# 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 RGGGGGCGGGGCSDGG MEME-1 RGGGGGCGGGGCSDGG 5.6e-026 7.5e-029 -64.76 0.0 287 485 487 598 0.59175 3.1e-031 242 1 GCMTBCTGGGARTTGTAGTYY MEME-2 GCMTBCTGGGARTTGTAGTYY 2.3e-009 3.1e-012 -26.50 0.0 186 480 108 156 0.38750 1.3e-014 239 1 CYCCTCCYYYYYCHCYYCCYYC MEME-3 CYCCTCCYYYYYCHCYYCCYYC 1.3e-003 1.7e-006 -13.26 0.0 161 479 253 558 0.33612 7.3e-009 239 2 GGGCGGRR DREME-1 GGGCGGRG 4.1e-011 5.5e-014 -30.54 0.0 211 493 311 512 0.42799 2.2e-016 246 2 GTAGTYY DREME-2 GTAGTYY 2.3e-005 3.0e-008 -17.31 0.0 172 494 87 142 0.34818 1.2e-010 246 2 GGCGKGKC DREME-3 GGCGKGGC 2.3e-012 3.1e-015 -33.40 0.0 243 493 290 414 0.49290 1.3e-017 246 2 CCAATSA DREME-4 CCAATSA 1.0e-004 1.4e-007 -15.81 0.0 244 494 109 146 0.49393 5.5e-010 246 2 ACCGCCY DREME-8 ACCGCCC 2.2e-001 3.0e-004 -8.12 0.0 234 494 146 232 0.47368 1.2e-006 246 2 ATTGGY DREME-9 ATTGGY 1.7e-006 2.3e-009 -19.89 0.0 255 495 174 239 0.51515 9.4e-012 247 3 M0405_1.02 (KLF7)_(Mus_musculus)_(DBD_1.00) DGGGCGKGGY 7.1e-020 9.5e-023 -50.70 0.0 129 491 276 600 0.26273 3.9e-025 245 3 M0443_1.02 (KLF12)_(Mus_musculus)_(DBD_1.00) DGGGCGKGGY 5.4e-017 7.3e-020 -44.07 0.0 131 491 271 600 0.26680 3.0e-022 245 3 M1871_1.02 (KLF2)_(Mus_musculus)_(DBD_0.95) DGGGYGKGGC 2.7e-009 3.7e-012 -26.33 0.0 135 491 251 597 0.27495 1.5e-014 245 3 M1890_1.02 NFYA AGVSYKCTGATTGGYBSR 3.4e-004 4.6e-007 -14.59 0.0 247 483 264 401 0.51139 1.9e-009 241 3 M1906_1.02 SP1 GGGGGMGGGGC 1.2e-006 1.6e-009 -20.26 0.0 254 490 394 600 0.51837 6.5e-012 244 3 M1915_1.02 (ZNF76)_(Xenopus_laevis)_(DBD_0.84) KCRWKGMATBMTGGGARDTV 9.4e-001 1.3e-003 -6.68 0.0 101 481 147 499 0.20998 5.2e-006 240 3 M2273_1.02 E2F6 RGGCGGGARRV 2.0e0000 2.7e-003 -5.93 0.0 150 490 231 593 0.30612 1.1e-005 244 3 M2277_1.02 FLI1 RCAGGAAGTGR 3.1e0000 4.1e-003 -5.50 0.0 182 490 269 590 0.37143 1.7e-005 244 3 M2301_1.02 NFYB VHMYBRRCCAATCAG 1.6e-001 2.1e-004 -8.46 0.0 240 486 265 435 0.49383 8.7e-007 242 3 M2314_1.02 SP2 SSSVRGRGGCGGGRC 1.7e-015 2.2e-018 -40.65 0.0 254 486 426 600 0.52263 9.2e-021 242 3 M2391_1.02 KLF5 DGGGHGGGGC 2.9e-010 3.9e-013 -28.57 0.0 177 491 312 600 0.36049 1.6e-015 245 3 M4459_1.02 EGR1 SBGCGKGGGCGGVGGSGSGS 4.1e-002 5.5e-005 -9.81 0.0 221 481 333 591 0.45946 2.3e-007 240 3 M4461_1.02 ETS1 GCMTBCTGGGARWTGTAGTYC 4.3e-003 5.8e-006 -12.06 0.0 184 480 139 250 0.38333 2.4e-008 239 3 M4462_1.02 GABPA VVCCGGAAGTG 1.9e0000 2.5e-003 -5.98 0.0 180 490 260 572 0.36735 1.0e-005 244 3 M4473_1.02 PBX3 NBCRGCCAATSRGVR 3.0e-001 4.0e-004 -7.83 0.0 74 486 123 536 0.15226 1.6e-006 242 3 M4484_1.02 ZNF143 CTGGGARTTGTAGTY 1.6e-001 2.1e-004 -8.48 0.0 190 486 187 362 0.39095 8.6e-007 242 3 M4522_1.02 ELK4 CCGGAAGYGS 6.1e-003 8.2e-006 -11.72 0.0 321 491 440 580 0.65377 3.3e-008 245 3 M4527_1.02 SMARCC2 RRACTACAAYTCCCAGVAKGC 