# 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 CTAYRMAGCYATAAWAAAS MEME-2 CTAYRMAGCYATAAWAAAS 2.2e-046 2.9e-049 -111.75 0.0 90 482 104 130 0.18672 1.2e-051 240 1 TGTYYTTTGYAGRGACATGGAT MEME-3 TGTYYTTTGYAGRGACATGGAT 1.0e-013 1.4e-016 -36.54 0.0 83 479 71 142 0.17328 5.7e-019 239 1 TGTCTGTTTTTATGCCAGTACCATGCTGTTT MEME-4 TGTCTGTTTTTATGCCAGTACCATGCTGTTT 1.7e-024 2.3e-027 -61.35 0.0 88 470 42 43 0.18723 9.7e-030 234 1 CGGGCGTGGTGGCKCRCGCCTG MEME-5 CGGGCGTGGTGGCKCRCGCCTG 5.1e0000 6.7e-003 -5.01 0.0 115 479 54 135 0.24008 2.8e-005 239 1 GCTGGAAACCATCATTCTCA MEME-6 GCTGGAAACCATCATTCTCA 7.4e-020 9.8e-023 -50.68 0.0 159 481 54 55 0.33056 4.1e-025 240 1 TATACACCATGGAATA MEME-7 TATACACCATGGAATA 1.2e-016 1.5e-019 -43.32 0.0 117 485 61 82 0.24124 6.4e-022 242 1 TGGCTGCYRSAGCTCCAGCCAT MEME-9 TGGCTGCYRSAGCTCCAGCCAT 1.5e-018 2.0e-021 -47.65 0.0 39 479 32 48 0.08142 8.4e-024 239 1 GAGTGCACTCAGACCCAGYGGATTAAC MEME-10 GAGTGCACTCAGACCCAGYGGATTAAC 1.0e-013 1.3e-016 -36.55 0.0 58 474 20 20 0.12236 5.7e-019 236 2 GCAGCCAY DREME-1 GCAGCCAT 2.7e-037 3.5e-040 -90.85 0.0 91 493 92 122 0.18458 1.4e-042 246 2 GGAHTAC DREME-2 GGAWTAC 3.8e-004 5.1e-007 -14.50 0.0 106 494 81 204 0.21457 2.1e-009 246 2 AGGMTGAG DREME-3 AGGMTGAG 2.6e-009 3.4e-012 -26.39 0.0 95 493 73 158 0.19270 1.4e-014 246 2 GGACATGR DREME-4 GGACATGR 7.3e-018 9.6e-021 -46.09 0.0 49 493 43 78 0.09939 3.9e-023 246 2 CAGCMTGG DREME-5 CAGCMTGG 1.9e-001 2.4e-004 -8.32 0.0 41 493 35 176 0.08316 9.9e-007 246 2 ATASACCA DREME-6 ATASACCA 1.0e-011 1.3e-014 -31.95 0.0 129 493 55 76 0.26166 5.4e-017 246 2 ATGRAGC DREME-7 ATGAAGC 8.9e-010 1.2e-012 -27.48 0.0 106 494 57 98 0.21457 4.7e-015 246 2 TAAAAAYA DREME-8 TAAAAAYA 3.6e-001 4.7e-004 -7.66 0.0 105 493 53 135 0.21298 1.9e-006 246 2 GGTGGCKC DREME-9 GGTGGCKC 4.6e-001 6.1e-004 -7.40 0.0 115 493 57 137 0.23327 2.5e-006 246 2 ATYCTCC DREME-10 ATYCTCC 1.1e-001 1.4e-004 -8.86 0.0 112 494 63 156 0.22672 5.7e-007 246 2 TAGAGA DREME-11 TAGAGA 4.6e0000 6.0e-003 -5.12 0.0 155 495 92 203 0.31313 2.4e-005 247 2 GAGKGCAC DREME-12 GAGTGCAC 8.6e0000 1.1e-002 -4.48 0.0 61 493 49 222 0.12373 4.6e-005 246 2 ARCCATCA DREME-13 ARCCATCA 2.7e-013 3.5e-016 -35.58 0.0 129 493 64 91 0.26166 1.4e-018 246 2 AGCTACT DREME-16 AGCTACT 5.0e0000 6.5e-003 -5.03 0.0 68 494 29 94 0.13765 2.7e-005 246 2 AATGTGG DREME-17 AATGTGG 1.6e-008 2.1e-011 -24.59 0.0 176 494 73 101 0.35628 8.5e-014 246 3 M0216_1.02 (NHLH2)_(Mus_musculus)_(DBD_1.00) NGCAGCTGYN 5.9e-001 7.7e-004 -7.17 0.0 73 491 126 570 0.14868 3.2e-006 245 3 M1007_1.02 (HOXA11)_(Mus_musculus)_(DBD_1.00) TTWAYDDBN 3.1e-001 4.0e-004 -7.82 0.0 80 492 41 121 0.16260 1.6e-006 245 3 M1432_1.02 NR2E1 NYTGACCTCD 1.0e-001 1.3e-004 -8.94 0.0 55 491 99 539 0.11202 5.4e-007 245 3 M1529_1.02 (RFX7)_(Mus_musculus)_(DBD_1.00) VCNTRGYAAC 1.5e0000 2.0e-003 -6.24 0.0 121 491 188 573 0.24644 8.0e-006 245 3 M1581_1.02 (CIC)_(Mus_musculus)_(DBD_1.00) NNTGCTGACW 6.6e-002 8.7e-005 -9.35 0.0 