# WARNING: this file is not sorted! # db id alt consensus E-value adj_p-value log_adj_p-value bin_location bin_width total_width sites_in_bin total_sites p_success p-value mult_tests 1 GCCTGCWGMATTAGC MEME-1 GCCTGCWGMATTAGC 1.5e-164 2.0e-167 -383.85 0.0 70 486 339 481 0.14403 8.2e-170 242 1 TTTATTTATTTATTTATTTATTTATTT MEME-2 TTTATTTATTTATTTATTTATTTATTT 2.5e-022 3.3e-025 -56.37 0.0 28 474 34 55 0.05907 1.4e-027 236 1 CCCAGCACAGTTATTCTGTCCT MEME-3 CCCAGCACAGTTATTCTGTCCT 1.3e-038 1.7e-041 -93.87 0.0 81 479 78 95 0.16910 7.2e-044 239 1 TAAATAAATAAATAAA MEME-4 TAAATAAATAAATAAA 7.8e-022 1.0e-024 -55.22 0.0 39 485 36 52 0.08041 4.3e-027 242 1 GGAATTAAGGATGCCA MEME-5 GGAATTAAGGATGCCA 2.2e-026 3.0e-029 -65.68 0.0 119 485 83 105 0.24536 1.2e-031 242 1 TCACAGCAAGTTTACACTTATG MEME-6 TCACAGCAAGTTTACACTTATG 1.4e-024 1.8e-027 -61.56 0.0 113 479 75 95 0.23591 7.7e-030 239 1 CAYRTGGAYRCYRCCAAGGY MEME-7 CAYRTGGAYRCYRCCAAGGY 8.8e-013 1.2e-015 -34.39 0.0 67 481 48 92 0.13929 4.9e-018 240 1 RCCATGCCYCCAYAGCTCKTGCAYTCTGCAT MEME-8 RCCATGCCYCCAYAGCTCKTGCAYTCTGCAT 4.0e-017 5.4e-020 -44.37 0.0 104 470 40 43 0.22128 2.3e-022 234 1 TAMAGCTGATGAGACARCMCCT MEME-10 TAMAGCTGATGAGACARCMCCT 1.2e-011 1.5e-014 -31.81 0.0 159 479 61 77 0.33194 6.4e-017 239 2 GCTAATBC DREME-1 GCTAATGC 1.3e-087 1.7e-090 -206.71 0.0 63 493 139 170 0.12779 6.9e-093 246 2 RCAGGCA DREME-2 GCAGGCA 1.0e-043 1.4e-046 -105.62 0.0 76 494 141 255 0.15385 5.5e-049 246 2 ACAGART DREME-3 ACAGART 1.5e-013 2.0e-016 -36.17 0.0 86 494 72 145 0.17409 8.0e-019 246 2 ATCMCAG DREME-4 ATCMCAG 1.9e-001 2.5e-004 -8.28 0.0 42 494 37 184 0.08502 1.0e-006 246 2 GGAATKAA DREME-5 GGAATTAA 1.4e-003 1.8e-006 -13.21 0.0 137 493 102 223 0.27789 7.4e-009 246 2 GTTTACA DREME-6 GTTTACA 3.2e-015 4.2e-018 -40.01 0.0 106 494 52 71 0.21457 1.7e-020 246 2 GAKTTAGC DREME-7 GAKTTAGC 3.1e-037 4.2e-040 -90.68 0.0 87 493 79 96 0.17647 1.7e-042 246 2 GGATGCCA DREME-8 GGATGCCA 9.1e-007 1.2e-009 -20.53 0.0 109 493 108 262 0.22110 4.9e-012 246 2 TGAGWCA DREME-9 TGAGWCA 1.4e-002 1.9e-005 -10.87 0.0 156 494 80 152 0.31579 7.7e-008 246 3 M0177_1.02 (TWIST2)_(Mus_musculus)_(DBD_1.00) NMCATATGTN 6.7e0000 9.0e-003 -4.71 0.0 49 491 75 471 0.09980 3.7e-005 245 3 M0196_1.02 (NPAS2)_(Mus_musculus)_(DBD_1.00) NSCACGTGTN 9.7e-002 1.3e-004 -8.96 0.0 95 491 132 458 0.19348 5.3e-007 245 3 M0198_1.02 (SOHLH2)_(Mus_musculus)_(DBD_0.84) NRYNCGTGCN 5.0e-001 6.6e-004 -7.32 0.0 127 491 185 531 0.25866 2.7e-006 245 3 M0211_1.02 (MLXIP)_(Mus_musculus)_(DBD_0.82) BCACGTGK 1.4e0000 1.9e-003 -6.29 0.0 65 493 95 462 0.13185 7.6e-006 246 3 M0395_1.02 (ZNF187)_(Mus_musculus)_(DBD_0.88) GTACTAAT 7.9e-014 1.1e-016 -36.79 0.0 61 493 141 526 0.12373 4.3e-019 246 3 M0398_1.02 (ZSCAN10)_(Mus_musculus)_(DBD_0.82) NGKRAGTGCNN 9.7e-002 1.3e-004 -8.96 0.0 212 490 300 560 0.43265 5.3e-007 244 3 M0413_1.02 (ZBTB1)_(Mus_musculus)_(DBD_0.99) NDTGCGKGDN 3.2e-004 4.3e-007 -14.66 0.0 55 491 103 508 0.11202 1.8e-009 245 3 M0432_1.02 (ZFP161)_(Mus_musculus)_(DBD_1.00) NNCGYGCHH 2.5e-005 3.3e-008 -17.22 0.0 82 492 100 322 0.16667 1.4e-010 245 3 M0437_1.02 (ZNF32)_(Mus_musculus)_(DBD_0.99) TATRTATRT 9.7e-001 1.3e-003 -6.65 0.0 50 492 62 340 0.10163 5.3e-006 245 3 M0737_1.02 (FOXB2)_(Mus_musculus)_(DBD_0.94) WRWGTAAAYA 7.0e-006 9.3e-009 -18.49 0.0 67 491 130 537 0.13646 3.8e-011 245 3 M1359_1.02 (MYPOP)_(Mus_musculus)_(DBD_0.97) NWTTGCGCCR 3.6e-001 4.8e-004 -7.64 0.0 219 491 260 469 0.44603 2.0e-006 245 3 M1889_1.02 MAX RRGCACATGK 1.9e-005 2.6e-008 -17.48 0.0 63 491 121 523 0.12831 1.0e-010 245 3 M1929_1.02 TP53 CATGTCTGGRCATGY 1.1e-001 1.5e-004 -8.82 0.0 318 486 297 386 0.65432 6.1e-007 242 3 M2264_1.02 (ATOH1)_(Mus_musculus)_(DBD_1.00) RCCAKCTG 3.4e-007 4.5e-010 -21.53 0.0 83 493 161 561 0.16836 1.8e-012 246 3 M2296_1.02 MAFK MWDASTCAGCAWWWW 2.3e-002 3.0e-005 -10.40 0.0 62 486 109 522 0.12757 1.3e-007 242 3 M2321_1.02 TP63 NDRCAWGYHCARRCWTGYHY 4.6e-002 6.2e-005 -9.70 0.0 113 481 169 506 0.23493 2.6e-007 240 3 M4532_1.02 MYC CCACGTGSYY 1.5e-001 2.0e-004 -8.52 0.0 63 491 104 504 0.12831 8.1e-007 245 3 M4543_1.02 MXI1 VVVVCCACGTG 1.2e-001 1.5e-004 -8.77 0.0 64 490 98 459 0.13061 6.3e-007 244 3 M4567_1.02 FOXA2 NCWRWGTAAACANNN 2.7e-009 3.7e-012 -26.33 0.0 108 486 195 528 0.22222 1.5e-014 242 3 M4572_1.02 MAFF TGCTGACTCAGCAWW 5.1e-030 6.8e-033 -74.07 0.0 56 486 155 466 0.11523 2.8e-035 242 3 M4681_1.02 BACH2 TGCTGAGTCA 7.9e-003 1.0e-005 -11.47 0.0 121 491 164 455 0.24644 4.3e-008 245 3 M4850_1.02 (TCF15)_(Drosophila_melanogaster)_(DBD_0.70) TKTWRTNKBBDYDMCATSTGK 5.9e0000 7.9e-003 -4.85 0.0 70 480 116 552 0.14583 3.3e-005 239 3 M5321_1.02 CLOCK AACACGTGTH 1.1e0000 1.5e-003 -6.49 0.0 9 491 23 427 0.01833 6.2e-006 245 3 M5335_1.02 CUX2 ATCGATAHNDTTATYGAT 7.8e-008 1.0e-010 -22.99 0.0 31 483 34 127 0.06418 4.3e-013 241 3 M5345_1.02 DMBX1 NHTAATCCBH 3.7e-002 4.9e-005 -9.92 0.0 71 491 125 552 0.14460 2.0e-007 245 3 M5398_1.02 ERF ACCGGAAGTR 7.5e0000 1.0e-002 -4.60 0.0 127 491 162 475 0.25866 4.1e-005 245 3 M5446_1.02 FOXD4L2 GTAAACA 1.9e-001 2.5e-004 -8.31 0.0 42 494 80 544 0.08502 1.0e-006 246 3 M5460_1.02 FOXL1 RTAAACA 1.0e-001 1.3e-004 -8.91 0.0 36 494 71 525 0.07287 5.5e-007 246 3 M5500_1.02 GSC VYTAATCCSH 4.7e-008 6.2e-011 -23.50 0.0 69 491 137 524 0.14053 2.5e-013 245 3 M5501_1.02 GSC2 NYTAATCCBH 2.2e0000 2.9e-003 -5.83 0.0 71 491 117 550 0.14460 1.2e-005 245 3 M5506_1.02 HES7 YGGCACGTGCCR 2.5e-001 3.3e-004 -8.02 0.0 55 489 43 180 0.11247 1.4e-006 244 3 M5509_1.02 HEY1 GRCACGTGBC 6.0e0000 8.0e-003 -4.82 0.0 3 491 11 385 0.00611 3.3e-005 245 3 M5634_1.02 MNT RVCACGTGMH 3.8e-002 5.1e-005 -9.89 0.0 59 491 91 440 0.12016 2.1e-007 245 3 M5652_1.02 NEUROD2 RMCATATGBY 5.4e0000 7.2e-003 -4.94 0.0 19 491 38 474 0.03870 2.9e-005 245 3 M5717_1.02 PITX1 NHTAATCCC 1.4e-004 1.9e-007 -15.48 0.0 68 492 130 555 0.13821 7.7e-010 245 3 M5720_1.02 PITX3 NHTAATCCC 1.9e-003 2.5e-006 -12.89 0.0 72 492 132 555 0.14634 1.0e-008 245 3 M5729_1.02 POU2F3 ATTWGCATA 1.7e-008 2.2e-011 -24.53 0.0 54 492 112 492 0.10976 9.0e-014 245 3 M5738_1.02 POU3F4 ATTWGCATA 3.8e-012 5.1e-015 -32.91 0.0 52 492 113 461 0.10569 2.1e-017 245 3 M5744_1.02 POU5F1B ATTWGCATA 3.2e-005 4.2e-008 -16.97 0.0 54 492 103 493 0.10976 1.7e-010 