******************************************************************************** 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 3-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/meme24 -mod anr -protein -nmotifs 2 -objfun de -w 12 -hsfrac 0.6 -shuf 3 -nostatus -mpi model: mod= anr nmotifs= 2 evt= inf objective function: em= Differential Enrichment 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 KGIRVNGVAPGA MEME-1 width = 12 sites = 27 llr = 447 p-value = 2.3e-001 E-value = 2.3e-001 ******************************************************************************** -------------------------------------------------------------------------------- Motif KGIRVNGVAPGA MEME-1 Description -------------------------------------------------------------------------------- Simplified A ::::::2131:2 pos.-specific C ::::::1:1::: probability D 1::::::::::: matrix E :::::::::::: F :::::::::::1 G :3::::4:1:71 H 1:::::::1::: I ::7::::31::1 K 21:1:::::1:: L 1::11::::::1 M :::::::::::1 N :3:1:7:::1:: P :::::::::7:1 Q :::::::::::: R :1:5:::::::: S ::::::1:1::: T :::1:2:::::: V ::3:9::5:::1 W :::::::::::: Y 1::::::::::: bits 6.7 6.0 5.4 4.7 Relative 4.0 Entropy 3.4 * (23.9 bits) 2.7 * ** * 2.0 **** * ** 1.3 ******** ** 0.7 ************ 0.0 ------------ Multilevel KGIRVNGVAPGX consensus NV AI sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KGIRVNGVAPGA MEME-1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ------------ HDHA_ECOLI 180 7.34e-13 VRNMAFDLGE KNIRVNGIAPGA ILTDALKSVI 2BHD_STREX 173 2.44e-11 SKLAAVELGT DRIRVNSVHPGM TYTPMTAETG FIXR_BRAJA 210 2.77e-11 TRELAHDYAP HGIRVNAIAPGE IRTDMLSPDA NODG_RHIME 173 8.46e-11 SKSLAQEIAT RNITVNCVAPGF IESAMTDKLN DHGB_BACME 181 1.51e-10 TETLALEYAP KGIRVNNIGPGA INTPINAEKF DHMA_FLAS1 186 2.12e-10 TRAMAVDLAR HGILVNMIAPGP VDVTGNNTGY HMTR_LEIMA 214 3.65e-10 TRSAALELAP LQIRVNGVGPGL SVLVDDMPPA BA72_EUBSP 178 4.52e-10 THGLGREIIR KNIRVVGVAPGV VNTDMTNGNP BUDC_KLETE 173 1.69e-09 TQTAARDLAP LGITVNGFCPGI VKTPMWAEID BPHB_PSEPS 173 2.48e-09 LVRELAFELA PYVRVNGVGPGG MNSDMRGPSS AP27_MOUSE 170 4.78e-09 TKAMAMELGP HKIRVNSVNPTV VLTDMGKKVS YURA_MYXXA 181 6.28e-09 MESLRVDLRG TGVRVTCIYPGF VKSELTATNN BUDC_KLETE 107 6.88e-09 SITEEIVDRV YNINVKGVIWGM QAAVEAFKKE HDE_CANTR 488 1.07e-08 SKTMAIEGAK NNIKVNIVAPHA ETAMTLTIFR 3BHD_COMTE 174 2.14e-08 AAALSCRKQG YAIRVNSIHPDG IYTPMMQASL RIDH_KLEAE 181 2.76e-08 VHTTRRQVAQ YGVRVGAVLPGP VVTALLDDWP DHCA_HUMAN 218 3.00e-08 ARKLSEQRKG DKILLNACCPGW VRTDMAGPKA FABI_ECOLI 180 4.52e-08 VRYMANAMGP EGVRVNAISAGP IRTLAASGIK ENTA_ECOLI 165 7.33e-08 ALSVGLELAG SGVRCNVVSPGS TDTDMQRTLW ENTA_ECOLI 6 1.86e-07 MDFSG KNVWVTGAGKGI GYATALAFVE HDE_CANTR 184 2.51e-07 AETLAKEGAK YNIKANAIAPLA RSRMTESILP BA72_EUBSP 113 3.13e-07 RVSEEEFKHI