# 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 TGTGTGTGTGTGTGTGTGTGTG MEME-1 TGTGTGTGTGTGTGTGTGTGTG 5.2e-001 7.0e-004 -7.26 0.0 113 479 47 106 0.23591 2.9e-006 239 1 RCHMAGYACYNMSHNS MEME-2 RCHMAGYACYNMSHNS 1.1e-056 1.5e-059 -135.45 0.0 81 485 261 552 0.16701 6.2e-062 242 2 MAGYACY DREME-1 MAGYACY 7.3e-039 9.9e-042 -94.41 0.0 78 494 197 453 0.15789 4.0e-044 246 2 ACTNAGY DREME-2 ACTSAGY 1.2e-034 1.7e-037 -84.68 0.0 108 494 181 326 0.21862 6.8e-040 246 2 RTGASTCA DREME-3 RTGASTCA 2.1e-011 2.9e-014 -31.18 0.0 149 493 89 139 0.30223 1.2e-016 246 2 ACTCKG DREME-4 ACTCTG 3.2e-002 4.3e-005 -10.05 0.0 61 495 62 258 0.12323 1.8e-007 247 3 M0395_1.02 (ZNF187)_(Mus_musculus)_(DBD_0.88) GTACTAAT 4.6e-003 6.2e-006 -12.00 0.0 85 493 146 549 0.17241 2.5e-008 246 3 M0428_1.02 (ZNF691)_(Mus_musculus)_(DBD_0.97) RKGAGYAC 5.3e0000 7.2e-003 -4.93 0.0 97 493 156 585 0.19675 2.9e-005 246 3 M1030_1.02 (NKX2-3)_(Mus_musculus)_(DBD_1.00) NVYACTTVD 1.1e-005 1.5e-008 -18.01 0.0 78 492 153 581 0.15854 6.1e-011 245 3 M1432_1.02 NR2E1 NYTGACCTCD 3.8e0000 5.2e-003 -5.26 0.0 473 491 526 530 0.96334 2.1e-005 245 3 M1581_1.02 (CIC)_(Mus_musculus)_(DBD_1.00) NNTGCTGACW 1.1e-003 1.5e-006 -13.38 0.0 143 491 235 585 0.29124 6.3e-009 245 3 M2278_1.02 FOS DVTGASTCATB 1.5e-010 2.0e-013 -29.25 0.0 146 490 224 472 0.29796 8.1e-016 244 3 M2289_1.02 JUN DDRATGATGTMAT 4.0e-001 5.4e-004 -7.53 0.0 220 488 248 442 0.45082 2.2e-006 243 3 M2292_1.02 JUND DRTGASTCATS 7.6e-012 1.0e-014 -32.21 0.0 148 490 223 456 0.30204 4.2e-017 244 3 M2296_1.02 MAFK MWDASTCAGCAWWWW 1.6e-001 2.1e-004 -8.46 0.0 144 486 213 542 0.29630 8.7e-007 242 3 M4452_1.02 BATF TYYYRDWATGASTCA 2.1e0000 2.8e-003 -5.86 0.0 182 486 240 513 0.37449 1.2e-005 242 3 M4469_1.02 REST TCCRTGGTGCTGAA 1.5e-002 2.1e-005 -10.78 0.0 83 487 123 457 0.17043 8.6e-008 243 3 M4526_1.02 SMARCC1 DSRVDGTGASTCABV 8.3e-009 1.1e-011 -25.21 0.0 146 486 230 501 0.30041 4.7e-014 242 3 M4565_1.02 FOSL2 VDGGATGASTCAYH 1.4e-010 1.9e-013 -29.30 0.0 151 487 222 451 0.31006 7.7e-016 243 3 M4572_1.02 MAFF TGCTGACTCAGCAWW 2.2e-003 3.0e-006 -12.72 0.0 144 486 184 434 0.29630 1.2e-008 242 3 M4619_1.02 FOSL1 BGGTGASTCAK 2.2e-013 3.0e-016 -35.75 0.0 148 490 224 447 0.30204 1.2e-018 