# 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 TDWTAAATAGTY MEME-1 TDWTAAATAGTY 3.0e-047 4.0e-050 -113.74 0.0 61 489 155 334 0.12474 1.6e-052 244 1 ATAGGSTGGGTMATCA MEME-2 ATAGGSTGGGTMATCA 6.5e-032 8.7e-035 -78.43 0.0 61 485 118 268 0.12577 3.6e-037 242 1 ATGCWAAGCATGCGCTCTACCACTGAGCTA MEME-3 ATGCWAAGCATGCGCTCTACCACTGAGCTA 1.7e-002 2.2e-005 -10.71 0.0 75 471 11 13 0.15924 9.5e-008 235 1 MTGAGTCAY MEME-4 MTGAGTCAY 4.5e-021 6.0e-024 -53.47 0.0 128 492 155 275 0.26016 2.4e-026 245 1 CYKGGCWCNRTGCCMR MEME-5 CYKGGCWCNRTGCCMR 1.7e-005 2.2e-008 -17.62 0.0 115 485 135 344 0.23711 9.2e-011 242 1 GCGCCCCCTGSYGGSC MEME-10 GCGCCCCCTGSYGGSC 6.6e0000 8.8e-003 -4.73 0.0 57 485 33 134 0.11753 3.7e-005 242 2 RCTATTTA DREME-1 ACTATTTA 1.5e-059 2.0e-062 -142.09 0.0 71 493 105 129 0.14402 7.9e-065 246 2 TGASTCAB DREME-2 TGASTCAK 9.6e-022 1.3e-024 -55.01 0.0 121 493 109 171 0.24544 5.2e-027 246 2 AYTGATK DREME-3 AYTGATK 1.5e-021 2.1e-024 -54.54 0.0 56 494 87 220 0.11336 8.3e-027 246 2 ATCABC DREME-4 ATCABC 6.5e-003 8.7e-006 -11.65 0.0 75 495 87 323 0.15152 3.5e-008 247 3 M0300_1.02 (ATF2)_(Mus_musculus)_(DBD_1.00) NRTKACGTMA 5.6e-002 7.4e-005 -9.51 0.0 123 491 193 559 0.25051 3.0e-007 245 3 M0747_1.02 (FOXL2)_(Mus_musculus)_(DBD_0.70) WNNRTAAAYA 3.2e-002 4.3e-005 -10.04 0.0 55 491 106 569 0.11202 1.8e-007 245 3 M0890_1.02 LHX6 NYAATCAN 2.3e-009 3.0e-012 -26.52 0.0 51 493 122 575 0.10345 1.2e-014 246 3 M0969_1.02 (LHX8)_(Mus_musculus)_(DBD_1.00) NYAATYANN 3.2e-007 4.3e-010 -21.57 0.0 48 492 112 573 0.09756 1.7e-012 245 3 M0996_1.02 (HDX)_(Mus_musculus)_(DBD_0.99) RNDATCA 5.3e-008 7.0e-011 -23.38 0.0 60 494 85 308 0.12146 2.9e-013 246 3 M1025_1.02 (HOXD1)_(Mus_musculus)_(DBD_0.98) NNYVATYA 4.5e0000 6.0e-003 -5.11 0.0 187 493 190 396 0.37931 2.5e-005 246 3 M1163_1.02 (NKX6-3)_(PBM_CONSTRUCTS)_(DBD_1.00) NWTAATKRN 6.3e0000 8.4e-003 -4.78 0.0 40 492 70 520 0.08130 3.4e-005 245 3 M2278_1.02 FOS DVTGASTCATB 1.4e-013 1.9e-016 -36.18 0.0 124 490 220 507 0.25306 7.9e-019 244 3 M2287_1.02 (HOXC9)_(Mus_musculus)_(DBD_0.98) RGCMATAAATCAB 8.1e0000 1.1e-002 -4.53 0.0 108 488 149 501 0.22131 4.5e-005 243 3 M2289_1.02 JUN DDRATGATGTMAT 4.2e-006 5.7e-009 -18.99 0.0 250 488 316 477 0.51230 2.3e-011 243 3 M2292_1.02 JUND DRTGASTCATS 1.5e-015 2.0e-018 -40.77 0.0 124 490 217 484 0.25306 8.1e-021 244 3 M2296_1.02 