# 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 TGTGTGTGYGTGTGTG MEME-1 TGTGTGTGYGTGTGTG 1.0e-054 1.4e-057 -130.92 0.0 141 485 364 593 0.29072 5.7e-060 242 1 ACACACACACACAYRCACAC MEME-2 ACACACACACACAYRCACAC 1.5e-051 2.0e-054 -123.66 0.0 271 481 513 593 0.56341 8.2e-057 240 1 CACACACAYRCACACACACAC MEME-3 CACACACAYRCACACACACAC 3.2e-055 4.3e-058 -132.10 0.0 280 480 530 597 0.58333 1.8e-060 239 1 ACACACA MEME-4 ACACACA 3.3e-055 4.4e-058 -132.07 0.0 152 494 379 598 0.30769 1.8e-060 246 1 CTCTCTCTCTCTCTCTCTCTCT MEME-6 CTCTCTCTCTCTCTCTCTCTCT 2.5e-007 3.4e-010 -21.80 0.0 199 479 64 80 0.41545 1.4e-012 239 2 CACACRRA DREME-1 CACACARA 1.7e-020 2.3e-023 -52.12 0.0 229 493 267 363 0.46450 9.4e-026 246 2 ACACACBC DREME-3 ACACACGC 2.4e-033 3.1e-036 -81.75 0.0 163 493 288 458 0.33063 1.3e-038 246 2 GCGCGYGC DREME-4 GCGCGYGC 1.3e-005 1.7e-008 -17.89 0.0 143 493 56 89 0.29006 6.9e-011 246 2 ACGTRCA DREME-5 ACGTRCA 1.1e-006 1.5e-009 -20.31 0.0 284 494 144 176 0.57490 6.2e-012 246 3 M0177_1.02 (TWIST2)_(Mus_musculus)_(DBD_1.00) NMCATATGTN 5.1e-003 6.9e-006 -11.89 0.0 155 491 230 537 0.31568 2.8e-008 245 3 M0189_1.02 (ID2)_(Mus_musculus)_(DBD_0.98) RCACGTGR 6.5e0000 8.7e-003 -4.75 0.0 117 493 165 525 0.23732 3.5e-005 246 3 M0196_1.02 (NPAS2)_(Mus_musculus)_(DBD_1.00) NSCACGTGTN 1.9e-002 2.6e-005 -10.56 0.0 167 491 244 543 0.34012 1.1e-007 245 3 M0198_1.02 (SOHLH2)_(Mus_musculus)_(DBD_0.84) NRYNCGTGCN 4.0e-009 5.3e-012 -25.96 0.0 91 491 186 588 0.18534 2.2e-014 245 3 M0199_1.02 (HES2)_(Mus_musculus)_(DBD_0.83) NNNNGRCACGTGM 4.0e-007 5.3e-010 -21.35 0.0 124 488 228 593 0.25410 2.2e-012 243 3 M0211_1.02 (MLXIP)_(Mus_musculus)_(DBD_0.82) BCACGTGK 2.7e-009 3.7e-012 -26.34 0.0 121 493 208 525 0.24544 1.5e-014 246 3 M0413_1.02 (ZBTB1)_(Mus_musculus)_(DBD_0.99) NDTGCGKGDN 3.3e-009 4.4e-012 -26.15 0.0 219 491 346 573 0.44603 1.8e-014 245 3 M0432_1.02 (ZFP161)_(Mus_musculus)_(DBD_1.00) NNCGYGCHH 4.2e-015 5.6e-018 -39.72 0.0 168 492 277 512 0.34146 2.3e-020 245 3 M0437_1.02 (ZNF32)_(Mus_musculus)_(DBD_0.99) TATRTATRT 2.8e0000 3.8e-003 -5.58 0.0 148 492 189 485 0.30081 1.5e-005 245 3 M0610_1.02 TET1 NNYRCGYWN 1.1e-003 1.5e-006 -13.41 0.0 216 492 281 495 0.43902 6.1e-009 245 3 M1545_1.02 GMEB1 NNNRCGTNN 3.7e-011 4.9e-014 -30.64 0.0 152 492 258 539 0.30894 2.0e-016 245 3 M1889_1.02 MAX RRGCACATGK 1.9e-001 2.5e-004 -8.27 0.0 257 491 346 555 0.52342 1.0e-006 245 3 M1929_1.02 TP53 CATGTCTGGRCATGY 8.0e-015 1.1e-017 -39.07 0.0 222 486 336 510 0.45679 4.4e-020 242 3 M2281_1.02 FOXH1 BNSAATCCACA 6.8e-001 9.1e-004 -7.00 0.0 236 490 318 551 0.48163 3.7e-006 244 3 M2305_1.02 NRF1 YGCGCABGCGC 1.5e-006 2.0e-009 -20.04 0.0 166 490 249 515 0.33878 8.1e-012 244 3 M2310_1.02 RUNX2 MAAACCACARAMMMM 6.1e-006 8.1e-009 -18.63 0.0 196 486 321 599 0.40329 3.4e-011 242 3 M2321_1.02 TP63 NDRCAWGYHCARRCWTGYHY 4.1e-020 5.4e-023 -51.27 0.0 125 481 265 574 0.25988 2.3e-025 240 3 M4459_1.02 EGR1 SBGCGKGGGCGGVRGSGSGG 5.9e0000 7.9e-003 -4.84 0.0 137 481 210 581 0.28482 3.3e-005 240 3 M4532_1.02 MYC CCACGTGSYY 4.0e-001 5.3e-004 -7.53 0.0 285 491 374 553 0.58045 2.2e-006 245 3 M4543_1.02 MXI1 VVVVCCACGTG 1.2e0000 1.6e-003 -6.45 0.0 124 490 179 529 0.25306 