244 3 M4623_1.02 JUNB NDRTGASTCATNYHY 4.4e-013 5.9e-016 -35.07 0.0 152 486 240 475 0.31276 2.4e-018 242 3 M4629_1.02 NFE2 VRTGACTCAGCANWWYB 7.6e-006 1.0e-008 -18.39 0.0 124 484 174 437 0.25620 4.3e-011 241 3 M4681_1.02 BACH2 TGCTGAGTCA 1.7e-012 2.2e-015 -33.74 0.0 149 491 235 480 0.30346 9.1e-018 245 3 M5292_1.02 ATF4 GKATGAYGCAATM 5.5e-003 7.4e-006 -11.81 0.0 200 488 231 427 0.40984 3.0e-008 243 3 M5293_1.02 ATF7 NKATGACGTCATHN 5.9e-003 7.9e-006 -11.75 0.0 225 487 159 250 0.46201 3.3e-008 243 3 M5302_1.02 BATF3 TGATGACGTCATCA 3.3e-002 4.4e-005 -10.03 0.0 215 487 86 129 0.44148 1.8e-007 243 3 M5519_1.02 HMX2 NDTTAAKTGBT 8.5e0000 1.2e-002 -4.46 0.0 96 490 144 542 0.19592 4.8e-005 244 3 M5520_1.02 HMX3 BNTTAAKTGNY 5.0e0000 6.8e-003 -4.99 0.0 86 490 135 554 0.17551 2.8e-005 244 3 M5583_1.02 ISL2 YTAAKTGC 3.5e-005 4.7e-008 -16.87 0.0 97 493 174 565 0.19675 1.9e-010 246 3 M5587_1.02 JDP2 ATGASTCAT 7.8e-006 1.1e-008 -18.37 0.0 154 492 189 402 0.31301 4.3e-011 245 3 M5998_1.02 (CREB5)_(Mus_musculus)_(DBD_1.00) DRTGACGTCATN 1.4e-002 1.8e-005 -10.90 0.0 225 489 187 306 0.46012 7.5e-008 244 3 M6149_1.02 ARID5B DBYKDGTATTSKR 9.5e0000 1.3e-002 -4.36 0.0 60 488 103 575 0.12295 5.3e-005 243 3 M6162_1.02 ARNTL GRGTCACGTGTYCM 7.1e0000 9.5e-003 -4.65 0.0 137 487 128 333 0.28131 3.9e-005 243 3 M6228_1.02 FOSB CTGACTCAYV 1.6e-003 2.2e-006 -13.04 0.0 149 491 233 560 0.30346 8.9e-009 245 3 M6259_1.02 GCM1 HWNATGCKGGYMBK 3.2e-001 4.3e-004 -7.75 0.0 361 487 456 552 0.74127 1.8e-006 243 3 M6277_1.02 HLF SKRTTACRYAAYC 8.1e0000 1.1e-002 -4.52 0.0 204 488 230 451 0.41803 4.5e-005 243 3 M6331_1.02 MAFB WGCTGACDS 4.5e-003 6.1e-006 -12.00 0.0 150 492 245 595 0.30488 2.5e-008 245 3 M6332_1.02 MAF KTGCTGAC 1.1e-002 1.5e-005 -11.13 0.0 143 493 234 597 0.29006 6.0e-008 246 3 M6333_1.02 MAFG MATGACT 9.3e-004 1.3e-006 -13.59 0.0 168 494 257 561 0.34008 5.1e-009 246 3 M6359_1.02 NFE2L1 NATGACD 4.5e-002 6.1e-005 -9.71 0.0 138 494 217 575 0.27935 2.5e-007 246 3 M6360_1.02 NFE2L2 VRTGACTCAGCA 7.3e-011 9.8e-014 -29.95 0.0 149 489 271 583 0.30470 4.0e-016 244 3 M6375_1.02 NKX2-2 HAAVYACTTRAM 3.7e-001 5.0e-004 -7.61 0.0 83 489 128 509 0.16973 2.0e-006 244 ## # 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).