# 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 GGRGVGGMGGGAGGRG MEME-1 GGRGVGGMGGGAGGRG 5.0e-027 6.6e-030 -67.19 0.0 85 485 227 599 0.17526 2.7e-032 242 1 GGCTGTTCC MEME-2 GGCTGTTCC 1.5e-062 2.0e-065 -148.97 0.0 124 492 299 473 0.25203 8.2e-068 245 1 GGRGRGGARGAGGMRGRGRARG MEME-3 GGRGRGGARGAGGMRGRGRARG 2.0e-006 2.6e-009 -19.75 0.0 97 479 158 471 0.20251 1.1e-011 239 1 RGAGGGAGG MEME-4 RGAGGGAGG 1.1e-010 1.5e-013 -29.53 0.0 94 492 147 406 0.19106 6.1e-016 245 1 WGGGGAGGDGGM MEME-5 WGGGGAGGDGGM 1.1e-001 1.5e-004 -8.83 0.0 149 489 173 413 0.30470 6.0e-007 244 1 RGGGAGNSAGACAGGVARVMGG MEME-9 RGGGAGNSAGACAGGVARVMGG 4.1e-002 5.4e-005 -9.82 0.0 189 479 122 215 0.39457 2.3e-007 239 2 AASAGC DREME-1 AASAGC 3.0e-049 4.1e-052 -118.34 0.0 125 495 264 437 0.25253 1.6e-054 247 2 CCTCCCB DREME-2 CCTCCCY 5.0e-017 6.7e-020 -44.15 0.0 82 494 178 525 0.16599 2.7e-022 246 2 GCVGTTCC DREME-3 GCVGTTCC 1.4e-002 1.9e-005 -10.86 0.0 75 493 34 86 0.15213 7.8e-008 246 2 GCTGTSCC DREME-4 GCTGTSCC 4.5e-005 6.0e-008 -16.63 0.0 139 493 52 85 0.28195 2.4e-010 246 2 CTSCCGCC DREME-5 CTSCCGCC 8.9e-003 1.2e-005 -11.34 0.0 259 493 126 174 0.52535 4.8e-008 246 3 M0398_1.02 (ZSCAN10)_(Mus_musculus)_(DBD_0.82) NGGRAGTGCNN 6.1e0000 8.1e-003 -4.81 0.0 298 490 404 587 0.60816 3.4e-005 244 3 M0609_1.02 DNMT1 NNCCGCNNNN 1.5e-002 2.0e-005 -10.84 0.0 167 491 219 478 0.34012 8.0e-008 245 3 M1906_1.02 SP1 GGGGGMGGGGC 2.8e-001 3.8e-004 -7.88 0.0 180 490 276 599 0.36735 1.5e-006 244 3 M2273_1.02 E2F6 RGGCGGGARRV 8.5e-008 1.1e-010 -22.89 0.0 124 490 231 598 0.25306 4.7e-013 244 3 M2299_1.02 (MYF5)_(Mus_musculus)_(DBD_0.90) NRNRRCAGCTGSN 6.1e-006 8.2e-009 -18.62 0.0 216 488 330 569 0.44262 3.4e-011 243 3 M2314_1.02 SP2 SSSVRGRGGCGGGRC 2.4e0000 3.2e-003 -5.73 0.0 214 486 315 598 0.44033 1.3e-005 242 3 M2390_1.02 EHF SAGGAAGK 7.4e-002 9.9e-005 -9.22 0.0 131 493 210 583 0.26572 4.0e-007 246 3 M2391_1.02 KLF5 DGGGHGGGGC 7.2e-002 9.6e-005 -9.25 0.0 97 491 168 595 0.19756 3.9e-007 245 3 M4479_1.02 TCF12 VSAGCAGSTGB 6.6e0000 8.8e-003 -4.73 0.0 270 490 366 577 0.55102 3.6e-005 244 3 M4536_1.02 E2F1 VRRVRGVGCGCGCRS 5.2e-003 7.0e-006 -11.88 0.0 158 486 252 580 0.32510 2.9e-008 242 3 M4537_1.02 E2F4 SGCGGGAARWTBVRR 1.6e-001 2.2e-004 -8.42 0.0 152 486 236 579 0.31276 9.1e-007 242 3 M4604_1.02 ZNF263 RRGGAGGASGVVGRGGRGGRG 3.7e-007 5.0e-010 -21.42 0.0 108 480 209 596 0.22500 2.1e-012 239 3 M5636_1.02 MSC AACAGCTGTT 1.3e-003 1.8e-006 -13.24 0.0 119 491 166 457 0.24236 7.2e-009 245 3 M6123_1.02 (ZNF281)_(Mus_musculus)_(DBD_1.00) GRGKKGGGGGAGGGG 2.0e-003 2.6e-006 -12.85 0.0 58 486 119 590 0.11934 1.1e-008 242 3 M6321_1.02 KLF15 RSMKGGGAGDKGGGGSS 5.1e0000 6.8e-003 -5.00 0.0 114 484 182 588 0.23554 2.8e-005 241 3 M6336_1.02 MAZ RGGGRGGGGAGGGRGGG 1.7e-008 2.2e-011 -24.52 0.0 112 484 218 594 0.23140 9.3e-014 241 3 M6381_1.02 NR0B1 YSTCCCMCKC 1.2e-004 1.6e-007 -15.63 0.0 119 491 212 598 0.24236 6.7e-010 245 3 M6442_1.02 PURA CCMBGCCCNCCMMBWCC 1.7e-001 2.3e-004 -8.39 0.0 84 484 151 600 0.17355 9.5e-007 241 3 M6482_1.02 SP3 VGVVGGGGGCGGGGCBRGSS 1.0e0000 1.4e-003 -6.60 0.0 87 481 152 599 0.18087 5.6e-006 240 3 M6483_1.02 SP4 GSGGSCRGGGGSGGGGSGGSSSSG 3.2e0000 4.2e-003 -5.46 0.0 95 477 150 549 0.19916 1.8e-005 238 3 M6486_1.02 SPZ1 CGGCKGWWACMBYGGG 1.6e-001 2.2e-004 -8.43 0.0 103 485 165 550 0.21237 9.0e-007 242 3 M6513_1.02 TFAP4 RYCAGCTGYGG 3.0e-003 3.9e-006 -12.44 0.0 204 490 293 547 0.41633 1.6e-008 244 3 M6515_1.02 TFDP1 AWWKRGCGGGAAAY 6.8e0000 9.1e-003 -4.70 0.0 349 487 393 494 0.71663 3.7e-005 243 3 M6539_1.02 ZBTB7B CGGVGRRGGGGMGSRGGSGGGH 1.0e0000 1.4e-003 -6.59 0.0 113 479 182 574 0.23591 5.7e-006 239 3 M6548_1.02 ZIC1 KGGGWGGTS 3.8e0000 5.1e-003 -5.29 0.0 84 492 142 600 0.17073 2.1e-005 245 3 M6549_1.02 ZIC2 KGGGTGGTC 3.8e0000 5.1e-003 -5.27 0.0 92 492 153 598 0.18699 2.1e-005 245 3 M6552_1.02 ZNF148 KGVGKGGGGGAGGGG 4.5e0000 6.0e-003 -5.12 0.0 74 486 128 595 0.15226 2.5e-005 242 3 M6553_1.02 ZNF219 GDGGGGGGYGGA 2.8e-003 3.8e-006 -12.49 0.0 101 489 180 591 0.20654 1.5e-008 244 ## # 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).