# 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 AMAMARAARGCWCCAGGCCCWG MEME-1 AMAMARAARGCWCCAGGCCCWG 6.6e-046 8.8e-049 -110.65 0.0 103 479 163 246 0.21503 3.7e-051 239 1 ATGGTTTYACTGGTGAATTCTA MEME-2 ATGGTTTYACTGGTGAATTCTA 4.0e-065 5.4e-068 -154.90 0.0 69 479 115 142 0.14405 2.2e-070 239 1 YATGACTTACACAGACCATYYAYGACATGCT MEME-3 YATGACTTACACAGACCATYYAYGACATGCT 5.8e-012 7.8e-015 -32.49 0.0 126 470 35 38 0.26809 3.3e-017 234 1 RCTRCAGGAGACCAGGGCDTATTTCATCCCTTATCTWCAACYRYATAAGA MEME-4 RCTRCAGGAGACCAGGGCDTATTTCATCCCTTATCTWCAACYRYATAAGA 6.8e-007 9.1e-010 -20.82 0.0 105 451 18 18 0.23282 4.0e-012 225 1 CCAAAYATTTAARGAA MEME-5 CCAAAYATTTAARGAA 1.2e-007 1.6e-010 -22.56 0.0 105 485 103 245 0.21649 6.6e-013 242 1 TGGATGTTAATCCRCTGGGTCTGAGTGCACTCAATAAARTCCT MEME-6 TGGATGTTAATCCRCTGGGTCTGAGTGCACTCAATAAARTCCT 6.2e-007 8.2e-010 -20.92 0.0 58 458 14 15 0.12664 3.6e-012 228 1 CAACTTTYACTTTTGGTGCATAAATTTYCTT MEME-7 CAACTTTYACTTTTGGTGCATAAATTTYCTT 9.0e-003 1.2e-005 -11.33 0.0 70 470 10 11 0.14894 5.1e-008 234 1 CATAAAAACTAVACAGAAGCATTCTSAGRAACTTCTTTGTGATGTKTGYA MEME-9 CATAAAAACTAVACAGAAGCATTCTSAGRAACTTCTTTGTGATGTKTGYA 4.0e-002 5.3e-005 -9.84 0.0 47 451 9 12 0.10421 2.4e-007 225 1 GGRRGKYYYWWAAATGGCCRCTCTGGGAGTG MEME-10 GGRRGKYYYWWAAATGGCCRCTCTGGGAGTG 3.4e-005 4.5e-008 -16.92 0.0 104 470 18 20 0.22128 1.9e-010 234 2 AAVCCATC DREME-1 AAVCCATC 2.9e-023 3.8e-026 -58.53 0.0 83 493 59 81 0.16836 1.5e-028 246 2 CCAGGVC DREME-2 CCAGGCC 1.3e-012 1.7e-015 -33.98 0.0 110 494 99 197 0.22267 7.1e-018 246 2 ACWGGTGA DREME-3 ACTGGTGA 1.2e-028 1.6e-031 -70.91 0.0 101 493 70 86 0.20487 6.5e-034 246 2 TGAGTCAB DREME-4 TGAGTCAB 2.5e-006 3.3e-009 -19.53 0.0 139 493 66 113 0.28195 1.3e-011 246 2 ACTTACAC DREME-6 ACTTACAC 1.5e-002 2.0e-005 -10.82 0.0 81 493 61 190 0.16430 8.2e-008 246 3 M0177_1.02 (TWIST2)_(Mus_musculus)_(DBD_1.00) NMCATATGTN 3.9e-001 5.3e-004 -7.55 0.0 83 491 125 495 0.16904 2.1e-006 245 3 M0178_1.02 (ASCL2)_(Mus_musculus)_(DBD_0.98) NVCAGCTGBN 2.2e-005 2.9e-008 -17.34 0.0 71 491 136 548 0.14460 1.2e-010 245 3 M0195_1.02 (TCF23)_(Mus_musculus)_(DBD_0.60) DMCAKMTGKH 3.9e-007 5.2e-010 -21.37 0.0 77 491 150 548 0.15682 2.1e-012 245 3 M0214_1.02 (TCF21)_(Mus_musculus)_(DBD_1.00) AACAKMTGK 1.7e-001 2.3e-004 -8.39 0.0 84 492 124 478 0.17073 9.3e-007 245 3 M0217_1.02 (NEUROG1)_(Mus_musculus)_(DBD_1.00) DCCATATGKB 7.3e-004 9.8e-007 -13.83 0.0 79 491 145 563 0.16090 4.0e-009 245 3 M0897_1.02 HOXB13 DTTWAYDRBN 7.5e-004 1.0e-006 -13.81 0.0 55 491 106 530 0.11202 4.1e-009 245 3 M0905_1.02 (HOXA4)_(Mus_musculus)_(DBD_1.00) NTAATKRNN 4.6e0000 6.1e-003 -5.10 0.0 144 492 163 422 0.29268 2.5e-005 245 3 M0906_1.02 (VTN)_(Mus_musculus)_(DBD_0.79) NMTTAATTAR 9.9e0000 1.3e-002 -4.33 0.0 173 491 188 422 0.35234 5.4e-005 245 3 M0931_1.02 (LHX1)_(Mus_musculus)_(DBD_1.00) TAATTRNNN 1.3e0000 1.8e-003 -6.32 0.0 182 492 230 492 0.36992 7.4e-006 245 3 M0949_1.02 (AC012531.1)_(Mus_musculus)_(DBD_1.00) NTAATDR 7.9e0000 1.0e-002 -4.56 0.0 152 494 134 324 0.30769 4.3e-005 246 3 M0961_1.02 (BARHL1)_(Mus_musculus)_(DBD_1.00) NTAAWYGNN 1.8e-001 2.5e-004 -8.31 0.0 188 492 261 539 0.38211 1.0e-006 245 3 M0999_1.02 (NKX6-1)_(Mus_musculus)_(DBD_1.00) NWTAATKRN 7.0e0000 9.3e-003 -4.67 0.0 152 492 200 511 0.30894 3.8e-005 245 3 M1025_1.02 (HOXD1)_(Mus_musculus)_(DBD_0.98) NNYVATYA 3.5e0000 4.6e-003 -5.37 0.0 183 493 158 327 0.37120 1.9e-005 246 3 M1125_1.02 (NKX1-1)_(Mus_musculus)_(DBD_1.00) NNTAATKRNN 9.5e0000 1.3e-002 -4.37 0.0 185 491 241 524 0.37678 5.2e-005 245 3 M1838_1.02 TFAP2A NHYWGCCYSAGGGCA 2.0e-004 2.7e-007 -15.14 0.0 50 486 97 499 0.10288 1.1e-009 242 3 M1889_1.02 MAX RRGCACATGK 7.4e-001 9.8e-004 -6.93 0.0 53 491 90 513 0.10794 4.0e-006 245 3 M1926_1.02 ZEB1 CAGGTGWGB 1.3e-002 1.7e-005 -10.98 0.0 48 492 92 533 0.09756 7.0e-008 245 3 M1963_1.02 (ZFY)_(Mus_musculus)_(DBD_0.97) SSSGSCBVGGCCTS 5.1e-004 6.8e-007 -14.20 0.0 57 487 104 494 0.11704 2.8e-009 243 3 M2264_1.02 (ATOH1)_(Mus_musculus)_(DBD_1.00) RCCAKCTG 2.0e-010 2.6e-013 -28.96 0.0 71 493 151 547 0.14402 1.1e-015 246 3 M2278_1.02 FOS DVTGASTCATB 6.0e-002 8.1e-005 -9.43 0.0 142 490 191 481 0.28980 3.3e-007 244 3 M2292_1.02 JUND DRTGASTCATS 3.8e0000 5.1e-003 -5.28 0.0 142 490 175 460 0.28980 2.1e-005 244 3 M2299_1.02 (MYF5)_(Mus_musculus)_(DBD_0.90) NRNRRCAGCTGSN 1.8e-001 2.4e-004 -8.36 0.0 36 488 69 505 0.07377 9.7e-007 243 3 M4444_1.02 