# 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 CCASYAGRKGGCRSH MEME-1 CCASYAGRKGGCRSH 9.4e-4527 2.6e-4528 -10425.15 0.0 52 206 15653 21744 0.25243 2.5e-4530 102 1 AHATTTTTGGTTGYCACAATTVDGRG MEME-2 AHATTTTTGGTTGYCACAATTVDGRG 6.6e-022 1.8e-023 -52.35 0.0 91 195 168 205 0.46667 1.9e-025 97 1 AGTGCAGTRGCACRATTHHDGCTCABTGCA MEME-3 AGTGCAGTRGCACRATTHHDGCTCABTGCA 7.0e-005 1.9e-006 -13.15 0.0 55 191 88 182 0.28796 2.0e-008 95 2 AGRDGGCR DREME-1 AGRKGGCR 2.3e-1389 6.4e-1391 -3201.04 0.0 49 213 5538 8783 0.23005 6.0e-1393 106 2 CCASHAGR DREME-2 CCASCAGR 5.5e-938 1.5e-939 -2161.71 0.0 49 213 4462 7703 0.23005 1.4e-941 106 2 GCKCCMYC DREME-4 GCKCCCYC 6.7e-812 1.9e-813 -1871.37 0.0 51 213 3480 5555 0.23944 1.8e-815 106 2 CCTSYAG DREME-5 CCTSCAG 1.3e-293 3.5e-295 -678.01 0.0 58 214 3699 7960 0.27103 3.3e-297 106 2 CRCCDCC DREME-6 CRCCDCC 1.6e-203 4.4e-205 -470.56 0.0 44 214 2612 7201 0.20561 4.1e-207 106 2 CTGYCWCC DREME-9 CTGYCWCC 1.6e-154 4.4e-156 -357.72 0.0 49 213 1571 3645 0.23005 4.2e-158 106 2 ACAGCRHC DREME-10 ACAGCRMC 3.7e-071 1.0e-072 -165.76 0.0 61 213 816 1624 0.28638 9.6e-075 106 2 CTGCAG DREME-11 CTGCAG 3.4e-098 9.6e-100 -228.00 0.0 79 215 2766 5421 0.36744 8.9e-102 107 2 GYCACTGY DREME-13 GYCACTGY 1.1e-016 3.1e-018 -40.33 0.0 31 213 386 1680 0.14554 2.9e-020 106 2 CTACTGVC DREME-14 CTACTGVC 3.5e-146 9.8e-148 -338.50 0.0 61 213 702 1036 0.28638 9.2e-150 106 2 TGGGGGCR DREME-15 TGGGGGCA 5.5e-080 1.5e-081 -186.09 0.0 37 213 536 1348 0.17371 1.4e-083 106 2 GCAGCVKC DREME-16 GCAGCMKC 4.8e-031 1.3e-032 -73.40 0.0 111 213 2039 3248 0.52113 1.2e-034 106 2 MCACAS DREME-17 MCACAS 1.9e-013 5.3e-015 -32.88 0.0 57 215 3563 11910 0.26512 4.9e-017 107 2 CTGCCMTC DREME-21 CTGCCCTC 1.5e-185 4.2e-187 -429.15 0.0 49 213 1113 2123 0.23005 4.0e-189 106 2 TAGCGKTA DREME-22 TAGCGGTA 1.8e-004 4.9e-006 -12.23 0.0 69 213 58 98 0.32394 4.6e-008 106 2 TGTGACAA DREME-23 TGTGACAA 1.4e-003 3.8e-005 -10.19 0.0 89 213 139 240 0.41784 3.6e-007 106 2 GHGGCCRC DREME-24 GMGGCCRC 1.5e-030 4.1e-032 -72.28 0.0 39 213 522 1713 0.18310 3.9e-034 106 2 CAGYAGAG DREME-25 CAGCAGAG 4.4e-205 1.2e-206 -474.12 0.0 51 213 1068 1859 0.23944 1.2e-208 106 2 GACDCCA DREME-26 GACWCCA 6.0e-009 1.7e-010 -22.52 0.0 58 214 760 2249 0.27103 1.6e-012 106 2 CAKCCTCC DREME-28 CAKCCTCC 2.3e-001 6.5e-003 -5.04 0.0 163 213 1274 1581 0.76526 6.1e-005 106 2 TGSTGACA DREME-29 TGCTGACA 8.3e-010 2.3e-011 -24.49 0.0 85 213 406 767 0.39906 2.2e-013 106 2 AGGGGTCR DREME-32 AGGGGTCR 8.0e-039 2.2e-040 -91.31 0.0 65 213 337 583 0.30516 2.1e-042 106 2 KGGAGACA DREME-33 KGGAGACA 4.0e-009 1.1e-010 -22.92 0.0 133 213 691 942 0.62441 1.0e-012 106 ## # 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).