# 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 TCAGCACCATGGACAG MEME-1 TCAGCACCATGGACAG 1.3e-305 1.7e-308 -708.65 0.0 71 485 444 489 0.14639 7.1e-311 242 1 GGGMGCTGTCCA MEME-2 GGGMGCTGTCCA 1.9e-286 2.6e-289 -664.49 0.0 51 489 421 549 0.10429 1.1e-291 244 1 GGTGCTGAA MEME-3 GGTGCTGAA 9.7e-195 1.3e-197 -453.35 0.0 76 492 363 462 0.15447 5.3e-200 245 1 CCCYMKVRKGCYGGGTSCYGCCRCCTCYCCC MEME-9 CCCYMKVRKGCYGGGTSCYGCCRCCTCYCCC 9.6e-001 1.3e-003 -6.65 0.0 78 470 19 40 0.16596 5.5e-006 234 2 DCTGTCC DREME-1 GCTGTCC 6.0e-242 8.1e-245 -562.04 0.0 54 494 378 508 0.10931 3.3e-247 246 2 CAGNACC DREME-2 CAGCACC 7.9e-190 1.1e-192 -442.03 0.0 78 494 383 509 0.15789 4.3e-195 246 2 GTGCTGAW DREME-3 GTGCTGAA 9.7e-159 1.3e-161 -370.45 0.0 77 493 331 451 0.15619 5.3e-164 246 3 M0085_1.02 (TFAP2E)_(Mus_musculus)_(DBD_0.99) THGCCYSVGG 7.4e0000 1.0e-002 -4.61 0.0 185 491 263 574 0.37678 4.1e-005 245 3 M0198_1.02 (SOHLH2)_(Mus_musculus)_(DBD_0.84) NRYNCGTGCN 5.3e-007 7.1e-010 -21.07 0.0 59 491 124 548 0.12016 2.9e-012 245 3 M0405_1.02 (KLF7)_(Mus_musculus)_(DBD_1.00) DGGGCGKGGY 1.8e-001 2.4e-004 -8.35 0.0 121 491 197 587 0.24644 9.7e-007 245 3 M0413_1.02 (ZBTB1)_(Mus_musculus)_(DBD_0.99) NDTGCGKGDN 7.0e-002 9.4e-005 -9.27 0.0 137 491 207 547 0.27902 3.8e-007 245 3 M0424_1.02 (SNAI3)_(Mus_musculus)_(DBD_0.75) NNTGACAKNN 1.4e-003 1.8e-006 -13.22 0.0 33 491 80 600 0.06721 7.4e-009 245 3 M0603_1.02 CGBP NNNBCGK 2.1e-002 2.8e-005 -10.47 0.0 32 494 37 221 0.06478 1.2e-007 246 3 M0609_1.02 DNMT1 NNCCGMNNNN 1.8e-008 2.3e-011 -24.47 0.0 113 491 171 441 0.23014 9.6e-014 245 3 M1581_1.02 (CIC)_(Mus_musculus)_(DBD_1.00) NNTGCTGACW 1.5e-053 2.0e-056 -128.27 0.0 81 491 265 589 0.16497 8.0e-059 245 3 M2296_1.02 MAFK MHDASTCAGCAWWWW 1.3e-009 1.8e-012 -27.06 0.0 56 486 125 532 0.11523 7.3e-015 242 3 M2299_1.02 (MYF5)_(Mus_musculus)_(DBD_0.90) NRNRRCAGCTGSN 1.4e-009 1.9e-012 -26.97 0.0 88 488 184 590 0.18033 8.0e-015 243 3 M4427_1.02 CTCF NYGGCCASCAGRKGGCRSYVB 5.6e-005 7.5e-008 -16.40 0.0 106 480 162 465 0.22083 3.2e-010 239 3 M4469_1.02 REST TCCRTGGTGCTGAA 4.7e-266 6.3e-269 -617.56 0.0 67 487 456 582 0.13758 2.6e-271 243 3 M4479_1.02 TCF12 VSAGCAGSTGB 2.9e-002 3.9e-005 -10.15 0.0 82 490 147 583 0.16735 1.6e-007 244 3 M4522_1.02 ELK4 CCGGAAGYGS 3.4e0000 4.6e-003 -5.39 0.0 239 491 325 566 0.48676 1.9e-005 245 3 M4536_1.02 E2F1 VRRVRGVGCGCGCRS 3.1e-005 4.2e-008 -16.98 0.0 136 486 202 489 0.27984 1.7e-010 242 3 M4569_1.02 HSF1 GTCSYGGGTTCGADTCCC 2.3e0000 3.1e-003 -5.78 0.0 55 483 47 215 0.11387 1.3e-005 241 3 M4612_1.02 CTCFL CCRSCAGGGGGCGCY 2.2e-006 2.9e-009 -19.65 0.0 110 486 170 467 0.22634 1.2e-011 242 3 M4698_1.02 HNF4A BTGRMCTTTGVMCYB 2.0e-002 2.7e-005 -10.52 0.0 44 486 90 565 0.09053 1.1e-007 242 3 M5621_1.02 MEIS3 SCTGTCAH 2.7e-016 3.7e-019 -42.45 0.0 53 493 146 595 0.10751 1.5e-021 246 3 M5627_1.02 MESP1 NVCAGGTGYD 7.9e0000 1.1e-002 -4.55 0.0 