# 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 GGCAAGTYRCTTAACCTCTCT MEME-1 GGCAAGTYRCTTAACCTCTCT 5.0e-153 6.7e-156 -357.30 0.0 72 480 306 415 0.15000 2.8e-158 239 1 AGGTCACACAGC MEME-2 AGGTCACACAGC 1.2e-161 1.6e-164 -377.13 0.0 107 489 407 516 0.21881 6.7e-167 244 1 TTTACAGATGAGGAAACTGA MEME-3 TTTACAGATGAGGAAACTGA 2.8e-029 3.8e-032 -72.34 0.0 133 481 223 389 0.27651 1.6e-034 240 2 CAGAGARG DREME-1 CAGAGAGG 3.5e-127 4.6e-130 -297.80 0.0 101 493 305 388 0.20487 1.9e-132 246 2 CACACAGC DREME-2 CACACAGC 8.0e-124 1.1e-126 -290.05 0.0 103 493 283 346 0.20892 4.4e-129 246 2 ACCTTRG DREME-3 ACCTTGG 6.0e-020 8.1e-023 -50.87 0.0 106 494 90 148 0.21457 3.3e-025 246 2 AAGTNAC DREME-4 AAGTBAC 5.9e-029 7.9e-032 -71.61 0.0 88 494 108 187 0.17814 3.2e-034 246 2 TCTGYAAA DREME-5 TCTGTAAA 2.1e-008 2.8e-011 -24.30 0.0 129 493 119 248 0.26166 1.1e-013 246 2 ACYGAGGC DREME-6 ACTGAGGC 2.8e-003 3.8e-006 -12.48 0.0 103 493 42 86 0.20892 1.5e-008 246 2 GCACAGM DREME-7 GCACAGM 1.5e-027 2.0e-030 -68.38 0.0 82 494 129 270 0.16599 8.2e-033 246 2 GAGGAAA DREME-8 GAGGAAA 3.8e0000 5.1e-003 -5.29 0.0 144 494 53 111 0.29150 2.1e-005 246 3 M0085_1.02 (TFAP2E)_(Mus_musculus)_(DBD_0.99) THGCCYSVGG 2.9e-009 3.9e-012 -26.27 0.0 49 491 120 580 0.09980 1.6e-014 245 3 M0199_1.02 (HES2)_(Mus_musculus)_(DBD_0.83) NNNNGRCACGTGM 1.9e0000 2.6e-003 -5.96 0.0 16 488 40 573 0.03279 1.1e-005 243 3 M0216_1.02 (NHLH2)_(Mus_musculus)_(DBD_1.00) NGCAGCTGYN 4.6e-002 6.1e-005 -9.70 0.0 129 491 207 578 0.26273 2.5e-007 245 3 M1432_1.02 NR2E1 NYTGACCTCD 9.1e-031 1.2e-033 -75.78 0.0 97 491 239 554 0.19756 5.0e-036 245 3 M1458_1.02 (RORB)_(Tetraodon_nigroviridis)_(DBD_1.00) NNTGACCTCN 8.8e-033 1.2e-035 -80.42 0.0 97 491 244 558 0.19756 4.8e-038 245 3 M1628_1.02 (TBX10)_(Mus_musculus)_(DBD_0.87) AGGTGTGAANN 3.2e-013 4.2e-016 -35.40 0.0 132 490 245 555 0.26939 1.7e-018 244 3 M1838_1.02 TFAP2A NHYDGCCYSAGGGCA 6.0e-010 8.0e-013 -27.85 0.0 42 486 108 563 0.08642 3.3e-015 242 3 M1841_1.02 AR GNACABNVTGTTCYY 9.0e-006 1.2e-008 -18.23 0.0 64 486 131 562 0.13169 5.0e-011 242 3 M1925_1.02 CEBPA DRTTRTGCAAT 3.9e-001 5.2e-004 -7.56 0.0 72 490 109 478 0.14694 2.1e-006 244 3 M2065_1.02 ESR2 RGGKCANBSTGACCT 2.0e-019 2.7e-022 -49.65 0.0 102 486 227 569 0.20988 1.1e-024 242 3 M4438_1.02 ESRRA RGGTCANKSTGACCY 3.5e-003 4.7e-006 -12.27 0.0 102 486 176 569 0.20988 1.9e-008 242 3 M4511_1.02 RXRA TGACCYYW 1.5e-028 2.0e-031 -70.68 0.0 95 493 239 580 0.19270 8.2e-034 246 3 M4525_1.02 TFAP2C NGCCYSAGGSCANDB 2.3e-002 3.1e-005 -10.39 0.0 18 486 48 567 0.03704 1.3e-007 242 3 M4551_1.02 ZNF274 YTCAYACTGGAGAGAAA 