# 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 CCATKTTGGCCAGGCTGGT MEME-1 CCATKTTGGCCAGGCTGGT 2.9e-032 3.9e-035 -79.23 0.0 126 482 104 130 0.26141 1.6e-037 240 1 TCTCTACTAAAAATACAAAAAT MEME-2 TCTCTACTAAAAATACAAAAAT 9.9e-012 1.3e-014 -31.95 0.0 105 479 74 134 0.21921 5.6e-017 239 1 RAACTCCTGACCTCARGTG MEME-3 RAACTCCTGACCTCARGTG 5.6e-018 7.5e-021 -46.34 0.0 130 482 90 131 0.26971 3.1e-023 240 2 GACCAGCC DREME-1 GACCAGCC 1.2e-026 1.6e-029 -66.29 0.0 123 493 96 129 0.24949 6.6e-032 246 2 AYACAAAA DREME-2 ATACAAAA 2.1e-014 2.8e-017 -38.10 0.0 199 493 113 146 0.40365 1.2e-019 246 2 GGATYAC DREME-3 GGATYAC 2.5e-003 3.3e-006 -12.61 0.0 262 494 118 157 0.53036 1.4e-008 246 2 GTAGAGA DREME-4 GTAGAGA 1.6e-010 2.1e-013 -29.17 0.0 132 494 69 109 0.26721 8.7e-016 246 2 TGGYGAAA DREME-5 TGGTGAAA 7.1e-015 9.4e-018 -39.20 0.0 157 493 80 106 0.31846 3.8e-020 246 2 AGGTCAS DREME-6 AGGTCAG 1.0e-008 1.4e-011 -25.01 0.0 112 494 88 184 0.22672 5.6e-014 246 2 GGCCAAMA DREME-7 GGCCAAMA 1.9e-015 2.5e-018 -40.52 0.0 131 493 71 98 0.26572 1.0e-020 246 2 RYCACCA DREME-8 RYCACCA 1.3e-005 1.7e-008 -17.88 0.0 252 494 164 228 0.51012 7.0e-011 246 2 GAGTTYGA DREME-11 GAGTTYGA 6.2e-005 8.3e-008 -16.30 0.0 113 493 47 87 0.22921 3.4e-010 246 2 ATTAGC DREME-12 ATTAGC 3.8e-005 5.1e-008 -16.79 0.0 195 495 114 181 0.39394 2.1e-010 247 3 M0300_1.02 (ATF2)_(Mus_musculus)_(DBD_1.00) NRTKACGTMA 3.4e0000 4.5e-003 -5.40 0.0 165 491 228 540 0.33605 1.9e-005 245 3 M0900_1.02 SHOX HTAATTRV 3.8e0000 5.1e-003 -5.28 0.0 137 493 193 535 0.27789 2.1e-005 246 3 M1007_1.02 (HOXA11)_(Mus_musculus)_(DBD_1.00) TTWAYDDBN 3.4e-002 4.5e-005 -10.01 0.0 272 492 146 200 0.55285 1.8e-007 245 3 M1016_1.02 (SIX3)_(Mus_musculus)_(DBD_1.00) NNDATMY 1.9e0000 2.6e-003 -5.96 0.0 196 494 127 236 0.39676 1.0e-005 246 3 M1157_1.02 (HOXB9)_(PBM_CONSTRUCTS)_(DBD_1.00) WTTWATKRBN 2.0e0000 2.7e-003 -5.90 0.0 137 491 192 526 0.27902 1.1e-005 245 3 M1432_1.02 NR2E1 NYTGACCTCD 9.4e-007 1.3e-009 -20.49 0.0 129 491 220 554 0.26273 5.1e-012 245 3 M1458_1.02 (RORB)_(Tetraodon_nigroviridis)_(DBD_1.00) NNTGACCTCN 1.4e-006 1.9e-009 -20.09 0.0 131 491 217 540 0.26680 7.7e-012 245 3 M1507_1.02 (LCOR)_(Meleagris_gallopavo)_(DBD_1.00) NDWTTNGGNN 1.2e-001 1.6e-004 -8.72 0.0 159 491 238 564 0.32383 6.6e-007 245 3 M1917_1.02 USF1 GGTCACRTGRB 5.5e-003 7.3e-006 -11.83 0.0 144 490 202 492 0.29388 3.0e-008 244 3 M1919_1.02 YY1 CAARATGGCBGC 4.6e-001 6.1e-004 -7.40 0.0 57 489 97 521 0.11656 2.5e-006 244 3 M1970_1.02 NFIC TGCCAA 1.8e-001 2.5e-004 -8.31 0.0 77 495 137 595 0.15556 1.0e-006 247 3 M2268_1.02 CEBPB KATTGCAYMAY 9.1e-001 1.2e-003 -6.71 0.0 158 490 207 495 0.32245 5.0e-006 244 3 M2278_1.02 FOS DVTGASTCATB 5.4e-002 7.2e-005 -9.54 0.0 264 490 316 484 0.53878 3.0e-007 244 3 M2289_1.02 JUN DDRATGATGTMAT 8.4e0000 1.1e-002 -4.49 0.0 416 488 426 466 0.85246 4.7e-005 243 3 M2292_1.02 JUND DRTGASTCATS 1.1e-002 1.5e-005 -11.11 0.0 270 490 317 472 0.55102 6.1e-008 244 3 M4451_1.02 ATF3 GGTCACGTGRS 1.5e-002 2.0e-005 -10.81 0.0 170 490 206 438 0.34694 8.3e-008 244 3 M4467_1.02 MEF2C DDKCYAAAAATAGMH 3.3e-001 4.3e-004 -7.74 0.0 64 486 111 541 0.13169 1.8e-006 242 3 M4473_1.02 PBX3 NBCDGCCAATSRGVR 4.8e0000 6.4e-003 -5.06 0.0 352 486 438 547 0.72428 2.6e-005 242 3 M4481_1.02 USF2 GGTCACGTGRSSSSV 3.1e-001 4.1e-004 -7.80 0.0 142 486 161 399 0.29218 1.7e-006 242 3 M4511_1.02 RXRA TGACCYYW 7.0e-004 9.3e-007 -13.89 0.0 157 493 255 590 0.31846 3.8e-009 246 3 M4526_1.02 SMARCC1 DSRVDGTGASTCAKV 1.1e0000 1.5e-003 -6.51 0.0 332 486 387 501 0.68313 6.2e-006 242 3 M4565_1.02 FOSL2 VDGGATGASTCAYH 5.7e-001 7.7e-004 -7.17 0.0 295 487 334 472 0.60575 3.2e-006 243 3 M4567_1.02 FOXA2 NMWRWGTAAACANNN 7.1e-001 9.5e-004 -6.96 0.0 218 486 300 551 0.44856 3.9e-006 242 3 M4619_1.02 FOSL1 BGGTGASTCAK 5.0e-002 6.7e-005 -9.61 0.0 294 490 322 450 0.60000 2.7e-007 244 3 M4623_1.02 JUNB NDRTGASTCATNYHY 1.0e-004 1.4e-007 -15.80 0.0 294 486 349 472 0.60494 5.7e-010 242 3 M4702_1.02 NR2F2 TGACCTTT 1.7e0000 2.3e-003 -6.09 0.0 121 493 193 594 0.24544 9.3e-006 246 3 M4708_1.02 TBP TATGCAAATA 3.1e0000 4.2e-003 -5.48 0.0 151 491 206 523 0.30754 1.7e-005 245 3 M4930_1.02 (NPAS4)_(Drosophila_melanogaster)_(DBD_0.61) RADTCGTGACT 7.1e-003 9.4e-006 -11.57 0.0 72 490 105 425 0.14694 3.9e-008 244 3 M5234_1.02 (SIM1)_(Drosophila_melanogaster)_(DBD_0.89) GGTCACGTAC 4.0e-003 5.3e-006 -12.15 0.0 99 491 116 355 0.20163 2.2e-008 245 3 M5553_1.02 HOXC13 CYAATAAAAH 4.7e-002 6.3e-005 -9.68 0.0 127 491 188 525 0.25866 2.6e-007 245 3 M5557_1.02 HOXD12 GTAATAAAA 8.2e-001 1.1e-003 -6.81 0.0 126 492 186 541 0.25610 4.5e-006 245 3 M5616_1.02 MEF2B RCTAWAAATAGC 1.2e-004 1.7e-007 -15.61 0.0 161 489 184 382 0.32924 6.8e-010 244 3 M5689_1.02 NRL DWWNTGCTGAC 9.3e-001 1.2e-003 -6.69 0.0 84 490 144 588 0.17143 5.1e-006 244 3 M5807_1.02 SHOX2 YTAATTRR 2.0e0000 2.7e-003 -5.90 0.0 137 493 195 538 0.27789 1.1e-005 246 3 M5955_1.02 YY2 WAATGGCGGWY 2.3e-002 3.0e-005 -10.40 0.0 50 490 92 518 0.10204 1.2e-007 244 3 M5959_1.02 ZBTB49 TTTCGCYTGGCVSGTCA 7.4e-038 9.9e-041 -92.11 0.0 118 484 208 354 0.24380 4.1e-043 241 3 M6149_1.02 ARID5B DBYKDGTATTSKR 3.9e-001 5.2e-004 -7.55 0.0 96 488 157 567 0.19672 2.2e-006 243 3 M6152_1.02 ATF1 VTGACGTCAV 2.1e-003 2.8e-006 -12.79 0.0 167 491 221 474 0.34012 1.1e-008 245 3 M6180_1.02 CREB1 RTGACGTMA 3.1e-001 4.1e-004 -7.80 0.0 164 492 231 535 0.33333 1.7e-006 245 3 M6185_1.02 CXXC1 CGKTGKY 4.9e0000 6.5e-003 -5.03 