# 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 DKCAACAGGTGN MEME-1 DKCAACAGGTGN 1.3e-229 1.8e-232 -533.61 0.0 65 489 429 596 0.13292 7.4e-235 244 1 CHACAGGTG MEME-3 CHACAGGTG 2.3e-131 3.1e-134 -307.41 0.0 88 492 329 468 0.17886 1.3e-136 245 1 CCASYAGRKGGCRSY MEME-5 CCASYAGRKGGCRSY 5.5e-003 7.4e-006 -11.81 0.0 276 486 174 235 0.56790 3.1e-008 242 2 ACARGT DREME-1 ACAGGT 1.6e-153 2.2e-156 -358.43 0.0 71 495 347 530 0.14343 8.8e-159 247 2 CCTGTTGC DREME-2 CCTGTTGC 3.9e-131 5.2e-134 -306.90 0.0 73 493 315 491 0.14807 2.1e-136 246 3 M0177_1.02 (TWIST2)_(Mus_musculus)_(DBD_1.00) NMCATATGTN 1.4e-020 1.8e-023 -52.35 0.0 61 491 155 520 0.12424 7.5e-026 245 3 M0178_1.02 (ASCL2)_(Mus_musculus)_(DBD_0.98) NVCAGCTGBN 3.4e-043 4.6e-046 -104.39 0.0 73 491 233 588 0.14868 1.9e-048 245 3 M0189_1.02 (ID2)_(Mus_musculus)_(DBD_0.98) RCACGTGR 2.8e-021 3.7e-024 -53.95 0.0 123 493 254 555 0.24949 1.5e-026 246 3 M0195_1.02 (TCF23)_(Mus_musculus)_(DBD_0.60) DMCAKMTGKH 1.2e-012 1.6e-015 -34.04 0.0 71 491 162 569 0.14460 6.7e-018 245 3 M0196_1.02 (NPAS2)_(Mus_musculus)_(DBD_1.00) NSCACGTGTN 1.6e-033 2.1e-036 -82.15 0.0 61 491 185 545 0.12424 8.6e-039 245 3 M0199_1.02 (HES2)_(Mus_musculus)_(DBD_0.83) NNNNGRCACGTGM 2.1e-013 2.8e-016 -35.80 0.0 64 488 158 591 0.13115 1.2e-018 243 3 M0211_1.02 (MLXIP)_(Mus_musculus)_(DBD_0.82) BCACGTGK 2.5e-040 3.3e-043 -97.81 0.0 61 493 199 555 0.12373 1.3e-045 246 3 M0214_1.02 (TCF21)_(Mus_musculus)_(DBD_1.00) AACAKMTGK 9.7e-010 1.3e-012 -27.37 0.0 54 492 116 500 0.10976 5.3e-015 245 3 M0216_1.02 (NHLH2)_(Mus_musculus)_(DBD_1.00) NGCAGCTGYN 2.7e-010 3.6e-013 -28.65 0.0 29 491 89 593 0.05906 1.5e-015 245 3 M0305_1.02 (CREB3L2)_(Mus_musculus)_(DBD_1.00) GCCACGTGD 6.7e-018 9.0e-021 -46.16 0.0 68 492 150 475 0.13821 3.7e-023 245 3 M1528_1.02 (RFX6)_(Mus_musculus)_(DBD_0.66) VCNTRGYWAC 1.0e-001 1.4e-004 -8.89 0.0 65 491 120 582 0.13238 5.6e-007 245 3 M1529_1.02 (RFX7)_(Mus_musculus)_(DBD_1.00) VCNTRGCAAC 3.7e-002 4.9e-005 -9.92 0.0 35 491 77 581 0.07128 2.0e-007 245 3 M1889_1.02 MAX RRGCACATGK 2.9e-008 3.8e-011 -23.98 0.0 53 491 119 553 0.10794 1.6e-013 245 3 M1917_1.02 USF1 GGTCACRTGRB 1.2e-001 1.6e-004 -8.73 0.0 96 490 143 497 0.19592 6.6e-007 244 3 M1926_1.02 ZEB1 CAGGTGWGB 6.5e-036 8.6e-039 -87.64 0.0 58 492 192 585 0.11789 3.5e-041 245 3 M1927_1.02 (MYCL1)_(Mus_musculus)_(DBD_0.66) RCCACGTG 6.6e-017 