RELA DGGGRMTTTCCMVN 9.7e0000 1.3e-002 -4.35 0.0 157 487 192 470 0.32238 5.3e-005 243 3 M4452_1.02 BATF TYYYRWWATGASTCA 1.6e0000 2.2e-003 -6.12 0.0 38 486 71 534 0.07819 9.1e-006 242 3 M4479_1.02 TCF12 VSAGCAGSTGB 1.4e-005 1.8e-008 -17.81 0.0 70 490 133 534 0.14286 7.5e-011 244 3 M4525_1.02 TFAP2C NGCCYSAGGSCANDB 9.1e-006 1.2e-008 -18.23 0.0 62 486 115 490 0.12757 5.0e-011 242 3 M4532_1.02 MYC CCACGTGSYY 2.4e-007 3.2e-010 -21.87 0.0 85 491 147 483 0.17312 1.3e-012 245 3 M4543_1.02 MXI1 VVVVCCACGTG 5.6e-001 7.4e-004 -7.20 0.0 38 490 63 445 0.07755 3.1e-006 244 3 M4553_1.02 BHLHE40 NGKCACGTGC 7.2e0000 9.6e-003 -4.65 0.0 101 491 127 443 0.20570 3.9e-005 245 3 M4565_1.02 FOSL2 VDGGATGASTCAYH 2.2e0000 2.9e-003 -5.85 0.0 147 487 181 457 0.30185 1.2e-005 243 3 M4619_1.02 FOSL1 BGGTGASTCAT 1.5e0000 2.1e-003 -6.19 0.0 84 490 112 443 0.17143 8.4e-006 244 3 M4971_1.02 (FERD3L)_(Drosophila_melanogaster)_(DBD_0.89) GTVACAGVTG 5.2e-002 6.9e-005 -9.57 0.0 61 491 111 557 0.12424 2.8e-007 245 3 M5116_1.02 (ATOH8)_(Drosophila_melanogaster)_(DBD_0.70) RCCACCTGK 5.1e-011 6.8e-014 -30.32 0.0 74 492 161 565 0.15041 2.8e-016 245 3 M5293_1.02 ATF7 NKATGACGTCATHN 2.5e-001 3.4e-004 -7.99 0.0 93 487 68 204 0.19097 1.4e-006 243 3 M5302_1.02 BATF3 TGATGACGTCATCA 1.2e0000 1.7e-003 -6.41 0.0 85 487 41 120 0.17454 6.8e-006 243 3 M5304_1.02 BHLHA15 ACCATATGKT 5.3e-004 7.1e-007 -14.15 0.0 37 491 62 365 0.07536 2.9e-009 245 3 M5323_1.02 CREB3 KGRTGACGTCAYNN 2.6e0000 3.5e-003 -5.66 0.0 93 487 74 243 0.19097 1.4e-005 243 3 M5394_1.02 EN2 NNTAATTRVD 3.9e0000 5.2e-003 -5.25 0.0 185 491 235 504 0.37678 2.1e-005 245 3 M5430_1.02 FIGLA WMCACCTGKW 2.8e-005 3.8e-008 -17.09 0.0 77 491 149 571 0.15682 1.6e-010 245 3 M5497_1.02 GRHL1 AACCGGTYTAACCGGTT 9.9e0000 1.3e-002 -4.33 0.0 86 484 85 317 0.17769 5.5e-005 241 3 M5571_1.02 ID4 DVCAGGTGYN 2.2e-007 2.9e-010 -21.95 0.0 69 491 140 548 0.14053 1.2e-012 245 3 M5587_1.02 JDP2 ATGASTCAT 1.9e0000 2.5e-003 -5.98 0.0 282 492 299 444 0.57317 1.0e-005 245 3 M5605_1.02 LMX1B TTAATTRN 8.7e0000 1.2e-002 -4.45 0.0 181 493 228 503 0.36714 4.8e-005 246 3 M5624_1.02 MEOX2 DSTAATTAWN 1.5e-002 2.0e-005 -10.84 0.0 169 491 239 525 0.34420 