# 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 RVYCTAGAACCY MEME-1 RVYCTAGAACCY 1.8e-216 2.4e-219 -503.38 0.0 75 489 430 576 0.15337 9.9e-222 244 1 TGACTCA MEME-5 TGACTCA 1.4e-002 1.9e-005 -10.88 0.0 112 494 42 85 0.22672 7.7e-008 246 2 CYRGAAC DREME-1 CTAGAAC 3.1e-156 4.2e-159 -364.69 0.0 70 494 298 404 0.14170 1.7e-161 246 2 GGTTCY DREME-2 GGTTCY 2.0e-097 2.7e-100 -229.25 0.0 73 495 257 427 0.14747 1.1e-102 247 2 TGACTCR DREME-3 TGACTCA 3.9e-003 5.2e-006 -12.17 0.0 112 494 50 105 0.22672 2.1e-008 246 2 CTAGAKC DREME-4 CTAGAGC 2.6e-022 3.5e-025 -56.32 0.0 78 494 75 130 0.15789 1.4e-027 246 3 M0433_1.02 (ZBTB12)_(Mus_musculus)_(DBD_1.00) NYCTAGAACN 3.6e-192 4.8e-195 -447.43 0.0 81 491 429 597 0.16497 2.0e-197 245 3 M0610_1.02 TET1 NNYRCGYWN 1.4e0000 1.8e-003 -6.31 0.0 258 492 259 410 0.52439 7.4e-006 245 3 M1841_1.02 AR GNACABNVTGTTCYY 2.9e0000 3.8e-003 -5.57 0.0 148 486 209 536 0.30453 1.6e-005 242 3 M4428_1.02 NR3C1 RGVACAYTBTGTYC 1.2e-001 1.6e-004 -8.77 0.0 61 487 107 534 0.12526 6.4e-007 243 3 M4469_1.02 REST TCCRTGGTGCTGAA 2.9e0000 3.9e-003 -5.54 0.0 31 487 51 432 0.06366 1.6e-005 243 3 M4569_1.02 HSF1 GTCSYGGGTTCGADTCCC 1.6e-005 2.1e-008 -17.68 0.0 41 483 56 260 0.08489 8.7e-011 241 3 M5497_1.02 GRHL1 AACCGGTYTAACCGGTT 2.2e-001 2.9e-004 -8.15 0.0 94 484 86 272 0.19421 1.2e-006 241 3 M5567_1.02 HSF4 GAANVTTCYAGAA 1.3e-024 1.8e-027 -61.60 0.0 48 488 137 487 0.09836 7.3e-030 243 3 M5660_1.02 NFIA TTGGCANNDTGCCAR 1.9e0000 2.5e-003 -6.00 0.0 190 486 147 284 0.39095 1.0e-005 242 3 M5662_1.02 NFIB TTGGCAHNDTGCCAR 1.0e0000 1.4e-003 -6.59 0.0 190 486 149 286 0.39095 5.7e-006 242 3 M5974_1.02 ZNF524 GGGTTCRAGGGT 5.1e-021 6.9e-024 -53.34 0.0 67 489 144 423 0.13701 2.8e-026 244 3 M6287_1.02 HSF2 VGAABRTTCTAGAA 5.4e-044 7.3e-047 -106.24 0.0 47 487 183 571 0.09651 3.0e-049 243 3 M6397_1.02 NR6A1 TGAMCTTGAMCTT 1.2e0000 1.6e-003 -6.46 0.0 84 488 100 381 0.17213 6.5e-006 243 3 M6436_1.02 PGR DACAGRNTGTTCY 1.0e-001 1.4e-004 -8.89 0.0 76 488 131 553 0.15574 5.7e-007 243 3 M6542_1.02 ZBTB6 VGRTGATRGAGCC 2.5e-002 3.3e-005 -10.31 0.0 210 488 288 531 0.43033 1.4e-007 243 ## # 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).