| Rank | Motif | Name | P-value | log P-pvalue | q-value (Benjamini) | # Target Sequences with Motif | % of Targets Sequences with Motif | # Background Sequences with Motif | % of Background Sequences with Motif | Motif File |
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| 1 |  | ABF1/SacCer-Promoters/Homer | 1e-228 | -5.258e+02 | 0.0000 | 1488.0 | 34.33% | 3117.0 | 14.64% | motif file (matrix) |
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| 2 |  | REB1/SacCer-Promoters/Homer | 1e-182 | -4.212e+02 | 0.0000 | 943.0 | 21.76% | 1644.6 | 7.72% | motif file (matrix) |
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| 3 |  | RLR1?/SacCer-Promoters/Homer | 1e-67 | -1.561e+02 | 0.0000 | 1992.0 | 45.96% | 7059.4 | 33.16% | motif file (matrix) |
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| 4 |  | c-Myc(bHLH)/LNCAP-cMyc-ChIP-Seq(Unpublished)/Homer | 1e-64 | -1.479e+02 | 0.0000 | 604.0 | 13.94% | 1414.0 | 6.64% | motif file (matrix) |
pdf |
| 5 |  | bHLHE40(bHLH)/HepG2-BHLHE40-ChIP-Seq(GSE31477)/Homer | 1e-51 | -1.195e+02 | 0.0000 | 449.0 | 10.36% | 1004.5 | 4.72% | motif file (matrix) |
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| 6 |  | SeqBias: CG-repeat | 1e-51 | -1.180e+02 | 0.0000 | 762.0 | 17.58% | 2135.1 | 10.03% | motif file (matrix) |
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| 7 |  | Cbf1(bHLH)/Yeast-Cbf1-ChIP-Seq(GSE29506)/Homer | 1e-50 | -1.157e+02 | 0.0000 | 427.0 | 9.85% | 946.9 | 4.45% | motif file (matrix) |
pdf |
| 8 |  | CLOCK(bHLH)/Liver-Clock-ChIP-Seq(GSE39860)/Homer | 1e-46 | -1.066e+02 | 0.0000 | 581.0 | 13.41% | 1523.8 | 7.16% | motif file (matrix) |
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| 9 |  | Usf2(bHLH)/C2C12-Usf2-ChIP-Seq(GSE36030)/Homer | 1e-44 | -1.021e+02 | 0.0000 | 403.0 | 9.30% | 920.8 | 4.32% | motif file (matrix) |
pdf |
| 10 |  | n-Myc(bHLH)/mES-nMyc-ChIP-Seq(GSE11431)/Homer | 1e-43 | -9.927e+01 | 0.0000 | 656.0 | 15.14% | 1843.0 | 8.66% | motif file (matrix) |
pdf |
| 11 |  | USF1(bHLH)/GM12878-Usf1-ChIP-Seq(GSE32465)/Homer | 1e-41 | -9.557e+01 | 0.0000 | 490.0 | 11.31% | 1251.1 | 5.88% | motif file (matrix) |
pdf |
| 12 |  | SFP1/SacCer-Promoters/Homer | 1e-40 | -9.427e+01 | 0.0000 | 632.0 | 14.58% | 1782.2 | 8.37% | motif file (matrix) |
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| 13 |  | E-box/Arabidopsis-Promoters/Homer | 1e-36 | -8.457e+01 | 0.0000 | 545.0 | 12.57% | 1512.7 | 7.10% | motif file (matrix) |
