# 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 NVAGCCCAACCV MEME-1 NVAGCCCAACCV 7.2e-257 9.7e-260 -596.40 0.0 65 489 448 591 0.13292 4.0e-262 244 2 GYTGGGCD DREME-1 GTTGGGCT 1.6e-203 2.1e-206 -473.58 0.0 75 493 372 469 0.15213 8.6e-209 246 2 GTTGGCCD DREME-2 GTTGGCCW 2.8e-022 3.8e-025 -56.24 0.0 49 493 54 100 0.09939 1.5e-027 246 2 GCCCYACC DREME-3 GCCCYACC 9.4e-008 1.3e-010 -22.79 0.0 129 493 59 97 0.26166 5.1e-013 246 3 M0405_1.02 (KLF7)_(Mus_musculus)_(DBD_1.00) DGGGCGKGGY 4.3e-002 5.9e-005 -9.74 0.0 155 491 244 587 0.31568 2.4e-007 245 3 M0443_1.02 (KLF12)_(Mus_musculus)_(DBD_1.00) DGGGYGKGKY 1.8e0000 2.5e-003 -5.99 0.0 155 491 234 585 0.31568 1.0e-005 245 3 M0603_1.02 CGBP NNNBCGK 4.9e0000 6.6e-003 -5.02 0.0 34 494 28 175 0.06883 2.7e-005 246 3 M1871_1.02 (KLF2)_(Mus_musculus)_(DBD_0.95) DGGGYGKGGC 6.7e-003 9.0e-006 -11.62 0.0 155 491 246 582 0.31568 3.7e-008 245 3 M1927_1.02 (MYCL1)_(Mus_musculus)_(DBD_0.66) RCCACGTG 6.2e0000 8.3e-003 -4.79 0.0 109 493 149 497 0.22110 3.4e-005 246 3 M1963_1.02 (ZFY)_(Mus_musculus)_(DBD_0.97) SSSGSCBVGGCCTS 1.3e-001 1.8e-004 -8.63 0.0 99 487 160 551 0.20329 7.3e-007 243 3 M2264_1.02 (ATOH1)_(Mus_musculus)_(DBD_1.00) RCCAKCTG 9.5e-002 1.3e-004 -8.96 0.0 47 493 93 580 0.09533 5.2e-007 246 3 M2305_1.02 NRF1 YGCGCABGCGC 5.4e-001 7.3e-004 -7.23 0.0 96 490 112 381 0.19592 3.0e-006 244 3 M2321_1.02 TP63 NDRCAWGYHCARRCWTGYHY 7.2e-003 9.7e-006 -11.55 0.0 107 481 165 504 0.22245 4.0e-008 240 3 M2391_1.02 KLF5 DGGGHGGGGC 5.2e0000 7.1e-003 -4.95 0.0 155 491 229 578 0.31568 2.9e-005 245 3 M4532_1.02 MYC CCACGTGSYY 1.5e0000 2.0e-003 -6.24 0.0 115 491 164 515 0.23422 8.0e-006 245 3 M4543_1.02 MXI1 VVVVCCACGTG 3.7e0000 5.0e-003 -5.29 0.0 34 490 59 483 0.06939 2.1e-005 244 3 M4840_1.02 (FEZF1)_(Drosophila_melanogaster)_(DBD_0.91) AAAWGMGCAWC 5.6e0000 7.6e-003 -4.88 0.0 54 490 92 544 0.11020 3.1e-005 244 3 M5116_1.02 (ATOH8)_(Drosophila_melanogaster)_(DBD_0.70) RCCACCTGK 1.1e-001 1.4e-004 -8.85 0.0 48 492 95 583 0.09756 5.8e-007 245 3 M5209_1.02 (SP5)_(Drosophila_melanogaster)_(DBD_0.93) GKGGGCGKRKC 4.1e0000 5.6e-003 -5.19 0.0 268 490 351 554 0.54694 2.3e-005 244 3 M5321_1.02 CLOCK AACACGTGTH 