# 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 VWGCAACAGGTGG MEME-1 VWGCAACAGGTGG 1.1e-288 1.5e-291 -669.67 0.0 78 488 502 598 0.15984 6.0e-294 243 1 TGGTCTAGYGGTRAYGCCAGCRTCTGGGAAG MEME-2 TGGTCTAGYGGTRAYGCCAGCRTCTGGGAAG 1.9e0000 2.6e-003 -5.97 0.0 70 470 6 6 0.14894 1.1e-005 234 1 GACCDTGGTCTAGCRGTAGCGTCAGTGTCAA MEME-3 GACCDTGGTCTAGCRGTAGCGTCAGTGTCAA 2.2e0000 3.0e-003 -5.80 0.0 72 470 6 6 0.15319 1.3e-005 234 2 ACAVGT DREME-1 ACAGGT 6.2e-179 8.4e-182 -416.94 0.0 69 495 359 511 0.13939 3.4e-184 247 2 CTGTTGCD DREME-2 CTGTTGCT 1.8e-060 2.4e-063 -144.19 0.0 81 493 127 165 0.16430 9.7e-066 246 2 CARCAGG DREME-4 CARCAGG 2.2e-075 3.0e-078 -178.51 0.0 90 494 237 380 0.18219 1.2e-080 246 3 M0177_1.02 (TWIST2)_(Mus_musculus)_(DBD_1.00) NCCATATGTN 4.1e-026 5.5e-029 -65.07 0.0 65 491 168 499 0.13238 2.3e-031 245 3 M0178_1.02 (ASCL2)_(Mus_musculus)_(DBD_0.98) NVCAGCTGBN 2.3e-047 3.1e-050 -113.99 0.0 47 491 189 581 0.09572 1.3e-052 245 3 M0189_1.02 (ID2)_(Mus_musculus)_(DBD_0.98) RCACGTGR 3.6e-029 4.9e-032 -72.10 0.0 45 493 150 551 0.09128 2.0e-034 246 3 M0195_1.02 (TCF23)_(Mus_musculus)_(DBD_0.60) DMCAKMTGKH 4.9e-016 6.6e-019 -41.87 0.0 45 491 126 558 0.09165 2.7e-021 245 3 M0196_1.02 (NPAS2)_(Mus_musculus)_(DBD_1.00) NSCACGTGTN 8.6e-050 1.2e-052 -119.59 0.0 69 491 226 546 0.14053 4.7e-055 245 3 M0199_1.02 (HES2)_(Mus_musculus)_(DBD_0.83) NNNNGRCACGTGM 4.6e-010 6.2e-013 -28.11 0.0 50 488 126 589 0.10246 2.5e-015 243 3 M0211_1.02 (MLXIP)_(Mus_musculus)_(DBD_0.82) BCACGTGK 4.2e-052 5.7e-055 -124.90 0.0 45 493 186 553 0.09128 2.3e-057 246 3 M0214_1.02 (TCF21)_(Mus_musculus)_(DBD_1.00) AACAKMTGK 3.7e-014 5.0e-017 -37.53 0.0 54 492 123 479 0.10976 2.1e-019 245 3 M0216_1.02 (NHLH2)_(Mus_musculus)_(DBD_1.00) NGCAGCTGYN 2.0e-012 2.7e-015 -33.56 0.0 95 491 202 589 0.19348 1.1e-017 245 3 M0305_1.02 (CREB3L2)_(Mus_musculus)_(DBD_1.00) GCCACGTGD 8.3e-016 1.1e-018 -41.33 0.0 68 492 144 467 0.13821 4.6e-021 245 3 M1528_1.02 (RFX6)_(Mus_musculus)_(DBD_0.66) VCNTRGYWAC 1.3e-002 1.8e-005 -10.93 0.0 69 491 130 584 0.14053 7.3e-008 245 3 M1529_1.02 (RFX7)_(Mus_musculus)_(DBD_1.00) VCNTRGCAAC 1.0e-006 1.4e-009 -20.39 0.0 89 491 174 584 0.18126 5.7e-012 245 3 M1889_1.02 MAX RRGCACATGK 6.3e-011 8.5e-014 -30.09 0.0 97 491 185 530 0.19756 3.5e-016 245 3 M1917_1.02 USF1 GGTCACRTGRB 5.0e-002 6.8e-005 -9.60 0.0 86 490 132 493 0.17551 2.8e-007 244 3 M1926_1.02 ZEB1 CAGGTGWGB 1.5e-027 2.0e-030 -68.38 0.0 68 492 