# 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 RRRKGCTCWGHHAACA MEME-1 RRRKGCTCWGHHAACA 5.1e-158 6.8e-161 -368.80 0.0 121 485 448 563 0.24948 2.8e-163 242 1 GGCGTGAGCCACYGCGCCCGGC MEME-2 GGCGTGAGCCACYGCGCCCGGC 1.3e0000 1.7e-003 -6.39 0.0 55 479 22 70 0.11482 7.0e-006 239 2 AGGCTCDG DREME-1 AGGCTCWG 3.7e-042 5.0e-045 -102.01 0.0 117 493 146 202 0.23732 2.0e-047 246 2 GTWAWC DREME-2 GTAAWC 7.0e-014 9.4e-017 -36.90 0.0 101 495 129 297 0.20404 3.8e-019 247 2 GARCACY DREME-3 GARCACY 1.5e-025 2.1e-028 -63.75 0.0 78 494 116 246 0.15789 8.4e-031 246 2 CWGCAAAC DREME-5 CWGCAAAC 8.8e-012 1.2e-014 -32.07 0.0 85 493 50 86 0.17241 4.8e-017 246 2 AGCCTST DREME-6 AGCCTST 8.5e-011 1.1e-013 -29.81 0.0 52 494 58 172 0.10526 4.6e-016 246 3 M0178_1.02 (ASCL2)_(Mus_musculus)_(DBD_0.98) NVCAGCTGBN 8.6e0000 1.2e-002 -4.47 0.0 177 491 253 573 0.36049 4.7e-005 245 3 M0428_1.02 (ZNF691)_(Mus_musculus)_(DBD_0.97) RKGAGYAC 2.2e-001 2.9e-004 -8.14 0.0 115 493 188 589 0.23327 1.2e-006 246 3 M0719_1.02 FOXG1 RTAAACAW 9.4e0000 1.2e-002 -4.38 0.0 91 493 123 477 0.18458 5.1e-005 246 3 M0737_1.02 (FOXB2)_(Mus_musculus)_(DBD_0.94) WRWGTAAAYA 3.0e-003 4.0e-006 -12.42 0.0 127 491 205 561 0.25866 1.6e-008 245 3 M1581_1.02 (CIC)_(Mus_musculus)_(DBD_1.00) NNTGCTGACW 3.0e-001 3.9e-004 -7.84 0.0 67 491 119 570 0.13646 1.6e-006 245 3 M1863_1.02 FOXD1 GTAAACAW 1.6e-003 2.1e-006 -13.09 0.0 91 493 147 508 0.18458 8.4e-009 246 3 M2385_1.02 FOXP2 RWGTAAACAVR 6.0e-002 7.9e-005 -9.44 0.0 96 490 152 528 0.19592 3.3e-007 244 3 M2388_1.02 SREBF2 RTGGGGTGAY 3.2e-002 4.2e-005 -10.07 0.0 147 491 214 529 0.29939 1.7e-007 245 3 M4567_1.02 FOXA2 NCWRWGTAAACANNN 6.1e-009 8.2e-012 -25.53 0.0 108 486 201 553 0.22222 3.4e-014 242 3 M4572_1.02 MAFF TGCTGACTCAGCAWW 3.5e-001 4.7e-004 -7.67 0.0 128 486 147 397 0.26337 1.9e-006 242 3 M4681_1.02 BACH2 TGCTGAGTCA 6.4e0000 8.6e-003 -4.76 0.0 121 491 146 440 0.24644 3.5e-005 245 3 M5446_1.02 FOXD4L2 GTAAACA 4.6e-003 6.1e-006 -12.00 0.0 98 494 168 569 0.19838 2.5e-008 246 3 M5460_1.02 FOXL1 RTAAACA 1.3e-001 1.7e-004 -8.68 0.0 130 494 197 550 0.26316 6.9e-007 246 3 M5973_1.02 ZSCAN16 AGGTGTTCTGTTAACACT 4.9e-069 6.5e-072 -163.92 0.0 115 483 218 293 0.23810 2.7e-074 241 3 M6331_1.02 MAFB WGCTGACDS 1.0e-002 1.4e-005 -11.18 0.0 70 492 134 598 0.14228 5.7e-008 245 3 M6332_1.02 MAF KTGCTGAC 3.9e0000 5.3e-003 -5.25 0.0 67 493 118 599 0.13590 2.1e-005 246 3 M6360_1.02 NFE2L2 VRTGACTCAGCA 4.4e0000 5.9e-003 -5.14 0.0 57 489 102 581 0.11656 2.4e-005 244 3 M6368_1.02 NFIL3 VKVMVTTACRTAAY 1.5e0000 2.0e-003 -6.20 0.0 59 487 75 374 0.12115 8.3e-006 243 ## # 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).