MAFK MWDASTCAGCAWWWW 4.1e-001 5.5e-004 -7.50 0.0 88 486 143 548 0.18107 2.3e-006 242 3 M2299_1.02 (MYF5)_(Mus_musculus)_(DBD_0.90) NRNRRCAGCTGSN 3.6e0000 4.9e-003 -5.33 0.0 134 488 192 537 0.27459 2.0e-005 243 3 M2388_1.02 SREBF2 RTGGGGTGAY 7.1e0000 9.5e-003 -4.65 0.0 99 491 144 525 0.20163 3.9e-005 245 3 M4452_1.02 BATF TYYYRWWATGASTCA 4.8e-002 6.4e-005 -9.65 0.0 184 486 261 536 0.37860 2.7e-007 242 3 M4463_1.02 IRF4 DNWSNRGAAVTGAVWSWD 1.8e0000 2.5e-003 -6.00 0.0 201 483 296 587 0.41615 1.0e-005 241 3 M4526_1.02 SMARCC1 DSRVDGTGASTCAKV 3.4e-016 4.6e-019 -42.23 0.0 108 486 210 514 0.22222 1.9e-021 242 3 M4565_1.02 FOSL2 VDGGATGASTCAYH 1.9e-016 2.6e-019 -42.79 0.0 159 487 255 471 0.32649 1.1e-021 243 3 M4572_1.02 MAFF TGCTGACTCAGCAWW 5.9e-004 7.9e-007 -14.05 0.0 84 486 126 439 0.17284 3.3e-009 242 3 M4619_1.02 FOSL1 BGGTGASTCAT 6.1e-015 8.2e-018 -39.34 0.0 88 490 171 479 0.17959 3.4e-020 244 3 M4623_1.02 JUNB NDRTGASTCATNYHY 2.1e-011 2.8e-014 -31.22 0.0 126 486 214 496 0.25926 1.1e-016 242 3 M4629_1.02 NFE2 VRTGACTCAGCANWWYB 5.8e-010 7.8e-013 -27.88 0.0 76 484 135 438 0.15702 3.2e-015 241 3 M4681_1.02 BACH2 TGCTGAGTCA 3.0e-010 4.0e-013 -28.54 0.0 105 491 175 465 0.21385 1.6e-015 245 3 M5292_1.02 ATF4 RKATGAYGCAATM 2.5e-004 3.3e-007 -14.91 0.0 70 488 110 435 0.14344 1.4e-009 243 3 M5293_1.02 ATF7 NKATGACGTCATHN 2.1e-005 2.8e-008 -17.39 0.0 179 487 139 244 0.36756 1.2e-010 243 3 M5294_1.02 BARHL2 NHTAAAYGNY 4.9e-004 6.6e-007 -14.23 0.0 69 491 128 545 0.14053 2.7e-009 245 3 M5302_1.02 BATF3 TGATGACGTCATCA 1.6e-003 2.2e-006 -13.03 0.0 91 487 51 124 0.18686 9.0e-009 243 3 M5323_1.02 CREB3 KGRTGACGTCAYNV 2.2e-004 3.0e-007 -15.03 0.0 117 487 106 259 0.24025 1.2e-009 243 3 M5427_1.02 EVX1 SNTAATYABB 2.9e0000 3.8e-003 -5.57 0.0 73 491 117 540 0.14868 1.6e-005 245 3 M5446_1.02 FOXD4L2 RTAAACA 1.1e-002 1.5e-005 -11.12 0.0 50 494 99 569 0.10121 6.0e-008 246 3 M5460_1.02 FOXL1 RTAAACA 1.3e-002 1.8e-005 -10.94 0.0 60 494 112 560 0.12146 7.2e-008 246 3 M5587_1.02 JDP2 ATGASTCAT 9.0e-017 1.2e-019 -43.57 0.0 124 492 215 471 0.25203 4.9e-022 245 3 M5594_1.02 LBX2 CTBRANSTRATTA 1.5e-001 2.0e-004 -8.52 0.0 108 488 176 570 0.22131 8.2e-007 243 3 M5623_1.02 MEOX1 VSTAATTAHC 3.2e-004 4.2e-007 -14.67 0.0 37 491 81 531 0.07536 1.7e-009 245 3 M5624_1.02 MEOX2 DSTAATTAWN 1.9e-004 2.6e-007 -15.16 0.0 71 491 134 