195 586 0.13821 8.2e-033 245 3 M1927_1.02 (MYCL1)_(Mus_musculus)_(DBD_0.66) RCCACGTG 1.0e-021 1.4e-024 -54.94 0.0 53 493 146 526 0.10751 5.6e-027 246 3 M2264_1.02 (ATOH1)_(Mus_musculus)_(DBD_1.00) RCCAKCTG 1.4e-001 1.8e-004 -8.60 0.0 123 493 199 587 0.24949 7.5e-007 246 3 M2299_1.02 (MYF5)_(Mus_musculus)_(DBD_0.90) NRNRRCAGCTGSN 2.7e-067 3.6e-070 -159.89 0.0 68 488 264 593 0.13934 1.5e-072 243 3 M2391_1.02 KLF5 DGGGHGGGGC 9.2e0000 1.2e-002 -4.39 0.0 363 491 470 581 0.73931 5.1e-005 245 3 M2392_1.02 RFX2 GTYKCCATGGCAACVRVNN 3.0e-002 4.0e-005 -10.13 0.0 64 482 97 436 0.13278 1.7e-007 240 3 M4344_1.02 (ARID2)_(Saccharomyces_cerevisiae)_(DBD_0.26) SGTTGCYA 5.0e-023 6.8e-026 -57.95 0.0 63 493 173 567 0.12779 2.8e-028 246 3 M4427_1.02 CTCF NYGGCCASCAGRKGGCRSYVB 8.1e-007 1.1e-009 -20.63 0.0 150 480 232 506 0.31250 4.6e-012 239 3 M4476_1.02 RFX5 TCABYWGTTGCYRGG 3.8e-024 5.2e-027 -60.53 0.0 64 486 180 576 0.13169 2.1e-029 242 3 M4479_1.02 TCF12 VSAGCAGSTGB 1.3e-054 1.7e-057 -130.71 0.0 60 490 228 587 0.12245 7.0e-060 244 3 M4532_1.02 MYC CCACGTGSYY 6.6e-008 8.9e-011 -23.14 0.0 49 491 112 553 0.09980 3.6e-013 245 3 M4543_1.02 MXI1 VVVVCCACGTG 2.3e-025 3.1e-028 -63.34 0.0 50 490 152 548 0.10204 1.3e-030 244 3 M4553_1.02 BHLHE40 NGKCACGTGC 1.6e-007 2.2e-010 -22.24 0.0 67 491 134 533 0.13646 8.9e-013 245 3 M4612_1.02 CTCFL CCRSCAGGGGGCGCY 8.6e-006 1.2e-008 -18.27 0.0 162 486 244 517 0.33333 4.8e-011 242 3 M4680_1.02 BACH1 GTCACGTG 2.0e-004 2.7e-007 -15.14 0.0 69 493 125 526 0.13996 1.1e-009 246 3 M4850_1.02 (TCF15)_(Drosophila_melanogaster)_(DBD_0.70) TKTWRTNKBBDYDMCATSTGK 6.7e0000 9.0e-003 -4.71 0.0 60 480 102 549 0.12500 3.8e-005 239 3 M4971_1.02 (FERD3L)_(Drosophila_melanogaster)_(DBD_0.89) GTVACAGVTG 3.6e-065 4.9e-068 -154.99 0.0 73 491 270 594 0.14868 2.0e-070 245 3 M5116_1.02 (ATOH8)_(Drosophila_melanogaster)_(DBD_0.70) RCCACCTGK 1.4e-066 1.9e-069 -158.22 0.0 58 492 242 591 0.11789 7.9e-072 245 3 M5292_1.02 ATF4 GKATGAYGCAATM 1.1e-004 1.5e-007 -15.68 0.0 74 488 109 403 0.15164 6.4e-010 243 3 M5321_1.02 CLOCK AACACGTGTH 2.9e-061 4.0e-064 -145.99 0.0 45 491 191 514 0.09165 1.6e-066 245 3 M5430_1.02 FIGLA WMCACCTGKW 3.7e-092 5.1e-095 -217.12 0.0 65 491 291 594 0.13238 2.1e-097 245 3 M5471_1.02 FOXO6 GTAAACATGTTTAC 2.3e-001 3.1e-004 -8.08 0.0 57 487 48 202 0.11704 1.3e-006 243 3 M5497_1.02 GRHL1 AACCGGTYTAACCGGTT 2.0e-013 2.7e-016 -35.84 0.0 62 484 107 346 0.12810 1.1e-018 241 3 M5504_1.02 