******************************************************************************** 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/meme31 -mod oops -protein -nmotifs 2 -objfun se -w 12 -hsfrac 0.6 -shuf 2 -nostatus -mpi model: mod= oops nmotifs= 2 evt= inf objective function: em= Selective 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= 0.6 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 EDLAGKNIRVTG MEME-1 width = 12 sites = 33 llr = 446 p-value = 1.5e-004 E-value = 1.5e-004 ******************************************************************************** -------------------------------------------------------------------------------- Motif EDLAGKNIRVTG MEME-1 Description -------------------------------------------------------------------------------- Simplified A :1:2::22:::1 pos.-specific C :::::::::::1 probability D :4::1::::::: matrix E 22::1::::::: F ::1::::::::: G 1::23:2:1::7 H :::::1:::::: I ::1::::423:: K 1::2151::::: L 1:4::1::2::: M 2::::::::::: N 1:::::2:::2: P :1::2::::::: Q 1::1:::::::: R 11:1::1:2::: S 1::11:::::11 T :1::11::1:6: V 1:2:::23:711 W ::::::::1::: Y ::2::1:::::: bits 6.7 6.0 5.4 4.7 Relative 4.0 Entropy 3.4 (19.5 bits) 2.7 ** 2.0 * * *** 1.3 ** ******* 0.7 ************ 0.0 ------------ Multilevel XDLAGKNIRVTG consensus E G VIIN sequence L -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif EDLAGKNIRVTG MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ------------ ENTA_ECOLI 1 1.02e-12 . MDFSGKNVWVTG AGKGIGYATA DHII_HUMAN 30 8.57e-10 YYSANEEFRP EMLQGKKVIVTG ASKGIGREMA HDHA_ECOLI 175 1.13e-09 AASHLVRNMA FDLGEKNIRVNG IAPGAILTDA 2BHD_STREX 2 7.81e-09 M NDLSGKTVIITG GARGLGAEAA AP27_MOUSE 165 8.80e-09 AMTMLTKAMA MELGPHKIRVNS VNPTVVLTDM YINL_LISMO 1 1.11e-08 . MTIKNKVIIITG ASSGIGKATA HDE_CANTR 4 1.57e-08 MSP VDFKDKVVIITG AGGGLGKYYS 3BHD_COMTE 2 1.57e-08 T NRLQGKVALVTG GASGVGLEVV RFBB_NEIGO 2 2.73e-08 M QTEGKKNILVTG GAGFIGSAVV FABI_ECOLI 2 4.66e-08 M GFLSGKRILVTG VASKLSIAYG FIXR_BRAJA 205 4.66e-08 ALASLTRELA HDYAPHGIRVNA IAPGEIRTDM DHGB_BACME 176 5.73e-08 GMKLMTETLA LEYAPKGIRVNN IGPGAINTPI BDH_HUMAN 51 6.34e-08 IGRRTYASAA EPVGSKAVLVTG CDSGFGFSLA YURA_MYXXA 176 9.47e-08 FLSTFMESLR VDLRGTGVRVTC IYPGFVKSEL HMTR_LEIMA 209 9.47e-08 ALEGLTRSAA LELAPLQIRVNG VGPGLSVLVD DHMA_FLAS1 10 1.04e-07 TTAGVSRRP GRLAGKAAIVTG AAGGIGRATV FVT1_HUMAN 202 1.40e-07 AIRGLAEALQ MEVKPYNVYITV AYPPDTDTPG BUDC_KLETE 168 1.69e-07 AVRGLTQTAA RDLAPLGITVNG FCPGIVKTPM BPHB_PSEPS 1 2.45e-07 . MKLKGEAVLITG GASGLGRALV NODG_RHIME 168 3.84e-07 GMIGFSKSLA QEIATRNITVNC VAPGFIESAM YRTP_BACSU 171 5.00e-07 AVLGLTESLM QEVRKHNIRVSA