# 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 TAAATAAATAAATAAATAAAT MEME-1 TAAATAAATAAATAAATAAAT 1.8e-126 2.4e-129 -296.18 0.0 38 480 150 181 0.07917 9.9e-132 239 1 TTTATTTATTTATTTT MEME-2 TTTATTTATTTATTTT 6.1e-080 8.1e-083 -189.02 0.0 65 485 157 221 0.13402 3.4e-085 242 1 AAATAAATAAAWAAAWDWADWW MEME-3 AAATAAATAAAWAAAWDWADWW 4.5e-100 6.0e-103 -235.37 0.0 43 479 149 211 0.08977 2.5e-105 239 1 YRGAGTCTCRCTCTGT MEME-4 YRGAGTCTCRCTCTGT 9.1e-015 1.2e-017 -38.94 0.0 119 485 157 329 0.24536 5.1e-020 242 1 GTGTGTGTGTGTGTGTGTGTGTGTGTG MEME-5 GTGTGTGTGTGTGTGTGTGTGTGTGTG 1.5e0000 2.1e-003 -6.18 0.0 142 474 50 97 0.29958 8.8e-006 236 1 AATWYTGHKMTTTTMYGWMSRGYTTAWAAWA MEME-6 AATWYTGHKMTTTTMYGWMSRGYTTAWAAWA 5.3e0000 7.2e-003 -4.94 0.0 70 470 11 21 0.14894 3.1e-005 234 1 TTTATTTWTTTW MEME-7 TTTATTTWTTTW 1.1e-074 1.4e-077 -176.95 0.0 51 489 169 316 0.10429 5.8e-080 244 1 GGCKTAGGACCCTCCRAGCCAGGTGYGGGATATARTCTCSTGSTGCGCYG MEME-9 GGCKTAGGACCCTCCRAGCCAGGTGYGGGATATARTCTCSTGSTGCGCYG 7.2e0000 9.6e-003 -4.65 0.0 149 451 11 12 0.33038 4.3e-005 225 1 AGYRAGACTCYRTCTC MEME-10 AGYRAGACTCYRTCTC 7.0e-008 9.3e-011 -23.10 0.0 109 485 103 234 0.22474 3.9e-013 242 2 AAATAAAT DREME-1 AAATAAAT 9.7e-103 1.3e-105 -241.51 0.0 57 493 154 190 0.11562 5.3e-108 246 2 ACAGAGY DREME-3 ACAGAGY 4.2e-015 5.6e-018 -39.73 0.0 126 494 98 163 0.25506 2.3e-020 246 3 M0104_1.02 (ARID3B)_(Mus_musculus)_(DBD_0.99) AWATTAATWAN 5.1e-011 6.8e-014 -30.32 0.0 52 490 103 417 0.10612 2.8e-016 244 3 M0105_1.02 (ARID3C)_(Mus_musculus)_(DBD_0.87) NTTTDATHN 3.9e-004 5.2e-007 -14.46 0.0 52 492 96 490 0.10569 2.1e-009 245 3 M0398_1.02 (ZSCAN10)_(Mus_musculus)_(DBD_0.82) NGKRAGTGCNN 2.9e-004 3.8e-007 -14.77 0.0 276 490 390 569 0.56327 1.6e-009 244 3 M0436_1.02 (ZNF35)_(Mus_musculus)_(DBD_0.96) TTRTTKDHYN 1.2e-021 1.6e-024 -54.82 0.0 61 491 160 531 0.12424 6.4e-027 245 3 M0437_1.02 (ZNF32)_(Mus_musculus)_(DBD_0.99) TATRTATRT 9.0e-035 1.2e-037 -85.00 0.0 50 492 134 375 0.10163 4.9e-040 245 3 M0633_1.02 DMRT2 KAATKTATWN 6.0e-035 8.0e-038 -85.42 0.0 47 491 141 432 0.09572 3.3e-040 245 3 M0718_1.02 FOXK1 NNRTMAACAH 8.6e-016 1.1e-018 -41.31 0.0 37 491 110 544 0.07536 4.7e-021 245 3 M0719_1.02 FOXG1 RTAAACAW 5.8e-014 7.8e-017 -37.09 0.0 47 493 107 442 0.09533 3.2e-019 246 3 M0728_1.02 (FOXJ1)_(Mus_musculus)_(DBD_1.00) NRTAAACAAANN 1.3e-014 