MDINVTGVFNGA WCAYQCMKDA LIGD_PSEPA 112 3.90e-07 KTTYDDFDWI IGVNLNGVINGM VTFVPRMIAS YRTP_BACSU 176 8.53e-07 TESLMQEVRK HNIRVSALTPST VASDMSIELN DHII_HUMAN 35 2.21e-06 EEFRPEMLQG KKVIVTGASKGI GREMAYHLAK FABI_ECOLI 7 2.87e-06 MGFLSG KRILVTGVASKL SIAYGIAQAM NODG_RHIME 234 6.19e-06 ASDHAAYVTG QTIHVNGGMAMI -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KGIRVNGVAPGA MEME-1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- HDHA_ECOLI 7.3e-13 179_[1]_64 2BHD_STREX 2.4e-11 172_[1]_71 FIXR_BRAJA 2.8e-11 209_[1]_57 NODG_RHIME 6.2e-06 172_[1]_49_[1] DHGB_BACME 1.5e-10 180_[1]_70 DHMA_FLAS1 2.1e-10 185_[1]_73 HMTR_LEIMA 3.7e-10 213_[1]_62 BA72_EUBSP 3.1e-07 112_[1]_53_[1]_60 BUDC_KLETE 6.9e-09 106_[1]_54_[1]_57 BPHB_PSEPS 2.5e-09 172_[1]_91 AP27_MOUSE 4.8e-09 169_[1]_63 YURA_MYXXA 6.3e-09 180_[1]_66 HDE_CANTR 2.5e-07 183_[1]_292_[1]_407 3BHD_COMTE 2.1e-08 173_[1]_68 RIDH_KLEAE 2.8e-08 180_[1]_57 DHCA_HUMAN 3e-08 217_[1]_47 FABI_ECOLI 2.9e-06 6_[1]_161_[1]_71 ENTA_ECOLI 1.9e-07 5_[1]_147_[1]_72 LIGD_PSEPA 3.9e-07 111_[1]_182 YRTP_BACSU 8.5e-07 175_[1]_51 DHII_HUMAN 2.2e-06 34_[1]_246 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KGIRVNGVAPGA MEME-1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF KGIRVNGVAPGA width=12 seqs=27 HDHA_ECOLI ( 180) KNIRVNGIAPGA 1 2BHD_STREX ( 173) DRIRVNSVHPGM 1 FIXR_BRAJA ( 210) HGIRVNAIAPGE 1 NODG_RHIME ( 173) RNITVNCVAPGF 1 DHGB_BACME ( 181) KGIRVNNIGPGA 1 DHMA_FLAS1 ( 186) HGILVNMIAPGP 1 HMTR_LEIMA ( 214) LQIRVNGVGPGL 1 BA72_EUBSP ( 178) KNIRVVGVAPGV 1 BUDC_KLETE ( 173) LGITVNGFCPGI 1 BPHB_PSEPS ( 173) PYVRVNGVGPGG 1 AP27_MOUSE ( 170) HKIRVNSVNPTV 1 YURA_MYXXA ( 181) TGVRVTCIYPGF 1 BUDC_KLETE ( 107) YNINVKGVIWGM 1 HDE_CANTR ( 488) NNIKVNIVAPHA 1 3BHD_COMTE ( 174) YAIRVNSIHPDG 1 RIDH_KLEAE ( 181) YGVRVGAVLPGP 1 DHCA_HUMAN ( 218) DKILLNACCPGW 1 FABI_ECOLI ( 180) EGVRVNAISAGP 1 ENTA_ECOLI ( 165) SGVRCNVVSPGS 1 ENTA_ECOLI ( 6) KNVWVTGAGKGI 1 HDE_CANTR ( 184) YNIKANAIAPLA 1 BA72_EUBSP ( 113) MDINVTGVFNGA 1 LIGD_PSEPA ( 112) IGVNLNGVINGM 1 YRTP_BACSU ( 176) HNIRVSALTPST 1 DHII_HUMAN ( 35) KKVIVTGASKGI 1 FABI_ECOLI ( 7) KRILVTGVASKL 1 NODG_RHIME ( 234) QTIHVNGGMAMI 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KGIRVNGVAPGA MEME-1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 20 w= 12 n= 9632 bayes= 8.47468 E= 2.3e-001 -245 -295 50 -5 -332 -335 273 -74 193 -47 28 8 -23 67 -14 -38 -36 -330 -308 213 -126 -317 -22 -138 -359 161 -145 -365 111 -351 -285 263 -295 61 57 -180 -40 -358 -334 30 -504 -338 -680 -657 -435 -730 -670 358 -638 -301 -329 -619 -651 -625 -688 -608 -431 183 -604 -540 -375 -350 -353 -260 -432 -453 92 -73 78 8 -336 126 -393 -146 331 -300 25 -401 169 -356 -141 71 -391 -356 -301 -464 -292 -37 -364 -95 -242 -377 -345 -335 -339 -340 -198 324 -367 -405 -427 -326 -205 -342 -435 -167 -137 -419 -90 -491 -430 413 -402 -257 -369 -82 104 -174 -370 -378 90 244 -470 -413 -273 216 -322 -32 -387 -254 47 -22 -404 -326 -390 71 -260 -77 -306 -299 -77 109 -418 -369 -36 -181 -284 189 -360 -111 -190 -363 -358 -315 -344 -316 -206 271 -300 -305 137 236 -421 -349 5 45 174 48 -323 -80 49 -28 -377 -269 -333 64 -45 -168 -251 34 -83 -324 -360 -333 -415 -433 -306 -411 5 -394 -396 33 415 -264 -344 -91 -305 -405 134 -441 -311 -323 -112 -361 -471 317 4 -490 -126 -226 -58 -257 -412 -357 -349 -130 -146 -477 -364 -415 60 -168 -466 -69 96 -45 -276 136 -356 -8 190 -347 123 -292 -353 -70 -40 9 176 -234 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KGIRVNGVAPGA MEME-1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 20 w= 12 nsites= 27 E= 2.3e-001 0.000000 0.000000 0.074074 0.037037 0.000000 0.000000 0.148148 0.037037 0.222222 0.074074 0.037037 0.037037 0.037037 0.037037 0.037037 0.037037 0.037037 0.000000 0.000000 0.148148 0.037037 0.000000 0.037037 0.000000 0.000000 0.333333 0.000000 0.000000 0.111111 0.000000 0.000000 0.296296 0.000000 0.037037 0.074074 0.000000 0.037037 0.000000 0.000000 0.037037 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.703704 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.296296 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.037037 0.037037 0.074074 0.111111 0.000000 0.111111 0.000000 0.000000 0.518519 0.000000 0.074074 0.000000 0.037037 0.000000 0.037037 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 0.000000 0.000000 0.000000 0.851852 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 0.666667 0.000000 0.000000 0.000000 0.037037 0.185185 0.037037 0.000000 0.000000 0.222222 0.074074 0.000000 0.000000 0.000000 0.444444 0.000000 0.037037 0.000000 0.000000 0.037037 0.037037 0.000000 0.000000 0.000000 0.111111 0.000000 0.037037 0.000000 0.000000 0.074074 0.037037 0.000000 0.000000 0.037037 0.037037 0.000000 0.296296 0.000000 0.037037 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.481481 0.000000 0.000000 0.296296 0.074074 0.000000 0.000000 0.037037 0.148148 0.074074 0.074074 0.000000 0.037037 0.037037 0.037037 0.000000 0.000000 0.000000 0.111111 0.037037 0.000000 0.000000 0.037037 0.074074 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.074074 0.000000 0.000000 0.074074 0.703704 0.000000 0.000000 0.037037 0.000000 0.000000 0.037037 0.000000 0.000000 0.000000 0.037037 0.000000 0.000000 0.740741 0.037037 0.000000 0.037037 0.037037 0.037037 0.000000 0.000000 0.000000 0.000000 0.037037 0.037037 0.000000 0.000000 0.000000 0.185185 0.000000 0.000000 0.037037 0.074074 0.074074 0.000000 0.148148 0.000000 0.074074 0.111111 