RFBB_NEIGO 2.7e-08 1_[1]_333 NODG_RHIME 3.7e-08 1_[1]_232 DHMA_FLAS1 5.4e-08 9_[1]_249 RIDH_KLEAE 7.9e-08 9_[1]_228 PCR_PEA 2.1e-07 81_[1]_306 BDH_HUMAN 3.5e-07 50_[1]_281 AP27_MOUSE 3.5e-07 164_[1]_68 HMTR_LEIMA 3.8e-07 208_[1]_67 DHB2_HUMAN 4.1e-07 77_[1]_298 YURA_MYXXA 4.8e-07 175_[1]_71 FVT1_HUMAN 7.7e-07 27_[1]_293 BUDC_KLETE 2e-06 167_[1]_62 BA72_EUBSP 2.1e-06 172_[1]_65 GUTD_ECOLI 2.6e-06 242_[1]_5 ADH_DROME 5.6e-06 80_[1]_163 MAS1_AGRRA 1.5e-05 358_[1]_106 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif XDLKGKNVLVTG MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF XDLKGKNVLVTG width=12 seqs=27 ENTA_ECOLI ( 1) MDFSGKNVWVTG 1 DHII_HUMAN ( 30) EMLQGKKVIVTG 1 2BHD_STREX ( 2) NDLSGKTVIITG 1 3BHD_COMTE ( 2) NRLQGKVALVTG 1 DHGB_BACME ( 3) KDLEGKVVVITG 1 YRTP_BACSU ( 2) QSLQHKTALITG 1 HDHA_ECOLI ( 175) FDLGEKNIRVNG 1 FABI_ECOLI ( 2) GFLSGKRILVTG 1 BPHB_PSEPS ( 1) MKLKGEAVLITG 1 HDE_CANTR ( 318) VSLKDKVVLITG 1 YINL_LISMO ( 1) MTIKNKVIIITG 1 RFBB_NEIGO ( 2) QTEGKKNILVTG 1 NODG_RHIME ( 2) FELTGRKALVTG 1 DHMA_FLAS1 ( 10) GRLAGKAAIVTG 1 RIDH_KLEAE ( 10) TSLSGKVAAITG 1 PCR_PEA ( 82) KTLRKGNVVITG 1 BDH_HUMAN ( 51) EPVGSKAVLVTG 1 AP27_MOUSE ( 165) MELGPHKIRVNS 1 HMTR_LEIMA ( 209) LELAPLQIRVNG 1 DHB2_HUMAN ( 78) LPVDQKAVLVTG 1 YURA_MYXXA ( 176) VDLRGTGVRVTC 1 FVT1_HUMAN ( 28) LALPGAHVVVTG 1 BUDC_KLETE ( 168) RDLAPLGITVNG 1 BA72_EUBSP ( 173) REIIRKNIRVVG 1 GUTD_ECOLI ( 243) SYCTGQSINVTG 1 ADH_DROME ( 81) AQLKTVDVLING 1 MAS1_AGRRA ( 359) TELCLPHLYETG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif XDLKGKNVLVTG MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 20 w= 12 n= 9632 bayes= 8.47468 E= 8.3e-006 -119 -293 -186 56 75 -45 -128 -332 68 5 212 81 -274 135 57 -38 36 -34 -307 -256 -119 -296 188 159 -17 -335 -127 -337 8 -324 28 -147 63 67 57 73 83 -330 -308 29 -415 68 -499 -142 -38 -544 -333 0 -390 306 -70 -426 -393 -288 -359 -398 -336 -67 -288 -311 -7 130 -24 -5 -333 45 -127 -74 144 -324 -257 -147 -23 181 57 108 36 -330 -308 -256 -246 -296 -25 -5 -334 208 98 -339 68 -127 -258 8 117 66 -14 -38 -37 -331 -309 -257 -121 -298 -190 -8 -337 -129 96 -340 324 -48 -261 -152 -25 64 -13 -168 -39 -119 -311 -260 27 -296 -24 -114 -333 -45 182 -338 111 -325 -257 195 -273 67 -14 -38 36 86 -309 -256 65 -337 -723 -684 -443 -743 -684 254 -676 -108 -354 -650 -664 -652 -716 -627 -436 240 -624 -560 -129 -168 -469 -391 -205 -436 -277 136 -358 186 -145 -24 -382 -294 167 -289 -40 52 175 41 -494 -334 -708 -68 -452 -743 -680 254 -670 -338 -362 -648 -656 -654 -706 -630 -432 288 -643 -574 -364 -242 -411 -450 -430 -494 -357 -340 -372 -456 -321 177 -428 -315 -388 -101 372 -128 -405 -446 -310 68 -313 -374 -480 332 -337 -499 -357 -542 -445 -268 -417 -369 -360 -122 -396 -480 -373 -425 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif XDLKGKNVLVTG MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 20 w= 12 nsites= 27 E= 8.3e-006 0.037037 0.000000 0.000000 0.074074 0.074074 0.074074 0.000000 0.000000 0.074074 0.111111 0.148148 0.074074 0.000000 0.074074 0.074074 0.037037 0.074074 0.074074 0.000000 0.000000 0.037037 0.000000 0.222222 0.185185 0.037037 0.000000 0.000000 0.000000 0.037037 0.000000 0.037037 0.000000 0.074074 0.037037 0.074074 0.111111 0.111111 0.000000 0.000000 0.037037 0.000000 0.037037 0.000000 0.037037 0.037037 0.000000 0.000000 0.074074 0.000000 0.740741 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.074074 0.000000 0.000000 0.111111 0.037037 0.037037 0.037037 0.000000 0.148148 0.000000 0.037037 0.148148 0.000000 0.000000 0.000000 0.037037 0.111111 0.074074 0.148148 0.074074 0.000000 0.000000 0.000000 0.000000 0.000000 0.037037 0.037037 0.000000 0.481481 0.037037 0.000000 0.074074 0.037037 0.000000 0.037037 0.111111 0.037037 0.037037 0.037037 0.037037 0.000000 0.000000 0.000000 0.037037 0.000000 0.000000 0.037037 0.000000 0.037037 0.037037 0.000000 0.592593 0.074074 0.000000 0.000000 0.037037 0.037037 0.037037 0.000000 0.037037 0.037037 0.000000 0.000000 0.148148 0.000000 0.037037 0.000000 0.000000 0.074074 0.074074 0.000000 0.111111 0.000000 0.000000 0.185185 0.000000 0.037037 0.037037 0.037037 0.074074 0.185185 0.000000 0.000000 0.185185 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.333333 0.000000 0.037037 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.444444 0.000000 0.000000 0.037037 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.148148 0.000000 0.370370 0.000000 0.037037 0.000000 0.000000 0.185185 0.000000 0.037037 0.111111 0.037037 0.037037 0.000000 0.000000 0.000000 0.037037 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 0.629630 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 0.185185 0.000000 0.000000 0.000000 0.000000 0.777778 0.037037 0.000000 0.000000 0.000000 0.037037 0.000000 0.000000 0.000000 0.925926 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 XDLKGKNVLVTG MEME-1 regular expression -------------------------------------------------------------------------------- XDLXGKX[VI]L[VI]TG -------------------------------------------------------------------------------- Time 0.17 