| 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-231 | -5.337e+02 | 0.0000 | 1486.0 | 34.14% | 3110.7 | 14.42% | motif file (matrix) |
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| 2 |  | REB1/SacCer-Promoters/Homer | 1e-197 | -4.537e+02 | 0.0000 | 956.0 | 21.96% | 1617.5 | 7.50% | motif file (matrix) |
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| 3 |  | RLR1?/SacCer-Promoters/Homer | 1e-80 | -1.863e+02 | 0.0000 | 2089.0 | 47.99% | 7316.7 | 33.93% | motif file (matrix) |
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| 4 |  | SeqBias: CG-repeat | 1e-54 | -1.256e+02 | 0.0000 | 754.0 | 17.32% | 2079.9 | 9.64% | motif file (matrix) |
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| 5 |  | c-Myc(bHLH)/LNCAP-cMyc-ChIP-Seq(Unpublished)/Homer | 1e-51 | -1.190e+02 | 0.0000 | 559.0 | 12.84% | 1396.0 | 6.47% | motif file (matrix) |
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| 6 |  | DPL-1(E2F)/cElegans-Adult-ChIP-Seq(modEncode)/Homer | 1e-47 | -1.085e+02 | 0.0000 | 1050.0 | 24.12% | 3372.4 | 15.64% | motif file (matrix) |
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| 7 |  | SFP1/SacCer-Promoters/Homer | 1e-38 | -8.915e+01 | 0.0000 | 645.0 | 14.82% | 1879.9 | 8.72% | motif file (matrix) |
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| 8 |  | n-Myc(bHLH)/mES-nMyc-ChIP-Seq(GSE11431)/Homer | 1e-37 | -8.708e+01 | 0.0000 | 617.0 | 14.17% | 1784.0 | 8.27% | motif file (matrix) |
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| 9 |  | bHLHE40(bHLH)/HepG2-BHLHE40-ChIP-Seq(GSE31477)/Homer | 1e-37 | -8.698e+01 | 0.0000 | 409.0 | 9.40% | 1015.7 | 4.71% | motif file (matrix) |
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| 10 |  | Cbf1(bHLH)/Yeast-Cbf1-ChIP-Seq(GSE29506)/Homer | 1e-36 | -8.450e+01 | 0.0000 | 390.0 | 8.96% | 960.8 | 4.45% | motif file (matrix) |
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| 11 |  | Usf2(bHLH)/C2C12-Usf2-ChIP-Seq(GSE36030)/Homer | 1e-36 | -8.343e+01 | 0.0000 | 390.0 | 8.96% | 965.9 | 4.48% | motif file (matrix) |
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| 12 |  | CLOCK(bHLH)/Liver-Clock-ChIP-Seq(GSE39860)/Homer | 1e-34 | -7.928e+01 | 0.0000 | 534.0 | 12.27% | 1515.7 | 7.03% | motif file (matrix) |
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| 13 |  | TATA-box/SacCer-Promoters/Homer | 1e-32 | -7.492e+01 | 0.0000 | 2048.0 | 47.05% | 8223.9 | 38.13% | motif file (matrix) |
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| 14 |  | USF1(bHLH)/GM12878-Usf1-ChIP-Seq(GSE32465)/Homer | 1e-31 | -7.251e+01 | 0.0000 | 455.0 | 10.45% | 1258.8 | 5.84% | motif file (matrix) |
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| 15 |  | Max(bHLH)/K562-Max-ChIP-Seq(GSE31477)/Homer | 1e-26 | -6.168e+01 | 0.0000 | 561.0 | 12.89% | 1740.7 | 8.07% | motif file (matrix) |
