# 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 TTMTCAGAGCCTTTAA MEME-1 TTMTCAGAGCCTTTAA 1.1e-166 1.5e-169 -388.72 0.0 73 485 293 360 0.15052 6.2e-172 242 1 TTCTTTVCTGCAGGAC MEME-2 TTCTTTVCTGCAGGAC 1.8e-076 2.4e-079 -181.03 0.0 75 485 203 326 0.15464 9.9e-082 242 1 ATTCACAATGCACATTAGCATA MEME-5 ATTCACAATGCACATTAGCATA 1.2e-017 1.6e-020 -45.59 0.0 85 479 91 183 0.17745 6.7e-023 239 1 TGCASRCCTTVTCAGD MEME-8 TGCASRCCTTVTCAGD 3.5e-149 4.7e-152 -348.45 0.0 65 485 289 410 0.13402 1.9e-154 242 1 TGTGTBTGTRTG MEME-9 TGTGTBTGTRTG 1.9e0000 2.5e-003 -5.99 0.0 247 489 122 184 0.50511 1.0e-005 244 2 CTGANAAG DREME-1 CTGABAAG 9.2e-125 1.2e-127 -292.22 0.0 63 493 219 293 0.12779 5.0e-130 246 2 TCCYGCA DREME-2 TCCTGCA 1.4e-050 1.9e-053 -121.39 0.0 68 494 126 205 0.13765 7.8e-056 246 2 GCCTTTR DREME-3 GCCTTTA 4.4e-050 5.9e-053 -120.26 0.0 84 494 125 177 0.17004 2.4e-055 246 2 AAASAAAM DREME-4 AAASAAAM 1.4e0000 1.9e-003 -6.28 0.0 91 493 47 137 0.18458 7.7e-006 246 2 AGCCTTSA DREME-5 AGCCTTSA 3.8e-047 5.1e-050 -113.49 0.0 43 493 84 139 0.08722 2.1e-052 246 2 CTSTTTA DREME-6 CTGTTTA 1.8e0000 2.5e-003 -6.01 0.0 68 494 31 101 0.13765 1.0e-005 246 3 M0415_1.02 (KLF9)_(Mus_musculus)_(DBD_1.00) VTAACGGN 1.6e0000 2.1e-003 -6.17 0.0 33 493 58 477 0.06694 8.5e-006 246 3 M0424_1.02 (SNAI3)_(Mus_musculus)_(DBD_0.75) NNTGACAKNN 8.9e-001 1.2e-003 -6.74 0.0 37 491 75 582 0.07536 4.8e-006 245 3 M0719_1.02 FOXG1 RTAAACAW 2.6e0000 3.5e-003 -5.65 0.0 345 493 363 461 0.69980 1.4e-005 246 3 M0891_1.02 TLX2 NTAAWNNNNN 6.7e-002 8.9e-005 -9.33 0.0 33 491 35 205 0.06721 3.6e-007 245 3 M0901_1.02 AC226150.2 CWTGTCAA 1.3e-011 1.8e-014 -31.67 0.0 45 493 115 555 0.09128 7.2e-017 246 3 M1868_1.02 GATA2 DSAGATAAGAANYH 1.0e-002 1.4e-005 -11.19 0.0 55 487 100 515 0.11294 5.7e-008 243 3 M2321_1.02 TP63 NDRCAWGYHCARRCWTGYHY 6.4e0000 8.6e-003 -4.76 0.0 31 481 57 500 0.06445 3.6e-005 240 3 M4509_1.02 POU5F1 ATYTGCATRACAAWGRV 5.4e-005 7.2e-008 -16.44 0.0 46 484 87 457 0.09504 3.0e-010 241 3 M4600_1.02 GATA1 NSAGATAAGVV 4.5e-011 6.0e-014 -30.45 0.0 56 490 131 549 0.11429 2.5e-016 244 3 M5460_1.02 FOXL1 RTAAACA 9.2e-001 1.2e-003 -6.70 0.0 372 494 443 532 0.75304 5.0e-006 246 3 M5643_1.02 MYBL1 RCCGTTAAACBG 2.1e-001 2.8e-004 -8.18 0.0 79 489 99 385 0.16155 1.1e-006 244 3 M5738_1.02 POU3F4 ATTWGCATA 4.9e-001 6.6e-004 -7.33 0.0 76 492 107 449 0.15447 2.7e-006 245 3 M5753_1.02 PROX1 YAAGACGYCTTA 5.0e-007 6.6e-010 -21.13 0.0 65 489 88 311 0.13292 2.7e-012 244 3 M5981_1.02 ZSCAN4 TTTTCAGKGTGTGCA 1.2e-002 1.6e-005 -11.05 0.0 84 486 98 335 0.17284 6.6e-008 242 3 M6115_1.02 TP73 CATGYCWGRRCHTGY 1.5e-003 2.0e-006 -13.13 0.0 38 486 82 541 0.07819 8.2e-009 242 3 M6256_1.02 GATA4 RSWGATAAV 2.0e-006 2.7e-009 -19.74 0.0 30 492 78 558 0.06098 1.1e-011 245 3 M6258_1.02 GATA6 NWGATAA 4.7e-003 6.2e-006 -11.98 0.0 58 494 104 516 0.11741 2.5e-008 246 3 M6387_1.02 NR1I3 HTGAACTYBBYTGACCYY 8.1e-005 1.1e-007 -16.05 0.0 105 483 173 515 0.21739 4.5e-010 241 3 M6396_1.02 NR5A2 TRRCCTTGRV 1.0e0000 1.4e-003 -6.59 0.0 43 491 81 560 0.08758 5.6e-006 245 3 M6475_1.02 SOX2 WTTTGCATRACAAWGG 1.8e-003 2.3e-006 -12.96 0.0 47 485 91 505 0.09691 9.7e-009 242 3 M6514_1.02 TFCP2 SCCWGMNMDSRCCRGA 3.6e-003 4.8e-006 -12.25 0.0 15 485 45 562 0.03093 2.0e-008 242 3 M6523_1.02 THRB TGACCTSABSTSRSSYC 7.0e0000 9.4e-003 -4.67 0.0 34 484 63 531 0.07025 3.9e-005 241 3 M6544_1.02 HIVEP1 VGGGATTTCCCA 7.8e-013 1.0e-015 -34.50 0.0 65 489 141 504 0.13292 4.3e-018 244 ## # 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).