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| 14 |  | DPL-1(E2F)/cElegans-Adult-ChIP-Seq(modEncode)/Homer | 1e-35 | -8.270e+01 | 0.0000 | 1030.0 | 23.77% | 3473.9 | 16.32% | motif file (matrix) |
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| 15 |  | Pho2(bHLH)/Yeast-Pho2-ChIP-Seq(GSE29506)/Homer | 1e-33 | -7.767e+01 | 0.0000 | 439.0 | 10.13% | 1160.3 | 5.45% | motif file (matrix) |
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| 16 |  | TOD6?/SacCer-Promoters/Homer | 1e-33 | -7.607e+01 | 0.0000 | 376.0 | 8.68% | 943.3 | 4.43% | motif file (matrix) |
pdf |
| 17 |  | Max(bHLH)/K562-Max-ChIP-Seq(GSE31477)/Homer | 1e-32 | -7.410e+01 | 0.0000 | 591.0 | 13.64% | 1754.7 | 8.24% | motif file (matrix) |
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| 18 |  | E-box(bHLH)/Promoter/Homer | 1e-30 | -7.112e+01 | 0.0000 | 135.0 | 3.11% | 201.2 | 0.94% | motif file (matrix) |
pdf |
| 19 |  | PIF5ox(bHLH)/Arabidopsis-PIF5ox-ChIP-Seq(GSE35062)/Homer | 1e-27 | -6.343e+01 | 0.0000 | 865.0 | 19.96% | 2955.4 | 13.88% | motif file (matrix) |
pdf |
| 20 |  | SPCH(bHLH)/Seedling-SPCH-ChIP-Seq(GSE57497)/Homer | 1e-27 | -6.271e+01 | 0.0000 | 1089.0 | 25.13% | 3924.4 | 18.43% | motif file (matrix) |
pdf |
| 21 |  | IBL1(bHLH)/Seedling-IBL1-ChIP-Seq(GSE51120)/Homer | 1e-25 | -5.956e+01 | 0.0000 | 1319.0 | 30.43% | 4980.4 | 23.39% | motif file (matrix) |
pdf |
| 22 |  | NPAS2(bHLH)/Liver-NPAS2-ChIP-Seq(GSE39860)/Homer | 1e-23 | -5.526e+01 | 0.0000 | 814.0 | 18.78% | 2820.2 | 13.25% | motif file (matrix) |
pdf |
| 23 |  | PIF4(bHLH)/Seedling-PIF4-ChIP-Seq(GSE35315)/Homer | 1e-23 | -5.491e+01 | 0.0000 | 941.0 | 21.71% | 3367.9 | 15.82% | motif file (matrix) |
pdf |
| 24 |  | Egr2(Zf)/Thymocytes-Egr2-ChIP-Seq(GSE34254)/Homer | 1e-22 | -5.067e+01 | 0.0000 | 134.0 | 3.09% | 249.0 | 1.17% | motif file (matrix) |
pdf |
| 25 |  | Arnt:Ahr(bHLH)/MCF7-Arnt-ChIP-Seq(Lo_et_al.)/Homer | 1e-20 | -4.826e+01 | 0.0000 | 1050.0 | 24.23% | 3922.2 | 18.42% | motif file (matrix) |
pdf |
| 26 |  | TATA-box/SacCer-Promoters/Homer | 1e-20 | -4.804e+01 | 0.0000 | 1885.0 | 43.49% | 7766.8 | 36.48% | motif file (matrix) |
pdf |
| 27 |  | E2F4(E2F)/K562-E2F4-ChIP-Seq(GSE31477)/Homer | 1e-20 | -4.763e+01 | 0.0000 | 775.0 | 17.88% | 2734.4 | 12.84% | motif file (matrix) |