8.0e-008 245 3 M5627_1.02 MESP1 NVCAGGTGYD 7.7e0000 1.0e-002 -4.58 0.0 39 491 72 564 0.07943 4.2e-005 245 3 M5631_1.02 MIXL1 NBTAATTRVN 2.3e0000 3.1e-003 -5.77 0.0 185 491 240 512 0.37678 1.3e-005 245 3 M5635_1.02 MNX1 TTTAATTRNH 2.0e0000 2.6e-003 -5.94 0.0 177 491 232 512 0.36049 1.1e-005 245 3 M5652_1.02 NEUROD2 RMCATATGBY 3.6e-006 4.8e-009 -19.15 0.0 51 491 100 482 0.10387 2.0e-011 245 3 M5693_1.02 OLIG3 AMCATATGBY 9.8e-001 1.3e-003 -6.64 0.0 37 491 64 470 0.07536 5.3e-006 245 3 M5743_1.02 POU4F3 RTGMATWATTAATGAV 2.8e-001 3.7e-004 -7.90 0.0 157 485 186 430 0.32371 1.5e-006 242 3 M5772_1.02 RAX2 BTAATTRR 6.6e0000 8.8e-003 -4.74 0.0 185 493 239 517 0.37525 3.6e-005 246 3 M5804_1.02 SCRT1 RWGCAACAGGTGKBH 3.9e-001 5.2e-004 -7.56 0.0 98 486 113 372 0.20165 2.2e-006 242 3 M5805_1.02 SCRT2 RWGCAACAGGTGB 1.7e-002 2.3e-005 -10.69 0.0 90 488 109 365 0.18443 9.4e-008 243 3 M5807_1.02 SHOX2 YTAATTRR 9.5e0000 1.3e-002 -4.37 0.0 185 493 235 511 0.37525 5.2e-005 246 3 M5932_1.02 TFEC VTCAYGTGAY 8.1e0000 1.1e-002 -4.52 0.0 69 491 105 514 0.14053 4.5e-005 245 3 M5945_1.02 VAX2 YTAATTAN 4.1e0000 5.5e-003 -5.20 0.0 135 493 185 517 0.27383 2.2e-005 246 3 M5998_1.02 (CREB5)_(Mus_musculus)_(DBD_1.00) DRTGACGTCATN 3.5e-002 4.7e-005 -9.98 0.0 57 489 60 261 0.11656 1.9e-007 244 3 M6140_1.02 AIRE HTTGGWWWWWWTGGDTWH 2.7e0000 3.6e-003 -5.62 0.0 159 483 235 569 0.32919 1.5e-005 241 3 M6144_1.02 TFAP2B BCCCBCRGGC 1.3e0000 1.8e-003 -6.34 0.0 49 491 83 508 0.09980 7.2e-006 245 3 M6186_1.02 DBP KVTTRCATAAB 2.3e-002 3.1e-005 -10.37 0.0 278 490 366 541 0.56735 1.3e-007 244 3 M6210_1.02 ENO1 YDSMCACRTGSYB 2.7e-002 3.6e-005 -10.24 0.0 80 488 134 531 0.16393 1.5e-007 243 3 M6228_1.02 FOSB CTGACTCAYV 1.7e0000 2.3e-003 -6.09 0.0 323 491 422 568 0.65784 9.3e-006 245 3 M6271_1.02 HES1 KGKCKCGTGBCKB 2.9e-002 3.9e-005 -10.16 0.0 102 488 157 513 0.20902 1.6e-007 243 3 M6290_1.02 HOXA13 CCAATAAWAHC 1.1e-004 1.5e-007 -15.70 0.0 50 490 103 540 0.10204 6.2e-010 244 3 M6292_1.02 HOXA5 CATTAATYAR 7.5e0000 1.0e-002 -4.60 0.0 171 491 214 492 0.34827 4.1e-005 245 3 M6296_1.02 HOXB6 KKCATMAATCAWT 4.3e-002 5.7e-005 -9.77 0.0 200 488 218 408 0.40984 2.3e-007 243 3 M6297_1.02 HOXB7 