# 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 DGGGYGKGGSNGGGBG MEME-1 DGGGYGKGGSNGGGBG 8.3e-057 1.1e-059 -135.74 0.0 141 485 371 599 0.29072 4.6e-062 242 1 GGVDGGGYGKGG MEME-2 GGVDGGGYGKGG 6.7e-037 9.1e-040 -89.89 0.0 125 489 310 600 0.25562 3.7e-042 244 1 CCAAAGTGCTGGGATTACAGGC MEME-3 CCAAAGTGCTGGGATTACAGGC 6.9e0000 9.3e-003 -4.67 0.0 171 479 36 58 0.35699 3.9e-005 239 2 CMCRCCC DREME-1 CMCRCCC 2.4e-045 3.3e-048 -109.35 0.0 158 494 351 559 0.31984 1.3e-050 246 2 GGGHGGA DREME-2 GGGHGGA 2.8e-007 3.8e-010 -21.70 0.0 192 494 219 388 0.38866 1.5e-012 246 2 ACGCCY DREME-3 ACGCCY 1.8e-017 2.4e-020 -45.17 0.0 159 495 207 361 0.32121 9.8e-023 247 2 GRGATTA DREME-4 GGGATTA 2.1e-001 2.9e-004 -8.15 0.0 182 494 53 85 0.36842 1.2e-006 246 2 CCGCRCCC DREME-5 CCGCRCCC 3.7e-006 5.0e-009 -19.12 0.0 89 493 47 100 0.18053 2.0e-011 246 3 M0405_1.02 (KLF7)_(Mus_musculus)_(DBD_1.00) DGGGCGKGGY 1.9e-063 2.6e-066 -151.01 0.0 157 491 401 600 0.31976 1.1e-068 245 3 M0443_1.02 (KLF12)_(Mus_musculus)_(DBD_1.00) DGGGCGKGKY 2.4e-063 3.3e-066 -150.78 0.0 157 491 401 600 0.31976 1.3e-068 245 3 M1871_1.02 (KLF2)_(Mus_musculus)_(DBD_0.95) DGGGYGKGGC 1.9e-053 2.5e-056 -128.03 0.0 157 491 385 599 0.31976 1.0e-058 245 3 M1906_1.02 SP1 GGGGGMGGGGC 5.1e-006 6.8e-009 -18.80 0.0 142 490 245 586 0.28980 2.8e-011 244 3 M1950_1.02 ZNF354C GTGGAK 9.1e0000 1.2e-002 -4.40 0.0 105 495 167 595 0.21212 5.0e-005 247 3 M2314_1.02 SP2 SSSVRGRGGCGGGRC 5.4e-006 7.3e-009 -18.73 0.0 150 486 256 583 0.30864 3.0e-011 242 3 M2391_1.02 KLF5 DGGGHGGGGC 2.4e-036 3.3e-039 -88.62 0.0 157 491 352 599 0.31976 1.3e-041 245 3 M4459_1.02 EGR1 SBGCGKGGGCGGVGGSGSGS 8.1e-014 1.1e-016 -36.75 0.0 71 481 162 547 0.14761 4.5e-019 240 3 M5209_1.02 (SP5)_(Drosophila_melanogaster)_(DBD_0.93) GKGGGCGKRKC 4.8e-037 6.5e-040 -90.23 0.0 142 490 332 595 0.28980 2.7e-042 244 3 M5591_1.02 KLF13 CAAAAAGGGGCGTGKCAY 2.4e-011 3.2e-014 -31.07 0.0 163 483 202 370 0.33747 1.3e-016 241 3 M5592_1.02 KLF14 ARGKGGGCGTGGYM 4.7e-033 6.3e-036 -81.05 0.0 133 487 299 562 0.27310 2.6e-038 243 3 M5593_1.02 KLF16 GGGGGCGTGKC 1.4e-033 2.0e-036 -82.22 0.0 140 490 322 595 0.28571 8.0e-039 244 3 M5628_1.02 MGA AGGTGTGA 6.7e-003 9.1e-006 -11.61 0.0 97 493 169 582 0.19675 3.7e-008 246 3 M5856_1.02 SP8 RGKGGGCGTGGY 5.8e-028 7.8e-031 -69.32 0.0 141 489 311 595 0.28834 3.2e-033 244 3 M5965_1.02 ZIC4 DCDCMGCGGGGGGYC 2.7e0000 3.6e-003 -5.63 0.0 74 486 113 506 0.15226 1.5e-005 242 3 M5977_1.02 ZNF740 GTGGGGGGGK 4.1e-005 5.5e-008 -16.71 0.0 143 491 239 578 0.29124 2.2e-010 245 3 M6123_1.02 (ZNF281)_(Mus_musculus)_(DBD_1.00) GRGKKGGGGGAGGGG 