# 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 WTTTGCATAWSAAW MEME-1 WTTTGCATAWSAAW 2.3e-227 5.6e-229 -525.57 0.0 61 197 4739 10235 0.30964 5.7e-231 98 2 ATGYANAT DREME-1 ATGCAAAT 2.0e-113 4.9e-115 -263.22 0.0 81 203 3011 5439 0.39901 4.8e-117 101 2 MATRACAA DREME-2 MATRACAA 1.7e-174 4.1e-176 -403.83 0.0 61 203 1904 3603 0.30049 4.1e-178 101 2 CTGKGD DREME-3 CTGKGD 5.2e-004 1.2e-005 -11.31 0.0 107 205 12134 22506 0.52195 1.2e-007 102 2 TATGYWAA DREME-5 TATGYWAA 1.4e-074 3.4e-076 -173.78 0.0 69 203 1669 3358 0.33990 3.3e-078 101 2 CDGSAG DREME-7 CWGSAG 8.3e-008 2.0e-009 -20.04 0.0 77 205 7431 18616 0.37561 1.9e-011 102 2 ATGCGCAT DREME-8 ATGCGCAT 8.7e-053 2.1e-054 -123.62 0.0 67 203 287 399 0.33005 2.0e-056 101 2 RAATGY DREME-10 RAATGY 1.1e0000 2.6e-002 -3.64 0.0 61 205 5275 17028 0.29756 2.6e-004 102 2 ACARAGV DREME-11 ACARAGV 8.1e-008 1.9e-009 -20.07 0.0 72 204 3894 10126 0.35294 1.9e-011 101 2 AGRKGGCG DREME-14 AGRKGGCG 3.0e-011 7.0e-013 -27.98 0.0 85 203 592 1109 0.41872 7.0e-015 101 2 ATGNTAAT DREME-17 ATGNTAAT 3.3e-025 7.9e-027 -60.11 0.0 69 203 1033 2284 0.33990 7.8e-029 101 2 CCRCCDCC DREME-19 CCRCCDCC 3.4e0000 8.0e-002 -2.52 0.0 21 203 258 2056 0.10345 8.3e-004 101 2 CRGMCAC DREME-23 CAGMCAC 1.4e0000 3.4e-002 -3.38 0.0 78 204 1333 3239 0.38235 3.4e-004 101 2 CATTSTC DREME-27 CATTSTC 8.5e-014 2.0e-015 -33.83 0.0 98 204 1530 2727 0.48039 2.0e-017 101 2 GCATYACA DREME-28 GCATYACA 3.6e-026 8.5e-028 -62.33 0.0 83 203 477 781 0.40887 8.4e-030 101 2 CCACCABG DREME-29 CCACCAKG 1.7e-001 4.0e-003 -5.53 0.0 61 203 391 1097 0.30049 3.9e-005 101 2 ACASCTGG DREME-34 ACASCTGG 6.0e0000 1.4e-001 -1.95 0.0 21 203 132 986 0.10345 1.5e-003 101 2 CTGGSCTC DREME-38 CTGGSCTC 5.4e0000 1.3e-001 -2.04 0.0 103 203 742 1352 0.50739 1.4e-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).