6.5e-006 244 3 M4553_1.02 BHLHE40 NGKCACGTGC 7.7e-001 1.0e-003 -6.88 0.0 153 491 213 527 0.31161 4.2e-006 245 3 M4850_1.02 (TCF15)_(Drosophila_melanogaster)_(DBD_0.70) TKTWRTNKBBDYDMCATSTGK 1.5e-009 2.0e-012 -26.93 0.0 128 480 243 588 0.26667 8.4e-015 239 3 M5321_1.02 CLOCK AACACGTGTH 2.1e-003 2.8e-006 -12.80 0.0 203 491 268 498 0.41344 1.1e-008 245 3 M5487_1.02 GCM2 BATGCGGGTR 4.8e-002 6.5e-005 -9.64 0.0 179 491 275 589 0.36456 2.6e-007 245 3 M5493_1.02 GMEB2 KTRCGTAA 2.8e-013 3.7e-016 -35.54 0.0 149 493 258 533 0.30223 1.5e-018 246 3 M5509_1.02 HEY1 GRCACGTGBC 8.4e-006 1.1e-008 -18.30 0.0 125 491 200 521 0.25458 4.6e-011 245 3 M5593_1.02 KLF16 GGGGGCGTGKC 2.1e-002 2.8e-005 -10.50 0.0 98 490 173 597 0.20000 1.1e-007 244 3 M5856_1.02 SP8 RGKGGGCGTGGY 2.5e-002 3.3e-005 -10.32 0.0 165 489 263 599 0.33742 1.4e-007 244 3 M5875_1.02 TBX1 AGGTGTGAAAAAAGGTGTGA 1.0e-019 1.4e-022 -50.35 0.0 169 481 277 474 0.35135 5.7e-025 240 3 M5883_1.02 TBX20 TCACACSTTCACACCT 9.6e-031 1.3e-033 -75.73 0.0 123 485 283 568 0.25361 5.3e-036 242 3 M5981_1.02 ZSCAN4 TTTTCAGKGTGTGCA 8.5e-067 1.1e-069 -158.75 0.0 146 486 394 600 0.30041 4.7e-072 242 3 M6115_1.02 TP73 CATGYCWGRRCHTGY 1.9e-010 2.5e-013 -29.00 0.0 200 486 327 565 0.41152 1.0e-015 242 3 M6139_1.02 AHR KCACGCRAH 2.5e-017 3.4e-020 -44.84 0.0 160 492 308 593 0.32520 1.4e-022 245 3 M6151_1.02 ARNT BYRCGTGC 2.6e-018 3.5e-021 -47.09 0.0 153 493 287 559 0.31034 1.4e-023 246 3 M6200_1.02 EGR3 WGAGTGGGYGT 2.0e-044 2.7e-047 -107.23 0.0 218 490 445 599 0.44490 1.1e-049 244 3 M6210_1.02 ENO1 YDSMCACRTGSYB 2.0e-018 2.6e-021 -47.38 0.0 122 488 262 597 0.25000 1.1e-023 243 3 M6212_1.02 EPAS1 CMCACGYAYDCAC 7.5e-066 1.0e-068 -156.57 0.0 150 488 396 598 0.30738 4.2e-071 243 3 M6244_1.02 FOXM1 RWAAWCAMWCAAV 8.1e-004 1.1e-006 -13.74 0.0 168 488 275 599 0.34426 4.5e-009 243 3 M6251_1.02 FUBP1 TYGTNTTTTTTT 1.3e-005 1.7e-008 -17.89 0.0 121 489 219 596 0.24744 7.0e-011 244 3 M6266_1.02 GLI3 BTGGGTGGTCY 9.8e-003 1.3e-005 -11.24 0.0 224 490 335 591 0.45714 5.4e-008 244 3 M6271_1.02 HES1 KGKCKCGTGBCKB 3.5e-004 4.7e-007 -14.57 0.0 104 488 185 579 0.21311 1.9e-009 243 3 M6273_1.02 HEY2 GBBGGCWCGTGGCHTBV 1.7e0000 2.2e-003 -6.10 0.0 36 484 65 498 0.07438 9.3e-006 241 3 M6275_1.02 HIF1A SBSTACGTGCSB 2.2e-021 2.9e-024 -54.20 0.0 143 489 293 582 0.29243 1.2e-026 244 3 M6323_1.02 KLF3 HRCYWGGGTGKGGCT 2.1e-044 2.8e-047 -107.20 0.0 146 486 355 599 0.30041 1.1e-049 242 3 M6326_1.02 KLF8 CAGGGKGTG 7.9e-013 1.1e-015 -34.49 0.0 122 492 245 598 0.24797 4.3e-018 245 3 M6352_1.02 MYCN CCACGTGS 1.9e-006 2.6e-009 -19.78 0.0 121 493 203 538 0.24544 1.0e-011 246 3 M6456_1.02 RREB1 DKGKKKGKGGKTGKTTKGGGKT 3.2e-032 4.2e-035 -79.15 0.0 157 479 348 597 0.32777 1.8e-037 239 3 M6459_1.02 RUNX3 AACCRCAAAMCCCV 1.5e-001 1.9e-004 -8.55 0.0 181 487 263 557 0.37166 8.0e-007 243 3 M6463_1.02 SMAD1 RSCCTGTCTGCC 7.0e-009 9.4e-012 -25.39 0.0 281 489 433 599 0.57464 3.8e-014 244 3 M6464_1.02 SMAD2 GTGTCHGKCTV 6.4e-008 8.6e-011 -23.18 0.0 236 490 376 598 0.48163 3.5e-013 244 3 M6535_1.02 WT1 GMGGGGGCGKGGG 7.0e-009 9.3e-012 -25.40 0.0 138 488 256 599 0.28279 3.8e-014 243 ## # 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).