pdf |
| 28 |  | FHY3(FAR1)/Arabidopsis-FHY3-ChIP-Seq(GSE30711)/Homer | 1e-17 | -4.023e+01 | 0.0000 | 395.0 | 9.11% | 1236.2 | 5.81% | motif file (matrix) |
pdf |
| 29 |  | MITF(bHLH)/MastCells-MITF-ChIP-Seq(GSE48085)/Homer | 1e-15 | -3.496e+01 | 0.0000 | 766.0 | 17.67% | 2845.9 | 13.37% | motif file (matrix) |
pdf |
| 30 |  | Pho4(bHLH)/Yeast-Pho4-ChIP-Seq(GSE29506)/Homer | 1e-13 | -3.190e+01 | 0.0000 | 163.0 | 3.76% | 416.7 | 1.96% | motif file (matrix) |
pdf |
| 31 |  | KLF14(Zf)/HEK293-KLF14.GFP-ChIP-Seq(GSE58341)/Homer | 1e-13 | -3.180e+01 | 0.0000 | 532.0 | 12.28% | 1878.6 | 8.82% | motif file (matrix) |
pdf |
| 32 |  | c-Myc(bHLH)/mES-cMyc-ChIP-Seq(GSE11431)/Homer | 1e-13 | -3.002e+01 | 0.0000 | 332.0 | 7.66% | 1071.2 | 5.03% | motif file (matrix) |
pdf |
| 33 |  | Klf4(Zf)/mES-Klf4-ChIP-Seq(GSE11431)/Homer | 1e-12 | -2.954e+01 | 0.0000 | 151.0 | 3.48% | 386.8 | 1.82% | motif file (matrix) |
pdf |
| 34 |  | BMAL1(bHLH)/Liver-Bmal1-ChIP-Seq(GSE39860)/Homer | 1e-12 | -2.793e+01 | 0.0000 | 1361.0 | 31.40% | 5655.6 | 26.56% | motif file (matrix) |
pdf |
| 35 |  | Egr1(Zf)/K562-Egr1-ChIP-Seq(GSE32465)/Homer | 1e-10 | -2.529e+01 | 0.0000 | 300.0 | 6.92% | 985.4 | 4.63% | motif file (matrix) |
pdf |
| 36 |  | KLF10(Zf)/HEK293-KLF10.GFP-ChIP-Seq(GSE58341)/Homer | 1e-10 | -2.368e+01 | 0.0000 | 231.0 | 5.33% | 724.1 | 3.40% | motif file (matrix) |
pdf |
| 37 |  | KLF5(Zf)/LoVo-KLF5-ChIP-Seq(GSE49402)/Homer | 1e-9 | -2.262e+01 | 0.0000 | 445.0 | 10.27% | 1618.9 | 7.60% | motif file (matrix) |
pdf |
| 38 |  | GAGA-repeat/Arabidopsis-Promoters/Homer | 1e-9 | -2.239e+01 | 0.0000 | 502.0 | 11.58% | 1866.6 | 8.77% | motif file (matrix) |
pdf |
| 39 |  | HIF-1b(HLH)/T47D-HIF1b-ChIP-Seq(GSE59937)/Homer | 1e-9 | -2.189e+01 | 0.0000 | 1605.0 | 37.03% | 6935.8 | 32.58% | motif file (matrix) |
pdf |
| 40 |  | SeqBias: TA-repeat | 1e-9 | -2.152e+01 | 0.0000 | 3806.0 | 87.82% | 18000.3 | 84.54% | motif file (matrix) |
pdf |
| 41 |  | SUT1?/SacCer-Promoters/Homer | 1e-9 | -2.143e+01 | 0.0000 | 2902.0 | 66.96% | 13305.6 | 62.49% | motif file (matrix) |
pdf |
| 42 |  | HIF-1a(bHLH)/MCF7-HIF1a-ChIP-Seq(GSE28352)/Homer | 1e-9 | -2.126e+01 | 0.0000 | 482.0 | 11.12% | 1795.8 | 8.43% | motif file (matrix) |
pdf |
| 43 |  | Klf9(Zf)/GBM-Klf9-ChIP-Seq(GSE62211)/Homer | 1e-8 | -2.066e+01 | 0.0000 | 120.0 | 2.77% | 324.5 | 1.52% | motif file (matrix) |
pdf |
