# 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 ACCYTCCATGGCTCCC MEME-1 ACCYTCCATGGCTCCC 4.4e-345 6.0e-348 -799.51 0.0 85 485 544 586 0.17526 2.5e-350 242 1 CCCTCCYCTGCTCAMA MEME-2 CCCTCCYCTGCTCAMA 9.7e-121 1.3e-123 -282.95 0.0 61 485 316 589 0.12577 5.4e-126 242 1 ABTGCCCTCAGGATAA MEME-3 ABTGCCCTCAGGATAA 2.9e-068 3.9e-071 -162.12 0.0 89 485 266 480 0.18351 1.6e-073 242 2 GGGAGCYA DREME-1 GGGAGCCA 6.0e-259 8.0e-262 -601.20 0.0 63 493 398 484 0.12779 3.3e-264 246 2 RCCYTCCA DREME-2 RCCYTCCA 1.1e-036 1.5e-039 -89.37 0.0 37 493 79 175 0.07505 6.2e-042 246 2 KTGAGCA DREME-3 KTGAGCA 3.8e-037 5.0e-040 -90.49 0.0 58 494 109 223 0.11741 2.0e-042 246 2 AACCTKC DREME-4 AACCTKC 2.5e-023 3.4e-026 -58.65 0.0 38 494 58 135 0.07692 1.4e-028 246 2 AAAGYCCA DREME-5 AAAGCCCA 6.2e-013 8.3e-016 -34.73 0.0 99 493 65 112 0.20081 3.4e-018 246 2 AKTGCCY DREME-6 AKTGCCY 2.3e-018 3.1e-021 -47.23 0.0 72 494 98 236 0.14575 1.3e-023 246 2 GAGGRA DREME-7 GAGGGA 2.7e-008 3.6e-011 -24.05 0.0 59 495 119 502 0.11919 1.5e-013 247 2 GCTCTAAA DREME-8 GCTCTAAA 2.2e-014 2.9e-017 -38.07 0.0 59 493 69 178 0.11968 1.2e-019 246 2 GAGTSA DREME-9 GAGTSA 9.1e-005 1.2e-007 -15.92 0.0 255 495 234 344 0.51515 4.9e-010 247 3 M0428_1.02 (ZNF691)_(Mus_musculus)_(DBD_0.97) RKGAGYAC 2.5e-001 3.3e-004 -8.01 0.0 245 493 356 600 0.49696 1.3e-006 246 3 M0433_1.02 (ZBTB12)_(Mus_musculus)_(DBD_1.00) NYCTAGAACN 3.4e-018 4.5e-021 -46.84 0.0 37 491 121 591 0.07536 1.9e-023 245 3 M1359_1.02 (MYPOP)_(Mus_musculus)_(DBD_0.97) NWTTGCGCCR 7.4e-003 1.0e-005 -11.52 0.0 57 491 94 457 0.11609 4.1e-008 245 3 M1432_1.02 NR2E1 NYTGACCTCD 9.5e0000 1.3e-002 -4.37 0.0 273 491 363 569 0.55601 5.2e-005 245 3 M1528_1.02 (RFX6)_(Mus_musculus)_(DBD_0.66) VCNTRGYWAC 2.6e-004 3.5e-007 -14.87 0.0 47 491 104 589 0.09572 1.4e-009 245 3 M2273_1.02 E2F6 RGGCGGGARRV 1.8e0000 2.5e-003 -6.01 0.0 16 490 41 598 0.03265 1.0e-005 244 3 M2286_1.02 HNF4G TGRMCTTTGNHCYYN 8.7e0000 1.2e-002 -4.45 0.0 132 486 202 584 0.27160 4.8e-005 242 3 M4473_1.02 PBX3 NBCDGCCAATSRGVR 4.7e-001 6.4e-004 -7.36 0.0 62 486 110 559 0.12757 2.6e-006 242 3 M4604_1.02 ZNF263 RRGGAGGASGVVGRGGRGGRG 7.7e-004 1.0e-006 -13.79 0.0 242 480 368 590 0.50417 4.3e-009 239 3 M4698_1.02 HNF4A BTGRMCTTTGVMCYB 2.2e-002 2.9e-005 -10.44 0.0 106 486 180 