secs. ******************************************************************************** ******************************************************************************** MOTIF ASSGIGKATAKA MEME-2 width = 12 sites = 27 llr = 427 p-value = 4.8e-003 E-value = 4.8e-003 ******************************************************************************** -------------------------------------------------------------------------------- Motif ASSGIGKATAKA MEME-2 Description -------------------------------------------------------------------------------- Simplified A 521::::617:2 pos.-specific C 1::::::::::: probability D :1:::::1:::1 matrix E :::::::2::11 F ::::::1::::: G 3319:a:::::: H ::::::1::::1 I ::::7:::3:1: K ::2:::3:::3: L ::::3:2:1:11 M ::::::::1::: N :1:::::::::: P :::::::::::: Q :::::::::::: R ::2:::2:::21 S 133::::1:1:: T ::::::::3::1 V :::::::::1:: W :::::::::::: Y ::::::::1::: bits 6.7 6.0 5.4 4.7 Relative 4.0 Entropy 3.4 * * (22.8 bits) 2.7 *** 2.0 * *** *** 1.3 *********** 0.7 ************ 0.0 ------------ Multilevel ASSGIGKATAKX consensus GG L R I sequence A -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ASSGIGKATAKA MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ------------ FIXR_BRAJA 44 6.73e-11 GEPKVMLLTG ASRGIGHATAKL FSEAGWRIIS DHII_HUMAN 42 1.51e-10 LQGKKVIVTG ASKGIGREMAYH LAKMGAHVVV FVT1_HUMAN 40 2.36e-10 LPGAHVVVTG GSSGIGKCIAIE CYKQGAFITL YINL_LISMO 13 3.60e-10 IKNKVIIITG ASSGIGKATALL LAEKGAKLVL BUDC_KLETE 10 4.14e-10 MQKVALVTG AGQGIGKAIALR LVKDGFAVAI YRTP_BACSU 14 9.04e-10 LQHKTALITG GGRGIGRATALA LAKEGVNIGL PCR_PEA 94 1.02e-09 LRKGNVVITG ASSGLGLATAKA LAESGKWHVI ENTA_ECOLI 13 3.22e-09 FSGKNVWVTG AGKGIGYATALA FVEAGAKVTG RIDH_KLEAE 22 4.93e-09 LSGKVAAITG AASGIGLECART LLGAGAKVVL HDHA_ECOLI 19 9.90e-09 LDGKCAIITG AGAGIGKEIAIT FATAGASVVV AP27_MOUSE 15 9.90e-09 FSGLRALVTG AGKGIGRDTVKA LHASGAKVVA HDE_CANTR 330 1.09e-08 LKDKVVLITG AGAGLGKEYAKW FAKYGAKVVV DHCA_HUMAN 12 2.28e-08 SGIHVALVTG GNKGIGLAIVRD LCRLFSGDVV DHES_HUMAN 10 2.49e-08 ARTVVLITG CSSGIGLHLAVR LASDPSQSFK DHMA_FLAS1 22 3.23e-08 LAGKAAIVTG AAGGIGRATVEA YLREGASVVA DHB3_HUMAN 56 5.36e-08 SMGQWAVITG AGDGIGKAYSFE LAKRGLNVVL BDH_HUMAN 63 7.42e-08 VGSKAVLVTG CDSGFGFSLAKH LHSKGFLVFA DHB2_HUMAN 90 1.02e-07 VDQKAVLVTG GDCGLGHALCKY LDELGFTVFA MAS1_AGRRA 253 1.10e-07 HQSPVILVSG SNRGVGKAIAED LIAHGYRLSL DHGB_BACME 15 1.10e-07 LEGKVVVITG SSTGLGKSMAIR FATEKAKVVV BA72_EUBSP 14 1.19e-07 VQDKVTIITG GTRGIGFAAAKI FIDNGAKVSI BPHB_PSEPS 13 2.92e-07 LKGEAVLITG GASGLGRALVDR FVAEAKVAVL ADH_DROME 14 7.25e-07 LTNKNVIFVA GLGGIGLDTSKE LLKRDLKNLV 2BHD_STREX 14 8.87e-07 LSGKTVIITG GARGLGAEAARQ AVAAGARVVL NODG_RHIME 14 1.93e-06 LTGRKALVTG ASGAIGGAIARV