HES5 YGGCACGTGYCR 1.2e-002 1.6e-005 -11.05 0.0 43 489 50 251 0.08793 6.5e-008 244 3 M5509_1.02 HEY1 GRCACGTGBC 3.6e-023 4.9e-026 -58.28 0.0 43 491 128 500 0.08758 2.0e-028 245 3 M5571_1.02 ID4 DVCAGGTGYN 5.2e-068 7.0e-071 -161.54 0.0 71 491 270 594 0.14460 2.9e-073 245 3 M5627_1.02 MESP1 NVCAGGTGYD 1.2e-064 1.7e-067 -153.75 0.0 67 491 259 598 0.13646 6.9e-070 245 3 M5628_1.02 MGA AGGTGTGA 1.5e0000 2.1e-003 -6.19 0.0 135 493 204 571 0.27383 8.4e-006 246 3 M5632_1.02 MLX RTCACGTGAT 4.3e-001 5.8e-004 -7.45 0.0 67 491 80 351 0.13646 2.4e-006 245 3 M5634_1.02 MNT VVCACGTGVH 1.9e-041 2.6e-044 -100.36 0.0 45 491 170 550 0.09165 1.1e-046 245 3 M5636_1.02 MSC AACAGCTGTT 2.9e-075 3.9e-078 -178.23 0.0 57 491 234 522 0.11609 1.6e-080 245 3 M5652_1.02 NEUROD2 RMCATATGBY 3.7e-003 5.0e-006 -12.21 0.0 45 491 82 474 0.09165 2.0e-008 245 3 M5653_1.02 NEUROG2 RRCATATGTY 5.3e-006 7.2e-009 -18.75 0.0 45 491 76 370 0.09165 2.9e-011 245 3 M5722_1.02 PKNOX2 TGACACCTGTCA 2.4e-003 3.3e-006 -12.64 0.0 65 489 71 272 0.13292 1.3e-008 244 3 M5804_1.02 SCRT1 RWGCAACAGGTGGBH 1.2e-275 1.6e-278 -639.66 0.0 72 486 479 594 0.14815 6.5e-281 242 3 M5805_1.02 SCRT2 RWGCAACAGGTGS 4.1e-272 5.6e-275 -631.50 0.0 80 488 491 592 0.16393 2.3e-277 243 3 M5896_1.02 TBX4 AGGTGTGA 1.1e-001 1.5e-004 -8.80 0.0 93 493 158 580 0.18864 6.1e-007 246 3 M5932_1.02 TFEC VTCAYGTGAY 1.2e-015 1.6e-018 -40.96 0.0 69 491 162 548 0.14053 6.6e-021 245 3 M5934_1.02 TGIF2 TGACASCTGTCA 2.1e-003 2.9e-006 -12.76 0.0 43 489 61 323 0.08793 1.2e-008 244 3 M5935_1.02 TGIF2LX TGACASCTGTCA 6.8e-005 9.2e-008 -16.21 0.0 65 489 76 277 0.13292 3.8e-010 244 3 M5965_1.02 ZIC4 DCDCMGCGGGGGGYC 6.9e-029 9.3e-032 -71.45 0.0 50 486 161 558 0.10288 3.8e-034 242 3 M6161_1.02 BHLHE41 WSVRKSYCACGTGMHGRRRV 1.7e0000 2.3e-003 -6.07 0.0 89 481 136 519 0.18503 9.6e-006 240 3 M6162_1.02 ARNTL GRGTCACGTGTYCM 3.3e-005 4.5e-008 -16.92 0.0 65 487 96 374 0.13347 1.8e-010 243 3 M6191_1.02 E2F2 GGCGCGAAAC 2.2e0000 3.0e-003 -5.80 0.0 13 491 30 470 0.02648 1.2e-005 245 3 M6210_1.02 ENO1 YDSMCACRTGSYB 2.1e-001 2.9e-004 -8.15 0.0 122 488 196 579 0.25000 1.2e-006 243 3 M6259_1.02 GCM1 HWNATGCKGGYMBB 3.8e0000 5.1e-003 -5.28 0.0 107 487 164 556 0.21971 2.1e-005 243 3 M6270_1.02 NHLH1 RRGGMCGCAGCTGMKMCCCV 9.5e-002 1.3e-004 -8.96 0.0 347 481 358 435 0.72141 5.3e-007 240 3 M6274_1.02 HIC1 GGGKTGCCC 1.1e-001 1.4e-004 -8.86 0.0 26 492 59 563 0.05285 5.8e-007 245 3 M6316_1.02 TCF4 VCAGGTGCD 4.5e-046 