6.5e0000 8.7e-003 -4.74 0.0 118 484 85 235 0.24380 3.6e-005 241 3 M4565_1.02 FOSL2 VDGGATGASTCAYH 9.8e-003 1.3e-005 -11.23 0.0 107 487 148 449 0.21971 5.4e-008 243 3 M4569_1.02 HSF1 GTCSYGGGTTCGADTCCC 6.8e-002 9.1e-005 -9.31 0.0 157 483 129 274 0.32505 3.8e-007 241 3 M4572_1.02 MAFF TGCTGACTCAGCAWW 4.1e0000 5.6e-003 -5.19 0.0 36 486 56 421 0.07407 2.3e-005 242 3 M4623_1.02 JUNB NDRTGASTCATNYHY 4.9e0000 6.6e-003 -5.02 0.0 110 486 141 454 0.22634 2.7e-005 242 3 M4629_1.02 NFE2 VRTGACTCAGCANWWYB 5.9e-026 7.9e-029 -64.71 0.0 98 484 203 457 0.20248 3.3e-031 241 3 M4681_1.02 BACH2 TGCTGAGTCA 8.7e-011 1.2e-013 -29.78 0.0 93 491 164 473 0.18941 4.8e-016 245 3 M4698_1.02 HNF4A BTGRMCTTTGVMCYB 5.7e0000 7.7e-003 -4.87 0.0 134 486 196 553 0.27572 3.2e-005 242 3 M4702_1.02 NR2F2 TGACCTTT 4.2e-030 5.6e-033 -74.25 0.0 69 493 203 595 0.13996 2.3e-035 246 3 M5435_1.02 FOXB1 TCGCYGTGTCATTC 3.9e-020 5.2e-023 -51.31 0.0 45 487 122 477 0.09240 2.1e-025 243 3 M5517_1.02 HMBOX1 MYTAGTTAMS 8.0e-002 1.1e-004 -9.14 0.0 89 491 134 493 0.18126 4.4e-007 245 3 M5711_1.02 PAX9 KKCASTCAWGCGTGACS 4.2e0000 5.7e-003 -5.17 0.0 82 484 54 186 0.16942 2.4e-005 241 3 M5889_1.02 TBX21 GGTGTGAHWTCACACC 1.0e-006 1.4e-009 -20.42 0.0 31 485 50 260 0.06392 5.6e-012 242 3 M5998_1.02 (CREB5)_(Mus_musculus)_(DBD_1.00) DRTGACGTCATN 2.1e-002 2.9e-005 -10.47 0.0 51 489 59 279 0.10429 1.2e-007 244 3 M6115_1.02 TP73 CATGYCWGRRCHTGY 8.0e-001 1.1e-003 -6.83 0.0 72 486 123 560 0.14815 4.5e-006 242 3 M6152_1.02 ATF1 VTGACGTCAV 2.0e-001 2.7e-004 -8.20 0.0 53 491 84 456 0.10794 1.1e-006 245 3 M6171_1.02 CEBPD RRTKDBGCAAT 1.5e-001 2.0e-004 -8.54 0.0 22 490 51 542 0.04490 8.1e-007 244 3 M6173_1.02 CEBPG VAGATTGCAHAAT 3.3e-002 4.4e-005 -10.03 0.0 88 488 134 489 0.18033 1.8e-007 243 3 M6176_1.02 NR2F1 TGACCTTTGVMC 7.0e-015 9.4e-018 -39.20 0.0 81 489 185 576 0.16564 3.9e-020 244 3 M6186_1.02 DBP BVTTRCATAAB 1.2e-002 1.6e-005 -11.07 0.0 44 490 84 512 0.08980 6.4e-008 244 3 M6197_1.02 E4F1 YGTKACGTC 2.6e-022 3.5e-025 -56.30 0.0 88 492 188 481 0.17886 1.4e-027 245 3 M6215_1.02 ESRRB TGACCTTGR 7.8e-038 1.0e-040 -92.06 0.0 54 492 183 559 0.10976 4.3e-043 245 3 M6216_1.02 ESRRG TGACCTTGA 6.0e-021 8.0e-024 -53.18 0.0 106 492 221 525 0.21545 3.3e-026 245 3 M6277_1.02 HLF SKRTTACRYAAYC 2.2e-001 3.0e-004 -8.12 0.0 50 488 74 410 0.10246 1.2e-006 243 3 M6333_1.02 MAFG MATGACT 2.7e-001 3.6e-004 -7.93 0.0 70 494 122 570 0.14170 1.5e-006 246 3 M6349_1.02 MYBL2 WYAACCKSBA 2.9e-003 3.8e-006 -12.47 0.0 73 491 137 578 0.14868 1.6e-008 245 3 M6360_1.02 NFE2L2 VRTGACTCAGCA 1.8e-040 2.5e-043 -98.11 0.0 95 489 267 