# 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 CRGTTTCWAGKNHCCC MEME-1 CRGTTTCWAGKNHCCC 2.1e-177 2.8e-180 -413.42 0.0 87 485 424 586 0.17938 1.2e-182 242 1 WGAAACTGYYAW MEME-2 WGAAACTGYYAW 2.6e-092 3.6e-095 -217.47 0.0 85 489 297 502 0.17382 1.5e-097 244 2 GTTTCW DREME-1 GTTTCW 4.5e-072 6.0e-075 -170.90 0.0 93 495 287 517 0.18788 2.4e-077 247 2 CTSGAAAC DREME-2 CTGGAAAC 2.1e-017 2.9e-020 -44.99 0.0 83 493 54 82 0.16836 1.2e-022 246 3 M0630_1.02 DMRT1 WWTGTWDCNW 2.3e-005 3.2e-008 -17.27 0.0 69 491 137 566 0.14053 1.3e-010 245 3 M1007_1.02 (HOXA11)_(Mus_musculus)_(DBD_1.00) TTWAYKDBN 1.8e0000 2.4e-003 -6.03 0.0 338 492 194 239 0.68699 9.8e-006 245 3 M1266_1.02 (IRF6)_(Mus_musculus)_(DBD_1.00) NVNCGAWACY 4.4e-041 5.9e-044 -99.54 0.0 83 491 249 596 0.16904 2.4e-046 245 3 M1528_1.02 (RFX6)_(Mus_musculus)_(DBD_0.66) VCNTRGYWAC 7.5e-010 1.0e-012 -27.61 0.0 89 491 186 590 0.18126 4.2e-015 245 3 M1529_1.02 (RFX7)_(Mus_musculus)_(DBD_1.00) VCNTRGYAAC 1.1e-027 1.5e-030 -68.66 0.0 95 491 243 599 0.19348 6.2e-033 245 3 M1955_1.02 STAT1 TTTCYRGGAAA 3.0e-001 4.0e-004 -7.81 0.0 90 490 142 535 0.18367 1.7e-006 244 3 M2392_1.02 RFX2 GTYDCCATGGCAACVRVNN 3.9e-007 5.3e-010 -21.35 0.0 112 482 167 438 0.23237 2.2e-012 240 3 M4344_1.02 (ARID2)_(Saccharomyces_cerevisiae)_(DBD_0.26) SGTTGCYA 1.5e0000 2.0e-003 -6.21 0.0 355 493 447 559 0.72008 8.2e-006 246 3 M4476_1.02 RFX5 TCABYWGTTGCYRGG 7.0e-018 9.4e-021 -46.11 0.0 84 486 197 570 0.17284 3.9e-023 242 3 M4635_1.02 STAT2 GAAANYGAAACTDAA 2.3e-002 3.1e-005 -10.38 0.0 100 486 158 523 0.20576 1.3e-007 242 3 M5303_1.02 BCL6B TGCTTTCTAGGAATTCM 6.2e0000 8.4e-003 -4.78 0.0 18 484 14 98 0.03719 3.5e-005 241 3 M5567_1.02 HSF4 GAANVTTCTAGAA 2.0e0000 2.7e-003 -5.90 0.0 76 488 112 485 0.15574 1.1e-005 243 3 M5636_1.02 MSC AACAGCTGTT 5.4e0000 7.3e-003 -4.92 0.0 79 491 112 484 0.16090 3.0e-005 245 3 M5750_1.02 PRDM4 GGGGGCCTTGAAA 1.8e-064 2.4e-067 -153.38 0.0 80 488 214 381 0.16393 1.0e-069 243 3 M5777_1.02 RFX4 NGTWRCCATGGYWACS 5.5e-002 7.5e-005 -9.50 0.0 99 485 102 313 0.20412 3.1e-007 242 3 M6159_1.02 BCL6 TTCCWRGAAWGYHYWH 3.3e-002 4.5e-005 -10.02 0.0 31 485 71 583 0.06392 1.8e-007 242 3 M6185_1.02 CXXC1 CGKTGKY 8.1e-001 1.1e-003 -6.82 0.0 82 494 138 580 0.16599 4.5e-006 246 3 M6192_1.02 E2F3 SSCGCSAAAC 2.0e0000 2.7e-003 -5.91 0.0 79 491 104 430 0.16090 1.1e-005 245 3 M6194_1.02 E2F5 SGCGCSAAAH 3.8e0000 5.1e-003 -5.28 0.0 257 491 235 373 0.52342 2.1e-005 245 3 M6274_1.02 HIC1 GGGKTGCCC 1.6e0000 2.2e-003 -6.13 0.0 4 492 17 552 0.00813 8.9e-006 245 3 M6313_1.02 IRF8 GRGRAAVTGAAASYR 2.4e-001 3.3e-004 -8.02 0.0 92 486 157 582 0.18930 1.4e-006 242 3 M6314_1.02 IRF9 GAAAGCGAAAYT 1.1e-003 1.5e-006 -13.41 0.0 55 489 93 452 0.11247 6.2e-009 244 3 M6343_1.02 MEIS1 CDTWAAVCTGTCA 2.4e-006 3.2e-009 -19.56 0.0 80 488 149 530 0.16393 1.3e-011 243 3 M6370_1.02 NFKB2 GRAATBYCCCT 9.0e0000 1.2e-002 -4.41 0.0 78 490 130 586 0.15918 5.0e-005 244 3 M6377_1.02 NKX2-8 TTCAAGKRC 9.5e-017 1.3e-019 -43.50 0.0 94 492 210 579 0.19106 5.2e-022 245 3 M6396_1.02 NR5A2 TRRCCTTGRV 1.7e-006 2.3e-009 -19.89 0.0 79 491 160 590 0.16090 9.4e-012 245 3 M6402_1.02 OVOL1 KGTAACKGT 2.4e0000 3.2e-003 -5.74 0.0 90 492 140 547 0.18293 1.3e-005 245 3 M6416_1.02 CBFB YYTGTGGTYDB 4.9e0000 6.6e-003 -5.01 0.0 76 490 129 588 0.15510 2.7e-005 244 3 M6451_1.02 RFX1 GTTGCYAGGSRA 1.8e-002 2.5e-005 -10.61 0.0 39 489 81 551 0.07975 1.0e-007 244 3 M6453_1.02 RFX3 TYRCCATGGYAACV 2.6e-002 3.6e-005 -10.24 0.0 63 487 82 357 0.12936 1.5e-007 243 3 M6492_1.02 STAT5B DTTTCYDGGAATT 4.6e-001 6.3e-004 -7.38 0.0 172 488 219 482 0.35246 2.6e-006 243 3 M6498_1.02 NR5A1 TGRCCTTGR 1.2e0000 1.6e-003 -6.45 0.0 66 492 118 592 0.13415 6.4e-006 245 3 M6500_1.02 TAL1 GACCATCTGTTS 3.0e0000 4.0e-003 -5.51 0.0 363 489 342 413 0.74233 1.7e-005 244 ## # 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).