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| 16 |  | E-box/Arabidopsis-Promoters/Homer | 1e-26 | -6.107e+01 | 0.0000 | 497.0 | 11.42% | 1492.8 | 6.92% | motif file (matrix) |
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| 17 |  | E-box(bHLH)/Promoter/Homer | 1e-25 | -5.839e+01 | 0.0000 | 133.0 | 3.06% | 228.0 | 1.06% | motif file (matrix) |
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| 18 |  | E2F4(E2F)/K562-E2F4-ChIP-Seq(GSE31477)/Homer | 1e-23 | -5.513e+01 | 0.0000 | 775.0 | 17.80% | 2679.2 | 12.42% | motif file (matrix) |
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| 19 |  | SPCH(bHLH)/Seedling-SPCH-ChIP-Seq(GSE57497)/Homer | 1e-23 | -5.372e+01 | 0.0000 | 1034.0 | 23.75% | 3817.5 | 17.70% | motif file (matrix) |
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| 20 |  | IBL1(bHLH)/Seedling-IBL1-ChIP-Seq(GSE51120)/Homer | 1e-22 | -5.148e+01 | 0.0000 | 1276.0 | 29.31% | 4931.4 | 22.87% | motif file (matrix) |
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| 21 |  | PIF5ox(bHLH)/Arabidopsis-PIF5ox-ChIP-Seq(GSE35062)/Homer | 1e-22 | -5.110e+01 | 0.0000 | 830.0 | 19.07% | 2956.2 | 13.71% | motif file (matrix) |
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| 22 |  | Pho2(bHLH)/Yeast-Pho2-ChIP-Seq(GSE29506)/Homer | 1e-21 | -5.030e+01 | 0.0000 | 396.0 | 9.10% | 1175.4 | 5.45% | motif file (matrix) |
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| 23 |  | PIF4(bHLH)/Seedling-PIF4-ChIP-Seq(GSE35315)/Homer | 1e-20 | -4.765e+01 | 0.0000 | 915.0 | 21.02% | 3365.7 | 15.61% | motif file (matrix) |
pdf |
| 24 |  | Egr2(Zf)/Thymocytes-Egr2-ChIP-Seq(GSE34254)/Homer | 1e-20 | -4.711e+01 | 0.0000 | 133.0 | 3.06% | 259.5 | 1.20% | motif file (matrix) |
pdf |
| 25 |  | FHY3(FAR1)/Arabidopsis-FHY3-ChIP-Seq(GSE30711)/Homer | 1e-17 | -4.059e+01 | 0.0000 | 379.0 | 8.71% | 1180.7 | 5.47% | motif file (matrix) |
pdf |
| 26 |  | TOD6?/SacCer-Promoters/Homer | 1e-17 | -3.918e+01 | 0.0000 | 325.0 | 7.47% | 979.4 | 4.54% | motif file (matrix) |
pdf |
| 27 |  | NPAS2(bHLH)/Liver-NPAS2-ChIP-Seq(GSE39860)/Homer | 1e-16 | -3.811e+01 | 0.0000 | 764.0 | 17.55% | 2820.4 | 13.08% | motif file (matrix) |
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| 28 |  | ZNF467(Zf)/HEK293-ZNF467.GFP-ChIP-Seq(GSE58341)/Homer | 1e-16 | -3.804e+01 | 0.0000 | 311.0 | 7.14% | 933.1 | 4.33% | motif file (matrix) |
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| 29 |  | KLF14(Zf)/HEK293-KLF14.GFP-ChIP-Seq(GSE58341)/Homer | 1e-15 | -3.650e+01 | 0.0000 | 528.0 | 12.13% | 1826.2 | 8.47% | motif file (matrix) |
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| 30 |  | KLF10(Zf)/HEK293-KLF10.GFP-ChIP-Seq(GSE58341)/Homer | 1e-14 | -3.413e+01 | 0.0000 | 238.0 | 5.47% | 681.9 | 3.16% | motif file (matrix) |
