| 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 | -5.330e+02 | 0.0000 | 1522.0 | 34.42% | 3100.8 | 14.75% | motif file (matrix) |
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| 2 |  | REB1/SacCer-Promoters/Homer | 1e-197 | -4.556e+02 | 0.0000 | 980.0 | 22.16% | 1613.6 | 7.68% | motif file (matrix) |
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| 3 |  | RLR1?/SacCer-Promoters/Homer | 1e-72 | -1.659e+02 | 0.0000 | 2087.0 | 47.20% | 7157.0 | 34.05% | motif file (matrix) |
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| 4 |  | c-Myc(bHLH)/LNCAP-cMyc-ChIP-Seq(Unpublished)/Homer | 1e-57 | -1.321e+02 | 0.0000 | 585.0 | 13.23% | 1368.4 | 6.51% | motif file (matrix) |
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| 5 |  | SeqBias: CG-repeat | 1e-51 | -1.195e+02 | 0.0000 | 786.0 | 17.77% | 2144.4 | 10.20% | motif file (matrix) |
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| 6 |  | Usf2(bHLH)/C2C12-Usf2-ChIP-Seq(GSE36030)/Homer | 1e-44 | -1.021e+02 | 0.0000 | 430.0 | 9.72% | 978.9 | 4.66% | motif file (matrix) |
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| 7 |  | Cbf1(bHLH)/Yeast-Cbf1-ChIP-Seq(GSE29506)/Homer | 1e-43 | -1.009e+02 | 0.0000 | 430.0 | 9.72% | 983.6 | 4.68% | motif file (matrix) |
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| 8 |  | n-Myc(bHLH)/mES-nMyc-ChIP-Seq(GSE11431)/Homer | 1e-43 | -9.906e+01 | 0.0000 | 662.0 | 14.97% | 1805.0 | 8.59% | motif file (matrix) |
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| 9 |  | bHLHE40(bHLH)/HepG2-BHLHE40-ChIP-Seq(GSE31477)/Homer | 1e-42 | -9.794e+01 | 0.0000 | 435.0 | 9.84% | 1012.7 | 4.82% | motif file (matrix) |
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| 10 |  | CLOCK(bHLH)/Liver-Clock-ChIP-Seq(GSE39860)/Homer | 1e-42 | -9.751e+01 | 0.0000 | 576.0 | 13.03% | 1502.9 | 7.15% | motif file (matrix) |
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| 11 |  | SFP1/SacCer-Promoters/Homer | 1e-40 | -9.317e+01 | 0.0000 | 669.0 | 15.13% | 1866.0 | 8.88% | motif file (matrix) |
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| 12 |  | DPL-1(E2F)/cElegans-Adult-ChIP-Seq(modEncode)/Homer | 1e-40 | -9.252e+01 | 0.0000 | 1087.0 | 24.58% | 3506.2 | 16.68% | motif file (matrix) |
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| 13 |  | USF1(bHLH)/GM12878-Usf1-ChIP-Seq(GSE32465)/Homer | 1e-39 | -9.130e+01 | 0.0000 | 493.0 | 11.15% | 1241.9 | 5.91% | motif file (matrix) |
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| 14 |  | Max(bHLH)/K562-Max-ChIP-Seq(GSE31477)/Homer | 1e-34 | -8.043e+01 | 0.0000 | 606.0 | 13.70% | 1711.7 | 8.14% | motif file (matrix) |
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| 15 |  | PIF5ox(bHLH)/Arabidopsis-PIF5ox-ChIP-Seq(GSE35062)/Homer | 1e-31 | -7.231e+01 | 0.0000 | 901.0 | 20.38% | 2923.8 | 13.91% | motif file (matrix) |
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| 16 |  | PIF4(bHLH)/Seedling-PIF4-ChIP-Seq(GSE35315)/Homer | 1e-30 | -6.953e+01 | 0.0000 | 990.0 | 22.39% | 3312.7 | 15.76% | motif file (matrix) |
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| 17 |  | TATA-box/SacCer-Promoters/Homer | 1e-30 | -6.941e+01 | 0.0000 | 2076.0 | 46.95% | 8078.4 | 38.44% | motif file (matrix) |
pdf |