| 44 |  | ZNF467(Zf)/HEK293-ZNF467.GFP-ChIP-Seq(GSE58341)/Homer | 1e-8 | -2.031e+01 | 0.0000 | 287.0 | 6.62% | 981.6 | 4.61% | motif file (matrix) |
pdf |
| 45 |  | ZBTB33(Zf)/GM12878-ZBTB33-ChIP-Seq(GSE32465)/Homer | 1e-8 | -1.974e+01 | 0.0000 | 59.0 | 1.36% | 122.0 | 0.57% | motif file (matrix) |
pdf |
| 46 |  | Maz(Zf)/HepG2-Maz-ChIP-Seq(GSE31477)/Homer | 1e-8 | -1.873e+01 | 0.0000 | 265.0 | 6.11% | 907.0 | 4.26% | motif file (matrix) |
pdf |
| 47 |  | BATF(bZIP)/Th17-BATF-ChIP-Seq(GSE39756)/Homer | 1e-7 | -1.840e+01 | 0.0000 | 577.0 | 13.31% | 2255.2 | 10.59% | motif file (matrix) |
pdf |
| 48 |  | HIF2a(bHLH)/785_O-HIF2a-ChIP-Seq(GSE34871)/Homer | 1e-7 | -1.681e+01 | 0.0000 | 709.0 | 16.36% | 2876.4 | 13.51% | motif file (matrix) |
pdf |
| 49 |  | FOXP1(Forkhead)/H9-FOXP1-ChIP-Seq(GSE31006)/Homer | 1e-6 | -1.552e+01 | 0.0000 | 749.0 | 17.28% | 3084.6 | 14.49% | motif file (matrix) |
pdf |
| 50 |  | EKLF(Zf)/Erythrocyte-Klf1-ChIP-Seq(GSE20478)/Homer | 1e-6 | -1.408e+01 | 0.0000 | 94.0 | 2.17% | 270.0 | 1.27% | motif file (matrix) |
pdf |
| 51 |  | TATA-box/Drosophila-Promoters/Homer | 1e-5 | -1.324e+01 | 0.0000 | 218.0 | 5.03% | 773.9 | 3.63% | motif file (matrix) |
pdf |
| 52 |  | RXR(NR),DR1/3T3L1-RXR-ChIP-Seq(GSE13511)/Homer | 1e-5 | -1.317e+01 | 0.0000 | 516.0 | 11.91% | 2076.3 | 9.75% | motif file (matrix) |
pdf |
| 53 |  | PU.1-IRF(ETS:IRF)/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer | 1e-5 | -1.303e+01 | 0.0000 | 1379.0 | 31.82% | 6094.7 | 28.63% | motif file (matrix) |
pdf |
| 54 |  | CTCF(Zf)/CD4+-CTCF-ChIP-Seq(Barski_et_al.)/Homer | 1e-5 | -1.262e+01 | 0.0000 | 48.0 | 1.11% | 113.5 | 0.53% | motif file (matrix) |
pdf |
| 55 |  | E2F1(E2F)/Hela-E2F1-ChIP-Seq(GSE22478)/Homer | 1e-5 | -1.206e+01 | 0.0000 | 178.0 | 4.11% | 620.2 | 2.91% | motif file (matrix) |
pdf |
| 56 |  | PPARE(NR),DR1/3T3L1-Pparg-ChIP-Seq(GSE13511)/Homer | 1e-5 | -1.205e+01 | 0.0000 | 496.0 | 11.44% | 2008.7 | 9.43% | motif file (matrix) |
pdf |
| 57 |  | Elk4(ETS)/Hela-Elk4-ChIP-Seq(GSE31477)/Homer | 1e-4 | -1.114e+01 | 0.0001 | 963.0 | 22.22% | 4183.9 | 19.65% | motif file (matrix) |
pdf |
| 58 |  | p53(p53)/Saos-p53-ChIP-Seq(GSE15780)/Homer | 1e-4 | -1.037e+01 | 0.0002 | 66.0 | 1.52% | 189.1 | 0.89% | motif file (matrix) |
pdf |
| 59 |  | p53(p53)/Saos-p53-ChIP-Seq/Homer | 1e-4 | -1.037e+01 | 0.0002 | 66.0 | 1.52% | 189.1 | 0.89% | motif file (matrix) |
