# 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 KRCCYCCCRSRGMGV MEME-1 KRCCYCCCRSRGMGV 5.5e-078 7.3e-081 -184.52 0.0 128 486 383 596 0.26337 3.0e-083 242 2 BRCCTCC DREME-1 BRCCTCC 5.8e-010 7.7e-013 -27.89 0.0 144 494 225 489 0.29150 3.1e-015 246 2 CWGCAGGR DREME-2 CWGCAGGG 7.2e-007 9.7e-010 -20.75 0.0 83 493 89 257 0.16836 4.0e-012 246 2 TGACKCA DREME-4 TGACTCA 4.7e-007 6.3e-010 -21.19 0.0 196 494 102 151 0.39676 2.5e-012 246 2 CCCCAGGR DREME-6 CCCCAGGG 1.4e-010 1.8e-013 -29.33 0.0 185 493 141 219 0.37525 7.4e-016 246 2 CCCCCRCG DREME-7 CCCCCRCG 5.0e-002 6.7e-005 -9.62 0.0 87 493 26 54 0.17647 2.7e-007 246 3 M0085_1.02 (TFAP2E)_(Mus_musculus)_(DBD_0.99) THGCCYSVGG 2.9e0000 3.9e-003 -5.55 0.0 181 491 264 582 0.36864 1.6e-005 245 3 M0422_1.02 (ZIC5)_(Mus_musculus)_(DBD_0.99) SYRGGGGGTM 4.2e-040 5.7e-043 -97.28 0.0 127 491 317 597 0.25866 2.3e-045 245 3 M1917_1.02 USF1 GGTCACRTGRB 3.1e0000 4.2e-003 -5.47 0.0 204 490 244 478 0.41633 1.7e-005 244 3 M1927_1.02 (MYCL1)_(Mus_musculus)_(DBD_0.66) RCCACGTG 6.8e0000 9.2e-003 -4.69 0.0 225 493 270 495 0.45639 3.7e-005 246 3 M1968_1.02 EBF1 TCCCWGGGGRV 8.8e-011 1.2e-013 -29.77 0.0 186 490 318 584 0.37959 4.8e-016 244 3 M2278_1.02 FOS DVTGASTCATB 2.7e0000 3.7e-003 -5.61 0.0 196 490 235 473 0.40000 1.5e-005 244 3 M2292_1.02 JUND DRTGASTCATS 3.0e0000 4.1e-003 -5.50 0.0 196 490 229 461 0.40000 1.7e-005 244 3 M4427_1.02 CTCF NYGGCCASCAGRKGGCRSYVB 2.0e-005 2.7e-008 -17.43 0.0 122 480 197 516 0.25417 1.1e-010 239 3 M4451_1.02 ATF3 GGTCACGTGRS 6.1e0000 8.2e-003 -4.81 0.0 194 490 203 410 0.39592 3.4e-005 244 3 M4481_1.02 USF2 GGTCACGTGRSSSSV 3.8e0000 5.2e-003 -5.27 0.0 208 486 202 379 0.42798 2.1e-005 242 3 M4525_1.02 TFAP2C NGCCYSAGGSCANDB 1.4e0000 1.9e-003 -6.28 0.0 160 486 241 579 0.32922 7.8e-006 242 3 M4526_1.02 SMARCC1 DSRVDGTGASTCABV 2.1e0000 2.8e-003 -5.86 0.0 190 486 236 486 0.39095 1.2e-005 242 3 M4543_1.02 MXI1 VVVVCCACGTG 1.2e0000 1.6e-003 -6.45 0.0 132 490 180 501 0.26939 6.5e-006 244 3 M4565_1.02 FOSL2 VDGGATGASTCAYH 1.7e0000 2.3e-003 -6.09 0.0 177 487 212 459 0.36345 9.4e-006 243 3 M4612_1.02 CTCFL CCRSCAGGGGGCGCY 1.5e-015 2.0e-018 -40.76 0.0 132 486 241 519 0.27160 8.2e-021 242 3 M4619_1.02 FOSL1 BGGTGASTCAK 8.8e-001 1.2e-003 -6.74 0.0 170 490 202 450 0.34694 4.9e-006 244 3 M4623_1.02 JUNB NDRTGASTCATNYHY 4.9e-001 6.6e-004 -7.32 0.0 178 486 222 472 0.36626 2.7e-006 242 3 M4681_1.02 BACH2 TGCTGAGTCA 1.7e0000 2.3e-003 -6.09 0.0 201 