# WARNING: this file is not sorted! # db id alt 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 MA0028.2 ELK1 1.5e-003 2.8e-006 -12.79 0.0 269 491 107 137 0.54786 1.1e-008 245 1 MA0060.2 NFYA 3.0e0000 5.8e-003 -5.15 0.0 179 483 50 84 0.37060 2.4e-005 241 1 MA0062.2 Gabpa 6.6e-015 1.3e-017 -38.90 0.0 140 490 134 234 0.28571 5.2e-020 244 1 MA0068.2 PAX4 4.1e-004 8.0e-007 -14.04 0.0 27 493 37 222 0.05477 3.2e-009 246 1 MA0076.2 ELK4 1.6e-012 3.0e-015 -33.43 0.0 140 490 131 238 0.28571 1.2e-017 244 1 MA0079.3 SP1 6.2e-002 1.2e-004 -9.04 0.0 278 490 176 244 0.56735 4.9e-007 244 1 MA0080.4 SPI1 2.6e-003 5.0e-006 -12.22 0.0 255 487 59 70 0.52361 2.0e-008 243 1 MA0081.1 SPIB 3.5e-003 6.8e-006 -11.90 0.0 106 494 104 294 0.21457 2.7e-008 246 1 MA0083.3 SRF 3.8e-131 7.3e-134 -306.55 0.0 47 485 164 190 0.09691 3.0e-136 242 1 MA0089.1 MAFG::NFE2L1 1.0e0000 2.0e-003 -6.24 0.0 119 495 103 289 0.24040 7.9e-006 247 1 MA0098.3 ETS1 2.9e-007 5.6e-010 -21.30 0.0 145 491 125 246 0.29532 2.3e-012 245 1 MA0102.3 CEBPA 2.9e0000 5.6e-003 -5.18 0.0 198 490 81 140 0.40408 2.3e-005 244 1 MA0108.2 TBP 2.6e-025 5.1e-028 -62.85 0.0 38 486 83 252 0.07819 2.1e-030 242 1 MA0109.1 HLTF 2.4e-033 4.7e-036 -81.34 0.0 39 491 103 298 0.07943 1.9e-038 245 1 MA0136.2 ELF5 9.6e-012 1.9e-014 -31.62 0.0 108 490 126 285 0.22041 7.6e-017 244 1 MA0141.3 ESRRB 3.4e0000 6.6e-003 -5.02 0.0 24 490 13 69 0.04898 2.7e-005 244 1 MA0156.2 FEV 2.2e-008 4.3e-011 -23.88 0.0 141 491 129 255 0.28717 1.7e-013 245 1 MA0158.1 HOXA5 1.2e0000 2.3e-003 -6.09 0.0 13 493 21 264 0.02637 9.2e-006 246 1 MA0162.2 EGR1 1.5e0000 2.9e-003 -5.85 0.0 181 487 121 238 0.37166 1.2e-005 243 1 MA0466.2 CEBPB 7.1e-001 1.4e-003 -6.59 0.0 197 491 80 135 0.40122 5.6e-006 245 1 MA0473.2 ELF1 7.8e-010 1.5e-012 -27.23 0.0 165 489 87 129 0.33742 6.1e-015 244 1 MA0474.2 ERG 2.4e-009 4.7e-012 -26.08 0.0 71 491 87 262 0.14460 1.9e-014 245 1 MA0475.2 FLI1 1.0e-006 2.0e-009 -20.04 0.0 145 491 106 202 0.29532 8.1e-012 245 1 MA0476.1 FOS 7.6e0000 1.5e-002 -4.22 0.0 142 490 45 93 0.28980 6.1e-005 244 1 MA0488.1 JUN 7.2e-002 1.4e-004 -8.88 0.0 112 488 38 78 0.22951 5.7e-007 243 1 MA0490.1 JUNB 5.0e0000 9.6e-003 -4.64 0.0 298 490 72 89 0.60816 4.0e-005 244 1 MA0497.1 MEF2C 5.2e-003 1.0e-005 -11.52 0.0 12 486 21 202 0.02469 4.1e-008 242 1 MA0516.1 SP2 8.5e-001 1.6e-003 -6.41 0.0 272 486 174 250 0.55967 6.8e-006 242 1 MA0598.2 EHF 1.6e-016 3.0e-019 -42.65 0.0 147 489 127 203 0.30061 1.2e-021 244 1 MA0599.1 KLF5 1.4e0000 2.7e-003 -5.90 0.0 329 491 184 230 0.67006 1.1e-005 245 1 MA0602.1 Arid5a 2.7e-011 5.3e-014 -30.57 0.0 19 487 40 214 0.03901 2.2e-016 243 1 MA0605.1 Atf3 1.9e-001 3.6e-004 -7.94 0.0 125 493 77 185 0.25355 1.5e-006 246 1 MA0609.1 Crem 9.1e-001 1.8e-003 -6.35 0.0 103 491 22 42 0.20978 7.2e-006 245 1 MA0623.1 Neurog1 2.4e-003 4.5e-006 -12.30 0.0 21 491 35 280 0.04277 1.8e-008 245 1 