1.8e-017 -38.55 0.0 43 489 114 516 0.08793 7.4e-020 244 3 M0736_1.02 (FOXK2)_(Mus_musculus)_(DBD_0.90) RTAAACAA 1.7e-004 2.3e-007 -15.30 0.0 57 493 109 520 0.11562 9.3e-010 246 3 M0737_1.02 (FOXB2)_(Mus_musculus)_(DBD_0.94) WRWGTAAAYA 2.9e-039 3.9e-042 -95.35 0.0 45 491 162 524 0.09165 1.6e-044 245 3 M0747_1.02 (FOXL2)_(Mus_musculus)_(DBD_0.70) WNNRTAAAYA 1.4e-021 1.8e-024 -54.65 0.0 63 491 163 533 0.12831 7.5e-027 245 3 M0896_1.02 VENTX TTAATTAG 6.1e-007 8.1e-010 -20.93 0.0 53 493 97 434 0.10751 3.3e-012 246 3 M0897_1.02 HOXB13 DTTWAYDRBN 6.5e-002 8.6e-005 -9.36 0.0 67 491 108 491 0.13646 3.5e-007 245 3 M0906_1.02 (VTN)_(Mus_musculus)_(DBD_0.79) NMTTAATTAR 3.7e-008 5.0e-011 -23.72 0.0 51 491 89 377 0.10387 2.0e-013 245 3 M1157_1.02 (HOXB9)_(PBM_CONSTRUCTS)_(DBD_1.00) WTTWATKRBN 1.1e-006 1.4e-009 -20.38 0.0 65 491 119 481 0.13238 5.8e-012 245 3 M1582_1.02 (HMG20B)_(Mus_musculus)_(DBD_0.94) NWAWATAATWN 2.5e-019 3.4e-022 -49.43 0.0 50 490 116 411 0.10204 1.4e-024 244 3 M1583_1.02 (BBX)_(Mus_musculus)_(DBD_0.99) TTCATTGA 4.3e-016 5.8e-019 -41.99 0.0 57 493 141 530 0.11562 2.3e-021 246 3 M1884_1.02 MEF2A DKCTAAAAATAGMHH 1.1e-001 1.5e-004 -8.83 0.0 68 486 96 416 0.13992 6.1e-007 242 3 M2270_1.02 DUX4 TAAYYYAATCA 1.4e0000 1.9e-003 -6.26 0.0 46 490 68 419 0.09388 7.8e-006 244 3 M2283_1.02 FOXP1 HWWADGTAAACAAAR 4.9e-017 6.6e-020 -44.16 0.0 56 486 133 478 0.11523 2.7e-022 242 3 M2287_1.02 (HOXC9)_(Mus_musculus)_(DBD_0.98) RGCCATAAATCAB 1.3e-021 1.7e-024 -54.73 0.0 64 488 142 426 0.13115 7.0e-027 243 3 M2385_1.02 FOXP2 RWGTAAACAVR 2.3e-016 3.1e-019 -42.61 0.0 38 490 103 475 0.07755 1.3e-021 244 3 M4452_1.02 BATF TYYYRDWATGASTCA 2.2e-002 2.9e-005 -10.46 0.0 102 486 150 483 0.20988 1.2e-007 242 3 M4467_1.02 MEF2C NDKCYAAAAATAGMH 2.3e-005 3.0e-008 -17.31 0.0 70 486 122 477 0.14403 1.3e-010 242 3 M4526_1.02 SMARCC1 DSRVDGTGASTCABV 1.1e0000 1.5e-003 -6.50 0.0 324 486 354 466 0.66667 6.2e-006 242 3 M4565_1.02 FOSL2 VDGGATGASTCAYH 2.8e0000 3.8e-003 -5.57 0.0 319 487 315 420 0.65503 1.6e-005 243 3 M4567_1.02 FOXA2 NCWRWGTAAACANNN 8.4e-023 1.1e-025 -57.45 0.0 72 486 176 513 0.14815 4.6e-028 242 3 M4708_1.02 TBP TATGCAAATA 7.2e0000 9.7e-003 -4.64 0.0 49 491 73 457 0.09980 4.0e-005 245 3 M5287_1.02 ALX4 HTAATYNAATTAN 1.4e-046 1.9e-049 -112.18 0.0 58 488 170 411 0.11885 7.8e-052 243 3 M5291_1.02 ARX