# 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 ATTTATTGAGCRCCTACTG MEME-1 ATTTATTGAGCRCCTACTG 1.1e-051 1.5e-054 -123.97 0.0 72 482 155 274 0.14938 6.0e-057 240 1 ACACACACACACACACACACACACACACAC MEME-2 ACACACACACACACACACACACACACACAC 1.8e-001 2.4e-004 -8.32 0.0 225 471 68 93 0.47771 1.0e-006 235 1 GCCWACTGTWTACA MEME-4 GCCWACTGTWTACA 1.6e-052 2.2e-055 -125.87 0.0 91 487 236 452 0.18686 8.9e-058 243 1 ADMAAGCATTTATTGRGCRCCT MEME-8 ADMAAGCATTTATTGRGCRCCT 1.2e-029 1.6e-032 -73.21 0.0 79 479 100 171 0.16493 6.7e-035 239 1 TTTKRTGTAGWKBWWRTARTRMWBWKTDDDGDTRTTDKGWTWA MEME-9 TTTKRTGTAGWKBWWRTARTRMWBWKTDDDGDTRTTDKGWTWA 1.7e-002 2.3e-005 -10.69 0.0 60 458 9 10 0.13100 1.0e-007 228 1 GTGTGTGYGTGTGTG MEME-10 GTGTGTGYGTGTGTG 7.8e0000 1.0e-002 -4.56 0.0 132 486 97 251 0.27160 4.3e-005 242 2 GTAWACA DREME-1 GTAWACA 2.9e-025 3.9e-028 -63.12 0.0 86 494 97 171 0.17409 1.6e-030 246 2 CATTTATK DREME-2 CATTTATT 2.4e-009 3.2e-012 -26.47 0.0 67 493 61 161 0.13590 1.3e-014 246 2 GCRCCTA DREME-3 GCRCCTA 3.7e-008 5.0e-011 -23.73 0.0 130 494 68 116 0.26316 2.0e-013 246 2 CTGTRTGC DREME-4 CTGTRTGC 5.7e-016 7.6e-019 -41.73 0.0 195 493 102 126 0.39554 3.1e-021 246 2 AGCACTTW DREME-5 AGCACTTW 1.3e-004 1.8e-007 -15.54 0.0 67 493 81 299 0.13590 7.2e-010 246 3 M0198_1.02 (SOHLH2)_(Mus_musculus)_(DBD_0.84) NRYNCGTGCN 6.4e-001 8.5e-004 -7.07 0.0 117 491 181 562 0.23829 3.5e-006 245 3 M0398_1.02 (ZSCAN10)_(Mus_musculus)_(DBD_0.82) NGKRAGTGCNN 2.6e0000 3.5e-003 -5.66 0.0 86 490 142 579 0.17551 1.4e-005 244 3 M0633_1.02 DMRT2 KAATKTATWN 4.6e-003 6.1e-006 -12.00 0.0 47 491 85 478 0.09572 2.5e-008 245 3 M0635_1.02 (DMRTC2)_(Mus_musculus)_(DBD_1.00) NAMATGTATHMWN 3.5e-004 4.6e-007 -14.59 0.0 78 488 135 515 0.15984 1.9e-009 243 3 M0718_1.02 FOXK1 NNRTMAACAH 1.9e-004 2.6e-007 -15.17 0.0 69 491 134 567 0.14053 1.1e-009 245 3 M0719_1.02 FOXG1 RTAAACAW 3.0e-007 4.0e-010 -21.64 0.0 63 493 113 453 0.12779 1.6e-012 246 3 M0736_1.02 (FOXK2)_(Mus_musculus)_(DBD_0.90) RTMAACAA 1.1e-004 1.5e-007 -15.71 0.0 79 493 146 556 0.16024 6.1e-010 246 3 M0737_1.02 (FOXB2)_(Mus_musculus)_(DBD_0.94) WRWGTAAAYA 1.0e-005 1.3e-008 -18.13 0.0 71 491 139 557 0.14460 5.5e-011 245 3 M0747_1.02 (FOXL2)_(Mus_musculus)_(DBD_0.70) WNNRTAAAYA 1.6e-003 2.1e-006 -13.05 0.0 71 491 131 556 0.14460 8.8e-009 245 3 M0756_1.02 (FOXN3)_(Strongylocentrotus_purpuratus)_(DBD_0.44) NNHMACANN 8.5e-004 1.1e-006 -13.69 0.0 78 492 138 540 0.15854 4.6e-009 245 3 M0891_1.02 TLX2 NTAAWNNNNN 2.1e0000 2.8e-003 -5.86 0.0 47 491 65 390 0.09572 1.2e-005 245 3 M0897_1.02 HOXB13 DTTWAYDRBN 4.9e-001 6.5e-004 -7.33 0.0 63 491 105 525 0.12831 2.7e-006 245 3 M0961_1.02 (BARHL1)_(Mus_musculus)_(DBD_1.00) NTAAWYGNN 3.5e-005 4.7e-008 -16.88 0.0 72 492 137 549 0.14634 1.9e-010 245 3 M1034_1.02 (DBX2)_(Mus_musculus)_(DBD_0.93) NHVATNA 1.3e-005 1.7e-008 -17.89 0.0 64 494 68 234 0.12955 6.9e-011 246 3 M1581_1.02 (CIC)_(Mus_musculus)_(DBD_1.00) NNTGCTGACW 1.1e-002 1.5e-005 -11.14 0.0 273 491 375 562 0.55601 6.0e-008 245 3 M1583_1.02 (BBX)_(Mus_musculus)_(DBD_0.99) TTCATTGA 2.3e-001 3.1e-004 -8.09 0.0 103 493 157 530 0.20892 1.2e-006 246 3 M1863_1.02 FOXD1 GTAAACAW 2.2e-009 