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| 31 |  | BMAL1(bHLH)/Liver-Bmal1-ChIP-Seq(GSE39860)/Homer | 1e-13 | -3.087e+01 | 0.0000 | 1356.0 | 31.15% | 5623.6 | 26.07% | motif file (matrix) |
pdf |
| 32 |  | Klf9(Zf)/GBM-Klf9-ChIP-Seq(GSE62211)/Homer | 1e-11 | -2.677e+01 | 0.0000 | 125.0 | 2.87% | 312.8 | 1.45% | motif file (matrix) |
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| 33 |  | MITF(bHLH)/MastCells-MITF-ChIP-Seq(GSE48085)/Homer | 1e-11 | -2.675e+01 | 0.0000 | 728.0 | 16.72% | 2816.8 | 13.06% | motif file (matrix) |
pdf |
| 34 |  | SUT1?/SacCer-Promoters/Homer | 1e-11 | -2.613e+01 | 0.0000 | 2869.0 | 65.91% | 13133.0 | 60.89% | motif file (matrix) |
pdf |
| 35 |  | c-Myc(bHLH)/mES-cMyc-ChIP-Seq(GSE11431)/Homer | 1e-11 | -2.560e+01 | 0.0000 | 319.0 | 7.33% | 1068.1 | 4.95% | motif file (matrix) |
pdf |
| 36 |  | KLF5(Zf)/LoVo-KLF5-ChIP-Seq(GSE49402)/Homer | 1e-10 | -2.480e+01 | 0.0000 | 431.0 | 9.90% | 1545.4 | 7.17% | motif file (matrix) |
pdf |
| 37 |  | Klf4(Zf)/mES-Klf4-ChIP-Seq(GSE11431)/Homer | 1e-10 | -2.374e+01 | 0.0000 | 145.0 | 3.33% | 400.5 | 1.86% | motif file (matrix) |
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| 38 |  | HIF-1b(HLH)/T47D-HIF1b-ChIP-Seq(GSE59937)/Homer | 1e-10 | -2.326e+01 | 0.0000 | 1590.0 | 36.53% | 6889.9 | 31.95% | motif file (matrix) |
pdf |
| 39 |  | Pho4(bHLH)/Yeast-Pho4-ChIP-Seq(GSE29506)/Homer | 1e-10 | -2.312e+01 | 0.0000 | 151.0 | 3.47% | 426.8 | 1.98% | motif file (matrix) |
pdf |
| 40 |  | Arnt:Ahr(bHLH)/MCF7-Arnt-ChIP-Seq(Lo_et_al.)/Homer | 1e-9 | -2.280e+01 | 0.0000 | 979.0 | 22.49% | 4023.5 | 18.66% | motif file (matrix) |
pdf |
| 41 |  | Egr1(Zf)/K562-Egr1-ChIP-Seq(GSE32465)/Homer | 1e-8 | -2.061e+01 | 0.0000 | 286.0 | 6.57% | 982.2 | 4.55% | motif file (matrix) |
pdf |
| 42 |  | Maz(Zf)/HepG2-Maz-ChIP-Seq(GSE31477)/Homer | 1e-8 | -1.962e+01 | 0.0000 | 262.0 | 6.02% | 893.5 | 4.14% | motif file (matrix) |
pdf |
| 43 |  | SeqBias: TA-repeat | 1e-7 | -1.811e+01 | 0.0000 | 3866.0 | 88.81% | 18539.2 | 85.96% | motif file (matrix) |
pdf |
| 44 |  | EKLF(Zf)/Erythrocyte-Klf1-ChIP-Seq(GSE20478)/Homer | 1e-7 | -1.762e+01 | 0.0000 | 99.0 | 2.27% | 268.4 | 1.24% | motif file (matrix) |
pdf |
| 45 |  | ZBTB33(Zf)/GM12878-ZBTB33-ChIP-Seq(GSE32465)/Homer | 1e-7 | -1.750e+01 | 0.0000 | 58.0 | 1.33% | 127.4 | 0.59% | motif file (matrix) |
pdf |
| 46 |  | PU.1-IRF(ETS:IRF)/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer | 1e-7 | -1.726e+01 | 0.0000 | 1387.0 | 31.86% | 6065.2 | 28.12% | motif file (matrix) |
pdf |
| 47 |  | GAGA-repeat/Arabidopsis-Promoters/Homer | 1e-7 | -1.654e+01 | 0.0000 | 486.0 | 11.16% | 1899.8 | 8.81% | motif file (matrix) |