245 3 M5805_1.02 SCRT2 RWGCAACAGGTGB 2.1e-001 2.7e-004 -8.20 0.0 112 488 135 405 0.22951 1.1e-006 243 3 M5873_1.02 TBR1 AGGTGTGAAA 6.0e0000 8.0e-003 -4.83 0.0 147 491 205 539 0.29939 3.3e-005 245 3 M5880_1.02 TBX15 AGGTGTGAAATTCACACCT 6.1e-004 8.1e-007 -14.03 0.0 212 482 63 83 0.43983 3.4e-009 240 3 M5882_1.02 TBX19 DTTMRCACVTAGGTGTGAAW 8.1e0000 1.1e-002 -4.53 0.0 125 481 103 280 0.25988 4.5e-005 240 3 M5965_1.02 ZIC4 DCDCMGCRGGGGGYC 8.5e0000 1.1e-002 -4.48 0.0 428 486 434 463 0.88066 4.7e-005 242 3 M5981_1.02 ZSCAN4 TTTTCAGKGTGTGCA 1.0e-003 1.3e-006 -13.52 0.0 198 486 178 313 0.40741 5.6e-009 242 3 M6114_1.02 FOXA1 WAWGYAAAYA 4.4e-003 5.8e-006 -12.06 0.0 67 491 121 538 0.13646 2.4e-008 245 3 M6115_1.02 TP73 CATGYCWGRRCHTGY 2.2e0000 2.9e-003 -5.84 0.0 302 486 382 538 0.62140 1.2e-005 242 3 M6139_1.02 AHR KCACGCRAH 4.9e-004 6.6e-007 -14.24 0.0 70 492 122 507 0.14228 2.7e-009 245 3 M6144_1.02 TFAP2B BCCCBCRGGC 5.1e0000 6.8e-003 -4.99 0.0 57 491 96 547 0.11609 2.8e-005 245 3 M6151_1.02 ARNT BYRCGTGC 1.4e-001 1.8e-004 -8.62 0.0 55 493 84 440 0.11156 7.4e-007 246 3 M6161_1.02 BHLHE41 WSVRKSYCACGTGMHGRRRV 2.6e-003 3.4e-006 -12.58 0.0 67 481 117 506 0.13929 1.4e-008 240 3 M6182_1.02 CRX YTAATCHB 2.2e0000 2.9e-003 -5.85 0.0 69 493 111 533 0.13996 1.2e-005 246 3 M6205_1.02 ELF3 GGSAAACAGGAARY 2.9e-001 3.9e-004 -7.86 0.0 139 487 203 536 0.28542 1.6e-006 243 3 M6210_1.02 ENO1 YDSMCACRTGSYB 2.6e-001 3.4e-004 -7.98 0.0 70 488 123 563 0.14344 1.4e-006 243 3 M6234_1.02 FOXA3 RVWAARYAAAYAD 4.1e-005 5.4e-008 -16.74 0.0 62 488 119 527 0.12705 2.2e-010 243 3 M6239_1.02 FOXF2 HWADGTAAACA 7.4e-004 9.8e-007 -13.83 0.0 54 490 101 506 0.11020 4.0e-009 244 3 M6241_1.02 FOXJ2 WAAAYAAACA 3.2e-004 4.2e-007 -14.67 0.0 39 491 81 511 0.07943 1.7e-009 245 3 M6275_1.02 HIF1A SBSTACGTGCSB 6.8e-005 9.0e-008 -16.23 0.0 87 489 131 435 0.17791 3.7e-010 244 3 M6315_1.02 ISL1 SYTAATR 6.3e-018 8.3e-021 -46.23 0.0 58 494 144 518 0.11741 3.4e-023 246 3 M6323_1.02 KLF3 HRCYWGGGTGKGGCT 1.7e-004 2.3e-007 -15.28 0.0 92 486 155 518 0.18930 9.6e-010 242 3 M6330_1.02 MAFA BTGCTGACBMYGCARYHTYCV 1.3e-006 1.8e-009 -20.16 0.0 52 480 118 574 0.10833 7.4e-012 239 3 M6352_1.02 MYCN CCACGTGS 2.0e-001 2.6e-004 -8.26 0.0 67 493 103 473 0.13590 1.1e-006 246 3 M6378_1.02 NKX3-1 WWTAAGTATWTWW 2.6e0000 3.4e-003 -5.68 0.0 36 488 58 437 0.07377 1.4e-005 243 3 M6425_1.02 POU3F1 HTTGCATWWSMATB 9.9e-001 1.3e-003 -6.63 0.0 55 487 92 515 0.11294 5.4e-006 243 3 M6463_1.02 SMAD1 RSCCTGTCTGCM 6.0e-010 8.0e-013 -27.85 0.0 85 489 180 588 0.17382 3.3e-015 244 3 M6464_1.02 SMAD2 GTGTCHGKCTV 1.4e0000 1.8e-003 -6.30 0.0 250 490 346 575 0.51020 7.6e-006 244 3 M6465_1.02 SMAD3 STGTCTGBCY 3.4e0000 4.5e-003 -5.41 0.0 195 491 283 586 0.39715 1.8e-005 245 3 M6507_1.02 TEAD1 YACATTCCWSMKSH 1.2e-002 1.5e-005 -11.08 0.0 57 487 110 567 0.11704 6.4e-008 243 ## # Detailed descriptions of columns in this file: # # db: The name of the database (file name) that contains the motif. # id: A name for the motif that is unique in the motif database file. # alt: An alternate name of the motif that may be