8.8e-020 -43.87 0.0 69 493 162 535 0.13996 3.6e-022 246 3 M2264_1.02 (ATOH1)_(Mus_musculus)_(DBD_1.00) RCCAKCTG 3.1e-005 4.1e-008 -17.00 0.0 67 493 135 580 0.13590 1.7e-010 246 3 M2299_1.02 (MYF5)_(Mus_musculus)_(DBD_0.90) NRNRRCAGCTGSN 1.7e-058 2.3e-061 -139.63 0.0 62 488 238 589 0.12705 9.4e-064 243 3 M2321_1.02 TP63 NDRCAWGYHCARRCWTGYHY 2.7e0000 3.7e-003 -5.61 0.0 53 481 88 509 0.11019 1.5e-005 240 3 M2392_1.02 RFX2 GTYKCCATGGCAACVRVNN 8.6e-002 1.2e-004 -9.07 0.0 52 482 81 429 0.10788 4.8e-007 240 3 M4344_1.02 (ARID2)_(Saccharomyces_cerevisiae)_(DBD_0.26) SGTTGCYA 3.7e-012 4.9e-015 -32.95 0.0 35 493 100 559 0.07099 2.0e-017 246 3 M4427_1.02 CTCF NYGGCCASCAGRKGGCRSYVB 1.4e-009 1.8e-012 -27.03 0.0 108 480 189 500 0.22500 7.6e-015 239 3 M4476_1.02 RFX5 TCABYWGTTGCYRGG 2.5e-016 3.3e-019 -42.56 0.0 70 486 171 571 0.14403 1.4e-021 242 3 M4479_1.02 TCF12 VSAGCAGSTGB 1.8e-038 2.4e-041 -93.52 0.0 68 490 215 583 0.13878 9.9e-044 244 3 M4532_1.02 MYC CCACGTGSYY 4.6e-003 6.2e-006 -11.99 0.0 61 491 112 538 0.12424 2.5e-008 245 3 M4543_1.02 MXI1 VVVVCCACGTG 1.6e-018 2.1e-021 -47.61 0.0 64 490 160 542 0.13061 8.7e-024 244 3 M4553_1.02 BHLHE40 NGKCACGTGC 2.4e-007 3.2e-010 -21.87 0.0 61 491 124 525 0.12424 1.3e-012 245 3 M4612_1.02 CTCFL CCRSCAGGGGGCGCY 1.4e-004 1.9e-007 -15.47 0.0 146 486 213 497 0.30041 7.9e-010 242 3 M4680_1.02 BACH1 GTCACGTG 1.7e-003 2.2e-006 -13.01 0.0 129 493 201 540 0.26166 9.1e-009 246 3 M4850_1.02 (TCF15)_(Drosophila_melanogaster)_(DBD_0.70) TKTWRTNKBBDYDMCATSTGK 2.6e-002 3.5e-005 -10.27 0.0 90 480 155 561 0.18750 1.5e-007 239 3 M4971_1.02 (FERD3L)_(Drosophila_melanogaster)_(DBD_0.89) GTVACAGVTG 4.3e-051 5.7e-054 -122.59 0.0 63 491 230 595 0.12831 2.3e-056 245 3 M5116_1.02 (ATOH8)_(Drosophila_melanogaster)_(DBD_0.70) RCCACCTGK 1.1e-066 1.5e-069 -158.46 0.0 58 492 242 591 0.11789 6.2e-072 245 3 M5321_1.02 CLOCK AACACGTGTH 2.3e-048 3.1e-051 -116.31 0.0 61 491 203 518 0.12424 1.3e-053 245 3 M5430_1.02 FIGLA WMCACCTGKW 2.8e-092 3.7e-095 -217.42 0.0 73 491 308 597 0.14868 1.5e-097 245 3 M5471_1.02 FOXO6 GTAAACATGTTTAC 6.4e-006 8.6e-009 -18.57 0.0 45 487 53 215 0.09240 3.5e-011 243 3 M5497_1.02 GRHL1 AACCGGTYTAACCGGTT 4.2e-011 5.6e-014 -30.52 0.0 90 484 124 326 0.18595 2.3e-016 241 3 M5504_1.02 HES5 YGGCACGTGYCR 6.5e-001 8.7e-004 -7.05 0.0 97 489 85 269 0.19836 3.6e-006 244 3 M5509_1.02 HEY1 GRCACGTGBC 1.4e-014 