MA0640.1 ELF3 5.0e-012 9.6e-015 -32.28 0.0 84 488 62 123 0.17213 4.0e-017 243 1 MA0641.1 ELF4 1.3e-009 2.5e-012 -26.70 0.0 147 489 90 148 0.30061 1.0e-014 244 1 MA0643.1 Esrrg 8.0e0000 1.5e-002 -4.17 0.0 19 491 18 162 0.03870 6.4e-005 245 1 MA0645.1 ETV6 1.2e-013 2.4e-016 -35.99 0.0 145 491 147 263 0.29532 9.6e-019 245 1 MA0650.1 HOXA13 4.6e-005 8.9e-008 -16.24 0.0 43 491 52 234 0.08758 3.6e-010 245 1 MA0656.1 JDP2(var.2) 2.7e-003 5.3e-006 -12.16 0.0 113 489 22 31 0.23108 2.2e-008 244 1 MA0660.1 MEF2B 5.7e-003 1.1e-005 -11.42 0.0 17 489 11 38 0.03476 4.5e-008 244 1 MA0675.1 NKX6-2 3.6e0000 6.9e-003 -4.97 0.0 15 493 22 257 0.03043 2.8e-005 246 1 MA0685.1 SP4 6.9e-002 1.3e-004 -8.92 0.0 220 484 53 71 0.45455 5.5e-007 241 1 MA0686.1 SPDEF 9.6e-001 1.8e-003 -6.30 0.0 160 490 58 109 0.32653 7.6e-006 244 1 MA0687.1 SPIC 1.8e-004 3.5e-007 -14.88 0.0 67 487 70 246 0.13758 1.4e-009 243 1 MA0718.1 RAX 2.2e-005 4.3e-008 -16.97 0.0 25 491 39 240 0.05092 1.7e-010 245 1 MA0732.1 EGR3 1.4e0000 2.7e-003 -5.90 0.0 310 486 61 70 0.63786 1.1e-005 242 1 MA0740.1 KLF14 5.3e0000 1.0e-002 -4.58 0.0 251 487 101 149 0.51540 4.2e-005 243 1 MA0742.1 Klf12 4.9e0000 9.4e-003 -4.67 0.0 102 486 49 136 0.20988 3.9e-005 242 1 MA0759.1 ELK3 3.0e-006 5.8e-009 -18.96 0.0 65 491 71 239 0.13238 2.4e-011 245 1 MA0760.1 ERF 3.4e-003 6.5e-006 -11.95 0.0 85 491 73 225 0.17312 2.6e-008 245 1 MA0761.1 ETV1 2.8e-007 5.3e-010 -21.35 0.0 103 491 106 266 0.20978 2.2e-012 245 1 MA0762.1 ETV2 4.1e-005 7.8e-008 -16.36 0.0 114 490 74 162 0.23265 3.2e-010 244 1 MA0763.1 ETV3 1.2e-002 2.3e-005 -10.68 0.0 143 491 110 244 0.29124 9.4e-008 245 1 MA0764.1 ETV4 4.3e-010 8.4e-013 -27.81 0.0 103 491 116 277 0.20978 3.4e-015 245 1 MA0765.1 ETV5 1.5e-006 2.9e-009 -19.66 0.0 145 491 138 284 0.29532 1.2e-011 245 1 MA0773.1 MEF2D 2.1e0000 4.1e-003 -5.50 0.0 15 489 8 38 0.03067 1.7e-005 244 1 MA0834.1 ATF7 5.8e-001 1.1e-003 -6.79 0.0 113 487 20 33 0.23203 4.6e-006 243 1 MA0837.1 CEBPE 2.3e0000 4.3e-003 -5.44 0.0 117 491 67 176 0.23829 1.8e-005 245 1 MA0838.1 CEBPG 2.8e0000 5.5e-003 -5.21 0.0 197 491 45 69 0.40122 2.2e-005 245 1 MA0840.1 Creb5 1.0e0000 2.0e-003 -6.21 0.0 113 489 20 34 0.23108 8.2e-006 244 1 MA0877.1 Barhl1 2.7e0000 5.2e-003 -5.26 0.0 13 491 21 278 0.02648 2.1e-005 245 1 MA0878.1 CDX1 2.3e-011 4.3e-014 -30.77 0.0 16 492 40 252 0.03252 1.8e-016 245 1 MA0879.1 Dlx1 9.9e-004 1.9e-006 -13.17 0.0 27 491 39 254 0.05499 7.8e-009 245 1 MA0892.1 GSX1 1.7e0000 3.2e-003 -5.75 0.0 17 491 25 274 0.03462 1.3e-005 245 1 MA0893.1 GSX2 2.6e0000 5.0e-003 -5.30 0.0 17 491 24 264 0.03462 2.0e-005 245 1 MA0899.1 HOXA10 1.1e-004 2.2e-007 -15.33 0.0 20 490 35 261 0.04082 9.0e-010 244 1 MA0913.1 Hoxd9 2.4e-001 4.6e-004 -7.69 0.0 15 491 24 259 0.03055 1.9e-006 245 ## # 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. # 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).