590 0.19427 1.0e-045 244 3 M6368_1.02 NFIL3 VKVMVTTACRTAAY 2.1e-002 2.8e-005 -10.50 0.0 91 487 107 352 0.18686 1.1e-007 243 3 M6384_1.02 NR1H4 AGGTCANTGACCYY 1.1e-022 1.4e-025 -57.21 0.0 65 487 165 515 0.13347 5.9e-028 243 3 M6385_1.02 NR1I2 VTGAMCTYNNTTRACCYHH 1.4e-032 1.9e-035 -79.93 0.0 86 482 222 532 0.17842 8.1e-038 240 3 M6387_1.02 NR1I3 HTGAACTYBBYTGACCYY 8.5e-020 1.1e-022 -50.53 0.0 67 483 167 533 0.13872 4.7e-025 241 3 M6389_1.02 NR2C1 VTGACCTCYBRSC 3.5e-009 4.7e-012 -26.07 0.0 56 488 129 563 0.11475 2.0e-014 243 3 M6393_1.02 NR4A1 BTGACCTTB 3.1e-030 4.1e-033 -74.56 0.0 54 492 170 560 0.10976 1.7e-035 245 3 M6394_1.02 NR4A2 STGACCTTT 6.6e-030 8.9e-033 -73.80 0.0 84 492 224 579 0.17073 3.6e-035 245 3 M6395_1.02 NR4A3 STGACCTTTG 1.8e-029 2.5e-032 -72.78 0.0 31 491 118 508 0.06314 1.0e-034 245 3 M6396_1.02 NR5A2 TRRCCTTGRV 6.6e-015 8.9e-018 -39.26 0.0 67 491 162 573 0.13646 3.6e-020 245 3 M6397_1.02 NR6A1 TGAMCTTGAMCTT 1.0e-003 1.3e-006 -13.52 0.0 90 488 122 402 0.18443 5.5e-009 243 3 M6430_1.02 PPARA TGACCTY 3.8e-036 5.1e-039 -88.17 0.0 54 494 185 588 0.10931 2.1e-041 246 3 M6436_1.02 PGR DACAGRNTGTTCY 2.2e-002 3.0e-005 -10.43 0.0 34 488 75 569 0.06967 1.2e-007 243 3 M6439_1.02 PRRX1 TAAYCTG 2.4e-002 3.2e-005 -10.35 0.0 86 494 141 533 0.17409 1.3e-007 246 3 M6443_1.02 RARA TGACCTB 4.6e-029 6.2e-032 -71.85 0.0 68 494 198 588 0.13765 2.5e-034 246 3 M6445_1.02 RARB BBBBTGACCTS 1.2e-025 1.6e-028 -64.03 0.0 90 490 227 585 0.18367 6.4e-031 244 3 M6446_1.02 RARG BTGACCTBYNGBYGAMCYCC 8.4e-002 1.1e-004 -9.09 0.0 107 481 178 569 0.22245 4.7e-007 240 3 M6454_1.02 RORA TGACCTAVWTWH 3.4e0000 4.6e-003 -5.39 0.0 207 489 217 413 0.42331 1.9e-005 244 3 M6461_1.02 RXRB YSTGACCTSA 2.6e-024 3.6e-027 -60.90 0.0 83 491 215 594 0.16904 1.5e-029 245 3 M6462_1.02 RXRG DTGACCTTTGACC 1.8e-012 2.4e-015 -33.67 0.0 66 488 119 395 0.13525 9.9e-018 243 3 M6463_1.02 SMAD1 RSCCTGTCTGCC 1.4e-007 1.9e-010 -22.37 0.0 53 489 124 595 0.10838 7.9e-013 244 3 M6466_1.02 SMAD4 TGTCTGBCY 1.0e-001 1.4e-004 -8.91 0.0 132 492 214 594 0.26829 5.5e-007 245 3 M6498_1.02 NR5A1 TGRCCTTGR 2.4e-022 3.2e-025 -56.42 0.0 22 492 95 575 0.04472 1.3e-027 245 3 M6521_1.02 THRA STGACCTSAV 6.2e-021 8.3e-024 -53.15 0.0 53 491 154 583 0.10794 3.4e-026 245 3 M6523_1.02 THRB TGACCTSABSTSRSSYC 2.8e0000 3.7e-003 -5.59 0.0 40 484 75 555 0.08264 1.6e-005 241 3 M6529_1.02 UBP1 TYTCTGS 3.5e-008 4.7e-011 -23.78 0.0 78 494 165 597 0.15789 1.9e-013 246 3 M6532_1.02 VDR TGAMCYC 3.5e-016 4.7e-019 -42.20 0.0 56 494 150 593 0.11336 1.9e-021 246 ## # 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).