# 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 AAYAMAYAMAYAMAYAMAYAMATAMAYAMAYAA MEME-1 AAYAMAYAMAYAMAYAMAYAMATAMAYAMAYAA 6.2e-027 8.3e-030 -66.96 0.0 62 468 61 90 0.13248 3.6e-032 233 1 ATAAATAAATAAAWWAAANWWD MEME-2 ATAAATAAATAAAWWAAANWWD 2.3e-007 3.1e-010 -21.90 0.0 39 479 75 381 0.08142 1.3e-012 239 1 KSHGKGYGCGKGNGKGBGNGSG MEME-3 KSHGKGYGCGKGNGKGBGNGSG 3.7e-003 4.9e-006 -12.23 0.0 89 479 116 381 0.18580 2.1e-008 239 1 ACAGAGCRAGACTCYRTCTCAA MEME-4 ACAGAGCRAGACTCYRTCTCAA 1.4e0000 1.9e-003 -6.28 0.0 99 479 30 67 0.20668 7.9e-006 239 1 TGAGTCA MEME-9 TGAGTCA 3.5e-003 4.6e-006 -12.28 0.0 250 494 90 119 0.50607 1.9e-008 246 2 CMCGCA DREME-1 CMCGCA 1.5e-015 2.0e-018 -40.74 0.0 201 495 218 329 0.40606 8.2e-021 247 2 MTGACTCA DREME-2 MTGACTCA 3.4e-002 4.5e-005 -10.01 0.0 297 493 175 229 0.60243 1.8e-007 246 2 TAAATAAA DREME-3 TAAATAAA 1.3e-019 1.7e-022 -50.12 0.0 47 493 43 76 0.09533 7.0e-025 246 3 M0300_1.02 (ATF2)_(Mus_musculus)_(DBD_1.00) NRTKACGTMA 1.7e-001 2.3e-004 -8.38 0.0 191 491 262 532 0.38900 9.4e-007 245 3 M0398_1.02 (ZSCAN10)_(Mus_musculus)_(DBD_0.82) NGKRAGTGCNN 1.9e-001 2.5e-004 -8.30 0.0 198 490 282 559 0.40408 1.0e-006 244 3 M0413_1.02 (ZBTB1)_(Mus_musculus)_(DBD_0.99) NDTGCGKGDN 1.6e-014 2.2e-017 -38.37 0.0 205 491 337 553 0.41752 8.8e-020 245 3 M0718_1.02 FOXK1 NNRTMAACAH 4.3e-004 5.8e-007 -14.36 0.0 99 491 167 542 0.20163 2.4e-009 245 3 M0719_1.02 FOXG1 RTAAACAW 7.3e-004 9.8e-007 -13.83 0.0 55 493 87 413 0.11156 4.0e-009 246 3 M0728_1.02 (FOXJ1)_(Mus_musculus)_(DBD_1.00) NRTAAACAAANN 4.0e-002 5.4e-005 -9.83 0.0 39 489 74 503 0.07975 2.2e-007 244 3 M0736_1.02 (FOXK2)_(Mus_musculus)_(DBD_0.90) RTMAACAA 3.8e0000 5.0e-003 -5.29 0.0 51 493 85 524 0.10345 2.0e-005 246 3 M0737_1.02 (FOXB2)_(Mus_musculus)_(DBD_0.94) WRWGTAAAYA 1.1e-002 1.4e-005 -11.15 0.0 33 491 69 515 0.06721 5.9e-008 245 3 M0747_1.02 (FOXL2)_(Mus_musculus)_(DBD_0.70) WNNRTAAAYA 1.0e0000 1.3e-003 -6.61 0.0 51 491 89 530 0.10387 5.5e-006 245 3 M1007_1.02 (HOXA11)_(Mus_musculus)_(DBD_1.00) TTWAYKDBN 3.3e-001 4.5e-004 -7.71 0.0 174 492 168 354 0.35366 1.8e-006 245 3 M1545_1.02 GMEB1 NNNRCGTNN 5.2e-002 7.0e-005 -9.57 0.0 158 492 207 480 0.32114 2.9e-007 245 3 M1583_1.02 (BBX)_(Mus_musculus)_(DBD_0.99) TTCATTGA 2.6e-002 3.4e-005 -10.28 0.0 47 493 88 525 0.09533 1.4e-007 246 3 M2283_1.02 FOXP1 HWWADGTAAACAAAR 2.0e-001 2.7e-004 -8.23 0.0 48 486 81 480 0.09877 1.1e-006 242 3 M2287_1.02 (HOXC9)_(Mus_musculus)_(DBD_0.98) RGCCATAAATCAB 4.9e0000 6.6e-003 -5.02 0.0 54 488 77 439 0.11066 2.7e-005 243 3 M2385_1.02 FOXP2 RWGTAAACAVR 1.1e-004 1.4e-007 -15.76 