LTPSTVASDM BA72_EUBSP 173 5.00e-07 SVIGLTHGLG REIIRKNIRVVG VAPGVVNTDM DHB2_HUMAN 78 5.45e-07 MYTYLSGQEL LPVDQKAVLVTG GDCGLGHALC LIGD_PSEPA 2 1.07e-06 M KDFQDQVAFITG GASGAGFGQA MAS1_AGRRA 301 2.35e-06 EWLHYARFDA EDHGTMAAWVTA AVEKFGRIDG RIDH_KLEAE 10 4.93e-06 MKHSVSSMN TSLSGKVAAITG AASGIGLECA GUTD_ECOLI 170 6.55e-06 GGVGLTQSLA LDLAEYGITVHS LMLGNLLKSP DHB3_HUMAN 214 7.03e-06 FVCAFSKALQ EEYKAKEVIIQV LTPYAVSTAM PCR_PEA 214 7.54e-06 SRLLLEDLKK SDYPSKRLIIVG SITGNTNTLA DHES_HUMAN 130 8.08e-06 RMLQAFLPDM KRRGSGRVLVTG SVGGLMGLPF ADH_DROME 243 1.06e-05 AIWKLDLGTL EAIQWTKHWDSG I DHCA_HUMAN 191 3.38e-05 GVHQKEGWPS SAYGVTKIGVTV LSRIHARKLS CSGA_MYXXA 13 8.65e-05 AFATNVCTGP VDVLINNAGVSG LWCALGDVDY -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif EDLAGKNIRVTG MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- ENTA_ECOLI 1e-12 [1]_236 DHII_HUMAN 8.6e-10 29_[1]_251 HDHA_ECOLI 1.1e-09 174_[1]_69 2BHD_STREX 7.8e-09 1_[1]_242 AP27_MOUSE 8.8e-09 164_[1]_68 YINL_LISMO 1.1e-08 [1]_236 HDE_CANTR 1.6e-08 3_[1]_891 3BHD_COMTE 1.6e-08 1_[1]_240 RFBB_NEIGO 2.7e-08 1_[1]_333 FABI_ECOLI 4.7e-08 1_[1]_249 FIXR_BRAJA 4.7e-08 204_[1]_62 DHGB_BACME 5.7e-08 175_[1]_75 BDH_HUMAN 6.3e-08 50_[1]_281 YURA_MYXXA 9.5e-08 175_[1]_71 HMTR_LEIMA 9.5e-08 208_[1]_67 DHMA_FLAS1 1e-07 9_[1]_249 FVT1_HUMAN 1.4e-07 201_[1]_119 BUDC_KLETE 1.7e-07 167_[1]_62 BPHB_PSEPS 2.5e-07 [1]_263 NODG_RHIME 3.8e-07 167_[1]_66 YRTP_BACSU 5e-07 170_[1]_56 BA72_EUBSP 5e-07 172_[1]_65 DHB2_HUMAN 5.4e-07 77_[1]_298 LIGD_PSEPA 1.1e-06 1_[1]_292 MAS1_AGRRA 2.3e-06 300_[1]_164 RIDH_KLEAE 4.9e-06 9_[1]_228 GUTD_ECOLI 6.6e-06 169_[1]_78 DHB3_HUMAN 7e-06 213_[1]_85 PCR_PEA 7.5e-06 213_[1]_174 DHES_HUMAN 8.1e-06 129_[1]_186 ADH_DROME 1.1e-05 242_[1]_1 DHCA_HUMAN 3.4e-05 190_[1]_74 CSGA_MYXXA 8.7e-05 12_[1]_142 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif EDLAGKNIRVTG MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF EDLAGKNIRVTG width=12 seqs=33 ENTA_ECOLI ( 1) MDFSGKNVWVTG 1 DHII_HUMAN ( 30) EMLQGKKVIVTG 1 HDHA_ECOLI ( 175) FDLGEKNIRVNG 1 2BHD_STREX ( 2) NDLSGKTVIITG 1 AP27_MOUSE ( 165) MELGPHKIRVNS 1 YINL_LISMO ( 1) MTIKNKVIIITG 1 HDE_CANTR ( 4) VDFKDKVVIITG 1 3BHD_COMTE ( 2) NRLQGKVALVTG 1 RFBB_NEIGO ( 2) QTEGKKNILVTG 1 FABI_ECOLI ( 2) GFLSGKRILVTG 1 FIXR_BRAJA ( 205) HDYAPHGIRVNA 1 DHGB_BACME ( 176) LEYAPKGIRVNN 1 BDH_HUMAN ( 51) EPVGSKAVLVTG 1 YURA_MYXXA ( 176) VDLRGTGVRVTC 1 HMTR_LEIMA ( 209) LELAPLQIRVNG 1 DHMA_FLAS1 ( 10) GRLAGKAAIVTG 1 FVT1_HUMAN ( 202) MEVKPYNVYITV 1 BUDC_KLETE ( 168) RDLAPLGITVNG 1 BPHB_PSEPS ( 1) MKLKGEAVLITG 1 NODG_RHIME ( 168) QEIATRNITVNC 1 