pdf |
| 60 |  | E2F7(E2F)/Hela-E2F7-ChIP-Seq(GSE32673)/Homer | 1e-4 | -1.024e+01 | 0.0002 | 115.0 | 2.65% | 381.4 | 1.79% | motif file (matrix) |
pdf |
| 61 |  | Fra1(bZIP)/BT549-Fra1-ChIP-Seq(GSE46166)/Homer | 1e-4 | -1.012e+01 | 0.0003 | 489.0 | 11.28% | 2017.6 | 9.48% | motif file (matrix) |
pdf |
| 62 |  | NRF(NRF)/Promoter/Homer | 1e-4 | -9.981e+00 | 0.0003 | 88.0 | 2.03% | 276.6 | 1.30% | motif file (matrix) |
pdf |
| 63 |  | Pax8(Paired,Homeobox)/Thyroid-Pax8-ChIP-Seq(GSE26938)/Homer | 1e-4 | -9.927e+00 | 0.0003 | 128.0 | 2.95% | 437.7 | 2.06% | motif file (matrix) |
pdf |
| 64 |  | RFX(HTH)/K562-RFX3-ChIP-Seq(SRA012198)/Homer | 1e-4 | -9.837e+00 | 0.0003 | 80.0 | 1.85% | 246.0 | 1.16% | motif file (matrix) |
pdf |
| 65 |  | REST-NRSF(Zf)/Jurkat-NRSF-ChIP-Seq/Homer | 1e-4 | -9.709e+00 | 0.0004 | 4.0 | 0.09% | 1.3 | 0.01% | motif file (matrix) |
pdf |
| 66 |  | Rfx2(HTH)/LoVo-RFX2-ChIP-Seq(GSE49402)/Homer | 1e-4 | -9.494e+00 | 0.0004 | 89.0 | 2.05% | 284.7 | 1.34% | motif file (matrix) |
pdf |
| 67 |  | CRE(bZIP)/Promoter/Homer | 1e-4 | -9.313e+00 | 0.0005 | 184.0 | 4.25% | 679.0 | 3.19% | motif file (matrix) |
pdf |
| 68 |  | SpiB(ETS)/OCILY3-SPIB-ChIP-Seq(GSE56857)/Homer | 1e-3 | -9.167e+00 | 0.0006 | 271.0 | 6.25% | 1059.8 | 4.98% | motif file (matrix) |
pdf |
| 69 |  | Fosl2(bZIP)/3T3L1-Fosl2-ChIP-Seq(GSE56872)/Homer | 1e-3 | -8.820e+00 | 0.0008 | 188.0 | 4.34% | 703.9 | 3.31% | motif file (matrix) |
pdf |
| 70 |  | E2F(E2F)/Hela-CellCycle-Expression/Homer | 1e-3 | -8.631e+00 | 0.0010 | 120.0 | 2.77% | 418.5 | 1.97% | motif file (matrix) |
pdf |
| 71 |  | NRF1(NRF)/MCF7-NRF1-ChIP-Seq(Unpublished)/Homer | 1e-3 | -8.561e+00 | 0.0010 | 42.0 | 0.97% | 112.4 | 0.53% | motif file (matrix) |
pdf |
| 72 |  | Elk1(ETS)/Hela-Elk1-ChIP-Seq(GSE31477)/Homer | 1e-3 | -8.345e+00 | 0.0013 | 789.0 | 18.20% | 3451.5 | 16.21% | motif file (matrix) |
pdf |
| 73 |  | AP-1(bZIP)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer | 1e-3 | -8.274e+00 | 0.0014 | 592.0 | 13.66% | 2536.0 | 11.91% | motif file (matrix) |
pdf |
| 74 |  | TR4(NR),DR1/Hela-TR4-ChIP-Seq(GSE24685)/Homer | 1e-3 | -8.204e+00 | 0.0014 | 56.0 | 1.29% | 166.8 | 0.78% | motif file (matrix) |
pdf |
| 75 |  | PAX5(Paired,Homeobox)/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer | 1e-3 | -7.879e+00 | 0.0020 | 205.0 | 4.73% | 791.3 | 3.72% | motif file (matrix) |