0.000000 0.111111 0.000000 0.000000 0.037037 0.037037 0.074074 0.037037 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KGIRVNGVAPGA MEME-1 regular expression -------------------------------------------------------------------------------- K[GN][IV]RVN[GA][VI]APGX -------------------------------------------------------------------------------- Time 0.19 secs. ******************************************************************************** ******************************************************************************** MOTIF KEAIIKKVAEEL MEME-2 width = 12 sites = 27 llr = 247 p-value = 8.9e-001 E-value = 8.9e-001 ******************************************************************************** -------------------------------------------------------------------------------- Motif KEAIIKKVAEEL MEME-2 Description -------------------------------------------------------------------------------- Simplified A ::41111:4::1 pos.-specific C :::::::::::: probability D :1::::1::1:: matrix E :2:::12::22: F :::::::1:::: G ::1:::::1::: H :::::::::1:: I 1::22::1:::1 K 31:::22:::1: L :::21::1:::3 M ::::1::1:::1 N 1:::::1::21: P ::::11:::::: Q 11:::11::1:: R 3::::1::::1: S 1131111:211: T :1111::1:::1 V :1121::31:12 W :::::::::::: Y :::::::::::1 bits 6.7 6.0 5.4 4.7 Relative 4.0 Entropy 3.4 (13.2 bits) 2.7 2.0 1.3 * * **** 0.7 ************ 0.0 ------------ Multilevel KXAIXKEVAXEL consensus R S K S sequence -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KEAIIKKVAEEL MEME-2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ------------ BDH_HUMAN 253 1.44e-07 AATSLYNPES IQAIAKKMWEEL PEVVRKDYGK HDE_CANTR 382 5.13e-07 WPDQHDVAKD SEAIIKNVIDKY GTIDILVNNA YRTP_BACSU 39 2.06e-06 EGVNIGLIGR TSANVEKVAEEV KALGVKAAFA HDE_CANTR 103 3.60e-06 HVIINNAGIL RDASMKKMTEKD YKLVIDVHLN DHII_HUMAN 68 5.27e-06 GAHVVVTARS KETLQKVVSHCL ELGAASAHYI BUDC_KLETE 95 6.59e-06 NNAGIAPSTP IESITEEIVDRV YNINVKGVIW ENTA_ECOLI 211 7.62e-06 EQFKLGIPLG KIARPQEIANTI LFLASDLASH ADH_DROME 186 1.54e-05 TAYTVNPGIT RTTLVHKFNSWL DVEPQVAEKL HDHA_ECOLI 198 1.65e-05 APGAILTDAL KSVITPEIEQKM LQHTPIRRLG DHB3_HUMAN 240 1.76e-05 AVSTAMTKYL NTNVITKTADEF VKESLNYVTI HMTR_LEIMA 249 1.89e-05 GHRSKVPLYQ RDSSAAEVSDVV IFLCSSKAKY BPHB_PSEPS 30 1.89e-05 ALVDRFVAEA KVAVLDKSAERL AELETDLGDN GUTD_ECOLI 193 2.02e-05 MLGNLLKSPM FQSLLPQYATKL GIKPDQVEQY CSGA_MYXXA 60 2.45e-05 RVTSAMLPGL RQGALRRVAHVT SRMGSLAANT BA72_EUBSP 135 2.45e-05 WCAYQCMKDA KKGVIINTASVT GIFGSLSGVG RFBB_NEIGO 185 2.62e-05 LVRAWQRTYR LPSIVSNCSNNY GPRQFPEKLI BA72_EUBSP 32 2.62e-05 AAKIFIDNGA KVSIFGETQEEV DTALAQLKEL AP27_MOUSE 208 2.79e-05 RKLKERHPLR KFAEVEDVVNSI LFLLSDRSAS MAS1_AGRRA 96 3.38e-05 KNIGVCRAPA RTSVSMELANAK RFSPATFSAN 3BHD_COMTE 192 6.25e-05 HPDGIYTPMM QASLPKGVSKEM