# 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 BRCTTCCGGTYB MEME-1 BRCTTCCGGTYB 2.1e-027 2.8e-030 -68.06 0.0 147 489 230 388 0.30061 1.1e-032 244 1 GGCCAGGCTGGTCTCGAACTCCTGACCTCAKG MEME-2 GGCCAGGCTGGTCTCGAACTCCTGACCTCAKG 3.0e-003 4.0e-006 -12.43 0.0 115 469 29 45 0.24520 1.7e-008 234 1 RTRWAMMCCHKKSTMTACTAWRMAKMCAWAA MEME-4 RTRWAMMCCHKKSTMTACTAWRMAKMCAWAA 6.8e-004 9.1e-007 -13.91 0.0 90 470 34 66 0.19149 3.9e-009 234 1 CCCATTTYACAGATRRGVAAACTGAGGCTHA MEME-8 CCCATTTYACAGATRRGVAAACTGAGGCTHA 8.5e0000 1.1e-002 -4.47 0.0 64 470 11 22 0.13617 4.9e-005 234 1 GGTTTCYAGCTTCATCCATGTCCCYRCAAAGGACATGAACTCAWCCTT MEME-9 GGTTTCYAGCTTCATCCATGTCCCYRCAAAGGACATGAACTCAWCCTT 8.8e-001 1.2e-003 -6.75 0.0 99 453 8 8 0.21854 5.2e-006 226 2 ACCGGAW DREME-1 ACCGGAA 7.7e-037 1.0e-039 -89.78 0.0 150 494 150 193 0.30364 4.2e-042 246 2 CGGWAGY DREME-2 CGGAAGY 5.9e-021 7.8e-024 -53.20 0.0 142 494 159 265 0.28745 3.2e-026 246 2 DCCTACC DREME-3 DCCTACC 1.4e-002 1.8e-005 -10.90 0.0 88 494 51 136 0.17814 7.5e-008 246 3 M0396_1.02 (OSR2)_(Mus_musculus)_(DBD_1.00) HACRGTAGCN 2.2e-001 2.9e-004 -8.13 0.0 145 491 231 599 0.29532 1.2e-006 245 3 M0431_1.02 (OSR1)_(Mus_musculus)_(DBD_1.00) MCRGTAGCN 8.0e-002 1.1e-004 -9.14 0.0 178 492 276 600 0.36179 4.4e-007 245 3 M0714_1.02 (ENSG00000235187)_(Mus_musculus)_(DBD_1.00) NDBCGGAARY 5.2e-011 6.9e-014 -30.31 0.0 143 491 268 596 0.29124 2.8e-016 245 3 M1266_1.02 (IRF6)_(Mus_musculus)_(DBD_1.00) NVNCGAWACY 7.4e0000 9.8e-003 -4.62 0.0 143 491 217 590 0.29124 4.0e-005 245 3 M2275_1.02 ELF1 RRAVCMGGAAGTG 3.3e-008 4.3e-011 -23.86 0.0 148 488 263 589 0.30328 1.8e-013 243 3 M2277_1.02 FLI1 RCAGGAAGTGR 1.4e-006 1.9e-009 -20.11 0.0 152 490 261 587 0.31020 7.6e-012 244 3 M2390_1.02 EHF SAGGAAGK 3.8e0000 5.1e-003 -5.29 0.0 339 493 424 553 0.68763 2.1e-005 246 3 M4451_1.02 ATF3 GGTCACGTGRS 1.7e0000 2.3e-003 -6.07 0.0 204 490 220 422 0.41633 9.5e-006 244 3 M4462_1.02 GABPA VVCCGGAAGTG 2.4e-012 3.2e-015 -33.38 0.0 110 490 214 556 0.22449 1.3e-017 244 3 M4522_1.02 ELK4 CCGGAAGYGS 4.6e-013 6.2e-016 -35.02 0.0 113 491 224 570 0.23014 2.5e-018 245 3 M4569_1.02 HSF1 GTCSYGGGTTCGADTCCC 2.7e0000 3.6e-003 -5.63 0.0 129 483 93 236 0.26708 1.5e-005 241 3 M5377_1.02 ELF4 AACCCGGAAGTR 7.1e-015 9.5e-018 -39.20 0.0 121 489 213 486 0.24744 3.9e-020 244 3 M5398_1.02 ERF ACCGGAAGTR 2.7e-012 3.6e-015 -33.27 0.0 139 491 247 544 0.28310 1.5e-017 245 3 M5420_1.02 ETV1 ACCGGAAGTD 9.8e-016 1.3e-018 -41.18 0.0 155 491 286 565 0.31568 5.3e-021 245 3 M5421_1.02 ETV2 AACCGGAAATR 3.0e-018 4.0e-021 -46.97 0.0 120 490 239 540 0.24490 1.6e-023 244 3 M5422_1.02 ETV3 ACCGGAAGTR 1.7e-016 2.2e-019 -42.94 0.0 139 491 267 565 0.28310 9.2e-022 245 3 