6.1e-049 -111.02 0.0 66 492 224 582 0.13415 2.5e-051 245 3 M6344_1.02 MEIS2 KGACAVCTGTCAA 4.0e-001 5.4e-004 -7.52 0.0 52 488 81 449 0.10656 2.2e-006 243 3 M6345_1.02 MITF VKCACATGWY 9.4e-031 1.3e-033 -75.74 0.0 57 491 178 568 0.11609 5.2e-036 245 3 M6346_1.02 MLXIPL VCACGVSGKKGBCMCRTGC 4.1e-001 5.6e-004 -7.49 0.0 182 482 197 401 0.37759 2.3e-006 240 3 M6348_1.02 MTF1 MGKGCCGTGYGCAAARS 9.9e0000 1.3e-002 -4.31 0.0 98 484 115 405 0.20248 5.6e-005 241 3 M6349_1.02 MYBL2 WYAACCKSBA 5.4e-001 7.3e-004 -7.22 0.0 79 491 137 583 0.16090 3.0e-006 245 3 M6352_1.02 MYCN CCACGTGS 1.0e-009 1.4e-012 -27.29 0.0 45 493 110 547 0.09128 5.7e-015 246 3 M6353_1.02 MYF6 GCAGSTG 1.4e-032 1.9e-035 -79.92 0.0 106 494 266 588 0.21457 7.9e-038 246 3 M6354_1.02 MYOD1 RACAGSTGS 1.1e-068 1.5e-071 -163.06 0.0 70 492 269 595 0.14228 6.2e-074 245 3 M6355_1.02 MYOG YRACAGCTGCWGC 5.7e-050 7.7e-053 -120.00 0.0 70 488 237 578 0.14344 3.2e-055 243 3 M6358_1.02 NEUROD1 SGGCAGRTGKSC 2.1e-042 2.8e-045 -102.59 0.0 61 489 210 587 0.12474 1.1e-047 244 3 M6376_1.02 NKX2-5 TYAAGTG 4.6e0000 6.2e-003 -5.09 0.0 62 494 107 575 0.12551 2.5e-005 246 3 M6389_1.02 NR2C1 VTGACCTCYBRSC 2.1e-002 2.9e-005 -10.46 0.0 44 488 89 558 0.09016 1.2e-007 243 3 M6446_1.02 RARG BTGACCTBYNGBYGAMCYCC 8.7e0000 1.2e-002 -4.44 0.0 35 481 68 570 0.07277 4.9e-005 240 3 M6451_1.02 RFX1 GTTGCYAGGSRA 5.9e-006 8.0e-009 -18.65 0.0 101 489 183 562 0.20654 3.3e-011 244 3 M6468_1.02 SNAI1 SCAGGTGK 1.5e-043 2.1e-046 -105.19 0.0 45 493 180 590 0.09128 8.5e-049 246 3 M6469_1.02 SNAI2 BCAGGTG 7.4e-023 1.0e-025 -57.57 0.0 106 494 247 597 0.21457 4.0e-028 246 3 M6500_1.02 TAL1 GACCATCTGTTS 5.7e-023 7.6e-026 -57.83 0.0 45 489 126 470 0.09202 3.1e-028 244 3 M6505_1.02 TBX5 AGGTGTGA 5.6e-007 7.6e-010 -20.99 0.0 107 493 202 592 0.21704 3.1e-012 246 3 M6513_1.02 TFAP4 RYCAGCTGYGG 1.3e-023 1.7e-026 -59.32 0.0 106 490 238 558 0.21633 7.1e-029 244 3 M6516_1.02 TCF3 GRVCATCTGKT 3.3e-040 4.4e-043 -97.52 0.0 78 490 238 592 0.15918 1.8e-045 244 3 M6517_1.02 TFE3 RGTCAYGTGV 1.9e-008 2.5e-011 -24.40 0.0 43 491 107 576 0.08758 1.0e-013 245 3 M6518_1.02 TFEB RGTCACGTG 4.1e0000 5.5e-003 -5.20 0.0 68 492 74 334 0.13821 2.3e-005 245 3 M6527_1.02 TWIST1 MCCCAGGTGK 1.2e-012 1.6e-015 -34.07 0.0 47 491 118 533 0.09572 6.5e-018 245 3 M6554_1.02 ZNF238 TCCAGATGTTBVSS 4.8e-001 6.4e-004 -7.35 0.0 75 487 105 441 0.15400 2.6e-006 243 ## # 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).