LHAQGAIVGL HMTR_LEIMA 14 2.06e-06 PTVPVALVTG AAKRLGRSIAEG LHAEGYAVCL FABI_ECOLI 20 7.28e-06 LVTGVASKLS IAYGIAQAMHRE GAELAFTYQN -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ASSGIGKATAKA MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- FIXR_BRAJA 6.7e-11 43_[2]_223 DHII_HUMAN 1.5e-10 41_[2]_239 FVT1_HUMAN 2.4e-10 39_[2]_281 YINL_LISMO 3.6e-10 12_[2]_224 BUDC_KLETE 4.1e-10 9_[2]_220 YRTP_BACSU 9e-10 13_[2]_213 PCR_PEA 1e-09 93_[2]_294 ENTA_ECOLI 3.2e-09 12_[2]_224 RIDH_KLEAE 4.9e-09 21_[2]_216 HDHA_ECOLI 9.9e-09 18_[2]_225 AP27_MOUSE 9.9e-09 14_[2]_218 HDE_CANTR 1.1e-08 329_[2]_565 DHCA_HUMAN 2.3e-08 11_[2]_253 DHES_HUMAN 2.5e-08 9_[2]_306 DHMA_FLAS1 3.2e-08 21_[2]_237 DHB3_HUMAN 5.4e-08 55_[2]_243 BDH_HUMAN 7.4e-08 62_[2]_269 DHB2_HUMAN 1e-07 89_[2]_286 MAS1_AGRRA 1.1e-07 252_[2]_212 DHGB_BACME 1.1e-07 14_[2]_236 BA72_EUBSP 1.2e-07 13_[2]_224 BPHB_PSEPS 2.9e-07 12_[2]_251 ADH_DROME 7.2e-07 13_[2]_230 2BHD_STREX 8.9e-07 13_[2]_230 NODG_RHIME 1.9e-06 13_[2]_220 HMTR_LEIMA 2.1e-06 13_[2]_262 FABI_ECOLI 7.3e-06 19_[2]_231 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ASSGIGKATAKA MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF ASSGIGKATAKA width=12 seqs=27 FIXR_BRAJA ( 44) ASRGIGHATAKL 1 DHII_HUMAN ( 42) ASKGIGREMAYH 1 FVT1_HUMAN ( 40) GSSGIGKCIAIE 1 YINL_LISMO ( 13) ASSGIGKATALL 1 BUDC_KLETE ( 10) AGQGIGKAIALR 1 YRTP_BACSU ( 14) GGRGIGRATALA 1 PCR_PEA ( 94) ASSGLGLATAKA 1 ENTA_ECOLI ( 13) AGKGIGYATALA 1 RIDH_KLEAE ( 22) AASGIGLECART 1 HDHA_ECOLI ( 19) AGAGIGKEIAIT 1 AP27_MOUSE ( 15) AGKGIGRDTVKA 1 HDE_CANTR ( 330) AGAGLGKEYAKW 1 DHCA_HUMAN ( 12) GNKGIGLAIVRD 1 DHES_HUMAN ( 10) CSSGIGLHLAVR 1 DHMA_FLAS1 ( 22) AAGGIGRATVEA 1 DHB3_HUMAN ( 56) AGDGIGKAYSFE 1 BDH_HUMAN ( 63) CDSGFGFSLAKH 1 DHB2_HUMAN ( 90) GDCGLGHALCKY 1 MAS1_AGRRA ( 253) SNRGVGKAIAED 1 DHGB_BACME ( 15) SSTGLGKSMAIR 1 BA72_EUBSP ( 14) GTRGIGFAAAKI 1 BPHB_PSEPS ( 13) GASGLGRALVDR 1 ADH_DROME ( 14) GLGGIGLDTSKE 1 2BHD_STREX ( 14) GARGLGAEAARQ 1 NODG_RHIME ( 14) ASGAIGGAIARV 1 HMTR_LEIMA ( 14) AAKRLGRSIAEG 1 FABI_ECOLI ( 20) IAYGIAQAMHRE 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ASSGIGKATAKA MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 20 w= 12 n= 9632 bayes= 8.47468 E= 4.8e-003 223 250 -574 -550 -520 159 -499 -71 -558 -534 -466 -476 -462 -465 -531 30 -330 -404 -502 -548 91 -369 65 -274 -502 142 -244 -532 -284 -137 -469 100 -408 -247 -355 212 -51 -510 -485 -410 -53 130 -24 -115 -334 7 -127 -338 170 -325 -258 -148 -274 67 168 179 -36 -331 -309 29 -189 -323 -304 -366 -474 332 -329 -493 -348 -537 -439 -260 -414 -363 -121 -282 -399 -479 -366 -418 -526 -371 -638 -613 -1 -695 -546 350 -578 142 -195 -574 -600 -508 -594 -563 -443 -55 -420 -432 -183 -327 -318 -379 -485 335 -342 -505 -362 -547 -451 -274 -423 -375 -366 -290 -404 -487 -378 -431 -130 -322 -237 -161 80 -130 185 -356 237 78 -286 -190 -316 61 200 -208 -227 -355 -335 31 233 130 31 138 -395 -310 68 -390 -275 -396 -335 -209 -400 -233 -328 63 -269 -300 -380 -377 -55 150 -475 -397 -206 -439 -281 207 -364 70 191 -353 -385 -299 -359 -293 219 -163 -248 130 270 101 -384 -338 -316 -245 1 -301 -338 -316 -255 -342 -426 -307 -344 4 -227 8 -304 -354 -259 -253 -34 94 -8 -358 -156 78 229 50 -222 -182 -298 -103 169 -190 -198 -98 -292 32 55 -293 49 132 -330 -127 182 -73 -98 -46 -254 -149 -274 66 140 -163 36 -116 162 29 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ASSGIGKATAKA MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 20 w= 12 nsites= 27 E= 4.8e-003 0.518519 0.074074 0.000000 0.000000 0.000000 0.296296 0.000000 0.037037 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.074074 0.000000 0.000000 0.000000 0.000000 0.222222 0.000000 0.074074 0.000000 0.000000 0.259259 0.000000 0.000000 0.000000 0.037037 0.000000 0.074074 0.000000 0.000000 0.000000 0.296296 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 0.259259 0.037037 0.000000 0.000000 0.037037 0.037037 0.000000 0.000000 0.000000 0.000000 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 0.666667 0.000000 0.259259 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.037037 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 0.037037 0.000000 0.000000 0.000000 0.074074 0.037037 0.074074 0.000000 0.296296 0.185185 0.000000 0.000000 0.000000 0.037037 0.222222 0.000000 0.000000 0.000000 0.000000 0.037037 0.555556 0.037037 0.074074 0.185185 0.000000 0.000000 0.037037 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 0.037037 0.000000 0.000000 0.000000 0.000000 0.000000 0.259259 0.000000 0.148148 0.111111 0.000000 0.000000 0.000000 0.000000 0.000000 0.296296 0.000000 0.000000 0.074074 0.703704 0.037037 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 0.074074 0.000000 0.148148 0.000000 0.000000 0.000000 0.000000 0.037037 0.111111 0.037037 0.000000 0.000000 0.111111 0.296296 0.148148 0.000000 0.000000 0.000000 0.000000 0.185185 0.000000 0.000000 0.037037 0.000000 0.037037 0.185185 0.000000 0.074074 0.148148 0.000000 0.037037 0.074074 0.037037 0.000000 0.074074 0.000000 0.000000 0.000000 0.037037 0.148148 0.000000 0.074074 0.037037 0.037037 0.037037 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ASSGIGKATAKA