YRTP_BACSU ( 171) QEVRKHNIRVSA 1 BA72_EUBSP ( 173) REIIRKNIRVVG 1 DHB2_HUMAN ( 78) LPVDQKAVLVTG 1 LIGD_PSEPA ( 2) KDFQDQVAFITG 1 MAS1_AGRRA ( 301) EDHGTMAAWVTA 1 RIDH_KLEAE ( 10) TSLSGKVAAITG 1 GUTD_ECOLI ( 170) LDLAEYGITVHS 1 DHB3_HUMAN ( 214) EEYKAKEVIIQV 1 PCR_PEA ( 214) SDYPSKRLIIVG 1 DHES_HUMAN ( 130) KRRGSGRVLVTG 1 ADH_DROME ( 243) EAIQWTKHWDSG 1 DHCA_HUMAN ( 191) SAYGVTKIGVTV 1 CSGA_MYXXA ( 13) VDVLINNAGVSG 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif EDLAGKNIRVTG MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 20 w= 12 n= 9632 bayes= 8.18427 E= 1.5e-004 -268 -317 -207 137 -39 -68 75 -358 46 20 220 59 -296 159 34 5 -59 -5 -331 -279 -75 -320 260 197 -40 -359 -151 -361 -15 -348 5 -171 41 -92 81 -61 13 -354 -333 -280 -320 -195 -497 -95 124 -464 61 111 -386 199 -169 -376 -408 -321 -76 -318 -251 86 -268 230 76 -319 -47 -137 -356 98 -150 -97 148 -150 -280 -171 -46 194 34 85 -209 -353 -332 -279 -141 -318 27 34 -355 133 -149 -97 46 -347 -280 -14 190 44 -37 51 13 -140 140 -279 -275 -324 -214 -30 -362 -150 212 -365 308 -69 5 -16 -302 43 -35 -192 61 -358 -336 96 32 -325 -215 -30 -364 53 -155 -367 122 -353 -287 236 -303 43 83 -193 -61 64 -337 -286 63 -303 -641 -577 -367 -623 64 285 -550 -123 -295 -535 -563 -495 -556 -484 -379 198 -447 -426 -153 -192 -493 -416 -11 -69 -301 182 -382 114 -170 -372 -406 -318 209 -313 64 -186 305 17 -505 -354 -83 -682 -477 -757 -678 226 -681 -364 -387 -663 -665 -665 -708 -643 -449 303 -662 -599 -392 -254 -416 -452 -435 -527 33 -349 -372 -464 -322 196 -437 -25 -388 59 343 -72 -408 -453 -55 184 -386 -443 -529 299 -402 -546 -429 -583 -492 -69 -452 -423 -428 -34 -396 -33 -437 -487 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif EDLAGKNIRVTG MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 20 w= 12 nsites= 33 E= 1.5e-004 0.000000 0.000000 0.000000 0.151515 0.030303 0.060606 0.030303 0.000000 0.060606 0.121212 0.151515 0.060606 0.000000 0.090909 0.060606 0.060606 0.030303 0.090909 0.000000 0.000000 0.060606 0.000000 0.363636 0.242424 0.030303 0.000000 0.000000 0.000000 0.030303 0.000000 0.030303 0.000000 0.060606 0.000000 0.090909 0.030303 0.060606 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.030303 0.090909 0.000000 0.030303 0.121212 0.000000 0.393939 0.000000 0.000000 0.000000 0.000000 0.030303 0.000000 0.000000 0.151515 0.000000 0.151515 0.212121 0.000000 0.030303 0.000000 0.000000 0.212121 0.000000 0.030303 0.151515 0.030303 0.000000 0.000000 0.030303 0.121212 0.060606 0.121212 0.000000 0.000000 0.000000 0.000000 0.030303 0.000000 0.060606 0.060606 0.000000 0.272727 0.000000 