49 491 91 596 0.09980 4.3e-005 245 3 M5689_1.02 NRL DWWNTGCTGAC 1.1e-015 1.5e-018 -41.04 0.0 70 490 174 596 0.14286 6.1e-021 244 3 M5722_1.02 PKNOX2 TGACACCTGTCA 1.7e0000 2.3e-003 -6.08 0.0 49 489 52 279 0.10020 9.4e-006 244 3 M5934_1.02 TGIF2 TGACASCTGTCA 4.3e-002 5.8e-005 -9.75 0.0 31 489 46 316 0.06339 2.4e-007 244 3 M5935_1.02 TGIF2LX TGACASCTGTCA 6.6e-004 8.8e-007 -13.94 0.0 41 489 55 280 0.08384 3.6e-009 244 3 M6144_1.02 TFAP2B BCCCBCRGGC 1.6e0000 2.1e-003 -6.16 0.0 189 491 269 566 0.38493 8.6e-006 245 3 M6146_1.02 TFAP2D ACGSGCCBCRGGCS 6.1e-002 8.1e-005 -9.42 0.0 187 487 208 411 0.38398 3.3e-007 243 3 M6155_1.02 ATF6 GBGSTGACGTGG 4.2e-001 5.6e-004 -7.48 0.0 79 489 97 381 0.16155 2.3e-006 244 3 M6161_1.02 BHLHE41 WSVRKSYCACGTGMHGRRRV 3.0e-010 4.0e-013 -28.55 0.0 75 481 154 523 0.15593 1.7e-015 240 3 M6185_1.02 CXXC1 CGKTGKY 1.6e-016 2.2e-019 -42.97 0.0 38 494 116 574 0.07692 8.9e-022 246 3 M6192_1.02 E2F3 SSCGCSAAAC 5.6e0000 7.5e-003 -4.90 0.0 75 491 96 421 0.15275 3.1e-005 245 3 M6208_1.02 ELK3 VMCHGGAARTSC 1.0e0001 1.3e-002 -4.31 0.0 221 489 281 523 0.45194 5.5e-005 244 3 M6215_1.02 ESRRB TGACCTTGR 5.3e-005 7.2e-008 -16.45 0.0 94 492 170 566 0.19106 2.9e-010 245 3 M6316_1.02 TCF4 VCAGGTGCD 3.1e-003 4.1e-006 -12.41 0.0 84 492 150 566 0.17073 1.7e-008 245 3 M6330_1.02 MAFA STGCTGACBMYGCARYHTYCV 1.4e-008 1.8e-011 -24.72 0.0 64 480 147 593 0.13333 7.7e-014 239 3 M6331_1.02 MAFB WGCTGACDS 7.1e-026 9.5e-029 -64.52 0.0 72 492 201 599 0.14634 3.9e-031 245 3 M6332_1.02 MAF KTGCTGAC 1.0e-072 1.4e-075 -172.38 0.0 81 493 297 599 0.16430 5.6e-078 246 3 M6337_1.02 MBD2 SSGKCCGGMGR 2.9e-004 3.9e-007 -14.75 0.0 144 490 192 451 0.29388 1.6e-009 244 3 M6339_1.02 MECP2 YYCCGGS 7.0e0000 9.3e-003 -4.67 0.0 128 494 182 541 0.25911 3.8e-005 246 3 M6353_1.02 MYF6 GCAGSTG 1.6e-002 2.1e-005 -10.78 0.0 88 494 156 588 0.17814 8.5e-008 246 3 M6354_1.02 MYOD1 RACAGSTGS 4.2e-003 5.6e-006 -12.09 0.0 88 492 161 594 0.17886 2.3e-008 245 3 M6355_1.02 MYOG YRACAGCTGCWGC 1.8e-009 2.4e-012 -26.76 0.0 102 488 199 571 0.20902 9.9e-015 243 3 M6358_1.02 NEUROD1 SGGCAGRTGKSC 9.9e-001 1.3e-003 -6.62 0.0 95 489 158 583 0.19427 5.4e-006 244 3 M6366_1.02 NFAT5 MAKGRANTTTTCCRS 4.1e0000 5.5e-003 -5.21 0.0 34 486 61 502 0.06996 2.3e-005 242 3 M6396_1.02 NR5A2 TRRCCTTGRV 3.5e-009 4.7e-012 -26.08 0.0 73 491 159 588 0.14868 1.9e-014 245 3 M6432_1.02 PPARD TGACCTTTVNCCTR 3.8e-025 5.1e-028 -62.84 0.0 33 487 125 584 0.06776 2.1e-030 243 3 M6448_1.02 RELB RGGGRMTTTCCM 2.4e-015 3.2e-018 -40.28 0.0 45 489 130 590 0.09202 1.3e-020 244 3 M6498_1.02 NR5A1 TGRCCTTGR 8.5e-013 1.1e-015 -34.41 0.0 62 492 153 593 0.12602 4.6e-018 245 3 M6513_1.02 TFAP4 RYCAGCTGYGG 8.9e-010 1.2e-012 -27.45 0.0 78 490 159 544 0.15918 4.9e-015 244 3 M6542_1.02 ZBTB6 VGRTGATRGAGCC 7.0e0000 9.4e-003 -4.67 0.0 68 488 108 533 0.13934 3.9e-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).