4.5e0000 6.1e-003 -5.10 0.0 27 491 43 399 0.05499 2.5e-005 245 3 M5398_1.02 ERF ACCGGAAGTR 9.2e0000 1.2e-002 -4.39 0.0 343 491 379 487 0.69857 5.1e-005 245 3 M5420_1.02 ETV1 ACCGGAAGTD 6.6e0000 8.9e-003 -4.72 0.0 337 491 409 534 0.68635 3.7e-005 245 3 M5430_1.02 FIGLA WMCACCTGKW 3.6e0000 4.8e-003 -5.34 0.0 27 491 57 578 0.05499 2.0e-005 245 3 M5497_1.02 GRHL1 AACCGGTYTAACCGGTT 8.3e0000 1.1e-002 -4.49 0.0 50 484 54 299 0.10331 4.7e-005 241 3 M5512_1.02 HIC2 VSYGGGCAY 3.2e-001 4.3e-004 -7.75 0.0 74 492 133 597 0.15041 1.8e-006 245 3 M5571_1.02 ID4 DVCAGGTGYN 2.3e0000 3.1e-003 -5.78 0.0 137 491 208 577 0.27902 1.3e-005 245 3 M5636_1.02 MSC AACAGCTGTT 2.4e0000 3.3e-003 -5.72 0.0 27 491 48 455 0.05499 1.3e-005 245 3 M5664_1.02 NFIX TTGGCANNNNGCCAR 3.9e-001 5.3e-004 -7.54 0.0 242 486 272 448 0.49794 2.2e-006 242 3 M5804_1.02 SCRT1 RWGCAACAGGTGKBH 9.4e0000 1.3e-002 -4.36 0.0 68 486 83 389 0.13992 5.3e-005 242 3 M5805_1.02 SCRT2 RWGCAACAGGTGB 9.0e0000 1.2e-002 -4.41 0.0 136 488 141 379 0.27869 5.0e-005 243 3 M5857_1.02 SPDEF AMCCGGATGTW 9.8e0000 1.3e-002 -4.32 0.0 28 490 44 410 0.05714 5.5e-005 244 3 M5959_1.02 ZBTB49 TTTCGCYTGGCVSGTCA 6.4e-002 8.7e-005 -9.35 0.0 108 484 84 225 0.22314 3.6e-007 241 3 M5962_1.02 ZBTB7C NTCGGTGGTCGY 1.4e-001 1.9e-004 -8.56 0.0 45 489 88 563 0.09202 7.9e-007 244 3 M5965_1.02 ZIC4 DCDCMGCGGGGGGYC 5.9e-003 8.0e-006 -11.74 0.0 296 486 386 535 0.60905 3.3e-008 242 3 M5971_1.02 ZKSCAN3 TCGAGGYTAGMCCA 1.1e0000 1.5e-003 -6.50 0.0 45 487 47 259 0.09240 6.2e-006 243 3 M6115_1.02 TP73 CATGYCWGRRCHTGY 3.5e0000 4.7e-003 -5.37 0.0 74 486 121 552 0.15226 1.9e-005 242 3 M6131_1.02 (TFCP2L1)_(Mus_musculus)_(DBD_0.95) CYRGYTCHRDCYRGYTYNRDC 1.7e-001 2.3e-004 -8.40 0.0 80 480 140 567 0.16667 9.4e-007 239 3 M6192_1.02 E2F3 SSCGCSAAAC 2.2e-006 2.9e-009 -19.66 0.0 77 491 122 428 0.15682 1.2e-011 245 3 M6199_1.02 EGR2 DGVGTGGGCGG 2.3e-006 3.1e-009 -19.59 0.0 66 490 136 567 0.13469 1.3e-011 244 3 M6210_1.02 ENO1 YDSMCACRTGSYB 1.2e-001 1.6e-004 -8.74 0.0 176 488 260 565 0.36066 6.6e-007 243 3 M6259_1.02 GCM1 HWNATGCKGGYMBB 4.4e-003 6.0e-006 -12.02 0.0 63 487 121 566 0.12936 2.5e-008 243 3 M6264_1.02 GLI1 BTGGGTGGTCY 