0.0 52 490 97 485 0.10612 5.9e-010 244 3 M4526_1.02 SMARCC1 DSRVDGTGASTCABV 1.3e0000 1.7e-003 -6.36 0.0 302 486 327 455 0.62140 7.2e-006 242 3 M4565_1.02 FOSL2 VDGGATGASTCAYH 1.5e0000 1.9e-003 -6.24 0.0 87 487 110 414 0.17864 8.0e-006 243 3 M4567_1.02 FOXA2 NCWRWGTAAACANNN 2.1e-002 2.8e-005 -10.48 0.0 54 486 93 482 0.11111 1.2e-007 242 3 M4619_1.02 FOSL1 BGGTGASTCAK 8.6e0000 1.2e-002 -4.46 0.0 308 490 296 410 0.62857 4.8e-005 244 3 M5287_1.02 ALX4 HTAATYNAATTAN 4.8e0000 6.4e-003 -5.05 0.0 44 488 63 414 0.09016 2.7e-005 243 3 M5293_1.02 ATF7 NKATGACGTCATHN 5.8e-001 7.7e-004 -7.16 0.0 193 487 138 256 0.39630 3.2e-006 243 3 M5302_1.02 BATF3 TGATGACGTCATCA 9.3e-001 1.3e-003 -6.68 0.0 207 487 87 141 0.42505 5.2e-006 243 3 M5335_1.02 CUX2 ATCGATAHNDTTATYGAT 1.3e-011 1.7e-014 -31.69 0.0 37 483 46 145 0.07660 7.2e-017 241 3 M5348_1.02 DRGX NTAATYHAATTAN 9.4e0000 1.3e-002 -4.37 0.0 40 488 56 394 0.08197 5.2e-005 243 3 M5446_1.02 FOXD4L2 GTAAACA 1.4e-002 1.9e-005 -10.88 0.0 42 494 84 546 0.08502 7.7e-008 246 3 M5460_1.02 FOXL1 RTAAACA 2.3e-004 3.0e-007 -15.01 0.0 52 494 99 505 0.10526 1.2e-009 246 3 M5487_1.02 GCM2 BATGCGGGTR 9.8e-003 1.3e-005 -11.24 0.0 221 491 309 548 0.45010 5.3e-008 245 3 M5493_1.02 GMEB2 KTRCGTAA 7.7e-007 1.0e-009 -20.69 0.0 321 493 381 479 0.65112 4.2e-012 246 3 M5587_1.02 JDP2 ATGASTCAT 4.5e-001 6.0e-004 -7.41 0.0 232 492 217 367 0.47154 2.5e-006 245 3 M5637_1.02 MSX1 TAATTGSWWTTTAATTGS 5.3e0000 7.2e-003 -4.94 0.0 73 483 80 340 0.15114 3.0e-005 241 3 M5697_1.02 ONECUT3 DTTATYGATTTTTY 5.7e0000 7.6e-003 -4.88 0.0 47 487 59 359 0.09651 3.1e-005 243 3 M5715_1.02 PHOX2B TAATBYAATTA 3.4e0000 4.5e-003 -5.39 0.0 40 490 59 412 0.08163 1.9e-005 244 3 M5740_1.02 POU4F1 ATGMATAATTAATG 7.2e-006 9.6e-009 -18.46 0.0 37 487 70 393 0.07598 4.0e-011 243 3 M5743_1.02 POU4F3 RTGMATWATTAATGAV 7.5e-005 1.0e-007 -16.11 0.0 39 485 68 382 0.08041 4.2e-010 242 3 M5998_1.02 (CREB5)_(Mus_musculus)_(DBD_1.00) DRTGACGTCATN 1.7e-004 2.3e-007 -15.28 0.0 193 489 177 313 0.39468 9.4e-010 244 3 M6114_1.02 FOXA1 WAWGYAAAYA 2.5e0000 3.3e-003 -5.71 0.0 79 491 115 489 0.16090 1.4e-005 245 3 M6139_1.02 AHR KCACGCRAH 4.1e-003 5.6e-006 -12.10 0.0 156 492 232 540 0.31707 2.3e-008 245 3 M6147_1.02 ARID3A TWWAWTTTGATWYYVWTTAATH 1.6e-001 2.1e-004 -8.45 0.0 41 479 60 361 0.08559 9.0e-007 239 3 M6151_1.02 ARNT BYRCGTGC 3.2e-005 4.3e-008 -16.95 0.0 171 493 234 481 0.34686 1.8e-010 246 3 M6234_1.02 FOXA3 RVWAARYAAAYAD 4.4e-002 5.9e-005 -9.73 0.0 46 488 82 487 0.09426 2.4e-007 243 3 M6235_1.02 FOXC1 CYWAAGTAAACAWHG 1.1e-004 1.5e-007 -15.73 0.0 38 486 69 399 