pdf |
| 48 |  | E2F1(E2F)/Hela-E2F1-ChIP-Seq(GSE22478)/Homer | 1e-7 | -1.625e+01 | 0.0000 | 180.0 | 4.14% | 591.6 | 2.74% | motif file (matrix) |
pdf |
| 49 |  | E2F7(E2F)/Hela-E2F7-ChIP-Seq(GSE32673)/Homer | 1e-6 | -1.488e+01 | 0.0000 | 119.0 | 2.73% | 361.9 | 1.68% | motif file (matrix) |
pdf |
| 50 |  | HIF-1a(bHLH)/MCF7-HIF1a-ChIP-Seq(GSE28352)/Homer | 1e-5 | -1.368e+01 | 0.0000 | 448.0 | 10.29% | 1778.0 | 8.24% | motif file (matrix) |
pdf |
| 51 |  | HIF2a(bHLH)/785_O-HIF2a-ChIP-Seq(GSE34871)/Homer | 1e-5 | -1.316e+01 | 0.0000 | 677.0 | 15.55% | 2830.3 | 13.12% | motif file (matrix) |
pdf |
| 52 |  | Pax8(Paired,Homeobox)/Thyroid-Pax8-ChIP-Seq(GSE26938)/Homer | 1e-5 | -1.296e+01 | 0.0000 | 121.0 | 2.78% | 384.8 | 1.78% | motif file (matrix) |
pdf |
| 53 |  | p53(p53)/Saos-p53-ChIP-Seq(GSE15780)/Homer | 1e-5 | -1.270e+01 | 0.0000 | 70.0 | 1.61% | 191.1 | 0.89% | motif file (matrix) |
pdf |
| 54 |  | p53(p53)/Saos-p53-ChIP-Seq/Homer | 1e-5 | -1.270e+01 | 0.0000 | 70.0 | 1.61% | 191.1 | 0.89% | motif file (matrix) |
pdf |
| 55 |  | Elk4(ETS)/Hela-Elk4-ChIP-Seq(GSE31477)/Homer | 1e-5 | -1.210e+01 | 0.0000 | 968.0 | 22.24% | 4215.4 | 19.55% | motif file (matrix) |
pdf |
| 56 |  | CRE(bZIP)/Promoter/Homer | 1e-4 | -1.110e+01 | 0.0001 | 185.0 | 4.25% | 666.7 | 3.09% | motif file (matrix) |
pdf |
| 57 |  | BATF(bZIP)/Th17-BATF-ChIP-Seq(GSE39756)/Homer | 1e-4 | -1.060e+01 | 0.0002 | 568.0 | 13.05% | 2386.8 | 11.07% | motif file (matrix) |
pdf |
| 58 |  | Elk1(ETS)/Hela-Elk1-ChIP-Seq(GSE31477)/Homer | 1e-4 | -1.039e+01 | 0.0002 | 795.0 | 18.26% | 3448.6 | 15.99% | motif file (matrix) |
pdf |
| 59 |  | E2F(E2F)/Hela-CellCycle-Expression/Homer | 1e-4 | -1.029e+01 | 0.0002 | 128.0 | 2.94% | 437.8 | 2.03% | motif file (matrix) |
pdf |
| 60 |  | NRF1(NRF)/MCF7-NRF1-ChIP-Seq(Unpublished)/Homer | 1e-4 | -9.502e+00 | 0.0005 | 38.0 | 0.87% | 94.7 | 0.44% | motif file (matrix) |
pdf |
| 61 |  | NRF(NRF)/Promoter/Homer | 1e-4 | -9.428e+00 | 0.0005 | 88.0 | 2.02% | 283.9 | 1.32% | motif file (matrix) |
pdf |
| 62 |  | Trl(Zf)/S2-GAGAfactor-ChIP-Seq(GSE40646)/Homer | 1e-3 | -8.985e+00 | 0.0008 | 1594.0 | 36.62% | 7325.6 | 33.97% | motif file (matrix) |
pdf |
| 63 |  | TATA-box/Drosophila-Promoters/Homer | 1e-3 | -8.774e+00 | 0.0010 | 214.0 | 4.92% | 823.1 | 3.82% | motif file (matrix) |
pdf |
| 64 |  | FOXP1(Forkhead)/H9-FOXP1-ChIP-Seq(GSE31006)/Homer | 1e-3 | -8.604e+00 | 0.0011 | 730.0 | 16.77% | 3194.5 | 14.81% | motif file (matrix) |
pdf |
| 65 |  | Dorsal(RHD)/Embryo-dl-ChIP-Seq(GSE65441)/Homer | 1e-3 | -8.540e+00 | 0.0012 | 199.0 | 4.57% | 761.5 | 3.53% | motif file (matrix) |
pdf |
| 66 |  | PAX5(Paired,Homeobox)/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer | 1e-3 | -8.158e+00 | 0.0017 | 194.0 | 4.46% | 745.5 | 3.46% | motif file (matrix) |