1.1e-007 1.5e-010 -22.63 0.0 58 490 130 580 0.11837 6.1e-013 244 3 M6265_1.02 GLI2 GTGGGTGGTCY 3.5e-015 4.7e-018 -39.90 0.0 74 490 155 489 0.15102 1.9e-020 244 3 M6266_1.02 GLI3 BTGGGTGGTCY 5.5e-010 7.4e-013 -27.94 0.0 78 490 163 558 0.15918 3.0e-015 244 3 M6273_1.02 HEY2 GBBGGCWCGTGGCHTBV 7.8e-001 1.1e-003 -6.86 0.0 114 484 148 450 0.23554 4.4e-006 241 3 M6295_1.02 HOXB1 CCATCMATCW 2.2e0000 2.9e-003 -5.84 0.0 231 491 249 435 0.47047 1.2e-005 245 3 M6322_1.02 KLF1 CAGGGTGKGGC 6.3e-001 8.4e-004 -7.08 0.0 140 490 217 583 0.28571 3.5e-006 244 3 M6323_1.02 KLF3 HRCYWGGGTGKGGCT 2.3e-001 3.1e-004 -8.08 0.0 106 486 173 571 0.21811 1.3e-006 242 3 M6324_1.02 KLF4 DGGGYGKGGC 1.5e-001 2.0e-004 -8.52 0.0 155 491 240 585 0.31568 8.1e-007 245 3 M6350_1.02 MYB CMGTTRD 1.9e-002 2.6e-005 -10.56 0.0 60 494 108 537 0.12146 1.1e-007 246 3 M6353_1.02 MYF6 GCAGSTG 4.3e0000 5.8e-003 -5.14 0.0 206 494 295 588 0.41700 2.4e-005 246 3 M6354_1.02 MYOD1 RACAGSTGS 5.8e0000 7.8e-003 -4.85 0.0 28 492 59 591 0.05691 3.2e-005 245 3 M6355_1.02 MYOG YRACAGCTGCWGC 4.0e-001 5.4e-004 -7.53 0.0 150 488 219 547 0.30738 2.2e-006 243 3 M6358_1.02 NEUROD1 SGGCAGRTGKSC 2.2e0000 2.9e-003 -5.84 0.0 111 489 175 574 0.22699 1.2e-005 244 3 M6373_1.02 NFYC YAGCCAATSAGVGS 2.6e-002 3.5e-005 -10.25 0.0 167 487 254 567 0.34292 1.5e-007 243 3 M6456_1.02 RREB1 DKGKKKGKGGKTGKTTKGGGKT 5.6e-003 7.5e-006 -11.79 0.0 67 479 112 481 0.13987 3.2e-008 239 3 M6468_1.02 SNAI1 SCAGGTGK 3.2e-002 4.3e-005 -10.06 0.0 175 493 270 589 0.35497 1.7e-007 246 3 M6486_1.02 SPZ1 CGGCKGWWACMBYGGG 1.1e-001 1.5e-004 -8.79 0.0 41 485 80 537 0.08454 6.3e-007 242 3 M6500_1.02 TAL1 GACCATCTGTTS 4.0e0000 5.4e-003 -5.22 0.0 23 489 38 392 0.04703 2.2e-005 244 3 M6514_1.02 TFCP2 SCCWGMNCDSRCCRGA 6.1e-003 8.3e-006 -11.70 0.0 99 485 177 591 0.20412 3.4e-008 242 3 M6516_1.02 TCF3 GRVCATCTGKT 5.6e-002 7.5e-005 -9.49 0.0 22 490 55 577 0.04490 3.1e-007 244 3 M6527_1.02 TWIST1 MCCCAGGTGK 7.1e-003 9.6e-006 -11.55 0.0 173 491 243 518 0.35234 3.9e-008 245 3 M6547_1.02 ZFX SVGSSSSSCAGGCCBVGSC 2.1e-001 2.8e-004 -8.19 0.0 196 482 269 528 0.40664 1.2e-006 240 ## # 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).