2.9e-012 -26.55 0.0 65 493 130 500 0.13185 1.2e-014 246 3 M2287_1.02 (HOXC9)_(Mus_musculus)_(DBD_0.98) RGCCATAAATCAB 7.3e0000 9.8e-003 -4.63 0.0 38 488 60 454 0.07787 4.0e-005 243 3 M2385_1.02 FOXP2 RWGTAAACAVR 2.3e-006 3.1e-009 -19.59 0.0 80 490 145 515 0.16327 1.3e-011 244 3 M4567_1.02 FOXA2 NCWRWGTAAACANNN 1.1e-005 1.4e-008 -18.07 0.0 200 486 297 540 0.41152 5.8e-011 242 3 M5294_1.02 BARHL2 NHTAAAYGNY 2.8e-004 3.8e-007 -14.79 0.0 75 491 134 529 0.15275 1.5e-009 245 3 M5300_1.02 BARX1 TAATBGNTWTTTAATBG 1.3e-001 1.8e-004 -8.64 0.0 44 484 64 375 0.09091 7.3e-007 241 3 M5304_1.02 BHLHA15 ACCATATGKT 2.8e0000 3.7e-003 -5.60 0.0 157 491 133 305 0.31976 1.5e-005 245 3 M5308_1.02 BHLHE23 AMCATATGBY 6.5e0000 8.6e-003 -4.75 0.0 163 491 156 359 0.33198 3.5e-005 245 3 M5445_1.02 FOXD2 DRTMAATATTWDYD 9.3e-001 1.2e-003 -6.69 0.0 27 487 50 458 0.05544 5.1e-006 243 3 M5446_1.02 FOXD4L2 GTAAACA 1.1e-011 1.4e-014 -31.88 0.0 66 494 151 568 0.13360 5.8e-017 246 3 M5460_1.02 FOXL1 RTAAACA 5.6e-007 7.5e-010 -21.02 0.0 64 494 129 540 0.12955 3.0e-012 246 3 M5583_1.02 ISL2 YTAAKTGC 2.1e-003 2.8e-006 -12.78 0.0 69 493 130 570 0.13996 1.1e-008 246 3 M5605_1.02 LMX1B TTAATTRN 2.6e0000 3.5e-003 -5.65 0.0 41 493 69 492 0.08316 1.4e-005 246 3 M5637_1.02 MSX1 TAATTGSWWTTTAATTGS 5.7e-004 7.6e-007 -14.10 0.0 63 483 88 361 0.13043 3.1e-009 241 3 M5653_1.02 NEUROG2 RRCATATGTY 1.8e0000 2.5e-003 -6.01 0.0 55 491 67 353 0.11202 1.0e-005 245 3 M5689_1.02 NRL DWWNTGCTGAC 3.1e0000 4.1e-003 -5.49 0.0 232 490 327 583 0.47347 1.7e-005 244 3 M5740_1.02 POU4F1 ATGMATAATTAATG 4.2e-003 5.7e-006 -12.08 0.0 59 487 94 434 0.12115 2.3e-008 243 3 M5743_1.02 POU4F3 RTGMATWATTAATGAV 1.7e-001 2.3e-004 -8.39 0.0 63 485 91 421 0.12990 9.4e-007 242 3 M5973_1.02 ZSCAN16 AGGTGTTCTGTTAACACT 6.7e-002 8.9e-005 -9.32 0.0 65 483 45 155 0.13458 3.7e-007 241 3 M5981_1.02 ZSCAN4 TTTTCAGKGTGTGCA 3.1e-003 4.1e-006 -12.41 0.0 100 486 121 365 0.20576 1.7e-008 242 3 M6114_1.02 FOXA1 WAWGYAAAYA 1.3e-003 1.7e-006 -13.26 0.0 73 491 131 542 0.14868 7.1e-009 245 3 M6235_1.02 FOXC1 CYWAAGTAAACAWHG 2.1e-001 2.7e-004 -8.20 0.0 70 486 101 440 0.14403 1.1e-006 242 3 M6239_1.02 FOXF2 HWADGTAAACA 8.4e-002 1.1e-004 -9.10 0.0 72 490 117 509 0.14694 4.6e-007 244 3 M6241_1.02 FOXJ2 WAAAYAAACA 4.2e-004 5.6e-007 -14.40 0.0 63 491 117 525 0.12831 2.3e-009 245 3 M6269_1.02 HBP1 AYYCATTGA 1.5e-004 1.9e-007 -15.45 0.0 70 492 125 513 0.14228 7.9e-010 245 3 M6275_1.02 HIF1A SBSTACGTGCSB 6.8e0000 9.1e-003 -4.70 0.0 75 489 109 491 0.15337 3.7e-005 244 3 M6326_1.02 KLF8 CAGGGKGTG 9.3e0000 1.2e-002 -4.39 0.0 58 492 97 557 0.11789 5.1e-005 245 3 M6332_1.02 MAF KTGCTGAC 7.2e0000 9.7e-003 -4.64 0.0 273 493 373 587 0.55375 4.0e-005 246 3 M6333_1.02 MAFG MATGACT 6.8e0000 9.1e-003 -4.70 0.0 452 494 534 557 0.91498 3.7e-005 246 3 M6354_1.02 MYOD1 RACAGSTGS 3.1e0000 4.2e-003 -5.48 0.0 74 492 125 581 0.15041 1.7e-005 245 3 M6380_1.02 NOBOX HTAATTRSY 4.5e0000 6.1e-003 -5.10 0.0 62 492 95 500 0.12602 2.5e-005 245 3 M6429_1.02 POU6F1 CATAAWTTATGCR 8.3e0000 1.1e-002 -4.50 0.0 82 488 75 289 0.16803 4.6e-005 243 ## # 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).