554 0.14460 1.1e-009 245 3 M5660_1.02 NFIA TTGGCANNDTGCCAR 1.3e-002 1.8e-005 -10.93 0.0 104 486 113 331 0.21399 7.4e-008 242 3 M5662_1.02 NFIB TTGGCAHNDTGCCAR 6.8e-002 9.1e-005 -9.31 0.0 104 486 111 333 0.21399 3.8e-007 242 3 M5664_1.02 NFIX TTGGCANNNHGCCAR 6.5e-004 8.7e-007 -13.96 0.0 142 486 191 453 0.29218 3.6e-009 242 3 M5689_1.02 NRL DWWNTGCTGAC 6.4e0000 8.5e-003 -4.77 0.0 210 490 304 595 0.42857 3.5e-005 244 3 M5746_1.02 POU6F2 WTAATKAGST 1.0e0000 1.4e-003 -6.58 0.0 71 491 112 515 0.14460 5.7e-006 245 3 M5998_1.02 (CREB5)_(Mus_musculus)_(DBD_1.00) DRTGACGTCATN 1.5e-007 2.1e-010 -22.30 0.0 133 489 140 301 0.27198 8.4e-013 244 3 M6152_1.02 ATF1 VTGACGTCAV 4.4e0000 5.9e-003 -5.13 0.0 117 491 142 437 0.23829 2.4e-005 245 3 M6184_1.02 CUX1 RBRSNDATCGATSK 2.0e-006 2.7e-009 -19.73 0.0 69 487 131 517 0.14168 1.1e-011 243 3 M6228_1.02 FOSB CTGACTCAYV 6.5e-013 8.6e-016 -34.68 0.0 117 491 227 564 0.23829 3.5e-018 245 3 M6269_1.02 HBP1 AYYCATTGA 1.2e0000 1.5e-003 -6.47 0.0 176 492 239 530 0.35772 6.3e-006 245 3 M6295_1.02 HOXB1 CCATCMATCW 3.0e0000 4.0e-003 -5.53 0.0 55 491 81 449 0.11202 1.6e-005 245 3 M6296_1.02 HOXB6 KKCATMAATCAWT 2.7e-001 3.7e-004 -7.91 0.0 76 488 101 411 0.15574 1.5e-006 243 3 M6297_1.02 HOXB7 MATYAATCAA 2.1e0000 2.8e-003 -5.88 0.0 59 491 88 468 0.12016 1.1e-005 245 3 M6331_1.02 MAFB WGCTGACDS 1.1e0000 1.5e-003 -6.49 0.0 90 492 152 592 0.18293 6.2e-006 245 3 M6333_1.02 MAFG MATGACT 2.0e-008 2.7e-011 -24.35 0.0 92 494 181 576 0.18623 1.1e-013 246 3 M6354_1.02 MYOD1 RACAGSTGS 8.8e0000 1.2e-002 -4.44 0.0 104 492 163 581 0.21138 4.8e-005 245 3 M6355_1.02 MYOG YRACAGCTGCWGC 4.9e0000 6.5e-003 -5.04 0.0 34 488 64 534 0.06967 2.7e-005 243 3 M6358_1.02 NEUROD1 SGGCAGRTGKSC 1.7e-004 2.3e-007 -15.30 0.0 93 489 164 553 0.19018 9.3e-010 244 3 M6359_1.02 NFE2L1 NATGACD 3.4e-008 4.5e-011 -23.81 0.0 88 494 176 583 0.17814 1.8e-013 246 3 M6360_1.02 NFE2L2 VRTGACTCAGCA 3.6e-002 4.8e-005 -9.95 0.0 97 489 167 582 0.19836 2.0e-007 244 3 M6406_1.02 PAX2 RHTCAGTSAYGMGTGAYW 2.4e-002 3.2e-005 -10.35 0.0 85 483 144 542 0.17598 1.3e-007 241 3 M6419_1.02 PKNOX1 HATCARTCAABYB 1.2e-003 1.7e-006 -13.31 0.0 88 488 155 555 0.18033 6.8e-009 243 3 M6427_1.02 POU4F2 MARCTCATTAATR 1.7e-002 2.2e-005 -10.70 0.0 72 488 111 461 0.14754 9.2e-008 243 ## # 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).