# 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 TGTGTGTGTGTGTGTGTGTGTG MEME-1 TGTGTGTGTGTGTGTGTGTGTG 2.0e-001 2.7e-004 -8.23 0.0 87 479 27 59 0.18163 1.1e-006 239 1 GCCCCGCCCCCYBCCC MEME-3 GCCCCGCCCCCYBCCC 1.4e-003 1.8e-006 -13.22 0.0 221 485 321 557 0.45567 7.5e-009 242 1 TCTCGCGAGABT MEME-4 TCTCGCGAGABT 2.4e-005 3.2e-008 -17.25 0.0 95 489 53 116 0.19427 1.3e-010 244 1 CCGGAAGTG MEME-5 CCGGAAGTG 3.6e-002 4.9e-005 -9.93 0.0 128 492 105 258 0.26016 2.0e-007 245 1 GTKASYYSAWGTCACGTGAYMGWMSMCKCASSTGAYCCGRCSKGMCMKGM MEME-7 GTKASYYSAWGTCACGTGAYMGWMSMCKCASSTGAYCCGRCSKGMCMKGM 4.9e0000 6.6e-003 -5.02 0.0 1 451 2 4 0.00222 2.9e-005 225 2 SCGGAA DREME-1 SCGGAA 1.2e-007 1.7e-010 -22.52 0.0 189 495 216 384 0.38182 6.7e-013 247 2 GGGGGCGK DREME-2 GGGGGCGK 2.0e0000 2.7e-003 -5.90 0.0 225 493 159 270 0.45639 1.1e-005 246 2 CGCGAGAD DREME-3 CGCGAGAR 1.2e-003 1.6e-006 -13.32 0.0 101 493 39 78 0.20487 6.7e-009 246 2 ACGTGA DREME-4 ACGTGA 4.6e0000 6.2e-003 -5.08 0.0 111 495 45 112 0.22424 2.5e-005 247 3 M0212_1.02 (TCFL5)_(Mus_musculus)_(DBD_1.00) NBCDCGHGVN 4.8e-001 6.4e-004 -7.36 0.0 115 491 163 503 0.23422 2.6e-006 245 3 M0405_1.02 (KLF7)_(Mus_musculus)_(DBD_1.00) DGGGCGKGGY 1.3e-002 1.7e-005 -10.99 0.0 233 491 349 598 0.47454 6.9e-008 245 3 M0432_1.02 (ZFP161)_(Mus_musculus)_(DBD_1.00) NNCGYGCHH 1.2e0000 1.6e-003 -6.46 0.0 266 492 306 477 0.54065 6.4e-006 245 3 M0443_1.02 (KLF12)_(Mus_musculus)_(DBD_1.00) DGGGCGKGGY 3.8e0000 5.1e-003 -5.28 0.0 233 491 334 598 0.47454 2.1e-005 245 3 M0609_1.02 DNMT1 NNCCGCNNNN 6.9e0000 9.2e-003 -4.69 0.0 57 491 87 488 0.11609 3.8e-005 245 3 M1871_1.02 (KLF2)_(Mus_musculus)_(DBD_0.95) DGGGYGKGGC 6.2e0000 8.3e-003 -4.79 0.0 221 491 314 590 0.45010 3.4e-005 245 3 M1906_1.02 SP1 GGGGGMGGGGC 1.7e0000 2.2e-003 -6.10 0.0 222 490 321 593 0.45306 9.2e-006 244 3 M2314_1.02 SP2 SSSVRGRGGCGGGRC 4.0e-001 5.4e-004 -7.53 0.0 222 486 326 591 0.45679 2.2e-006 242 3 M2323_1.02 ZBTB33 SARVTCTCGCGAGAV 1.6e-003 2.1e-006 -13.05 0.0 84 486 126 448 0.17284 8.9e-009 242 3 M4454_1.02 BRCA1 ARVTCTCGCGAGAVB 8.2e-002 1.1e-004 -9.11 0.0 96 486 103 329 0.19753 4.6e-007 242 3 M4459_1.02 EGR1 SBGCGKGGGCGGVGGSGSGS 2.2e-001 2.9e-004 -8.13 0.0 213 481 311 573 0.44283 1.2e-006 240 3 M4462_1.02 