0.030303 0.060606 0.000000 0.000000 0.030303 0.181818 0.030303 0.030303 0.090909 0.060606 0.030303 0.030303 0.000000 0.000000 0.000000 0.000000 0.030303 0.000000 0.030303 0.090909 0.000000 0.515152 0.060606 0.030303 0.030303 0.000000 0.030303 0.030303 0.000000 0.090909 0.000000 0.000000 0.060606 0.151515 0.000000 0.000000 0.030303 0.000000 0.151515 0.000000 0.000000 0.121212 0.000000 0.000000 0.242424 0.000000 0.030303 0.090909 0.000000 0.030303 0.151515 0.000000 0.000000 0.181818 0.000000 0.000000 0.000000 0.000000 0.000000 0.030303 0.424242 0.000000 0.030303 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.333333 0.000000 0.000000 0.030303 0.000000 0.000000 0.000000 0.030303 0.060606 0.000000 0.212121 0.000000 0.212121 0.000000 0.000000 0.000000 0.000000 0.242424 0.000000 0.090909 0.000000 0.090909 0.030303 0.000000 0.000000 0.030303 0.000000 0.000000 0.000000 0.000000 0.272727 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.696970 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 0.212121 0.000000 0.030303 0.000000 0.090909 0.575758 0.060606 0.000000 0.000000 0.090909 0.060606 0.000000 0.000000 0.000000 0.666667 0.000000 0.000000 0.000000 0.000000 0.000000 0.030303 0.000000 0.000000 0.000000 0.060606 0.000000 0.090909 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif EDLAGKNIRVTG MEME-1 regular expression -------------------------------------------------------------------------------- X[DE]L[AG]GKN[IV][RIL][VI][TN]G -------------------------------------------------------------------------------- Time 0.17 secs. ******************************************************************************** ******************************************************************************** MOTIF ASSGIGKATAKA MEME-2 width = 12 sites = 33 llr = 458 p-value = 7.9e-007 E-value = 7.9e-007 ******************************************************************************** -------------------------------------------------------------------------------- Motif ASSGIGKATAKA MEME-2 Description -------------------------------------------------------------------------------- Simplified A 5211:::517:2 pos.-specific C 1::::::::1:: probability D :1:::::1:::1 matrix E :::::::2::11 F ::::::1::::: G 4218:a11:::: H ::1:::1::::1 I ::::6:::2:1: K :11:::2:::3: L :1::2:2:1:21 M ::::::::1::: N :1:::::::::: P :::::::::::: Q :::::::::::: R ::2:::2:::22 S 123::::1:1:: T ::::::::3::1 V ::::1:::12:1 W :::::::::::: Y ::::::1:1:1: bits 6.7 6.0 5.4 4.7 Relative 4.0 Entropy 3.4 * (20.0 bits) 2.7 * * 2.0 * *** * 1.3 *********** 0.7 ************ 0.0 ------------ Multilevel AASGIGKATAKX consensus GS I sequence G -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ASSGIGKATAKA MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ------------ FIXR_BRAJA 44 7.38e-11 GEPKVMLLTG ASRGIGHATAKL FSEAGWRIIS YINL_LISMO 13 3.40e-10 IKNKVIIITG ASSGIGKATALL LAEKGAKLVL DHII_HUMAN 42 6.82e-10 LQGKKVIVTG ASKGIGREMAYH LAKMGAHVVV ENTA_ECOLI 13 1.01e-09 FSGKNVWVTG AGKGIGYATALA FVEAGAKVTG BUDC_KLETE 10 1.01e-09 MQKVALVTG AGQGIGKAIALR LVKDGFAVAI FVT1_HUMAN 40 1.14e-09 LPGAHVVVTG GSSGIGKCIAIE CYKQGAFITL YRTP_BACSU 14 1.30e-09 LQHKTALITG GGRGIGRATALA LAKEGVNIGL PCR_PEA 94 4.19e-09 LRKGNVVITG ASSGLGLATAKA LAESGKWHVI RIDH_KLEAE 22 1.20e-08 LSGKVAAITG AASGIGLECART LLGAGAKVVL DHCA_HUMAN 12 2.15e-08 SGIHVALVTG GNKGIGLAIVRD LCRLFSGDVV AP27_MOUSE 15 3.13e-08 FSGLRALVTG AGKGIGRDTVKA LHASGAKVVA HDHA_ECOLI 19 3.75e-08 LDGKCAIITG AGAGIGKEIAIT FATAGASVVV HDE_CANTR 330 4.90e-08 LKDKVVLITG AGAGLGKEYAKW FAKYGAKVVV DHMA_FLAS1 22 4.90e-08 LAGKAAIVTG AAGGIGRATVEA YLREGASVVA MAS1_AGRRA 253 6.94e-08 HQSPVILVSG SNRGVGKAIAED LIAHGYRLSL DHES_HUMAN 10 6.94e-08 ARTVVLITG CSSGIGLHLAVR LASDPSQSFK BA72_EUBSP 14 6.94e-08 VQDKVTIITG GTRGIGFAAAKI FIDNGAKVSI BDH_HUMAN 63 1.59e-07 VGSKAVLVTG CDSGFGFSLAKH LHSKGFLVFA DHB3_HUMAN 56 1.86e-07 SMGQWAVITG AGDGIGKAYSFE LAKRGLNVVL DHB2_HUMAN 90 2.18e-07 VDQKAVLVTG GDCGLGHALCKY LDELGFTVFA BPHB_PSEPS 13 6.26e-07 LKGEAVLITG GASGLGRALVDR FVAEAKVAVL ADH_DROME 14 6.26e-07 LTNKNVIFVA GLGGIGLDTSKE LLKRDLKNLV NODG_RHIME 14 8.34e-07 LTGRKALVTG ASGAIGGAIARV LHAQGAIVGL DHGB_BACME 15 8.34e-07 LEGKVVVITG SSTGLGKSMAIR FATEKAKVVV 3BHD_COMTE 14 8.34e-07 LQGKVALVTG GASGVGLEVVKL LLGEGAKVAF RFBB_NEIGO 14 2.33e-06 EGKKNILVTG GAGFIGSAVVRH IIQNTRDSVV 2BHD_STREX 14 3.22e-06 LSGKTVIITG GARGLGAEAARQ AVAAGARVVL LIGD_PSEPA 14 8.71e-06 FQDQVAFITG GASGAGFGQAKV FGQAGAKIVV HMTR_LEIMA 25 1.86e-05 AKRLGRSIAE GLHAEGYAVCLH YHRSAAEANA CSGA_MYXXA 78 2.91e-05 AHVTSRMGSL AANTDGGAYAYR MSKAALNMAV GUTD_ECOLI 148 5.53e-05 QINSKSGKVG SKHNSGYSAAKF GGVGLTQSLA YURA_MYXXA 95 1.13e-04 AEAGGLDLVV ANAGVGGTTNAK RLPWERVRGI FABI_ECOLI 16 2.94e-04 GKRILVTGVA SKLSIAYGIAQA MHREGAELAF -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ASSGIGKATAKA MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- FIXR_BRAJA 7.4e-11 43_[2]_223 YINL_LISMO 3.4e-10 12_[2]_224 DHII_HUMAN 6.8e-10 41_[2]_239 ENTA_ECOLI 1e-09 12_[2]_224 BUDC_KLETE 1e-09 9_[2]_220 FVT1_HUMAN 1.1e-09 39_[2]_281 YRTP_BACSU 1.3e-09 13_[2]_213 PCR_PEA 4.2e-09 93_[2]_294 RIDH_KLEAE 1.2e-08 21_[2]_216 DHCA_HUMAN 2.2e-08 11_[2]_253 AP27_MOUSE 3.1e-08 14_[2]_218 HDHA_ECOLI 3.8e-08 18_[2]_225 HDE_CANTR 