# 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 BGGTTGGGCTBNSCNB MEME-1 BGGTTGGGCTBNSCNB 1.5e-269 2.0e-272 -625.62 0.0 83 485 494 590 0.17113 8.2e-275 242 1 MGCCCGCRCCGC MEME-6 MGCCCGCRCCGC 9.9e-008 1.3e-010 -22.74 0.0 115 489 111 250 0.23517 5.4e-013 244 1 GSSGCRGGCKGGGCGS MEME-7 GSSGCRGGCKGGGCGS 2.0e-034 2.7e-037 -84.22 0.0 71 485 160 372 0.14639 1.1e-039 242 1 YTCTGCTKGGCTGGGC MEME-8 YTCTGCTKGGCTGGGC 4.3e-024 5.8e-027 -60.42 0.0 77 485 111 235 0.15876 2.4e-029 242 2 GCCCARC DREME-1 GCCCARC 9.0e-202 1.2e-204 -469.54 0.0 84 494 402 507 0.17004 4.9e-207 246 2 GTTGGCCR DREME-2 GTTGGCCR 1.5e-014 2.1e-017 -38.42 0.0 71 493 38 55 0.14402 8.4e-020 246 2 AGCCCTAC DREME-4 AGCCCTAC 9.6e-084 1.3e-086 -197.77 0.0 67 493 225 402 0.13590 5.2e-089 246 3 M0405_1.02 (KLF7)_(Mus_musculus)_(DBD_1.00) DGGGCGKGGY 1.9e0000 2.6e-003 -5.95 0.0 139 491 215 589 0.28310 1.1e-005 245 3 M0443_1.02 (KLF12)_(Mus_musculus)_(DBD_1.00) DGGGCGKGKY 2.1e-001 2.8e-004 -8.19 0.0 139 491 219 586 0.28310 1.1e-006 245 3 M1871_1.02 (KLF2)_(Mus_musculus)_(DBD_0.95) DGGGYGKGGC 3.6e-002 4.8e-005 -9.94 0.0 221 491 319 573 0.45010 2.0e-007 245 3 M1928_1.02 NFKB1 KGGRMTTTCCM 3.2e0000 4.2e-003 -5.46 0.0 34 490 66 553 0.06939 1.7e-005 244 3 M2264_1.02 (ATOH1)_(Mus_musculus)_(DBD_1.00) RCCAKCTG 5.3e-006 7.1e-009 -18.76 0.0 169 493 276 579 0.34280 2.9e-011 246 3 M2321_1.02 TP63 NDRCAWGYHCARRCWTGYHY 1.9e-001 2.5e-004 -8.28 0.0 63 481 101 481 0.13098 1.1e-006 240 3 M4462_1.02 GABPA VVCCGGAAGTG 3.9e0000 5.2e-003 -5.26 0.0 16 490 38 555 0.03265 2.1e-005 244 3 M4479_1.02 TCF12 VSAGCAGSTGB 2.0e-001 2.6e-004 -8.24 0.0 134 490 210 574 0.27347 1.1e-006 244 3 M4840_1.02 (FEZF1)_(Drosophila_melanogaster)_(DBD_0.91) AAAWGMGCAWC 2.7e0000 3.6e-003 -5.62 0.0 70 490 112 532 0.14286 1.5e-005 244 3 M5116_1.02 (ATOH8)_(Drosophila_melanogaster)_(DBD_0.70) RCCACCTGK 8.6e0000 1.1e-002 -4.47 0.0 126 492 193 585 0.25610 4.7e-005 245 3 M5430_1.02 FIGLA WMCACCTGKW 8.8e0000 1.2e-002 -4.44 0.0 29 491 58 572 0.05906 4.8e-005 245 3 M5497_1.02 GRHL1 AACCGGTYTAACCGGTT 3.0e0000 4.1e-003 -5.51 0.0 58 484 61 296 0.11983 1.7e-005 241 3 M5512_1.02 HIC2 VSYGGGCAY 8.6e0000 1.2e-002 -4.46 0.0 82 492 136 591 0.16667 4.8e-005 245 3 M5857_1.02 SPDEF AMCCGGATGTW 3.8e0000 5.1e-003 -5.28 0.0 20 490 37 429 0.04082 2.1e-005 244 3 M5959_1.02 ZBTB49 TTTCGCYTGGCVSGTCA 2.0e-001 2.7e-004 -8.22 0.0 134 484 96 224 0.27686 1.1e-006 241 3 M5965_1.02 