# 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 CWTTSTYATGCAAAT MEME-1 CWTTSTYATGCAAAT 4.5e-406 1.6e-407 -936.69 0.0 74 196 2804 3896 0.37755 1.6e-409 97 1 CHCAGCAGGWR MEME-3 CHCAGCAGGWR 7.1e-004 2.5e-005 -10.59 0.0 70 200 814 2014 0.35000 2.6e-007 99 2 CATRABAA DREME-1 CATRACAA 9.5e-257 3.4e-258 -592.85 0.0 61 203 1120 1541 0.30049 3.3e-260 101 2 ATGYWAAT DREME-2 ATGCAAAT 1.2e-082 4.4e-084 -191.93 0.0 79 203 886 1355 0.38916 4.4e-086 101 2 AWATGCR DREME-3 AWATGCA 4.5e-076 1.6e-077 -176.83 0.0 74 204 789 1263 0.36275 1.6e-079 101 2 AATRASAA DREME-4 AATRACAA 7.5e-016 2.7e-017 -38.16 0.0 73 203 323 599 0.35961 2.6e-019 101 2 CAGCRGG DREME-7 CAGCAGG 2.7e-007 9.7e-009 -18.46 0.0 108 204 436 668 0.52941 9.6e-011 101 2 CATYACAA DREME-8 CATYACAA 3.2e-037 1.1e-038 -87.38 0.0 57 203 202 314 0.28079 1.1e-040 101 2 TATGYARA DREME-9 TATGYARA 5.7e-088 2.0e-089 -204.21 0.0 87 203 758 1022 0.42857 2.0e-091 101 2 CMCAGS DREME-10 CMCAGS 3.3e-001 1.2e-002 -4.45 0.0 155 205 2216 2820 0.75610 1.2e-004 102 2 ATGCGCAT DREME-11 ATGCGCAT 5.0e-044 1.8e-045 -103.04 0.0 63 203 148 176 0.31034 1.8e-047 101 2 ACAAWGG DREME-12 ACAAWGG 4.1e-031 1.5e-032 -73.29 0.0 98 204 567 819 0.48039 1.5e-034 101 2 ATGAATAW DREME-14 ATGAATAW 6.0e-026 2.1e-027 -61.40 0.0 53 203 167 291 0.26108 2.1e-029 101 2 RCATTCCW DREME-16 RCATTCCW 2.7e-002 9.8e-004 -6.93 0.0 151 203 365 440 0.74384 9.7e-006 101 2 GGTTCGA DREME-18 GGTTCGA 2.2e-004 7.9e-006 -11.75 0.0 70 204 50 78 0.34314 7.8e-008 101 2 GAGTCAC DREME-19 GAGTCAC 3.4e-002 1.2e-003 -6.72 0.0 96 204 89 136 0.47059 1.2e-005 101 2 CATTAKAA DREME-21 CATTAGAA 5.6e-001 2.0e-002 -3.90 0.0 109 203 119 177 0.53695 2.0e-004 101 2 ATATGWAT DREME-23 ATATGWAT 3.4e-015 1.2e-016 -36.65 0.0 75 203 117 166 0.36946 1.2e-018 101 2 CTAAYGAG DREME-24 CTAATGAG 6.4e0000 2.3e-001 -1.48 0.0 115 203 128 191 0.56650 2.6e-003 101 ## # 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).