4.9e-08 329_[2]_565 DHMA_FLAS1 4.9e-08 21_[2]_237 MAS1_AGRRA 6.9e-08 252_[2]_212 DHES_HUMAN 6.9e-08 9_[2]_306 BA72_EUBSP 6.9e-08 13_[2]_224 BDH_HUMAN 1.6e-07 62_[2]_269 DHB3_HUMAN 1.9e-07 55_[2]_243 DHB2_HUMAN 2.2e-07 89_[2]_286 BPHB_PSEPS 6.3e-07 12_[2]_251 ADH_DROME 6.3e-07 13_[2]_230 NODG_RHIME 8.3e-07 13_[2]_220 DHGB_BACME 8.3e-07 14_[2]_236 3BHD_COMTE 8.3e-07 13_[2]_228 RFBB_NEIGO 2.3e-06 13_[2]_321 2BHD_STREX 3.2e-06 13_[2]_230 LIGD_PSEPA 8.7e-06 13_[2]_280 HMTR_LEIMA 1.9e-05 24_[2]_251 CSGA_MYXXA 2.9e-05 77_[2]_77 GUTD_ECOLI 5.5e-05 147_[2]_100 YURA_MYXXA 0.00011 94_[2]_152 FABI_ECOLI 0.00029 15_[2]_235 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ASSGIGKATAKA MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF ASSGIGKATAKA width=12 seqs=33 FIXR_BRAJA ( 44) ASRGIGHATAKL 1 YINL_LISMO ( 13) ASSGIGKATALL 1 DHII_HUMAN ( 42) ASKGIGREMAYH 1 ENTA_ECOLI ( 13) AGKGIGYATALA 1 BUDC_KLETE ( 10) AGQGIGKAIALR 1 FVT1_HUMAN ( 40) GSSGIGKCIAIE 1 YRTP_BACSU ( 14) GGRGIGRATALA 1 PCR_PEA ( 94) ASSGLGLATAKA 1 RIDH_KLEAE ( 22) AASGIGLECART 1 DHCA_HUMAN ( 12) GNKGIGLAIVRD 1 AP27_MOUSE ( 15) AGKGIGRDTVKA 1 HDHA_ECOLI ( 19) AGAGIGKEIAIT 1 HDE_CANTR ( 330) AGAGLGKEYAKW 1 DHMA_FLAS1 ( 22) AAGGIGRATVEA 1 MAS1_AGRRA ( 253) SNRGVGKAIAED 1 DHES_HUMAN ( 10) CSSGIGLHLAVR 1 BA72_EUBSP ( 14) GTRGIGFAAAKI 1 BDH_HUMAN ( 63) CDSGFGFSLAKH 1 DHB3_HUMAN ( 56) AGDGIGKAYSFE 1 DHB2_HUMAN ( 90) GDCGLGHALCKY 1 BPHB_PSEPS ( 13) GASGLGRALVDR 1 ADH_DROME ( 14) GLGGIGLDTSKE 1 NODG_RHIME ( 14) ASGAIGGAIARV 1 DHGB_BACME ( 15) SSTGLGKSMAIR 1 3BHD_COMTE ( 14) GASGVGLEVVKL 1 RFBB_NEIGO ( 14) GAGFIGSAVVRH 1 2BHD_STREX ( 14) GARGLGAEAARQ 1 LIGD_PSEPA ( 14) GASGAGFGQAKV 1 HMTR_LEIMA ( 25) GLHAEGYAVCLH 1 CSGA_MYXXA ( 78) AANTDGGAYAYR 1 GUTD_ECOLI ( 148) SKHNSGYSAAKF 1 YURA_MYXXA ( 95) ANAGVGGTTNAK 1 FABI_ECOLI ( 16) SKLSIAYGIAQA 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ASSGIGKATAKA MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 20 w= 12 n= 9632 bayes= 8.18427 E= 7.9e-007 202 229 -661 -657 -622 197 -580 -640 -674 -652 -576 -534 -495 -535 -619 96 -378 -513 -598 -643 98 -365 35 -194 -418 107 -193 -429 36 -69 -353 117 -349 -153 -248 180 -69 -422 -396 -335 -30 107 -47 -137 -356 22 159 -360 121 -150 -280 -14 -295 44 145 189 -59 -353 -331 -279 -139 -337 -317 -379 -111 323 -342 -506 -361 -550 -453 -92 -427 -376 -366 -143 -160 -492 -379 -431 -281 -258 -223 -231 -136 -499 -372 353 -354 17 -98 -353 -431 -339 -397 -224 -277 63 -317 -285 -198 -346 -337 -399 -504 336 -361 -524 -381 -566 -470 -293 -442 -394 -385 -309 -423 -506 -397 -450 -149 -313 -248 -175 113 -15 160 -332 209 79 -279 -204 -326 -119 149 -71 -234 -338 -333 195 237 96 -24 109 -352 -87 20 -342 -280 -352 -290 -263 -407 -248 -317 32 -99 -244 -339 -359 -30 126 -496 -418 -229 -460 -301 183 -384 45 114 -373 -406 -2 -380 -314 211 28 -269 160 263 179 -428 -383 -360 -283 -363 -346 -384 -361 -300 -95 -450 -348 -387 -6 -262 59 -348 -398 -143 -304 -50 31 -37 -364 -158 48 248 52 -268 -180 -302 41 145 -193 -212 -134 -326 96 56 -313 26 76 -39 -359 250 -95 -16 -17 -275 -173 -297 43 145 -187 13 -56 140 6 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ASSGIGKATAKA MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 20 w= 12 nsites= 33 E= 7.9e-007 0.454545 0.060606 0.000000 0.000000 0.000000 0.363636 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.121212 0.000000 0.000000 0.000000 0.000000 0.242424 0.000000 0.060606 0.000000 0.000000 0.212121 0.000000 0.000000 0.060606 0.060606 0.000000 0.090909 0.000000 0.000000 0.000000 0.242424 0.030303 0.000000 0.000000 0.000000 0.090909 0.030303 0.030303 0.000000 0.000000 0.121212 0.060606 0.000000 0.121212 0.030303 0.000000 0.030303 0.000000 0.030303 0.151515 0.272727 0.030303 0.000000 0.000000 0.000000 0.060606 0.000000 0.000000 0.000000 0.030303 0.818182 0.000000 0.000000 0.000000 0.000000 0.000000 0.030303 0.000000 0.000000 0.000000 0.030303 0.030303 0.000000 0.000000 0.000000 0.030303 0.000000 0.030303 0.030303 0.030303 0.000000 0.000000 0.575758 0.000000 0.181818 0.000000 0.000000 0.000000 0.000000 0.000000 0.030303 0.000000 0.090909 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 0.030303 0.000000 0.000000 0.000000 0.090909 0.090909 0.060606 0.000000 0.242424 0.181818 0.000000 0.000000 0.000000 0.000000 0.151515 0.030303 0.000000 0.000000 0.000000 0.121212 0.515152 0.030303 0.060606 0.181818 0.000000 0.060606 0.030303 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.090909 0.030303 0.000000 0.000000 0.000000 0.090909 0.030303 0.000000 0.000000 0.000000 0.000000 0.000000 0.212121 0.000000 0.121212 0.060606 0.000000 0.000000 0.030303 0.000000 0.000000 0.272727 0.090909 0.000000 0.090909 0.666667 0.060606 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 0.060606 0.000000 0.181818 0.000000 0.000000 0.030303 0.000000 0.030303 0.060606 0.030303 0.000000 0.000000 0.090909 0.333333 0.151515 0.000000 0.000000 0.000000 0.030303 0.151515 0.000000 0.000000 0.030303 0.000000 0.060606 0.181818 0.000000 0.060606 0.090909 0.030303 0.000000 0.121212 0.030303 0.030303 0.090909 0.000000 0.000000 0.000000 0.030303 0.151515 0.000000 0.060606 0.060606 0.030303 0.030303 