# 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 TTTGCATRWSAAWRR MEME-1 TTTGCATRWSAAWRR 3.5e-170 8.6e-172 -393.89 0.0 60 196 5924 14177 0.30612 8.9e-174 97 2 ATGYADAT DREME-1 ATGYAAAT 1.1e-079 2.8e-081 -185.48 0.0 73 203 2109 4165 0.35961 2.8e-083 101 2 MATRACAA DREME-2 MATRACAA 1.2e-136 3.0e-138 -316.67 0.0 61 203 1619 3133 0.30049 2.9e-140 101 2 CMCAG DREME-3 CMCAG 2.3e-002 5.7e-004 -7.47 0.0 150 206 17623 23789 0.72816 5.6e-006 102 2 CDGSAG DREME-7 CWGSAG 8.2e-007 2.0e-008 -17.73 0.0 77 205 7031 17641 0.37561 2.0e-010 102 2 ATGCGCAT DREME-8 ATGCGCAT 9.0e-035 2.2e-036 -82.10 0.0 71 203 228 324 0.34975 2.2e-038 101 2 ATGNTAAT DREME-9 ATGHTAAT 1.3e-012 3.2e-014 -31.08 0.0 69 203 820 1910 0.33990 3.1e-016 101 2 AGRKGGCG DREME-12 AGRKGGCG 2.0e-011 4.8e-013 -28.37 0.0 85 203 579 1080 0.41872 4.7e-015 101 2 RCATTCCW DREME-13 RCATTCCW 2.6e-006 6.3e-008 -16.57 0.0 159 203 1511 1798 0.78325 6.3e-010 101 2 TATGCAVA DREME-15 TATGCAAA 9.7e-060 2.4e-061 -139.59 0.0 89 203 1291 2075 0.43842 2.3e-063 101 2 ACARAGR DREME-16 ACAAAGR 2.7e-007 6.5e-009 -18.85 0.0 134 204 5045 7286 0.65686 6.4e-011 101 2 CVCCRCC DREME-17 CVCCRCC 2.2e-001 5.3e-003 -5.25 0.0 36 204 954 4815 0.17647 5.2e-005 101 2 CACBG DREME-21 CACTG 1.6e-001 3.9e-003 -5.55 0.0 98 206 8517 17355 0.47573 3.8e-005 102 2 RAATR DREME-22 GAATR 1.8e0000 4.4e-002 -3.11 0.0 72 206 10132 28225 0.34951 4.5e-004 102 2 CACMTGS DREME-25 CACMTGS 6.1e-006 1.5e-007 -15.72 0.0 128 204 3281 4911 0.62745 1.5e-009 101 2 GCATYACA DREME-28 GCATYACA 3.9e-021 9.4e-023 -50.72 0.0 83 203 428 713 0.40887 9.3e-025 101 2 CCDGGAA DREME-30 CCTGGAA 8.4e0000 2.0e-001 -1.59 0.0 180 204 3661 4083 0.88235 2.3e-003 101 2 CCACTAGR DREME-33 CCACTAGR 2.4e-002 5.9e-004 -7.44 0.0 165 203 509 577 0.81281 5.8e-006 101 2 AKGTGAC DREME-36 AKGTGAC 2.8e0000 6.9e-002 -2.68 0.0 188 204 1604 1703 0.92157 7.1e-004 101 2 ARAGGCAG DREME-38 ARAGGCAG 1.0e0000 2.5e-002 -3.71 0.0 65 203 514 1411 0.32020 2.5e-004 101 ## # 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).