pdf |
| 67 |  | Zic(Zf)/Cerebellum-ZIC1.2-ChIP-Seq(GSE60731)/Homer | 1e-3 | -8.115e+00 | 0.0017 | 381.0 | 8.75% | 1585.1 | 7.35% | motif file (matrix) |
pdf |
| 68 |  | Srebp2(bHLH)/HepG2-Srebp2-ChIP-Seq(GSE31477)/Homer | 1e-2 | -6.605e+00 | 0.0077 | 68.0 | 1.56% | 229.0 | 1.06% | motif file (matrix) |
pdf |
| 69 |  | GEI-11(Myb?)/cElegans-L4-GEI11-ChIP-Seq(modEncode)/Homer | 1e-2 | -6.586e+00 | 0.0077 | 38.0 | 0.87% | 110.1 | 0.51% | motif file (matrix) |
pdf |
| 70 |  | ELF1(ETS)/Jurkat-ELF1-ChIP-Seq(SRA014231)/Homer | 1e-2 | -6.244e+00 | 0.0107 | 530.0 | 12.18% | 2326.2 | 10.79% | motif file (matrix) |
pdf |
| 71 |  | Fra1(bZIP)/BT549-Fra1-ChIP-Seq(GSE46166)/Homer | 1e-2 | -5.894e+00 | 0.0150 | 484.0 | 11.12% | 2121.7 | 9.84% | motif file (matrix) |
pdf |
| 72 |  | ETS(ETS)/Promoter/Homer | 1e-2 | -5.799e+00 | 0.0163 | 313.0 | 7.19% | 1328.9 | 6.16% | motif file (matrix) |
pdf |
| 73 |  | E2F6(E2F)/Hela-E2F6-ChIP-Seq(GSE31477)/Homer | 1e-2 | -5.542e+00 | 0.0208 | 241.0 | 5.54% | 1004.7 | 4.66% | motif file (matrix) |
pdf |
| 74 |  | Myf5(bHLH)/GM-Myf5-ChIP-Seq(GSE24852)/Homer | 1e-2 | -5.524e+00 | 0.0209 | 321.0 | 7.37% | 1372.5 | 6.36% | motif file (matrix) |
pdf |
| 75 |  | Unknown-ESC-element(?)/mES-Nanog-ChIP-Seq(GSE11724)/Homer | 1e-2 | -5.441e+00 | 0.0224 | 166.0 | 3.81% | 667.7 | 3.10% | motif file (matrix) |
pdf |
| 76 |  | ZNF519(Zf)/HEK293-ZNF519.GFP-ChIP-Seq(GSE58341)/Homer | 1e-2 | -5.404e+00 | 0.0229 | 47.0 | 1.08% | 154.5 | 0.72% | motif file (matrix) |
pdf |
| 77 |  | Fli1(ETS)/CD8-FLI-ChIP-Seq(GSE20898)/Homer | 1e-2 | -5.363e+00 | 0.0236 | 1234.0 | 28.35% | 5734.8 | 26.59% | motif file (matrix) |
pdf |
| 78 |  | NFkB-p65-Rel(RHD)/ThioMac-LPS-Expression(GSE23622)/Homer | 1e-2 | -5.311e+00 | 0.0245 | 60.0 | 1.38% | 208.5 | 0.97% | motif file (matrix) |
pdf |
| 79 |  | RXR(NR),DR1/3T3L1-RXR-ChIP-Seq(GSE13511)/Homer | 1e-2 | -5.252e+00 | 0.0257 | 459.0 | 10.54% | 2024.3 | 9.39% | motif file (matrix) |
pdf |
| 80 |  | Stat3(Stat)/mES-Stat3-ChIP-Seq(GSE11431)/Homer | 1e-2 | -5.094e+00 | 0.0297 | 446.0 | 10.25% | 1968.2 | 9.13% | motif file (matrix) |
pdf |
| 81 |  | ERE(NR),IR3/MCF7-ERa-ChIP-Seq(Unpublished)/Homer | 1e-2 | -5.087e+00 | 0.0297 | 113.0 | 2.60% | 438.3 | 2.03% | motif file (matrix) |
pdf |
| 82 |  | Rfx5(HTH)/GM12878-Rfx5-ChIP-Seq(GSE31477)/Homer | 1e-2 | -4.782e+00 | 0.0396 | 241.0 | 5.54% | 1022.8 | 4.74% | motif file (matrix) |
pdf |
| 83 |  | PBX1(Homeobox)/MCF7-PBX1-ChIP-Seq(GSE28007)/Homer | 1e-2 | -4.724e+00 | 0.0414 | 31.0 | 0.71% | 96.3 | 0.45% | motif file (matrix) |
pdf |
| 84 |  | BORIS(Zf)/K562-CTCFL-ChIP-Seq(GSE32465)/Homer | 1e-2 | -4.690e+00 | 0.0423 | 37.0 | 0.85% | 120.4 | 0.56% | motif file (matrix) |
pdf |