491 229 449 0.40937 9.2e-006 245 3 M5293_1.02 ATF7 NKATGACGTCATHN 1.5e-001 2.0e-004 -8.51 0.0 191 487 123 223 0.39220 8.3e-007 243 3 M5490_1.02 GLIS1 GCDTCGTGGGGGGTCK 5.6e-014 7.5e-017 -37.12 0.0 197 485 136 187 0.40619 3.1e-019 242 3 M5491_1.02 GLIS2 CDYYGCGGGGGGTC 6.1e-062 8.2e-065 -147.56 0.0 139 487 353 549 0.28542 3.4e-067 243 3 M5962_1.02 ZBTB7C NTCGGTGGTCGY 3.9e-001 5.3e-004 -7.55 0.0 117 489 190 586 0.23926 2.2e-006 244 3 M5965_1.02 ZIC4 DCDCMGCGGGGGGYC 5.6e-051 7.5e-054 -122.32 0.0 152 486 370 588 0.31276 3.1e-056 242 3 M5998_1.02 (CREB5)_(Mus_musculus)_(DBD_1.00) DRTGACGTCATN 2.8e0000 3.8e-003 -5.57 0.0 191 489 146 283 0.39059 1.6e-005 244 3 M6150_1.02 ARNT2 GYSYSCCACGNC 2.1e-001 2.9e-004 -8.16 0.0 101 489 171 591 0.20654 1.2e-006 244 3 M6180_1.02 CREB1 RTGACGTMA 4.4e0000 5.9e-003 -5.13 0.0 132 492 178 507 0.26829 2.4e-005 245 3 M6191_1.02 E2F2 GGCGCGAAAC 6.1e0000 8.2e-003 -4.80 0.0 33 491 51 422 0.06721 3.4e-005 245 3 M6228_1.02 FOSB CTGACTCAYV 1.3e0000 1.7e-003 -6.38 0.0 201 491 275 547 0.40937 6.9e-006 245 3 M6264_1.02 GLI1 BTGGGTGGTCY 1.4e-003 1.9e-006 -13.17 0.0 196 490 301 583 0.40000 7.8e-009 244 3 M6265_1.02 GLI2 GTGGGTGGTCY 3.8e-003 5.1e-006 -12.19 0.0 200 490 253 473 0.40816 2.1e-008 244 3 M6267_1.02 GLIS3 GYGGGGGGTM 7.3e-027 9.8e-030 -66.80 0.0 135 491 299 593 0.27495 4.0e-032 245 3 M6325_1.02 KLF6 GGGGGCKG 5.6e-001 7.5e-004 -7.20 0.0 301 493 412 588 0.61055 3.1e-006 246 3 M6326_1.02 KLF8 CMGGGKGTG 7.6e-006 1.0e-008 -18.40 0.0 114 492 204 579 0.23171 4.2e-011 245 3 M6352_1.02 MYCN CCACGTGS 7.2e-001 9.7e-004 -6.94 0.0 135 493 188 516 0.27383 4.0e-006 246 3 M6355_1.02 MYOG YRACAGCTGCWGC 2.1e0000 2.8e-003 -5.88 0.0 58 488 101 558 0.11885 1.2e-005 243 3 M6422_1.02 PLAGL1 CRGGGGGCCC 7.2e-011 9.6e-014 -29.97 0.0 137 491 248 565 0.27902 3.9e-016 245 3 M6468_1.02 SNAI1 SCAGGTGK 9.8e-002 1.3e-004 -8.93 0.0 135 493 217 591 0.27383 5.4e-007 246 3 M6527_1.02 TWIST1 MCCCAGGTGK 3.8e-001 5.1e-004 -7.59 0.0 117 491 180 552 0.23829 2.1e-006 245 3 M6548_1.02 ZIC1 KGGGWGGTV 2.2e-009 2.9e-012 -26.56 0.0 166 492 292 597 0.33740 1.2e-014 245 3 M6549_1.02 ZIC2 KGGGTGGTC 9.5e-004 1.3e-006 -13.57 0.0 200 492 311 594 0.40650 5.2e-009 245 3 M6550_1.02 ZIC3 BGGGTGGYC 3.4e-011 4.5e-014 -30.73 0.0 158 492 289 599 0.32114 1.8e-016 245 3 M6553_1.02 ZNF219 GDGGGGGGYGGA 6.5e0000 8.8e-003 -4.74 0.0 57 489 100 573 0.11656 3.6e-005 244 ## # 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).