YTAATTNRATTAN 1.5e-050 2.0e-053 -121.34 0.0 38 488 139 384 0.07787 8.3e-056 243 3 M5294_1.02 BARHL2 NHTAAAYGNY 2.9e-011 3.9e-014 -30.87 0.0 47 491 109 493 0.09572 1.6e-016 245 3 M5300_1.02 BARX1 TAATBGNTWTTTAATBG 4.1e-007 5.5e-010 -21.32 0.0 68 484 104 372 0.14050 2.3e-012 241 3 M5322_1.02 CPEB1 YTTTTATY 1.2e-004 1.5e-007 -15.68 0.0 65 493 114 485 0.13185 6.3e-010 246 3 M5335_1.02 CUX2 ATCGATAHNDTTATYGAT 2.7e-098 3.6e-101 -231.27 0.0 49 483 157 219 0.10145 1.5e-103 241 3 M5348_1.02 DRGX NTAATYHAATTAN 3.1e-044 4.1e-047 -106.81 0.0 48 488 147 386 0.09836 1.7e-049 243 3 M5349_1.02 DUXA NTRAYYTAATCAN 4.3e-005 5.7e-008 -16.68 0.0 46 488 86 448 0.09426 2.4e-010 243 3 M5377_1.02 ELF4 AACCCGGAAGTR 7.2e-001 9.6e-004 -6.95 0.0 339 489 331 418 0.69325 3.9e-006 244 3 M5445_1.02 FOXD2 DRTMAATATTWDYD 5.4e-004 7.2e-007 -14.14 0.0 43 487 74 405 0.08830 3.0e-009 243 3 M5446_1.02 FOXD4L2 GTAAACA 3.1e-021 4.1e-024 -53.85 0.0 40 494 126 547 0.08097 1.7e-026 246 3 M5460_1.02 FOXL1 RTAAACA 2.9e-023 3.9e-026 -58.52 0.0 38 494 121 513 0.07692 1.6e-028 246 3 M5503_1.02 GSX2 DYTAATKRSN 5.5e0000 7.3e-003 -4.92 0.0 53 491 82 486 0.10794 3.0e-005 245 3 M5544_1.02 HOXC10 DTTTWATKDB 2.4e-007 3.2e-010 -21.85 0.0 71 491 128 476 0.14460 1.3e-012 245 3 M5551_1.02 HOXC12 TTTTATTRC 6.4e-002 8.5e-005 -9.37 0.0 38 492 69 478 0.07724 3.5e-007 245 3 M5584_1.02 ISX YTAATCTAATTAR 2.9e-047 3.9e-050 -113.78 0.0 48 488 141 341 0.09836 1.6e-052 243 3 M5604_1.02 LMX1A YTAATTAA 6.2e-008 8.3e-011 -23.22 0.0 55 493 102 438 0.11156 3.4e-013 246 3 M5605_1.02 LMX1B TTAATTRN 5.0e-009 6.7e-012 -25.73 0.0 63 493 122 477 0.12779 2.7e-014 246 3 M5635_1.02 MNX1 TTTAATTRNH 1.2e-009 1.7e-012 -27.12 0.0 61 491 120 466 0.12424 6.8e-015 245 3 M5637_1.02 MSX1 TAATTGSWWTTTAATTGS 1.1e-012 1.4e-015 -34.20 0.0 61 483 107 358 0.12629 5.8e-018 241 3 M5697_1.02 ONECUT3 DTTATYGATTTTTY 2.1e-039 2.8e-042 -95.68 0.0 73 487 166 360 0.14990 1.1e-044 243 3 M5704_1.02 PAX3 TAATYRATTA 7.5e-013 1.0e-015 -34.54 0.0 45 491 81 311 0.09165 4.1e-018 245 3 M5709_1.02 PAX7 WAATYRATTA 1.9e-002 2.5e-005 -10.58 0.0 47 491 66 353 0.09572 1.0e-007 245 3 M5714_1.02 PHOX2A TAATYYAATTA 3.1e-027 4.1e-030 -67.67 0.0 58 490 139 401 0.11837 1.7e-032 244 3 M5715_1.02 PHOX2B TAATBYAATTA 1.2e-026 1.6e-029 -66.28 0.0 58 490 139 408 0.11837 6.7e-032 244 3 M5740_1.02 POU4F1 ATGMATAATTAATG 