# 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 TRAAMCCATCWGGGCCTGGW MEME-1 TRAAMCCATCWGGGCCTGGW 5.0e-041 6.7e-044 -99.42 0.0 83 481 116 176 0.17256 2.8e-046 240 1 CTGGTGAATTCTACCAAACATT MEME-2 CTGGTGAATTCTACCAAACATT 1.3e-020 1.8e-023 -52.39 0.0 69 479 45 60 0.14405 7.4e-026 239 1 GCTTTYTKTTTTGGAAGRTTWT MEME-3 GCTTTYTKTTTTGGAAGRTTWT 1.2e-001 1.6e-004 -8.71 0.0 103 479 40 89 0.21503 6.9e-007 239 1 RTGACTCAB MEME-4 RTGACTCAB 1.0e-016 1.4e-019 -43.43 0.0 140 492 112 176 0.28455 5.6e-022 245 1 TATTGAGTGCACTCAGACCCAGYGGATTAACA MEME-6 TATTGAGTGCACTCAGACCCAGYGGATTAACA 1.4e-002 1.9e-005 -10.86 0.0 61 469 8 8 0.13006 8.2e-008 234 1 RRTGAYGTCAT MEME-7 RRTGAYGTCAT 1.7e-007 2.3e-010 -22.20 0.0 178 490 160 279 0.36327 9.3e-013 244 1 AWTWYATCYYTTATSTWCAWYYAYATWWKAYRGACASTMYM MEME-8 AWTWYATCYYTTATSTWCAWYYAYATWWKAYRGACASTMYM 1.7e-004 2.3e-007 -15.29 0.0 46 460 10 11 0.10000 1.0e-009 229 1 GTYYGNCTHMBAABCRRAAGGTYSYGGGTTCGADHCC MEME-9 GTYYGNCTHMBAABCRRAAGGTYSYGGGTTCGADHCC 9.6e-002 1.3e-004 -8.96 0.0 128 464 17 21 0.27586 5.6e-007 231 1 CYTGGCASHRTGCCAG MEME-10 CYTGGCASHRTGCCAG 3.4e-001 4.5e-004 -7.70 0.0 103 485 59 155 0.21237 1.9e-006 242 2 RTGACTCA DREME-1 RTGACTCA 1.4e-013 1.9e-016 -36.20 0.0 141 493 79 116 0.28600 7.7e-019 246 2 CAGGYCC DREME-2 CAGGCCC 3.1e-005 4.1e-008 -17.00 0.0 48 494 44 158 0.09717 1.7e-010 246 2 TGACNTCA DREME-3 TGACATCA 3.5e-004 4.7e-007 -14.56 0.0 141 493 68 126 0.28600 1.9e-009 246 2 GTTTTAY DREME-4 GTTTTAY 1.3e-006 1.8e-009 -20.13 0.0 52 494 35 93 0.10526 7.3e-012 246 3 M0300_1.02 (ATF2)_(Mus_musculus)_(DBD_1.00) NRTKACGTMA 9.7e-002 1.3e-004 -8.95 0.0 69 491 119 542 0.14053 5.3e-007 245 3 M0415_1.02 (KLF9)_(Mus_musculus)_(DBD_1.00) VTAACGGN 4.9e-001 6.5e-004 -7.34 0.0 27 493 53 495 0.05477 2.6e-006 246 3 M0610_1.02 TET1 NNYRCGYWN 2.9e-002 3.9e-005 -10.16 0.0 116 492 132 372 0.23577 1.6e-007 245 3 M1838_1.02 TFAP2A NHYDGCCYSAGGGCA 6.3e-001 8.5e-004 -7.08 0.0 16 486 38 508 0.03292 3.5e-006 242 3 M2264_1.02 (ATOH1)_(Mus_musculus)_(DBD_1.00) RCCAKCTG 9.3e-004 1.2e-006 -13.60 0.0 47 493 95 544 0.09533 5.1e-009 246 3 M2278_1.02 FOS DVTGASTCATB 7.6e-004 1.0e-006 -13.80 0.0 182 490 228 450 0.37143 4.2e-009 244 3 M2289_1.02 JUN DDRATGATGTMAT 4.3e-005 5.7e-008 -16.68 0.0 214 488 259 441 0.43852 2.4e-010 243 3 M2292_1.02 JUND DRTGASTCATS 3.2e-004 4.3e-007 -14.66 0.0 178 490 221 439 0.36327 1.8e-009 244 3 M4522_1.02 ELK4 CCGGAAGYGS 4.9e0000 6.6e-003 -5.02 0.0 321 491 383 519 0.65377 2.7e-005 245 3 M4525_1.02 TFAP2C NGCCYSAGGSCANDB 3.0e-001 4.0e-004 -7.83 0.0 4 486 17 506 0.00823 1.7e-006 242 3 M4526_1.02 SMARCC1 DSRVDGTGASTCABV 2.5e-004 3.4e-007 -14.91 0.0 172 486 230 471 0.35391 1.4e-009 242 3 M4565_1.02 