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif ASSGIGKATAKA MEME-2 regular expression -------------------------------------------------------------------------------- [AG][ASG]SGIGKA[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 3.20e-08 1_[1(7.81e-09)]_[2(3.22e-06)]_142_\ [1(1.06e-05)]_76 3BHD_COMTE 1.69e-08 1_[1(1.57e-08)]_[2(8.34e-07)]_50_\ [1(9.92e-06)]_166 ADH_DROME 6.23e-06 13_[2(6.26e-07)]_217_[1(1.06e-05)]_\ 1 AP27_MOUSE 3.87e-10 2_[1(1.06e-05)]_[2(3.13e-08)]_138_\ [1(8.80e-09)]_68 BA72_EUBSP 4.14e-08 1_[1(5.46e-05)]_[2(6.94e-08)]_125_\ [2(5.25e-05)]_10_[1(5.00e-07)]_65 BDH_HUMAN 2.40e-08 50_[1(6.34e-08)]_[2(1.59e-07)]_269 BPHB_PSEPS 2.07e-07 [1(2.45e-07)]_[2(6.26e-07)]_251 BUDC_KLETE 2.38e-10 9_[2(1.01e-09)]_53_[1(4.31e-05)]_81_\ [1(1.69e-07)]_62 DHES_HUMAN 9.90e-07 9_[2(6.94e-08)]_108_[1(8.08e-06)]_\ 186 DHGB_BACME 6.21e-08 2_[1(5.94e-07)]_[2(8.34e-07)]_149_\ [1(5.73e-08)]_75 DHII_HUMAN 1.46e-12 29_[1(8.57e-10)]_[2(6.82e-10)]_239 DHMA_FLAS1 7.83e-09 9_[1(1.04e-07)]_[2(4.90e-08)]_147_\ [1(2.99e-05)]_78 ENTA_ECOLI 2.22e-15 [1(1.02e-12)]_[2(1.01e-09)]_224 FIXR_BRAJA 7.36e-12 43_[2(7.38e-11)]_149_[1(4.66e-08)]_\ 62 GUTD_ECOLI 2.59e-04 147_[2(5.53e-05)]_10_[1(6.55e-06)]_\ 78 HDE_CANTR 1.37e-08 3_[1(1.57e-08)]_[2(2.60e-05)]_290_\ [1(2.68e-07)]_[2(4.90e-08)]_565 HDHA_ECOLI 7.02e-11 6_[1(3.96e-06)]_[2(3.75e-08)]_144_\ [1(1.13e-09)]_69 LIGD_PSEPA 1.20e-05 1_[1(1.07e-06)]_[2(8.71e-06)]_280 NODG_RHIME 3.31e-07 1_[1(3.68e-06)]_[2(8.34e-07)]_142_\ [1(3.84e-07)]_66 RIDH_KLEAE 6.88e-08 9_[1(4.93e-06)]_[2(1.20e-08)]_216 YINL_LISMO 6.42e-12 [1(1.11e-08)]_[2(3.40e-10)]_224 YRTP_BACSU 8.39e-10 1_[1(1.59e-06)]_[2(1.30e-09)]_145_\ [1(5.00e-07)]_56 CSGA_MYXXA 6.42e-04 12_[1(8.65e-05)]_53_[2(2.91e-05)]_\ 77 DHB2_HUMAN 3.18e-07 77_[1(5.45e-07)]_[2(2.18e-07)]_286 DHB3_HUMAN 1.99e-06 55_[2(1.86e-07)]_146_[1(7.03e-06)]_\ 85 DHCA_HUMAN 7.17e-07 11_[2(2.15e-08)]_54_[1(2.64e-05)]_\ 101_[1(3.38e-05)]_74 FABI_ECOLI 1.25e-05 1_[1(4.66e-08)]_161_[1(7.73e-05)]_\ 76 FVT1_HUMAN 4.25e-10 39_[2(1.14e-09)]_150_[1(1.40e-07)]_\ 119 HMTR_LEIMA 2.25e-06 24_[2(1.86e-05)]_172_[1(9.47e-08)]_\ 67 MAS1_AGRRA 6.39e-07 252_[2(6.94e-08)]_36_[1(2.35e-06)]_\ 164 PCR_PEA 9.58e-08 81_[1(1.30e-05)]_[2(4.19e-09)]_108_\ [1(7.54e-06)]_174 RFBB_NEIGO 1.41e-07 1_[1(2.73e-08)]_[2(2.33e-06)]_321 YURA_MYXXA 9.82e-06 175_[1(9.47e-08)]_71 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (2) found. ******************************************************************************** CPU: Timothys-Mac-Mini.local ********************************************************************************