6.6e-054 8.8e-057 -129.08 0.0 47 487 162 404 0.09651 3.6e-059 243 3 M5743_1.02 POU4F3 RTGMATWATTAATGAV 4.9e-055 6.5e-058 -131.68 0.0 43 485 156 397 0.08866 2.7e-060 242 3 M5941_1.02 UNCX NTAATYBAATTAN 2.9e-027 3.9e-030 -67.73 0.0 60 488 150 438 0.12295 1.6e-032 243 3 M6114_1.02 FOXA1 WAWGYAAAYA 2.4e-021 3.2e-024 -54.10 0.0 67 491 161 496 0.13646 1.3e-026 245 3 M6141_1.02 ALX1 TAATBYAATTAB 2.0e-017 2.7e-020 -45.06 0.0 37 489 98 436 0.07566 1.1e-022 244 3 M6147_1.02 ARID3A TWWAWTTTGATWYYVWTTAATH 3.7e-051 5.0e-054 -122.74 0.0 41 479 140 355 0.08559 2.1e-056 239 3 M6221_1.02 ETS2 VMVGGAAGTKS 1.2e0000 1.7e-003 -6.40 0.0 276 490 384 588 0.56327 6.8e-006 244 3 M6234_1.02 FOXA3 RVWAARYAAAYAD 2.8e-028 3.7e-031 -70.07 0.0 58 488 162 500 0.11885 1.5e-033 243 3 M6235_1.02 FOXC1 CYWAAGTAAACAWHG 2.5e-025 3.3e-028 -63.28 0.0 62 486 146 421 0.12757 1.4e-030 242 3 M6237_1.02 FOXD3 AAACAAACA 2.9e-028 3.9e-031 -70.03 0.0 46 492 142 502 0.09350 1.6e-033 245 3 M6238_1.02 FOXF1 WAAATAAACAW 1.1e-034 1.5e-037 -84.81 0.0 62 490 170 461 0.12653 6.0e-040 244 3 M6239_1.02 FOXF2 HWADGTAAACA 2.0e-032 2.6e-035 -79.62 0.0 66 490 175 473 0.13469 1.1e-037 244 3 M6241_1.02 FOXJ2 WAAAYAAACA 2.7e-046 3.6e-049 -111.55 0.0 43 491 161 482 0.08758 1.5e-051 245 3 M6242_1.02 FOXJ3 TAAACAWWAAMMA 2.3e-022 3.1e-025 -56.45 0.0 68 488 147 418 0.13934 1.3e-027 243 3 M6244_1.02 FOXM1 RWAAWCAMWCAAV 3.0e-026 4.0e-029 -65.39 0.0 56 488 164 544 0.11475 1.6e-031 243 3 M6245_1.02 FOXO1 AAAWWVWAAACAAVHH 4.1e-032 5.4e-035 -78.90 0.0 53 485 160 497 0.10928 2.2e-037 242 3 M6246_1.02 FOXO3 MKGWAAACAARYM 7.4e-032 9.8e-035 -78.30 0.0 46 488 151 517 0.09426 4.0e-037 243 3 M6247_1.02 FOXO4 MRTAAACAA 1.4e-013 1.9e-016 -36.19 0.0 46 492 115 509 0.09350 7.8e-019 245 3 M6250_1.02 FOXQ1 AAATAAACAATD 7.7e-028 1.0e-030 -69.05 0.0 59 489 141 399 0.12065 4.2e-033 244 3 M6257_1.02 GATA5 WVANWGATAABTYRRHK 2.7e-002 3.6e-005 -10.24 0.0 44 484 77 460 0.09091 1.5e-007 241 3 M6269_1.02 HBP1 AYYCATTGA 1.2e-012 1.6e-015 -34.07 0.0 44 492 107 490 0.08943 6.5e-018 245 3 M6281_1.02 HNF1A KGKTAAWBATTAACY 6.0e-009 8.0e-012 -25.55 0.0 44 486 87 405 0.09053 3.3e-014 242 3 M6282_1.02 HNF1B GTTAAWYATTAACY 9.1e-011 1.2e-013 -29.73 0.0 65 487 120 426 0.13347 5.0e-016 243 3 M6285_1.02 ONECUT1 WWTATTGATTTWDH 2.0e-045 2.7e-048 -109.52 0.0 55 487 165 414 0.11294 