3.8e-002 5.1e-005 -9.89 0.0 184 480 134 246 0.38333 2.1e-007 239 3 M4537_1.02 E2F4 SGCGGGAARWTBVRR 7.4e-001 9.9e-004 -6.92 0.0 206 486 307 595 0.42387 4.1e-006 242 3 M4692_1.02 SIX5 ACTACAAYTC 1.1e0000 1.4e-003 -6.56 0.0 71 491 90 391 0.14460 5.8e-006 245 3 M5209_1.02 (SP5)_(Drosophila_melanogaster)_(DBD_0.93) GKGGGCGKRKC 1.1e-025 1.5e-028 -64.08 0.0 184 490 365 600 0.37551 6.1e-031 244 3 M5420_1.02 ETV1 ACCGGAAGTD 9.5e-002 1.3e-004 -8.97 0.0 155 491 237 574 0.31568 5.2e-007 245 3 M5421_1.02 ETV2 AACCGGAAATR 2.2e0000 3.0e-003 -5.81 0.0 178 490 227 496 0.36327 1.2e-005 244 3 M5591_1.02 KLF13 CAAAAAGGGGCGTGKCAY 3.1e-011 4.1e-014 -30.82 0.0 137 483 205 437 0.28364 1.7e-016 241 3 M5592_1.02 KLF14 ARGKGGGCGTGGYM 1.7e-012 2.2e-015 -33.73 0.0 137 487 260 580 0.28131 9.2e-018 243 3 M5593_1.02 KLF16 GGGGGCGTGKC 1.7e-005 2.2e-008 -17.61 0.0 158 490 268 598 0.32245 9.2e-011 244 3 M5856_1.02 SP8 RGKGGGCGTGGY 5.9e-010 8.0e-013 -27.86 0.0 225 489 370 597 0.46012 3.3e-015 244 3 M5977_1.02 ZNF740 GTGGGGGGGK 6.5e0000 8.8e-003 -4.74 0.0 95 491 153 587 0.19348 3.6e-005 245 3 M6139_1.02 AHR KCACGCRAH 3.0e-001 4.0e-004 -7.83 0.0 290 492 379 553 0.58943 1.6e-006 245 3 M6150_1.02 ARNT2 GYSYSCCACGNC 3.9e0000 5.2e-003 -5.27 0.0 131 489 204 590 0.26789 2.1e-005 244 3 M6151_1.02 ARNT BYRCGTGC 7.2e0000 9.7e-003 -4.63 0.0 381 493 420 497 0.77282 4.0e-005 246 3 M6174_1.02 CEBPZ AGCCAATSAGH 6.6e-003 8.8e-006 -11.64 0.0 240 490 285 463 0.48980 3.6e-008 244 3 M6191_1.02 E2F2 GGCGCGAAAC 6.5e0000 8.7e-003 -4.75 0.0 245 491 325 556 0.49898 3.6e-005 245 3 M6199_1.02 EGR2 DGVGTGGGCGG 6.3e-002 8.4e-005 -9.38 0.0 260 490 376 595 0.53061 3.5e-007 244 3 M6200_1.02 EGR3 WGAGTGGGYGT 2.1e-003 2.9e-006 -12.76 0.0 136 490 221 572 0.27755 1.2e-008 244 3 M6204_1.02 ELF2 TDNCAGGAAGTRRVT 9.1e0000 1.2e-002 -4.40 0.0 240 486 329 571 0.49383 5.1e-005 242 3 M6207_1.02 ELK1 RCCGGAAGT 7.2e0000 9.7e-003 -4.64 0.0 368 492 484 592 0.74797 4.0e-005 245 3 M6240_1.02 FOXI1 RRCCAATCAVAR 6.1e-002 8.1e-005 -9.42 0.0 201 489 225 422 0.41104 3.3e-007 244 3 M6275_1.02 HIF1A SBSTACGTGCSB 7.5e-001 1.0e-003 -6.90 0.0 447 489 476 493 0.91411 4.1e-006 244 3 M6324_1.02 KLF4 DGGGYGKGGC 1.1e-009 1.4e-012 -27.29 0.0 123 491 237 600 0.25051 5.8e-015 245 3 M6325_1.02 KLF6 GGGGGCKG 1.3e-002 1.7e-005 -10.95 0.0 253 493 372 600 0.51318 7.1e-008 246 3 M6373_1.02 NFYC YAGCCAATSAGVGS 1.7e-003 2.3e-006 -12.98 0.0 199 487 286 540 0.40862 9.5e-009 243 3 M6482_1.02 SP3 SGVVGGGGGCGGGGCBRGSS 4.6e-010 6.1e-013 -28.12 0.0 169 481 305 600 0.35135 2.5e-015 240 3 M6535_1.02 WT1 GMGGGGGCGKGGG 4.9e-001 6.5e-004 -7.33 0.0 288 488 407 597 0.59016 2.7e-006 243 3 M6553_1.02 ZNF219 GDGGGGGGYGGA 1.0e-001 1.4e-004 -8.91 0.0 189 489 290 597 0.38650 5.6e-007 244 ## # 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).