provided # in the motif database file. # consensus: A consensus sequence computed from the motif. # E-value: The expected number motifs that would have least one. # region as enriched for best matches to the motif as the reported region. # The E-value is the p-value multiplied by the number of motifs in the # input database(s). # adj_p-value: The probability that any tested region would be as enriched for # best matches to this motif as the reported region is. # By default the p-value is calculated by using the one-tailed binomial # test on the number of sequences with a match to the motif # that have their best match in the reported region, corrected for # the number of regions and score thresholds tested. # The test assumes that the probability that the best match in a sequence # falls in the region is the region width divided by the # number of places a motif # can align in the sequence (sequence length minus motif width plus 1). # When CentriMo is run in discriminative mode with a negative # set of sequences, the p-value of a region is calculated # using the Fisher exact test on the # enrichment of best matches in the positive sequences relative # to the negative sequences, corrected # for the number of regions and score thresholds tested. # The test assumes that the probability that the best match (if any) # falls into a given region # is the same for all positive and negative sequences. # log_adj_p-value: Log of adjusted p-value. # bin_location: Location of the center of the most enriched region. # bin_width: The width (in sequence positions) of the most enriched region. # A best match to the motif is counted as being in the region if the # center of the motif falls in the region. # total_width: The window maximal size which can be reached for this motif: # rounded(sequence length - motif length +1)/2 # sites_in_bin: The number of (positive) sequences whose best match to the motif # falls in the reported region. # Note: This number may be less than the number of # (positive) sequences that have a best match in the region. # The reason for this is that a sequence may have many matches that score # equally best. # If n matches have the best score in a sequence, 1/n is added to the # appropriate bin for each match. # total_sites: The number of sequences containing a match to the motif # above the score threshold. # p_success: The probability of falling in the enriched window: # bin width / total width # p-value: The uncorrected p-value before it gets adjusted to the # number of multiple tests to give the adjusted p-value. # mult_tests: This is the number of multiple tests (n) done for this motif. # It was used to correct the original p-value of a region for # multiple tests using the formula: # p' = 1 - (1-p)^n where p is the uncorrected p-value. # The number of multiple tests is the number of regions # considered times the number of score thresholds considered. # It depends on the motif length, sequence length, and the type of # optimizations being done (central enrichment, local enrichment, # score optimization).