VLHDPKLNRA FABI_ECOLI 218 9.41e-05 AHCEAVTPIR RTVTIEDVGNSA AFLCSDLSAG MAS1_AGRRA 64 1.18e-04 LVLPSHQPVS RSSTSSAMVQPI STRKKCTCKV 3BHD_COMTE 39 1.25e-04 EGAKVAFSDI NEAAGQQLAAEL GERSMFVRHD BA72_EUBSP 69 1.73e-04 VLGFAPDLTS RDAVMAAVGQVA QKYGRLDVMI AP27_MOUSE 97 1.93e-04 VIMQPFLEVT KEAFDRSFSVNL RSVFQVSQMV ENTA_ECOLI 147 2.14e-04 PRIGMSAYGA SKAALKSLALSV GLELAGSGVR DHB3_HUMAN 176 2.38e-04 QLILKHMESR QKGLILNISSGI ALFPWPLYSM -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KEAIIKKVAEEL MEME-2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- BDH_HUMAN 1.4e-07 252_[2]_79 HDE_CANTR 5.1e-07 102_[2]_267_[2]_513 YRTP_BACSU 2.1e-06 38_[2]_188 DHII_HUMAN 5.3e-06 67_[2]_213 BUDC_KLETE 6.6e-06 94_[2]_135 ENTA_ECOLI 0.00021 146_[2]_52_[2]_26 ADH_DROME 1.5e-05 185_[2]_58 HDHA_ECOLI 1.6e-05 197_[2]_46 DHB3_HUMAN 1.8e-05 175_[2]_52_[2]_59 HMTR_LEIMA 1.9e-05 248_[2]_27 BPHB_PSEPS 1.9e-05 29_[2]_234 GUTD_ECOLI 2e-05 192_[2]_55 CSGA_MYXXA 2.5e-05 59_[2]_95 BA72_EUBSP 0.00017 31_[2]_25_[2]_54_[2]_103 RFBB_NEIGO 2.6e-05 184_[2]_150 AP27_MOUSE 2.8e-05 96_[2]_99_[2]_25 MAS1_AGRRA 3.4e-05 63_[2]_20_[2]_369 3BHD_COMTE 0.00012 38_[2]_141_[2]_50 FABI_ECOLI 9.4e-05 217_[2]_33 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KEAIIKKVAEEL MEME-2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF KEAIIKKVAEEL width=12 seqs=27 BDH_HUMAN ( 253) IQAIAKKMWEEL 1 HDE_CANTR ( 382) SEAIIKNVIDKY 1 YRTP_BACSU ( 39) TSANVEKVAEEV 1 HDE_CANTR ( 103) RDASMKKMTEKD 1 DHII_HUMAN ( 68) KETLQKVVSHCL 1 BUDC_KLETE ( 95) IESITEEIVDRV 1 ENTA_ECOLI ( 211) KIARPQEIANTI 1 ADH_DROME ( 186) RTTLVHKFNSWL 1 HDHA_ECOLI ( 198) KSVITPEIEQKM 1 DHB3_HUMAN ( 240) NTNVITKTADEF 1 HMTR_LEIMA ( 249) RDSSAAEVSDVV 1 BPHB_PSEPS ( 30) KVAVLDKSAERL 1 GUTD_ECOLI ( 193) FQSLLPQYATKL 1 CSGA_MYXXA ( 60) RQGALRRVAHVT 1 BA72_EUBSP ( 135) KKGVIINTASVT 1 RFBB_NEIGO ( 185) LPSIVSNCSNNY 1 BA72_EUBSP ( 32) KVSIFGETQEEV 1 AP27_MOUSE ( 208) KFAEVEDVVNSI 1 MAS1_AGRRA ( 96) RTSVSMELANAK 1 3BHD_COMTE ( 192) QASLPKGVSKEM 1 FABI_ECOLI ( 218) RTVTIEDVGNSA 1 MAS1_AGRRA ( 64) RSSTSSAMVQPI 1 3BHD_COMTE ( 39) NEAAGQQLAAEL 1 BA72_EUBSP ( 69) RDAVMAAVGQVA 1 AP27_MOUSE ( 97) KEAFDRSFSVNL 1 ENTA_ECOLI ( 147) SKAALKSLALSV 1 DHB3_HUMAN ( 176) QKGLILNISSGI 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KEAIIKKVAEEL MEME-2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 20 w= 12 n= 9632 bayes= 8.47468 E= 8.9e-001 -267 -309 -211 -138 -15 -356 -144 17 233 -127 -271 81 -295 135 235 26 -40 -342 -322 -274 -119 -295 98 160 -17 -335 -127 -74 111 -324 -257 -148 -23 181 -158 73 119 -35 -308 -256 193 -215 -528 -516 -507 23 -471 -503 -522 -519 -453 -23 -458 -442 -511 211 34 -23 -491 -529 -6 -169 -450 -67 12 -432 -271 187 -342 96 -147 -23 -378 -282 -49 14 38 111 -246 -235 -54 -169 -62 -375 12 -136 -271 163 -344 69 138 -339 66 24 -346 14 38 85 -246 -235 -53 -296 -24 133 -333 -127 98 -74 193 -127 28 -147 63 135 57 28 -36 -330 -308 -256 -53 -297 50 182 -334 -127 -128 -339 193 -325 -258 166 -273 135 -14 28 -187 -117 -310 -257 -291 150 -471 -394 96 -436 -277 136 -360 36 190 -349 -382 -295 -355 -70 88 187 -245 41 215 -94 -297 -85 -306 -75 -233 -104 -223 -301 -241 -61 -363 -10 -263 121 -79 -8 113 -308 -119 -296 135 160 -333 -335 182 -338 8 -127 -257 195 -273 181 -159 73 -36 -117 -309 -256 -119 130 -184 182 -332 -127 -127 -337 143 -324 -257 82 -23 -68 57 73 -36 56 162 -256 -55 -167 -62 -392 13 -435 -277 136 -57 139 139 -349 -382 -295 -355 -289 38 112 -244 130 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KEAIIKKVAEEL MEME-2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 20 w= 12 nsites= 27 E= 8.9e-001 0.000000 0.000000 0.000000 0.000000 0.037037 0.000000 0.000000 0.074074 0.296296 0.037037 0.000000 0.074074 0.000000 0.074074 0.296296 0.074074 0.037037 0.000000 0.000000 0.000000 0.037037 0.000000 0.111111 0.185185 0.037037 0.000000 0.000000 0.037037 0.111111 0.000000 0.000000 0.000000 0.037037 0.111111 0.000000 0.111111 0.148148 0.074074 0.000000 0.000000 0.407407 0.000000 0.000000 0.000000 0.000000 0.111111 0.000000 0.000000 0.000000 0.000000 0.000000 0.037037 0.000000 0.000000 0.000000 0.296296 0.074074 0.074074 0.000000 0.000000 0.111111 0.000000 0.000000 0.037037 0.037037 0.000000 0.000000 0.222222 0.000000 0.185185 0.000000 0.037037 0.000000 0.000000 0.037037 0.074074 0.074074 0.185185 0.000000 0.000000 0.074074 0.000000 0.037037 0.000000 0.037037 0.037037 0.000000 0.185185 0.000000 0.148148 0.074074 0.000000 0.074074 0.037037 0.000000 0.074074 0.074074 0.148148 0.000000 0.000000 0.074074 0.000000 0.037037 0.148148 0.000000 0.037037 0.037037 0.037037 0.222222 0.037037 0.037037 0.000000 0.074074 0.074074 0.074074 0.074074 0.037037 0.000000 0.000000 0.000000 0.074074 0.000000 0.074074 0.222222 0.000000 0.037037 0.000000 0.000000 0.222222 0.000000 0.000000 0.148148 0.000000 0.074074 0.037037 0.074074 0.000000 0.037037 0.000000 0.000000 0.000000 0.037037 0.000000 0.000000 0.074074 0.000000 0.000000 0.148148 0.000000 0.111111 0.111111 0.000000 0.000000 0.000000 0.000000 0.037037 0.111111 0.333333 0.000000 0.037037 0.370370 0.000000 0.000000 0.037037 0.000000 0.074074 0.000000 0.037037 0.000000 0.000000 0.000000 0.037037 0.000000 0.037037 0.000000 0.222222 0.037037 0.111111 0.037037 0.000000 0.037037 0.000000 0.148148 0.185185 0.000000 0.000000 0.074074 0.000000 0.037037 0.037037 0.000000 0.185185 0.000000 0.111111 0.000000 0.111111 0.037037 0.037037 0.000000 0.000000 0.037037 0.037037 0.000000 0.222222 