ZIC4 DCDCMGCGGGGGGYC 2.7e-002 3.6e-005 -10.22 0.0 244 486 332 542 0.50206 1.5e-007 242 3 M6131_1.02 (TFCP2L1)_(Mus_musculus)_(DBD_0.95) CYRGYTCHRDCYRGYTYNRDC 3.1e-002 4.2e-005 -10.08 0.0 80 480 142 561 0.16667 1.7e-007 239 3 M6192_1.02 E2F3 SSCGCSAAAC 1.6e-006 2.2e-009 -19.94 0.0 111 491 167 454 0.22607 8.9e-012 245 3 M6194_1.02 E2F5 SGCGCSAAAH 1.6e0000 2.2e-003 -6.12 0.0 37 491 58 419 0.07536 9.0e-006 245 3 M6199_1.02 EGR2 DGVGTGGGCGG 1.1e-001 1.5e-004 -8.82 0.0 60 490 109 560 0.12245 6.1e-007 244 3 M6264_1.02 GLI1 BTGGGTGGTCY 2.2e-004 3.0e-007 -15.03 0.0 92 490 167 572 0.18776 1.2e-009 244 3 M6265_1.02 GLI2 GTGGGTGGTCY 4.1e-009 5.5e-012 -25.93 0.0 70 490 126 448 0.14286 2.3e-014 244 3 M6266_1.02 GLI3 BTGGGTGGTCY 7.0e-004 9.3e-007 -13.88 0.0 80 490 141 539 0.16327 3.8e-009 244 3 M6273_1.02 HEY2 GBBGGCWCGTGGCHTBV 2.9e-001 3.9e-004 -7.86 0.0 142 484 188 477 0.29339 1.6e-006 241 3 M6322_1.02 KLF1 CAGGGTGKGGC 1.1e0000 1.4e-003 -6.54 0.0 118 490 184 570 0.24082 5.9e-006 244 3 M6324_1.02 KLF4 DGGGYGKGGC 3.4e0000 4.5e-003 -5.39 0.0 223 491 315 583 0.45418 1.9e-005 245 3 M6350_1.02 MYB CMGTTRD 9.8e-005 1.3e-007 -15.84 0.0 54 494 108 540 0.10931 5.4e-010 246 3 M6353_1.02 MYF6 GCAGSTG 2.9e-002 3.9e-005 -10.14 0.0 134 494 216 584 0.27126 1.6e-007 246 3 M6355_1.02 MYOG YRACAGCTGCWGC 3.5e-003 4.7e-006 -12.26 0.0 126 488 199 542 0.25820 1.9e-008 243 3 M6358_1.02 NEUROD1 SGGCAGRTGKSC 4.1e-001 5.6e-004 -7.50 0.0 119 489 190 578 0.24335 2.3e-006 244 3 M6373_1.02 NFYC YAGCCAATSAGVGS 5.1e-001 6.8e-004 -7.29 0.0 201 487 287 565 0.41273 2.8e-006 243 3 M6449_1.02 REL DKGGRNWTTCCV 5.7e0000 7.6e-003 -4.88 0.0 29 489 59 571 0.05930 3.1e-005 244 3 M6456_1.02 RREB1 DKGKKKGKGGKTGKTTKGGGKT 9.6e-003 1.3e-005 -11.27 0.0 77 479 123 479 0.16075 5.4e-008 239 3 M6468_1.02 SNAI1 SCAGGTGK 3.4e0000 4.5e-003 -5.40 0.0 161 493 240 586 0.32657 1.8e-005 246 3 M6486_1.02 SPZ1 CGGCKGWWACMBYGGG 5.8e-002 7.8e-005 -9.46 0.0 61 485 109 537 0.12577 3.2e-007 242 3 M6513_1.02 TFAP4 RYCAGCTGYGG 6.5e-001 8.8e-004 -7.04 0.0 128 490 188 537 0.26122 3.6e-006 244 3 M6514_1.02 TFCP2 SCCWGMNCDSRCCRGA 3.9e0000 5.3e-003 -5.24 0.0 63 485 112 588 0.12990 2.2e-005 242 3 M6527_1.02 TWIST1 MCCCAGGTGK 5.0e-001 6.6e-004 -7.32 0.0 145 491 199 509 0.29532 2.7e-006 245 3 M6537_1.02 YBX1 BSKGATTSSCY 3.2e0000 4.3e-003 -5.44 0.0 242 490 347 599 0.49388 1.8e-005 244 ## # 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).