131 491 207 571 0.26680 3.6e-007 245 3 M1841_1.02 AR GNACABNVTGTTCYY 1.6e0000 2.1e-003 -6.18 0.0 258 486 348 560 0.53086 8.5e-006 242 3 M1919_1.02 YY1 CAARATGGCBGC 7.4e-002 9.7e-005 -9.24 0.0 95 489 154 544 0.19427 4.0e-007 244 3 M2289_1.02 JUN DDRATGATGTMAT 2.5e-005 3.3e-008 -17.23 0.0 74 488 126 476 0.15164 1.4e-010 243 3 M4344_1.02 (ARID2)_(Saccharomyces_cerevisiae)_(DBD_0.26) SGTTGCYA 5.3e-001 6.9e-004 -7.28 0.0 111 493 171 553 0.22515 2.8e-006 246 3 M4479_1.02 TCF12 VSAGCAGSTGB 7.9e-002 1.0e-004 -9.17 0.0 38 490 76 541 0.07755 4.3e-007 244 3 M5293_1.02 ATF7 NKATGACGTCATHN 1.4e-006 1.9e-009 -20.08 0.0 33 487 44 206 0.06776 7.8e-012 243 3 M5323_1.02 CREB3 KGRTGACGTCAYNV 4.3e-002 5.6e-005 -9.79 0.0 33 487 38 225 0.06776 2.3e-007 243 3 M5363_1.02 E2F8 TTTCCCGCCAAA 2.7e-001 3.5e-004 -7.95 0.0 75 489 62 223 0.15337 1.4e-006 244 3 M5544_1.02 HOXC10 DTTTWATKDB 7.0e0000 9.2e-003 -4.69 0.0 77 491 122 547 0.15682 3.8e-005 245 3 M5689_1.02 NRL DWWNTGCTGAC 7.8e-001 1.0e-003 -6.88 0.0 136 490 212 585 0.27755 4.2e-006 244 3 M5777_1.02 RFX4 NGTWRCCATGGYWACS 3.3e-007 4.3e-010 -21.57 0.0 65 485 104 387 0.13402 1.8e-012 242 3 M5955_1.02 YY2 WAATGGCGGWY 1.7e-001 2.3e-004 -8.38 0.0 60 490 103 527 0.12245 9.4e-007 244 3 M5998_1.02 (CREB5)_(Mus_musculus)_(DBD_1.00) DRTGACGTCATN 1.6e-002 2.1e-005 -10.76 0.0 37 489 47 268 0.07566 8.7e-008 244 3 M6180_1.02 CREB1 RTGACGTMA 1.5e0000 2.0e-003 -6.21 0.0 72 492 114 525 0.14634 8.2e-006 245 3 M6223_1.02 ETV5 GHCAGGAAGWWAY 4.6e-002 6.0e-005 -9.72 0.0 134 488 218 587 0.27459 2.5e-007 243 3 M6259_1.02 GCM1 HWNATGCKGGYMBK 1.3e0000 1.7e-003 -6.38 0.0 133 487 202 564 0.27310 6.9e-006 243 3 M6265_1.02 GLI2 GTGGGTGGTCY 5.5e0000 7.3e-003 -4.92 0.0 322 490 313 418 0.65714 3.0e-005 244 3 M6278_1.02 HLTF KANKGCTGSMAM 2.8e-002 3.6e-005 -10.22 0.0 43 489 91 589 0.08793 1.5e-007 244 3 M6291_1.02 HOXA1 CATCCATCMA 2.2e-002 2.9e-005 -10.45 0.0 57 491 97 493 0.11609 1.2e-007 245 3 M6295_1.02 HOXB1 CCATCMATCW 9.0e-004 1.2e-006 -13.65 0.0 181 491 218 431 0.36864 4.8e-009 245 3 M6330_1.02 MAFA BTGCTGACBMYGCARYHTYCV 1.1e-004 1.5e-007 -15.73 0.0 104 480 182 553 0.21667 6.2e-010 239 3 M6353_1.02 MYF6 GCAGSTG 1.2e0000 1.6e-003 -6.45 0.0 40 494 73 524 0.08097 6.4e-006 246 3 M6395_1.02 NR4A3 STGACCTTTG 2.3e-001 3.0e-004 -8.12 0.0 49 491 82 481 0.09980 1.2e-006 245 3 M6443_1.02 RARA TGACCTB 3.4e-002 4.4e-005 -10.02 0.0 86 494 152 586 0.17409 1.8e-007 246 3 M6461_1.02 RXRB YSTGACCTSA 9.2e-001 1.2e-003 -6.72 0.0 113 491 182 588 0.23014 4.9e-006 245 3 M6466_1.02 SMAD4 TGTCTGBCY 8.6e0000 1.1e-002 -4.49 0.0 238 492 332 588 0.48374 4.6e-005 245 3 M6478_1.02 SOX9 ARAACAATRGR 8.0e0000 1.1e-002 -4.55 0.0 262 490 338 547 0.53469 4.3e-005 244 3 M6523_1.02 THRB TGACCTSABSTSRSSYC 3.7e0000 4.9e-003 -5.32 0.0 132 484 192 543 0.27273 2.0e-005 241 3 M6532_1.02 VDR TGAMCYC 1.7e0000 2.3e-003 -6.08 0.0 50 494 94 595 0.10121 9.3e-006 246 ## # 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).