MATYAATCAA 2.7e-003 3.6e-006 -12.55 0.0 157 491 185 408 0.31976 1.5e-008 245 3 M6298_1.02 HOXB8 BMATTAATCAA 4.7e-002 6.2e-005 -9.68 0.0 166 490 185 401 0.33878 2.6e-007 244 3 M6300_1.02 HOXC8 GSBHATYAATSAAR 1.2e-002 1.5e-005 -11.08 0.0 215 487 283 505 0.44148 6.3e-008 243 3 M6302_1.02 HOXD13 TCYCTAATAAA 4.7e0000 6.3e-003 -5.07 0.0 30 490 60 562 0.06122 2.6e-005 244 3 M6316_1.02 TCF4 VCAGGTGYD 1.8e-002 2.3e-005 -10.66 0.0 74 492 119 496 0.15041 9.5e-008 245 3 M6345_1.02 MITF VKCACATGWY 8.3e-001 1.1e-003 -6.80 0.0 43 491 82 563 0.08758 4.5e-006 245 3 M6346_1.02 MLXIPL VCACGVSGKTGBCMCRTGC 9.4e0000 1.3e-002 -4.38 0.0 60 482 69 346 0.12448 5.2e-005 240 3 M6354_1.02 MYOD1 RACAGSTGS 7.6e-002 1.0e-004 -9.20 0.0 70 492 124 565 0.14228 4.1e-007 245 3 M6358_1.02 NEUROD1 BGGCAGRTGKSC 5.5e-002 7.4e-005 -9.52 0.0 69 489 118 528 0.14110 3.0e-007 244 3 M6406_1.02 PAX2 RHTCAGTSAYGMGTGAYW 6.9e-003 9.2e-006 -11.60 0.0 91 483 157 552 0.18841 3.8e-008 241 3 M6410_1.02 PAX6 TSAWGCGTRAA 3.2e-006 4.3e-009 -19.27 0.0 56 490 120 563 0.11429 1.8e-011 244 3 M6449_1.02 REL DKGGRNWTTCCV 8.2e0000 1.1e-002 -4.52 0.0 169 489 236 552 0.34560 4.5e-005 244 3 M6468_1.02 SNAI1 SCAGGTGK 1.3e-006 1.8e-009 -20.15 0.0 77 493 149 554 0.15619 7.2e-012 246 3 M6469_1.02 SNAI2 BCAGGTG 1.7e-006 2.3e-009 -19.88 0.0 68 494 137 559 0.13765 9.4e-012 246 3 M6496_1.02 STAT4 TTTCCMAGAAAAV 6.7e0000 8.9e-003 -4.72 0.0 302 488 385 549 0.61885 3.7e-005 243 3 M6500_1.02 TAL1 GACCATCTGTTS 5.4e-012 7.2e-015 -32.57 0.0 63 489 122 435 0.12883 2.9e-017 244 3 M6516_1.02 TCF3 RRVCATCTGKT 2.1e-010 2.8e-013 -28.92 0.0 76 490 165 575 0.15510 1.1e-015 244 3 M6517_1.02 TFE3 RGTCAYGTGV 1.9e-002 2.5e-005 -10.59 0.0 75 491 130 542 0.15275 1.0e-007 245 3 M6523_1.02 THRB TGACCTSABSTSRSSYC 6.6e0000 8.8e-003 -4.73 0.0 120 484 166 508 0.24793 3.7e-005 241 3 M6527_1.02 TWIST1 MCCCAGGTGK 5.6e-006 7.4e-009 -18.72 0.0 85 491 145 493 0.17312 3.0e-011 245 3 M6546_1.02 ZFHX3 ATTAWTAATTA 8.3e0000 1.1e-002 -4.51 0.0 134 490 153 424 0.27347 4.6e-005 244 3 M6547_1.02 ZFX SVGSSSSSCAGGCCBVGSC 1.1e-005 1.4e-008 -18.05 0.0 64 482 110 446 0.13278 6.0e-011 240 ## # 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).