578 0.21811 1.2e-007 242 3 M5234_1.02 (SIM1)_(Drosophila_melanogaster)_(DBD_0.89) GGTCACGTAC 1.0e-001 1.3e-004 -8.92 0.0 93 491 101 335 0.18941 5.5e-007 245 3 M5567_1.02 HSF4 GAANVTTCYAGAA 2.1e-014 2.8e-017 -38.10 0.0 34 488 92 464 0.06967 1.2e-019 243 3 M5750_1.02 PRDM4 GGGGGCCTTGAAA 1.6e-048 2.1e-051 -116.68 0.0 44 488 149 396 0.09016 8.7e-054 243 3 M5955_1.02 YY2 WAATGGCGGWY 1.6e0000 2.2e-003 -6.12 0.0 46 490 81 524 0.09388 9.0e-006 244 3 M5965_1.02 ZIC4 DCDCMGCGGGGGGYC 2.5e-018 3.4e-021 -47.14 0.0 44 486 130 559 0.09053 1.4e-023 242 3 M5980_1.02 ZNF784 AGGTAGGTAC 2.3e0000 3.0e-003 -5.80 0.0 37 491 60 448 0.07536 1.2e-005 245 3 M6174_1.02 CEBPZ AGCCAATSAGH 4.1e-001 5.6e-004 -7.50 0.0 158 490 201 474 0.32245 2.3e-006 244 3 M6184_1.02 CUX1 RBRSNDATCGATSB 1.4e-004 1.8e-007 -15.51 0.0 25 487 60 494 0.05133 7.5e-010 243 3 M6212_1.02 EPAS1 CMCACGYAYDCAC 1.0e-003 1.4e-006 -13.51 0.0 56 488 110 550 0.11475 5.6e-009 243 3 M6287_1.02 HSF2 VGAABRTTCTAGAA 2.1e-030 2.8e-033 -74.95 0.0 39 487 145 574 0.08008 1.2e-035 243 3 M6336_1.02 MAZ RGGGDRGGGAGGGRGGG 1.8e-003 2.5e-006 -12.92 0.0 242 484 365 593 0.50000 1.0e-008 241 3 M6356_1.02 MZF1 RGDGGGGAD 2.2e-002 2.9e-005 -10.43 0.0 46 492 97 599 0.09350 1.2e-007 245 3 M6374_1.02 NKX2-1 STCAAGKGCH 6.0e-001 8.0e-004 -7.13 0.0 117 491 192 598 0.23829 3.3e-006 245 3 M6383_1.02 NR1H2 MGTTGACCTTTGACCTTTA 4.1e-004 5.5e-007 -14.41 0.0 90 482 45 101 0.18672 2.3e-009 240 3 M6432_1.02 PPARD TGACCTTTVNCCTR 6.5e-001 8.8e-004 -7.04 0.0 213 487 314 592 0.43737 3.6e-006 243 3 M6442_1.02 PURA CCMBGCCCNCCMMYWCC 1.2e-014 1.6e-017 -38.65 0.0 50 484 139 598 0.10331 6.8e-020 241 3 M6453_1.02 RFX3 TYRCCATGGYAACV 5.7e-055 7.6e-058 -131.52 0.0 43 487 164 435 0.08830 3.1e-060 243 3 M6505_1.02 TBX5 AGGTGTGA 7.5e-001 1.0e-003 -6.91 0.0 39 493 80 596 0.07911 4.1e-006 246 3 M6539_1.02 ZBTB7B CGGVGRRGGGGMGSRGGSGGGH 1.8e0000 2.4e-003 -6.03 0.0 237 479 309 525 0.49478 1.0e-005 239 3 M6540_1.02 ZBTB4 CAATRGYGDTKGYGR 1.7e-001 2.2e-004 -8.40 0.0 60 486 106 536 0.12346 9.3e-007 242 3 M6542_1.02 ZBTB6 VGRTGATRGAGCC 2.5e-001 3.3e-004 -8.00 0.0 20 488 48 558 0.04098 1.4e-006 243 3 M6548_1.02 ZIC1 KGGGWGGTV 4.0e0000 5.4e-003 -5.22 0.0 276 492 385 597 0.56098 2.2e-005 245 ## # 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).