0.0 262 494 354 576 0.53036 2.7e-005 246 3 M6197_1.02 E4F1 YGTKACGTC 7.6e0000 1.0e-002 -4.59 0.0 170 492 187 427 0.34553 4.2e-005 245 3 M6210_1.02 ENO1 YDSMCACRTGSYB 4.0e-004 5.3e-007 -14.45 0.0 78 488 144 556 0.15984 2.2e-009 243 3 M6215_1.02 ESRRB TGACCTTGR 7.0e0000 9.3e-003 -4.67 0.0 84 492 134 564 0.17073 3.8e-005 245 3 M6216_1.02 ESRRG TGACCTTGA 4.7e-002 6.2e-005 -9.68 0.0 120 492 187 548 0.24390 2.5e-007 245 3 M6228_1.02 FOSB CTGACTCAYV 6.6e0000 8.7e-003 -4.74 0.0 361 491 455 564 0.73523 3.6e-005 245 3 M6234_1.02 FOXA3 RVWAARYAAAYAD 3.5e-002 4.6e-005 -9.98 0.0 126 488 200 563 0.25820 1.9e-007 243 3 M6239_1.02 FOXF2 HWADGTAAACA 1.9e0000 2.6e-003 -5.96 0.0 222 490 288 527 0.45306 1.1e-005 244 3 M6251_1.02 FUBP1 TYGTNTTTTTTT 4.7e-004 6.3e-007 -14.28 0.0 113 489 193 566 0.23108 2.6e-009 244 3 M6265_1.02 GLI2 GTGGGTGGTCY 2.7e-005 3.6e-008 -17.13 0.0 174 490 206 403 0.35510 1.5e-010 244 3 M6266_1.02 GLI3 BTGGGTGGTCY 1.3e-001 1.8e-004 -8.64 0.0 128 490 188 527 0.26122 7.2e-007 244 3 M6279_1.02 HMGA1 AAAATWN 3.0e0000 4.0e-003 -5.53 0.0 168 494 242 570 0.34008 1.6e-005 246 3 M6332_1.02 MAF KTGCTGAC 1.0e0000 1.4e-003 -6.59 0.0 163 493 247 591 0.33063 5.6e-006 246 3 M6342_1.02 MEF2D BCTAWAAATAGC 5.3e0000 7.1e-003 -4.94 0.0 115 489 159 504 0.23517 2.9e-005 244 3 M6385_1.02 NR1I2 VTGAMCTYNNTTRACCYHH 6.6e0000 8.8e-003 -4.73 0.0 144 482 203 533 0.29876 3.7e-005 240 3 M6389_1.02 NR2C1 VTGACCTCTBRSC 4.4e0000 5.8e-003 -5.14 0.0 154 488 216 541 0.31557 2.4e-005 243 3 M6391_1.02 NR2E3 TGACTTTTGACTTT 3.5e-003 4.7e-006 -12.27 0.0 77 487 139 558 0.15811 1.9e-008 243 3 M6394_1.02 NR4A2 STGACCTTT 4.1e-001 5.5e-004 -7.51 0.0 166 492 248 576 0.33740 2.2e-006 245 3 M6429_1.02 POU6F1 CATAAWTTATGCR 1.1e-002 1.4e-005 -11.16 0.0 106 488 121 355 0.21721 5.8e-008 243 3 M6430_1.02 PPARA TGACCTY 3.7e-004 5.0e-007 -14.51 0.0 128 494 218 590 0.25911 2.0e-009 246 3 M6443_1.02 RARA TGACCTB 1.4e-007 1.8e-010 -22.42 0.0 132 494 235 582 0.26721 7.5e-013 246 3 M6445_1.02 RARB BBBBTGACCTS 4.3e-006 5.7e-009 -18.98 0.0 128 490 219 562 0.26122 2.3e-011 244 3 M6446_1.02 RARG BTGACCTBYNGBYGAMCYCC 4.7e0000 6.3e-003 -5.06 0.0 141 481 205 546 0.29314 2.6e-005 240 3 M6461_1.02 RXRB YSTGACCTSA 4.5e-003 6.0e-006 -12.03 0.0 131 491 217 586 0.26680 2.4e-008 245 3 M6464_1.02 SMAD2 GTGTCHGKCTV 4.8e-001 6.4e-004 -7.36 0.0 158 490 239 578 0.32245 2.6e-006 244 3 M6490_1.02 SRY DAAACAAWR 4.4e-001 5.9e-004 -7.43 0.0 44 492 85 568 0.08943 2.4e-006 245 3 M6518_1.02 TFEB RGTCACGTG 3.6e-002 4.8e-005 -9.95 0.0 148 492 172 410 0.30081 1.9e-007 245 3 M6521_1.02 THRA STGACCTSAV 6.2e-004 8.3e-007 -14.00 0.0 129 491 215 574 0.26273 3.4e-009 245 ## # 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).