0.000000 0.037037 0.000000 0.000000 0.148148 0.000000 0.000000 0.074074 0.037037 0.000000 0.074074 0.111111 0.037037 0.148148 0.037037 0.000000 0.074074 0.000000 0.037037 0.000000 0.037037 0.000000 0.000000 0.148148 0.037037 0.259259 0.074074 0.000000 0.000000 0.000000 0.000000 0.000000 0.074074 0.185185 0.000000 0.074074 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif KEAIIKKVAEEL MEME-2 regular expression -------------------------------------------------------------------------------- [KR]X[AS]IXK[EK]V[AS]XEL -------------------------------------------------------------------------------- Time 0.34 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- 2BHD_STREX 6.75e-08 172_[1(2.44e-11)]_71 3BHD_COMTE 1.35e-06 173_[1(2.14e-08)]_6_[2(6.25e-05)]_\ 50 ADH_DROME 1.39e-03 185_[2(1.54e-05)]_58 AP27_MOUSE 1.43e-07 169_[1(4.78e-09)]_26_[2(2.79e-05)]_\ 25 BA72_EUBSP 1.39e-08 31_[2(2.62e-05)]_69_[1(3.13e-07)]_\ 10_[2(2.45e-05)]_31_[1(4.52e-10)]_60 BDH_HUMAN 1.15e-05 55_[1(4.85e-05)]_161_[1(6.74e-05)]_\ 12_[2(1.44e-07)]_79 BPHB_PSEPS 6.68e-08 29_[2(1.89e-05)]_131_[1(2.48e-09)]_\ 91 BUDC_KLETE 1.31e-08 94_[2(6.59e-06)]_[1(6.88e-09)]_54_\ [1(1.69e-09)]_57 DHES_HUMAN 1.94e-01 327 DHGB_BACME 3.17e-07 180_[1(1.51e-10)]_70 DHII_HUMAN 1.37e-05 34_[1(2.21e-06)]_21_[2(5.27e-06)]_\ 213 DHMA_FLAS1 7.06e-08 185_[1(2.12e-10)]_73 ENTA_ECOLI 5.73e-07 5_[1(1.86e-07)]_147_[1(7.33e-08)]_\ 34_[2(7.62e-06)]_26 FIXR_BRAJA 3.26e-09 209_[1(2.77e-11)]_21_[2(7.04e-05)]_\ 24 GUTD_ECOLI 3.19e-03 192_[2(2.02e-05)]_55 HDE_CANTR 8.92e-08 102_[2(3.60e-06)]_69_[1(2.51e-07)]_\ 186_[2(5.13e-07)]_94_[1(1.07e-08)]_407 HDHA_ECOLI 2.08e-11 179_[1(7.34e-13)]_6_[2(1.65e-05)]_\ 46 LIGD_PSEPA 1.06e-03 111_[1(3.90e-07)]_182 NODG_RHIME 6.42e-08 172_[1(8.46e-11)]_49_[1(6.19e-06)] RIDH_KLEAE 2.94e-05 180_[1(2.76e-08)]_57 YINL_LISMO 1.24e-02 109_[1(1.37e-05)]_127 YRTP_BACSU 1.56e-06 38_[2(2.06e-06)]_125_[1(8.53e-07)]_\ 51 CSGA_MYXXA 1.42e-02 59_[2(2.45e-05)]_95 DHB2_HUMAN 5.96e-02 252_[1(6.39e-05)]_123 DHB3_HUMAN 6.18e-04 124_[1(3.67e-05)]_103_[2(1.76e-05)]_\ 59 DHCA_HUMAN 3.13e-05 217_[1(3.00e-08)]_47 FABI_ECOLI 4.28e-06 6_[1(2.87e-06)]_161_[1(4.52e-08)]_\ 26_[2(9.41e-05)]_33 FVT1_HUMAN 2.80e-02 255_[2(6.25e-05)]_65 HMTR_LEIMA 1.17e-08 213_[1(3.65e-10)]_23_[2(1.89e-05)]_\ 27 MAS1_AGRRA 4.92e-02 95_[2(3.38e-05)]_369 PCR_PEA 4.16e-01 399 RFBB_NEIGO 3.72e-03 184_[2(2.62e-05)]_150 YURA_MYXXA 2.11e-06 180_[1(6.28e-09)]_66 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because requested number of motifs (2) found. ******************************************************************************** CPU: Timothys-Mac-Mini.local ********************************************************************************