1.1e-050 243 3 M6289_1.02 HOXA9 WCATAAAYYRTH 1.1e-025 1.4e-028 -64.12 0.0 51 489 135 443 0.10429 5.8e-031 244 3 M6290_1.02 HOXA13 CCAATAAWAHC 7.1e-003 9.5e-006 -11.56 0.0 62 490 103 477 0.12653 3.9e-008 244 3 M6296_1.02 HOXB6 KKCATMAATCAWY 2.0e-022 2.6e-025 -56.60 0.0 54 488 116 355 0.11066 1.1e-027 243 3 M6297_1.02 HOXB7 MATYAATCAA 3.7e-039 4.9e-042 -95.12 0.0 53 491 148 393 0.10794 2.0e-044 245 3 M6298_1.02 HOXB8 BMATTAATCAA 2.2e-030 2.9e-033 -74.91 0.0 54 490 132 373 0.11020 1.2e-035 244 3 M6299_1.02 HOXC6 AAAGTAATAAATCAT 2.4e-060 3.2e-063 -143.90 0.0 56 486 162 321 0.11523 1.3e-065 242 3 M6301_1.02 HOXD10 AATTAAARCA 1.0e-004 1.4e-007 -15.80 0.0 65 491 114 486 0.13238 5.6e-010 245 3 M6304_1.02 HOXD9 HMATNAAWYT 5.0e-002 6.7e-005 -9.61 0.0 45 491 77 465 0.09165 2.7e-007 245 3 M6312_1.02 IRF7 GAAASYGAAA 9.9e0000 1.3e-002 -4.33 0.0 61 491 100 549 0.12424 5.4e-005 245 3 M6326_1.02 KLF8 CAGGGKGTG 2.6e-001 3.4e-004 -7.98 0.0 402 492 473 530 0.81707 1.4e-006 245 3 M6329_1.02 LHX3 AAAATTAATTARY 9.8e-031 1.3e-033 -75.71 0.0 54 488 129 355 0.11066 5.4e-036 243 3 M6348_1.02 MTF1 MGKGCCGTGYGCAAARS 3.1e0000 4.2e-003 -5.48 0.0 180 484 197 417 0.37190 1.7e-005 241 3 M6378_1.02 NKX3-1 WWTAAGTATWTWW 1.2e-059 1.6e-062 -142.32 0.0 42 488 166 428 0.08607 6.4e-065 243 3 M6399_1.02 ONECUT2 DKSWTKWTATKGATTTTWYYT 7.4e-052 1.0e-054 -124.34 0.0 58 480 162 346 0.12083 4.2e-057 239 3 M6412_1.02 PBX1 VHMATCAATCAAWYH 5.2e-005 6.9e-008 -16.48 0.0 62 486 111 478 0.12757 2.9e-010 242 3 M6413_1.02 PBX2 VMATCAATCAMWTYM 5.6e-026 7.5e-029 -64.76 0.0 42 486 129 482 0.08642 3.1e-031 242 3 M6417_1.02 POU1F1 RWATATTCATKAR 5.1e-022 6.8e-025 -55.65 0.0 46 488 124 461 0.09426 2.8e-027 243 3 M6426_1.02 POU3F2 CATRAATWWT 2.7e-045 3.6e-048 -109.25 0.0 47 491 164 472 0.09572 1.5e-050 245 3 M6427_1.02 POU4F2 MARCTCATTAATR 3.0e-002 4.0e-005 -10.12 0.0 86 488 115 412 0.17623 1.7e-007 243 3 M6438_1.02 PROP1 RASHAATTAAHWTVR 1.8e-011 2.4e-014 -31.38 0.0 60 486 119 443 0.12346 9.7e-017 242 3 M6509_1.02 TEAD4 AAAAAYAKCYCT 1.6e-001 2.1e-004 -8.46 0.0 59 489 93 467 0.12065 8.7e-007 244 3 M6510_1.02 TEF TGTTTATRTAAMTK 1.2e-017 1.7e-020 -45.54 0.0 61 487 140 474 0.12526 6.8e-023 243 3 M6546_1.02 ZFHX3 ATTAWTAATTA 8.0e-054 1.1e-056 -128.87 0.0 50 490 157 364 0.10204 4.4e-059 244 ## # 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).