GABPA VVCCGGAAGTG 8.0e0000 1.1e-002 -4.53 0.0 340 490 443 576 0.69388 4.4e-005 244 3 M4522_1.02 ELK4 CCGGAAGYGS 2.6e-001 3.5e-004 -7.96 0.0 113 491 185 585 0.23014 1.4e-006 245 3 M5209_1.02 (SP5)_(Drosophila_melanogaster)_(DBD_0.93) GKGGGCGKRKC 2.9e-008 3.9e-011 -23.96 0.0 226 490 363 594 0.46122 1.6e-013 244 3 M5293_1.02 ATF7 BKATGACGTCATHN 2.7e-002 3.6e-005 -10.24 0.0 299 487 153 194 0.61396 1.5e-007 243 3 M5323_1.02 CREB3 KGRTGACGTCAYNV 2.0e-001 2.7e-004 -8.22 0.0 301 487 175 228 0.61807 1.1e-006 243 3 M5425_1.02 ETV6 CCGGAASCGGAAGYR 4.1e0000 5.5e-003 -5.20 0.0 182 486 206 436 0.37449 2.3e-005 242 3 M5592_1.02 KLF14 ARGKGGGCGTGGYM 4.1e-007 5.5e-010 -21.31 0.0 223 487 343 568 0.45791 2.3e-012 243 3 M5593_1.02 KLF16 GGGGGCGTGKC 8.5e-004 1.1e-006 -13.69 0.0 224 490 339 589 0.45714 4.6e-009 244 3 M5856_1.02 SP8 RGKGGGCGTGGY 1.9e-003 2.6e-006 -12.88 0.0 223 489 337 589 0.45603 1.0e-008 244 3 M5958_1.02 ZBED1 YATGTCGCGAYAG 1.3e-002 1.7e-005 -10.97 0.0 72 488 47 145 0.14754 7.1e-008 243 3 M5998_1.02 (CREB5)_(Mus_musculus)_(DBD_1.00) DRTGACGTCATN 3.2e0000 4.2e-003 -5.47 0.0 123 489 87 230 0.25153 1.7e-005 244 3 M6139_1.02 AHR KCACGCRAH 2.9e-003 3.9e-006 -12.46 0.0 188 492 279 561 0.38211 1.6e-008 245 3 M6151_1.02 ARNT BYRCGTGC 5.4e-002 7.2e-005 -9.53 0.0 119 493 181 535 0.24138 2.9e-007 246 3 M6180_1.02 CREB1 RTGACGTMA 8.7e-001 1.2e-003 -6.76 0.0 300 492 366 520 0.60976 4.7e-006 245 3 M6191_1.02 E2F2 GGCGCGAAAC 4.1e-001 5.4e-004 -7.52 0.0 113 491 169 533 0.23014 2.2e-006 245 3 M6199_1.02 EGR2 DGVGTGGGCGG 3.8e0000 5.1e-003 -5.28 0.0 302 490 409 586 0.61633 2.1e-005 244 3 M6200_1.02 EGR3 WGAGTGGGYGT 4.7e0000 6.3e-003 -5.07 0.0 148 490 213 557 0.30204 2.6e-005 244 3 M6275_1.02 HIF1A SBSTACGTGCSB 6.8e-003 9.1e-006 -11.60 0.0 117 489 182 529 0.23926 3.7e-008 244 3 M6326_1.02 KLF8 CMGGGKGTG 2.1e0000 2.8e-003 -5.87 0.0 392 492 480 554 0.79675 1.2e-005 245 3 M6339_1.02 MECP2 YYCCGGS 6.7e-002 9.0e-005 -9.32 0.0 194 494 262 523 0.39271 3.7e-007 246 3 M6482_1.02 SP3 VGVVGGGGGCGGGGCBRGSS 5.9e-002 7.9e-005 -9.45 0.0 223 481 335 592 0.46362 3.3e-007 240 3 M6535_1.02 WT1 GMGGGGGCGKGGG 1.8e0000 2.4e-003 -6.04 0.0 202 488 296 590 0.41393 9.8e-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).