3.6e-006 4.9e-009 -19.14 0.0 84 486 166 583 0.17284 2.0e-011 242 3 M6139_1.02 AHR KCACGCRAH 1.2e-002 1.6e-005 -11.07 0.0 280 492 363 532 0.56911 6.4e-008 245 3 M6150_1.02 ARNT2 GYSYSCCACGNC 5.1e-006 6.9e-009 -18.79 0.0 167 489 280 593 0.34151 2.8e-011 244 3 M6192_1.02 E2F3 SSCGCSAAAC 2.5e0000 3.3e-003 -5.70 0.0 77 491 101 428 0.15682 1.4e-005 245 3 M6199_1.02 EGR2 DGVGTGGGCGG 1.1e-015 1.5e-018 -41.07 0.0 92 490 206 587 0.18776 6.0e-021 244 3 M6200_1.02 EGR3 WGAGTGGGYGT 1.6e-010 2.2e-013 -29.13 0.0 128 490 236 568 0.26122 9.1e-016 244 3 M6201_1.02 EGR4 GGSGGYRGGGM 3.8e-002 5.2e-005 -9.87 0.0 158 490 234 548 0.32245 2.1e-007 244 3 M6212_1.02 EPAS1 CMCACGYAYDCAC 4.4e-014 6.0e-017 -37.36 0.0 88 488 193 573 0.18033 2.5e-019 243 3 M6265_1.02 GLI2 GTGGGTGGTCY 7.8e-001 1.0e-003 -6.86 0.0 92 490 129 473 0.18776 4.3e-006 244 3 M6266_1.02 GLI3 BTGGGTGGTCB 6.0e-002 8.1e-005 -9.42 0.0 122 490 194 565 0.24898 3.3e-007 244 3 M6267_1.02 GLIS3 GYGGGGGGTM 2.6e-001 3.4e-004 -7.97 0.0 91 491 155 585 0.18534 1.4e-006 245 3 M6322_1.02 KLF1 CAGGGTGKGGC 1.0e-045 1.4e-048 -110.22 0.0 122 490 321 599 0.24898 5.6e-051 244 3 M6323_1.02 KLF3 HRCYWGGGTGKGGCT 1.6e-012 2.2e-015 -33.74 0.0 162 486 294 581 0.33333 9.2e-018 242 3 M6324_1.02 KLF4 DGGGYGKGGC 1.0e-052 1.4e-055 -126.31 0.0 157 491 384 600 0.31976 5.7e-058 245 3 M6326_1.02 KLF8 CMGGGKGTG 1.1e-008 1.4e-011 -24.97 0.0 158 492 273 581 0.32114 5.8e-014 245 3 M6336_1.02 MAZ RGGGRGGGGAGGGRGGG 3.6e-001 4.9e-004 -7.62 0.0 130 484 207 582 0.26860 2.0e-006 241 3 M6442_1.02 PURA CCMBGCCCNCCMMBWCC 3.8e-001 5.1e-004 -7.58 0.0 82 484 146 596 0.16942 2.1e-006 241 3 M6456_1.02 RREB1 DKGKKKGKGGKTGKTTKGGGKT 3.8e-006 5.2e-009 -19.08 0.0 41 479 94 534 0.08559 2.2e-011 239 3 M6482_1.02 SP3 VGVVGGGGGCGGGGCBRGSS 4.9e-016 6.6e-019 -41.86 0.0 131 481 268 591 0.27235 2.8e-021 240 3 M6483_1.02 SP4 GSGGSCRGGGGSGGGGSGGSSSSG 3.0e-007 4.0e-010 -21.63 0.0 87 477 156 498 0.18239 1.7e-012 238 3 M6535_1.02 WT1 GMGGGGGCGKGGG 7.9e-018 1.1e-020 -45.98 0.0 86 488 204 590 0.17623 4.4e-023 243 3 M6539_1.02 ZBTB7B CGGVGRRGGGGMGSRGGSGGGH 1.2e-001 1.6e-004 -8.73 0.0 125 479 188 526 0.26096 6.8e-007 239 3 M6540_1.02 ZBTB4 CAATRGCGDTKGYGR 3.2e-002 4.3e-005 -10.06 0.0 110 486 170 526 0.22634 1.8e-007 242 3 M6549_1.02 ZIC2 KGGGTGGTC 1.2e-005 1.6e-008 -17.95 0.0 94 492 180 598 0.19106 6.5e-011 245 3 M6552_1.02 ZNF148 KGVGKGGGGGAGGGG 4.3e-004 5.8e-007 -14.37 0.0 88 486 164 584 0.18107 2.4e-009 242 3 M6553_1.02 ZNF219 GDGGGGGGYGGA 1.4e-006 1.9e-009 -20.09 0.0 139 489 247 595 0.28425 7.7e-012 244 ## # 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).