pdf |
| 76 |  | GATA:SCL(Zf,bHLH)/Ter119-SCL-ChIP-Seq(GSE18720)/Homer | 1e-3 | -7.849e+00 | 0.0020 | 108.0 | 2.49% | 377.4 | 1.77% | motif file (matrix) |
pdf |
| 77 |  | Zic(Zf)/Cerebellum-ZIC1.2-ChIP-Seq(GSE60731)/Homer | 1e-3 | -7.577e+00 | 0.0026 | 383.0 | 8.84% | 1593.4 | 7.48% | motif file (matrix) |
pdf |
| 78 |  | PAX5(Paired,Homeobox),condensed/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer | 1e-2 | -6.890e+00 | 0.0050 | 80.0 | 1.85% | 272.1 | 1.28% | motif file (matrix) |
pdf |
| 79 |  | GEI-11(Myb?)/cElegans-L4-GEI11-ChIP-Seq(modEncode)/Homer | 1e-2 | -6.432e+00 | 0.0079 | 43.0 | 0.99% | 129.2 | 0.61% | motif file (matrix) |
pdf |
| 80 |  | BORIS(Zf)/K562-CTCFL-ChIP-Seq(GSE32465)/Homer | 1e-2 | -6.373e+00 | 0.0083 | 40.0 | 0.92% | 118.9 | 0.56% | motif file (matrix) |
pdf |
| 81 |  | ZNF711(Zf)/SHSY5Y-ZNF711-ChIP-Seq(GSE20673)/Homer | 1e-2 | -6.321e+00 | 0.0086 | 724.0 | 16.71% | 3213.2 | 15.09% | motif file (matrix) |
pdf |
| 82 |  | Trl(Zf)/S2-GAGAfactor-ChIP-Seq(GSE40646)/Homer | 1e-2 | -5.791e+00 | 0.0144 | 1576.0 | 36.36% | 7317.9 | 34.37% | motif file (matrix) |
pdf |
| 83 |  | Atf3(bZIP)/GBM-ATF3-ChIP-Seq(GSE33912)/Homer | 1e-2 | -5.618e+00 | 0.0169 | 510.0 | 11.77% | 2233.7 | 10.49% | motif file (matrix) |
pdf |
| 84 |  | X-box(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer | 1e-2 | -5.590e+00 | 0.0172 | 120.0 | 2.77% | 457.5 | 2.15% | motif file (matrix) |
pdf |
| 85 |  | Tbox:Smad(T-box,MAD)/ESCd5-Smad2_3-ChIP-Seq(GSE29422)/Homer | 1e-2 | -5.500e+00 | 0.0186 | 103.0 | 2.38% | 385.8 | 1.81% | motif file (matrix) |
pdf |
| 86 |  | E2F6(E2F)/Hela-E2F6-ChIP-Seq(GSE31477)/Homer | 1e-2 | -5.321e+00 | 0.0220 | 253.0 | 5.84% | 1055.3 | 4.96% | motif file (matrix) |
pdf |
| 87 |  | Dorsal(RHD)/Embryo-dl-ChIP-Seq(GSE65441)/Homer | 1e-2 | -5.277e+00 | 0.0227 | 193.0 | 4.45% | 785.1 | 3.69% | motif file (matrix) |
pdf |
| 88 |  | Reverb(NR),DR2/RAW-Reverba.biotin-ChIP-Seq(GSE45914)/Homer | 1e-2 | -5.153e+00 | 0.0254 | 41.0 | 0.95% | 131.9 | 0.62% | motif file (matrix) |
pdf |
| 89 |  | Rfx5(HTH)/GM12878-Rfx5-ChIP-Seq(GSE31477)/Homer | 1e-2 | -5.067e+00 | 0.0274 | 242.0 | 5.58% | 1011.3 | 4.75% | motif file (matrix) |
pdf |
| 90 |  | Jun-AP1(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer | 1e-2 | -4.961e+00 | 0.0301 | 91.0 | 2.10% | 341.6 | 1.60% | motif file (matrix) |
pdf |