1.8e-017 -38.53 0.0 59 491 136 506 0.12016 7.5e-020 245 3 M5571_1.02 ID4 DVCAGGTGYN 3.2e-059 4.2e-062 -141.32 0.0 77 491 267 591 0.15682 1.7e-064 245 3 M5627_1.02 MESP1 NVCAGGTGYD 9.6e-058 1.3e-060 -137.90 0.0 61 491 236 594 0.12424 5.3e-063 245 3 M5628_1.02 MGA AGGTGTGA 4.5e0000 6.0e-003 -5.11 0.0 159 493 232 573 0.32252 2.5e-005 246 3 M5632_1.02 MLX RTCACGTGAT 7.7e-003 1.0e-005 -11.48 0.0 187 491 187 358 0.38086 4.2e-008 245 3 M5634_1.02 MNT RVCACGTGMH 1.3e-027 1.7e-030 -68.53 0.0 61 491 177 556 0.12424 7.0e-033 245 3 M5636_1.02 MSC AACAGCTGTT 2.0e-054 2.7e-057 -130.24 0.0 73 491 238 537 0.14868 1.1e-059 245 3 M5653_1.02 NEUROG2 RRCATATGTY 4.5e-001 6.0e-004 -7.41 0.0 51 491 71 387 0.10387 2.5e-006 245 3 M5722_1.02 PKNOX2 TGACACCTGTCA 2.4e-002 3.1e-005 -10.37 0.0 19 489 33 306 0.03885 1.3e-007 244 3 M5777_1.02 RFX4 NGTWRCCATGGYWACS 5.9e0000 7.9e-003 -4.85 0.0 39 485 46 306 0.08041 3.3e-005 242 3 M5804_1.02 SCRT1 RWGCAACAGGTGKBH 1.4e-214 1.9e-217 -499.01 0.0 70 486 427 594 0.14403 7.9e-220 242 3 M5805_1.02 SCRT2 RWGCAACAGGTGB 1.2e-214 1.6e-217 -499.19 0.0 66 488 416 589 0.13525 6.6e-220 243 3 M5896_1.02 TBX4 AGGTGTGA 1.0e-001 1.4e-004 -8.91 0.0 95 493 162 587 0.19270 5.5e-007 246 3 M5932_1.02 TFEC VTCAYGTGAY 1.4e-010 1.9e-013 -29.28 0.0 41 491 107 559 0.08350 7.8e-016 245 3 M5934_1.02 TGIF2 TGACASCTGTCA 1.2e-001 1.6e-004 -8.72 0.0 191 489 185 356 0.39059 6.7e-007 244 3 M5935_1.02 TGIF2LX TGACASCTGTCA 1.3e-003 1.8e-006 -13.25 0.0 61 489 75 309 0.12474 7.2e-009 244 3 M5965_1.02 ZIC4 DCDCMGCGGGGGGYC 7.3e-026 9.8e-029 -64.49 0.0 78 486 199 544 0.16049 4.1e-031 242 3 M5980_1.02 ZNF784 AGGTAGGTAC 1.7e0000 2.3e-003 -6.08 0.0 47 491 63 374 0.09572 9.3e-006 245 3 M6139_1.02 AHR KCACGCRAH 7.2e0000 9.6e-003 -4.64 0.0 32 492 59 529 0.06504 4.0e-005 245 3 M6161_1.02 BHLHE41 WSVRKSYCACGTGMHGRRRV 3.9e0000 5.3e-003 -5.25 0.0 85 481 125 498 0.17672 2.2e-005 240 3 M6162_1.02 ARNTL GRGTCACGTGTYCM 4.8e-002 6.4e-005 -9.66 0.0 37 487 57 371 0.07598 2.6e-007 243 3 M6191_1.02 E2F2 GGCGCGAAAC 4.8e0000 6.5e-003 -5.04 0.0 93 491 113 414 0.18941 2.7e-005 245 3 M6210_1.02 ENO1 YDSMCACRTGSYB 3.3e0000 4.4e-003 -5.44 0.0 130 488 198 573 0.26639 1.8e-005 243 3 M6274_1.02 HIC1 GGGKTGCCC 1.2e0000 1.5e-003 -6.47 0.0 26 492 56 567 0.05285 6.3e-006 245 3 M6275_1.02 HIF1A SBSTACGTGCSB 2.6e-001 3.4e-004 -7.98 0.0 63 489 96 464 0.12883 1.4e-006 244 3 