# 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 TGGGARTTGTAGTYC MEME-1 TGGGARTTGTAGTYC 2.5e-107 3.4e-110 -252.06 0.0 120 486 354 480 0.24691 1.4e-112 242 1 GCRGDGCMTKCTGGGA MEME-2 GCRGDGCMTKCTGGGA 3.5e-112 4.6e-115 -263.27 0.0 129 485 428 595 0.26598 1.9e-117 242 1 GGGAVTTGTAGT MEME-3 GGGAVTTGTAGT 5.6e-097 7.5e-100 -228.24 0.0 133 489 371 507 0.27198 3.1e-102 244 1 GCTGCTTCGCCACGAAGGAGTTCCCGTGCYGTGGGAGCRAGTCCRGGACC MEME-4 GCTGCTTCGCCACGAAGGAGTTCCCGTGCYGTGGGAGCRAGTCCRGGACC 6.1e0000 8.1e-003 -4.81 0.0 35 451 4 4 0.07761 3.6e-005 225 1 TCHGTGGARTCGCGGGCAVTTTGGCTCMRGC MEME-6 TCHGTGGARTCGCGGGCAVTTTGGCTCMRGC 3.3e-001 4.4e-004 -7.72 0.0 70 470 8 9 0.14894 1.9e-006 234 1 KTYTSCCMGCSGCRCCMCRGGTSCKCSCRSCYGCRGAGAM MEME-10 KTYTSCCMGCSGCRCCMCRGGTSCKCSCRSCYGCRGAGAM 1.9e0000 2.5e-003 -5.98 0.0 47 461 5 5 0.10195 1.1e-005 230 2 RACTACR DREME-1 RACTACA 1.3e-074 1.8e-077 -176.73 0.0 142 494 305 414 0.28745 7.2e-080 246 2 MTGGGA DREME-2 CTGGGA 1.6e-035 2.1e-038 -86.75 0.0 137 495 291 523 0.27677 8.6e-041 247 2 TCCCGGCR DREME-3 TCCCGGCR 1.3e-009 1.7e-012 -27.10 0.0 75 493 60 141 0.15213 6.9e-015 246 2 CGCRGWG DREME-4 CGCRGWG 2.7e-011 3.6e-014 -30.96 0.0 184 494 205 347 0.37247 1.5e-016 246 2 TCCCACAR DREME-5 TCCCACAR 4.2e-008 5.6e-011 -23.60 0.0 109 493 50 85 0.22110 2.3e-013 246 2 CGCGGSG DREME-6 CGCGGSG 3.9e-004 5.2e-007 -14.47 0.0 94 494 93 271 0.19028 2.1e-009 246 2 SGGAAA DREME-7 SGGAAA 1.8e-006 2.5e-009 -19.82 0.0 149 495 181 390 0.30101 1.0e-011 247 2 AAKGCA DREME-8 AAKGCA 2.5e-003 3.3e-006 -12.63 0.0 123 495 104 254 0.24848 1.3e-008 247 3 M0212_1.02 (TCFL5)_(Mus_musculus)_(DBD_1.00) NBCDCGHGVN 1.8e0000 2.3e-003 -6.06 0.0 231 491 284 501 0.47047 9.5e-006 245 3 M0432_1.02 (ZFP161)_(Mus_musculus)_(DBD_1.00) NNCGYGCHH 6.1e-003 8.1e-006 -11.72 0.0 178 492 238 493 0.36179 3.3e-008 245 3 M0942_1.02 (IRX4)_(Mus_musculus)_(DBD_1.00) DTGTHNNN 1.2e-001 1.6e-004 -8.75 0.0 113 493 176 549 0.22921 6.5e-007 246 3 M1915_1.02 (ZNF76)_(Xenopus_laevis)_(DBD_0.84) KCRWKGMATBMTGGGARDTV 1.3e-107 1.8e-110 -252.70 0.0 141 481 436 584 0.29314 7.5e-113 240 3 M1929_1.02 TP53 CATGTCTGGRCATGY 7.2e-016 9.5e-019 -41.49 0.0 122 486 191 410 0.25103 3.9e-021 242 3 M1955_1.02 STAT1 TTTCYRGGAAA 5.0e-017 6.6e-020 -44.16 0.0 110 490 223 543 0.22449 2.7e-022 244 3 M1968_1.02 EBF1 TCCCWGGGGRV 3.8e-003 5.0e-006 -12.20 0.0 126 490 207 572 0.25714 2.1e-008 244 3 M2305_1.02 NRF1 YGCGCABGCGC 2.7e-003 3.6e-006 -12.53 0.0 322 490 381 493 0.65714 1.5e-008 244 3 M2310_1.02 RUNX2 MAAACCACARAMMMM 5.5e-002 7.3e-005 -9.52 0.0 152 486 232 560 0.31276 3.0e-007 242 3 M2321_1.02 TP63 NDRCAWGYHCARRCWTGYHY 1.2e-007 1.6e-010 -22.54 0.0 121 481 194 485 0.25156 6.7e-013 240 3 M2323_1.02 ZBTB33 SARVTCTCGCGAGAV 