MEME-2 regular expression -------------------------------------------------------------------------------- [AG][SGA]SG[IL]G[KR]A[TI]AKX -------------------------------------------------------------------------------- Time 0.30 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 2BHD_STREX 3.06e-10 1_[1(2.22e-10)]_[2(8.87e-07)]_142_\ [1(4.65e-05)]_76 3BHD_COMTE 1.07e-08 1_[1(8.45e-10)]_[2(9.69e-06)]_50_\ [1(1.73e-05)]_166 ADH_DROME 3.89e-06 13_[2(7.25e-07)]_55_[1(5.56e-06)]_\ 163 AP27_MOUSE 4.37e-09 2_[1(1.12e-05)]_[2(9.90e-09)]_138_\ [1(3.47e-07)]_68 BA72_EUBSP 2.76e-07 1_[1(7.23e-05)]_[2(1.19e-07)]_147_\ [1(2.15e-06)]_65 BDH_HUMAN 5.87e-08 50_[1(3.47e-07)]_[2(7.42e-08)]_269 BPHB_PSEPS 3.70e-09 [1(7.72e-09)]_[2(2.92e-07)]_251 BUDC_KLETE 1.09e-09 9_[2(4.14e-10)]_53_[1(6.48e-05)]_81_\ [1(2.00e-06)]_62 DHES_HUMAN 1.75e-06 9_[2(2.49e-08)]_108_[1(4.15e-05)]_\ 186 DHGB_BACME 3.38e-10 2_[1(1.87e-09)]_[2(1.10e-07)]_149_\ [1(8.97e-05)]_75 DHII_HUMAN 7.78e-14 29_[1(1.88e-10)]_[2(1.51e-10)]_239 DHMA_FLAS1 2.80e-09 9_[1(5.41e-08)]_[2(3.23e-08)]_48_\ [1(2.94e-05)]_87_[1(6.48e-05)]_78 ENTA_ECOLI 1.09e-12 [1(1.88e-10)]_[2(3.22e-09)]_224 FIXR_BRAJA 3.88e-08 43_[2(6.73e-11)]_223 GUTD_ECOLI 4.63e-04 242_[1(2.65e-06)]_5 HDE_CANTR 2.03e-09 3_[1(1.14e-07)]_[2(6.87e-06)]_290_\ [1(9.61e-09)]_[2(1.09e-08)]_184_[1(6.85e-05)]_369 HDHA_ECOLI 6.37e-11 6_[1(7.10e-07)]_[2(9.90e-09)]_53_\ [1(8.97e-05)]_79_[1(3.89e-09)]_69 LIGD_PSEPA 2.10e-03 1_[1(9.30e-06)]_292 NODG_RHIME 7.92e-08 1_[1(3.68e-08)]_[2(1.93e-06)]_50_\ [1(3.71e-05)]_80_[1(1.95e-05)]_49_[1(6.14e-05)]_5 RIDH_KLEAE 5.62e-10 9_[1(7.89e-08)]_[2(4.93e-09)]_216 YINL_LISMO 8.90e-12 [1(1.47e-08)]_[2(3.60e-10)]_224 YRTP_BACSU 4.90e-12 1_[1(3.45e-09)]_[2(9.04e-10)]_145_\ [1(6.14e-05)]_56 CSGA_MYXXA 3.30e-01 166 DHB2_HUMAN 1.17e-07 77_[1(4.08e-07)]_[2(1.02e-07)]_286 DHB3_HUMAN 3.85e-05 55_[2(5.36e-08)]_243 DHCA_HUMAN 4.64e-06 11_[2(2.28e-08)]_253 FABI_ECOLI 6.51e-08 1_[1(6.90e-09)]_6_[2(7.28e-06)]_231 FVT1_HUMAN 4.79e-10 27_[1(7.67e-07)]_[2(2.36e-10)]_150_\ [1(6.85e-05)]_119 HMTR_LEIMA 1.04e-06 13_[2(2.06e-06)]_183_[1(3.77e-07)]_\ 67 MAS1_AGRRA 5.75e-06 252_[2(1.10e-07)]_94_[1(1.53e-05)]_\ 106 PCR_PEA 8.14e-10 81_[1(2.10e-07)]_[2(1.02e-09)]_294 RFBB_NEIGO 7.78e-06 1_[1(2.73e-08)]_333 YURA_MYXXA 6.11e-04 175_[1(4.80e-07)]_71 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (2) found. ******************************************************************************** CPU: Timothys-Mac-Mini.local ********************************************************************************