M5425_1.02 ETV6 CCGGAASCGGAAGYR 9.3e-011 1.2e-013 -29.72 0.0 92 486 155 439 0.18930 5.1e-016 242 3 M5497_1.02 GRHL1 AACCGGTYTAACCGGTT 2.0e0000 2.7e-003 -5.92 0.0 188 484 160 315 0.38843 1.1e-005 241 3 M5632_1.02 MLX RTCACGTGAT 1.4e-001 1.9e-004 -8.58 0.0 201 491 178 328 0.40937 7.7e-007 245 3 M5857_1.02 SPDEF AMCCGGATGTW 8.7e-011 1.2e-013 -29.79 0.0 120 490 199 481 0.24490 4.7e-016 244 3 M5865_1.02 SPIC NAAAAGVGGAAGTA 8.2e-002 1.1e-004 -9.12 0.0 93 487 159 576 0.19097 4.5e-007 243 3 M5980_1.02 ZNF784 AGGTAGGTAC 3.7e-001 4.9e-004 -7.63 0.0 83 491 112 433 0.16904 2.0e-006 245 3 M6140_1.02 AIRE HTTGGWWWWWWTGGDTWH 3.2e0000 4.3e-003 -5.45 0.0 53 483 92 542 0.10973 1.8e-005 241 3 M6152_1.02 ATF1 VTGACGTCAV 5.2e0000 6.9e-003 -4.97 0.0 103 491 133 456 0.20978 2.8e-005 245 3 M6204_1.02 ELF2 TDNCAGGAAGTRRVT 2.4e-004 3.2e-007 -14.94 0.0 264 486 377 565 0.54321 1.3e-009 242 3 M6206_1.02 ELF5 AHMAGGAWRTW 1.9e-003 2.6e-006 -12.87 0.0 64 490 127 591 0.13061 1.1e-008 244 3 M6207_1.02 ELK1 RCCGGAAGT 6.9e-011 9.2e-014 -30.01 0.0 110 492 219 590 0.22358 3.8e-016 245 3 M6208_1.02 ELK3 VMCHGGAARTSC 7.5e-006 1.0e-008 -18.42 0.0 111 489 191 545 0.22699 4.1e-011 244 3 M6213_1.02 ERG ACCGGAARTSM 2.5e-013 3.4e-016 -35.62 0.0 122 490 231 550 0.24898 1.4e-018 244 3 M6221_1.02 ETS2 VMVGGAAGTKS 3.3e-003 4.4e-006 -12.34 0.0 288 490 417 598 0.58776 1.8e-008 244 3 M6222_1.02 ETV4 SAGGAAGY 5.1e-003 6.9e-006 -11.89 0.0 239 493 357 598 0.48479 2.8e-008 246 3 M6223_1.02 ETV5 GHCAGGAAGWWAY 2.1e-001 2.7e-004 -8.20 0.0 62 488 116 589 0.12705 1.1e-006 243 3 M6224_1.02 ETV7 KCMHCAGGAAGTRACDY 5.8e-003 7.7e-006 -11.77 0.0 102 484 144 448 0.21074 3.2e-008 241 3 M6226_1.02 FEV CAGGAARTDA 8.3e-003 1.1e-005 -11.41 0.0 113 491 190 578 0.23014 4.5e-008 245 3 M6276_1.02 HINFP DMSNHMGCGGACGTTV 1.7e0000 2.2e-003 -6.10 0.0 89 485 106 388 0.18351 9.3e-006 242 3 M6376_1.02 NKX2-5 TYAAGTG 2.1e-001 2.8e-004 -8.19 0.0 198 494 290 581 0.40081 1.1e-006 246 3 M6402_1.02 OVOL1 KGTAACKGT 3.2e0000 4.3e-003 -5.45 0.0 44 492 77 529 0.08943 1.8e-005 245 3 M6416_1.02 CBFB YYTGTGGTYDB 1.1e0000 1.4e-003 -6.57 0.0 54 490 102 593 0.11020 5.8e-006 244 3 M6457_1.02 RUNX1 WAACCACARW 5.4e0000 7.2e-003 -4.94 0.0 79 491 130 575 0.16090 2.9e-005 245 3 M6459_1.02 RUNX3 AACCRCAAAMCCCV 8.9e0000 1.2e-002 -4.44 0.0 119 487 162 504 0.24435 4.9e-005 243 3 M6485_1.02 SPIB ARAAASMGGAAS 5.0e-001 6.7e-004 -7.30 0.0 97 489 161 580 0.19836 2.8e-006 244 3 M6486_1.02 SPZ1 CGGCKGWWACMBYGGG 1.2e0000 1.6e-003 -6.41 0.0 145 485 211 545 0.29897 6.8e-006 242 3 M6523_1.02 THRB TGACCTSABSTSRSSYC 8.0e0000 1.1e-002 -4.54 0.0 54 484 91 539 0.11157 4.5e-005 241 ## # 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).