FOSL2 VDGGATGASTCAYH 2.6e-004 3.5e-007 -14.86 0.0 185 487 232 446 0.37988 1.5e-009 243 3 M4619_1.02 FOSL1 BGGTGASTCAK 7.0e-005 9.4e-008 -16.18 0.0 170 490 208 422 0.34694 3.8e-010 244 3 M4623_1.02 JUNB NDRTGASTCATNYHY 4.7e-002 6.3e-005 -9.68 0.0 144 486 182 446 0.29630 2.6e-007 242 3 M4629_1.02 NFE2 VRTGACTCAGCANWWYB 7.8e-002 1.0e-004 -9.17 0.0 154 484 169 384 0.31818 4.3e-007 241 3 M4681_1.02 BACH2 TGCTGAGTCA 1.4e-001 1.8e-004 -8.60 0.0 151 491 177 423 0.30754 7.5e-007 245 3 M5292_1.02 ATF4 GKATGAYGCAATM 5.6e-002 7.5e-005 -9.50 0.0 242 488 257 415 0.49590 3.1e-007 243 3 M5293_1.02 ATF7 NKATGACGTCATHN 4.5e-005 6.0e-008 -16.62 0.0 133 487 115 250 0.27310 2.5e-010 243 3 M5302_1.02 BATF3 TGATGACGTCATCA 1.1e-006 1.5e-009 -20.33 0.0 183 487 98 151 0.37577 6.1e-012 243 3 M5323_1.02 CREB3 KGRTGACGTCAYNV 3.9e-003 5.3e-006 -12.15 0.0 133 487 120 282 0.27310 2.2e-008 243 3 M5493_1.02 GMEB2 KTRCGTAA 2.7e0000 3.6e-003 -5.63 0.0 209 493 215 406 0.42394 1.5e-005 246 3 M5587_1.02 JDP2 ATGASTCAT 6.4e-005 8.5e-008 -16.28 0.0 166 492 201 414 0.33740 3.5e-010 245 3 M5945_1.02 VAX2 YTAATTAN 3.5e0000 4.7e-003 -5.36 0.0 151 493 192 487 0.30629 1.9e-005 246 3 M5998_1.02 (CREB5)_(Mus_musculus)_(DBD_1.00) DRTGACGTCATN 1.1e-006 1.5e-009 -20.32 0.0 133 489 141 311 0.27198 6.2e-012 244 3 M6180_1.02 CREB1 RTGACGTMA 7.0e-003 9.4e-006 -11.58 0.0 58 492 108 543 0.11789 3.8e-008 245 3 M6197_1.02 E4F1 YGTKACGTC 3.5e0000 4.6e-003 -5.37 0.0 102 492 128 439 0.20732 1.9e-005 245 3 M6228_1.02 FOSB CTGACTCAYV 2.3e0000 3.1e-003 -5.79 0.0 149 491 207 530 0.30346 1.3e-005 245 3 M6271_1.02 HES1 KGKCKCGTGBCKB 3.8e-003 5.0e-006 -12.20 0.0 64 488 121 557 0.13115 2.1e-008 243 3 M6290_1.02 HOXA13 CCAATAAWAHC 3.9e0000 5.2e-003 -5.26 0.0 48 490 78 492 0.09796 2.1e-005 244 3 M6331_1.02 MAFB WGCTGACDS 2.3e0000 3.1e-003 -5.78 0.0 204 492 298 594 0.41463 1.3e-005 245 3 M6332_1.02 MAF KTGCTGAC 8.1e0000 1.1e-002 -4.53 0.0 261 493 360 590 0.52941 4.4e-005 246 3 M6333_1.02 MAFG MATGACT 8.6e-001 1.2e-003 -6.77 0.0 66 494 113 561 0.13360 4.7e-006 246 3 M6339_1.02 MECP2 YYCCGGS 5.6e-003 7.4e-006 -11.81 0.0 92 494 141 490 0.18623 3.0e-008 246 3 M6359_1.02 NFE2L1 NATGACD 7.6e-001 1.0e-003 -6.89 0.0 206 494 287 562 0.41700 4.1e-006 246 3 M6360_1.02 NFE2L2 VRTGACTCAGCA 1.9e-002 2.6e-005 -10.57 0.0 149 489 229 559 0.30470 1.1e-007 244 3 M6410_1.02 PAX6 TSAWGCGTRAA 2.0e0000 2.6e-003 -5.93 0.0 46 490 83 546 0.09388 1.1e-005 244 3 M6516_1.02 TCF3 RRVCATCTGKT 1.4e0000 1.8e-003 -6.30 0.0 32 490 66 575 0.06531 7.5e-006 244 3 M6547_1.02 ZFX SVGSSSSSCAGGCCBVGSC 6.0e-002 8.1e-005 -9.42 0.0 28 482 56 471 0.05809 3.4e-007 240 ## # 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).