M6316_1.02 TCF4 VCAGGTGCD 9.0e-042 1.2e-044 -101.13 0.0 76 492 233 579 0.15447 4.9e-047 245 3 M6344_1.02 MEIS2 KGACAVCTGTCAA 7.7e-003 1.0e-005 -11.49 0.0 66 488 108 476 0.13525 4.2e-008 243 3 M6345_1.02 MITF VKCACATGWY 1.6e-021 2.2e-024 -54.49 0.0 61 491 169 582 0.12424 8.8e-027 245 3 M6346_1.02 MLXIPL VCACGVSGKKGBCMCRTGC 1.6e-001 2.2e-004 -8.43 0.0 168 482 190 410 0.34855 9.1e-007 240 3 M6349_1.02 MYBL2 WYAACCKSBA 2.7e-008 3.7e-011 -24.03 0.0 67 491 147 586 0.13646 1.5e-013 245 3 M6352_1.02 MYCN CCACGTGS 2.7e-005 3.6e-008 -17.13 0.0 59 493 118 544 0.11968 1.5e-010 246 3 M6353_1.02 MYF6 GCAGSTG 3.3e-032 4.4e-035 -79.10 0.0 82 494 225 577 0.16599 1.8e-037 246 3 M6354_1.02 MYOD1 RACAGSTGS 1.9e-056 2.5e-059 -134.92 0.0 60 492 231 592 0.12195 1.0e-061 245 3 M6355_1.02 MYOG YRACAGCTGCWGC 1.5e-032 1.9e-035 -79.92 0.0 88 488 237 580 0.18033 8.0e-038 243 3 M6358_1.02 NEUROD1 SGGCAGRTGKSC 1.7e-034 2.2e-037 -84.39 0.0 71 489 214 587 0.14519 9.2e-040 244 3 M6389_1.02 NR2C1 VTGACCTCYBRSC 2.6e0000 3.4e-003 -5.67 0.0 56 488 98 557 0.11475 1.4e-005 243 3 M6446_1.02 RARG BTGACCTBYNGBYGAMCYCC 1.5e-004 1.9e-007 -15.45 0.0 81 481 156 579 0.16840 8.1e-010 240 3 M6451_1.02 RFX1 GTTGCYAGGSRA 5.4e-003 7.3e-006 -11.83 0.0 203 489 292 551 0.41513 3.0e-008 244 3 M6468_1.02 SNAI1 SCAGGTGK 8.7e-055 1.2e-057 -131.10 0.0 73 493 254 594 0.14807 4.7e-060 246 3 M6469_1.02 SNAI2 BCAGGTG 5.5e-025 7.4e-028 -62.47 0.0 66 494 187 595 0.13360 3.0e-030 246 3 M6500_1.02 TAL1 GACCATCTGTTS 3.0e-023 4.0e-026 -58.47 0.0 51 489 138 485 0.10429 1.7e-028 244 3 M6505_1.02 TBX5 AGGTGTGA 5.8e-008 7.7e-011 -23.28 0.0 55 493 128 594 0.11156 3.1e-013 246 3 M6513_1.02 TFAP4 RYCAGCTGYGG 6.0e-018 8.1e-021 -46.26 0.0 64 490 160 549 0.13061 3.3e-023 244 3 M6516_1.02 TCF3 GRVCATCTGKT 7.2e-031 9.6e-034 -76.03 0.0 50 490 170 592 0.10204 3.9e-036 244 3 M6517_1.02 TFE3 RGTCAYGTGV 8.6e-008 1.1e-010 -22.89 0.0 65 491 140 577 0.13238 4.7e-013 245 3 M6518_1.02 TFEB RGTCACGTG 8.1e0000 1.1e-002 -4.53 0.0 184 492 164 343 0.37398 4.4e-005 245 3 M6519_1.02 TGIF1 MWGSTGACACCTSMCA 9.4e-001 1.3e-003 -6.68 0.0 59 485 109 586 0.12165 5.2e-006 242 3 M6527_1.02 TWIST1 MCCCAGGTGK 9.0e-014 1.2e-016 -36.66 0.0 47 491 123 548 0.09572 4.9e-019 245 3 M6554_1.02 ZNF238 TCCAGATGTTBVSS 2.2e0000 2.9e-003 -5.83 0.0 69 487 102 474 0.14168 1.2e-005 243 ## # 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).