3.1e-002 4.2e-005 -10.08 0.0 124 486 167 459 0.25514 1.7e-007 242 3 M4428_1.02 NR3C1 RGVACAYTSTGTYC 1.1e0000 1.4e-003 -6.56 0.0 87 487 137 534 0.17864 5.8e-006 243 3 M4454_1.02 BRCA1 ARVTCTCGCGAGAVB 3.2e0000 4.3e-003 -5.45 0.0 108 486 112 349 0.22222 1.8e-005 242 3 M4461_1.02 ETS1 GCMTBCTGGGARWTGTAGTYC 7.0e-102 9.3e-105 -239.54 0.0 124 480 371 514 0.25833 3.9e-107 239 3 M4478_1.02 STAT3 SHBVTSAYTTCCRGKAAAYG 6.0e-014 8.0e-017 -37.06 0.0 125 481 227 513 0.25988 3.3e-019 240 3 M4484_1.02 ZNF143 CTGGGARTTGTAGTY 6.3e-093 8.4e-096 -218.92 0.0 126 486 372 537 0.25926 3.5e-098 242 3 M4522_1.02 ELK4 CCGGAAGYGS 3.9e0000 5.2e-003 -5.26 0.0 239 491 337 590 0.48676 2.1e-005 245 3 M4527_1.02 SMARCC2 RRACTACAAYTCCCAGVAKGC 1.9e-105 2.6e-108 -247.73 0.0 124 480 377 518 0.25833 1.1e-110 239 3 M4537_1.02 E2F4 SGCGGGAARWTBVRR 2.4e0000 3.2e-003 -5.75 0.0 284 486 395 590 0.58436 1.3e-005 242 3 M4692_1.02 SIX5 ACTACAAYTC 1.9e-084 2.5e-087 -199.42 0.0 129 491 369 548 0.26273 1.0e-089 245 3 M5303_1.02 BCL6B TGCTTTCTAGGAATTCM 3.3e-001 4.5e-004 -7.72 0.0 110 484 47 109 0.22727 1.8e-006 241 3 M5398_1.02 ERF ACCGGAAGTR 5.4e-002 7.2e-005 -9.54 0.0 349 491 453 563 0.71079 2.9e-007 245 3 M5420_1.02 ETV1 ACCGGAAGTD 2.3e0000 3.1e-003 -5.78 0.0 343 491 450 578 0.69857 1.3e-005 245 3 M5422_1.02 ETV3 ACCGGAAGTR 3.3e-001 4.4e-004 -7.73 0.0 257 491 356 573 0.52342 1.8e-006 245 3 M5970_1.02 ZNF282 VTCGTGTTRKGGGAAAG 5.6e0000 7.4e-003 -4.90 0.0 78 484 86 350 0.16116 3.1e-005 241 3 M6115_1.02 TP73 CATGYCWGRRCHTGY 1.5e-002 2.0e-005 -10.81 0.0 120 486 186 533 0.24691 8.4e-008 242 3 M6139_1.02 AHR KCACGCRAH 3.1e-002 4.1e-005 -10.11 0.0 286 492 387 564 0.58130 1.7e-007 245 3 M6151_1.02 ARNT BYRCGTGC 9.6e0000 1.3e-002 -4.36 0.0 317 493 371 512 0.64300 5.2e-005 246 3 M6187_1.02 DDIT3 GGGGATTGCABBB 1.0e0000 1.4e-003 -6.59 0.0 198 488 276 553 0.40574 5.7e-006 243 3 M6192_1.02 E2F3 SSCGCSAAAC 1.7e-002 2.2e-005 -10.71 0.0 327 491 435 567 0.66599 9.1e-008 245 3 M6416_1.02 CBFB YYTGTGGTYDB 1.2e-007 1.6e-010 -22.58 0.0 140 490 249 588 0.28571 6.4e-013 244 3 M6457_1.02 RUNX1 WAACCACARW 1.5e-008 2.0e-011 -24.66 0.0 133 491 241 582 0.27088 8.0e-014 245 3 M6459_1.02 RUNX3 AACCRCAAAMCCCV 1.6e-010 2.2e-013 -29.17 0.0 141 487 248 549 0.28953 8.9e-016 243 3 M6491_1.02 STAT5A YTTCYVRGAAWT 2.8e-014 3.8e-017 -37.82 0.0 111 489 224 565 0.22699 1.5e-019 244 3 M6492_1.02 STAT5B DTTTCYDGGAATT 4.4e-011 5.8e-014 -30.47 0.0 114 488 200 502 0.23361 2.4e-016 243 3 M6496_1.02 STAT4 TTTCCMAGAAAAV 1.5e-003 2.0e-006 -13.12 0.0 116 488 192 557 0.23770 8.2e-009 243 3 M6499_1.02 RBPJ CGTGGGAAM 1.7e-013 2.3e-016 -36.01 0.0 138 492 267 594 0.28049 9.4e-019 245 ## # 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).