0.07819 6.1e-010 242 3 M6237_1.02 FOXD3 AAACAAACA 4.4e-002 5.9e-005 -9.74 0.0 38 492 73 502 0.07724 2.4e-007 245 3 M6238_1.02 FOXF1 WAAATAAACAW 1.0e-001 1.3e-004 -8.92 0.0 80 490 117 463 0.16327 5.5e-007 244 3 M6239_1.02 FOXF2 HWADGTAAACA 1.7e0000 2.2e-003 -6.11 0.0 80 490 114 471 0.16327 9.1e-006 244 3 M6241_1.02 FOXJ2 WAAAYAAACA 7.8e-006 1.0e-008 -18.38 0.0 37 491 80 489 0.07536 4.3e-011 245 3 M6242_1.02 FOXJ3 TAAACAWWAAMMA 4.0e0000 5.3e-003 -5.24 0.0 68 488 91 430 0.13934 2.2e-005 243 3 M6244_1.02 FOXM1 RWAAWCAMWCAAV 2.0e-001 2.7e-004 -8.23 0.0 46 488 85 533 0.09426 1.1e-006 243 3 M6245_1.02 FOXO1 AAAWHVWAAACAAVHH 2.7e-003 3.6e-006 -12.53 0.0 43 485 83 494 0.08866 1.5e-008 242 3 M6246_1.02 FOXO3 MKGWAAACAARYM 1.0e-002 1.4e-005 -11.21 0.0 40 488 80 523 0.08197 5.6e-008 243 3 M6247_1.02 FOXO4 MRTAAACAA 3.8e-001 5.1e-004 -7.59 0.0 38 492 70 509 0.07724 2.1e-006 245 3 M6250_1.02 FOXQ1 AAATAAACAATD 1.0e-005 1.3e-008 -18.13 0.0 51 489 84 385 0.10429 5.5e-011 244 3 M6275_1.02 HIF1A SBSTACGTGCSB 1.3e-001 1.7e-004 -8.66 0.0 223 489 267 469 0.45603 7.1e-007 244 3 M6277_1.02 HLF SKRTTACRYAAYC 2.0e0000 2.6e-003 -5.94 0.0 198 488 209 409 0.40574 1.1e-005 243 3 M6285_1.02 ONECUT1 WWTATTGATTTWDH 3.1e-002 4.1e-005 -10.09 0.0 45 487 69 394 0.09240 1.7e-007 243 3 M6296_1.02 HOXB6 KKCATMAATCAWY 3.6e0000 4.8e-003 -5.33 0.0 36 488 49 357 0.07377 2.0e-005 243 3 M6297_1.02 HOXB7 MATYAATCAA 8.4e-001 1.1e-003 -6.79 0.0 39 491 58 394 0.07943 4.6e-006 245 3 M6298_1.02 HOXB8 BMATTAATCAA 2.3e-001 3.1e-004 -8.07 0.0 42 490 61 373 0.08571 1.3e-006 244 3 M6299_1.02 HOXC6 AAAGTAATAAATCAT 5.4e-007 7.2e-010 -21.05 0.0 28 486 51 296 0.05761 3.0e-012 242 3 M6333_1.02 MAFG MATGACT 1.6e-001 2.2e-004 -8.44 0.0 208 494 292 558 0.42105 8.8e-007 246 3 M6359_1.02 NFE2L1 NATGACD 6.0e0000 8.0e-003 -4.83 0.0 228 494 303 554 0.46154 3.3e-005 246 3 M6368_1.02 NFIL3 VKVMVTTACRTAAY 2.6e-002 3.5e-005 -10.25 0.0 185 487 187 364 0.37988 1.5e-007 243 3 M6378_1.02 NKX3-1 WWTAAGTATWTWW 9.5e-002 1.3e-004 -8.96 0.0 38 488 62 409 0.07787 5.3e-007 243 3 M6399_1.02 ONECUT2 DKSWTKWTATKGATTTTWYYT 5.2e-001 7.0e-004 -7.27 0.0 40 480 54 337 0.08333 2.9e-006 239 3 M6416_1.02 CBFB YYTGTGGTYDB 2.4e0000 3.2e-003 -5.75 0.0 202 490 293 587 0.41224 1.3e-005 244 3 M6426_1.02 POU3F2 CATRAATWWT 7.6e0000 1.0e-002 -4.59 0.0 35 491 57 466 0.07128 4.2e-005 245 3 M6457_1.02 RUNX1 WAACCACARW 2.3e-002 3.1e-005 -10.39 0.0 187 491 280 575 0.38086 1.3e-007 245 3 M6546_1.02 ZFHX3 RTTAWTAATTA 1.2e0000 1.6e-003 -6.42 0.0 60 490 73 355 0.12245 6.7e-006 244 ## # 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).