| 18 |  | IBL1(bHLH)/Seedling-IBL1-ChIP-Seq(GSE51120)/Homer | 1e-28 | -6.473e+01 | 0.0000 | 1347.0 | 30.46% | 4874.2 | 23.19% | motif file (matrix) |
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| 19 |  | E-box/Arabidopsis-Promoters/Homer | 1e-23 | -5.474e+01 | 0.0000 | 508.0 | 11.49% | 1517.6 | 7.22% | motif file (matrix) |
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| 20 |  | Pho2(bHLH)/Yeast-Pho2-ChIP-Seq(GSE29506)/Homer | 1e-23 | -5.464e+01 | 0.0000 | 420.0 | 9.50% | 1188.0 | 5.65% | motif file (matrix) |
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| 21 |  | E2F4(E2F)/K562-E2F4-ChIP-Seq(GSE31477)/Homer | 1e-23 | -5.390e+01 | 0.0000 | 805.0 | 18.20% | 2703.3 | 12.86% | motif file (matrix) |
pdf |
| 22 |  | SPCH(bHLH)/Seedling-SPCH-ChIP-Seq(GSE57497)/Homer | 1e-23 | -5.351e+01 | 0.0000 | 1102.0 | 24.92% | 3951.6 | 18.80% | motif file (matrix) |
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| 23 |  | TOD6?/SacCer-Promoters/Homer | 1e-22 | -5.182e+01 | 0.0000 | 358.0 | 8.10% | 978.4 | 4.66% | motif file (matrix) |
pdf |
| 24 |  | E-box(bHLH)/Promoter/Homer | 1e-22 | -5.104e+01 | 0.0000 | 133.0 | 3.01% | 237.1 | 1.13% | motif file (matrix) |
pdf |
| 25 |  | NPAS2(bHLH)/Liver-NPAS2-ChIP-Seq(GSE39860)/Homer | 1e-21 | -4.898e+01 | 0.0000 | 826.0 | 18.68% | 2840.3 | 13.51% | motif file (matrix) |
pdf |
| 26 |  | KLF14(Zf)/HEK293-KLF14.GFP-ChIP-Seq(GSE58341)/Homer | 1e-17 | -3.972e+01 | 0.0000 | 551.0 | 12.46% | 1812.7 | 8.62% | motif file (matrix) |
pdf |
| 27 |  | Egr2(Zf)/Thymocytes-Egr2-ChIP-Seq(GSE34254)/Homer | 1e-17 | -3.956e+01 | 0.0000 | 132.0 | 2.99% | 270.8 | 1.29% | motif file (matrix) |
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| 28 |  | FHY3(FAR1)/Arabidopsis-FHY3-ChIP-Seq(GSE30711)/Homer | 1e-16 | -3.815e+01 | 0.0000 | 408.0 | 9.23% | 1262.1 | 6.00% | motif file (matrix) |
pdf |
| 29 |  | MITF(bHLH)/MastCells-MITF-ChIP-Seq(GSE48085)/Homer | 1e-14 | -3.424e+01 | 0.0000 | 795.0 | 17.98% | 2883.5 | 13.72% | motif file (matrix) |
pdf |
| 30 |  | BMAL1(bHLH)/Liver-Bmal1-ChIP-Seq(GSE39860)/Homer | 1e-14 | -3.339e+01 | 0.0000 | 1421.0 | 32.13% | 5639.4 | 26.83% | motif file (matrix) |
pdf |
| 31 |  | ZNF467(Zf)/HEK293-ZNF467.GFP-ChIP-Seq(GSE58341)/Homer | 1e-13 | -3.182e+01 | 0.0000 | 319.0 | 7.21% | 971.0 | 4.62% | motif file (matrix) |
pdf |
| 32 |  | c-Myc(bHLH)/mES-cMyc-ChIP-Seq(GSE11431)/Homer | 1e-13 | -3.075e+01 | 0.0000 | 337.0 | 7.62% | 1049.5 | 4.99% | motif file (matrix) |
pdf |
| 33 |  | SUT1?/SacCer-Promoters/Homer | 1e-13 | -3.053e+01 | 0.0000 | 2982.0 | 67.44% | 13043.2 | 62.06% | motif file (matrix) |
pdf |
| 34 |  | KLF10(Zf)/HEK293-KLF10.GFP-ChIP-Seq(GSE58341)/Homer | 1e-12 | -2.822e+01 | 0.0000 | 240.0 | 5.43% | 700.0 | 3.33% | motif file (matrix) |
pdf |
| 35 |  | Arnt:Ahr(bHLH)/MCF7-Arnt-ChIP-Seq(Lo_et_al.)/Homer | 1e-12 | -2.796e+01 | 0.0000 | 1022.0 | 23.11% | 3957.1 | 18.83% | motif file (matrix) |
pdf |
| 36 |  | Klf4(Zf)/mES-Klf4-ChIP-Seq(GSE11431)/Homer | 1e-11 | -2.635e+01 | 0.0000 | 159.0 | 3.60% | 418.8 | 1.99% | motif file (matrix) |
pdf |
| 37 |  | Pho4(bHLH)/Yeast-Pho4-ChIP-Seq(GSE29506)/Homer | 1e-10 | -2.510e+01 | 0.0000 | 151.0 | 3.41% | 397.8 | 1.89% | motif file (matrix) |
pdf |
| 38 |  | Klf9(Zf)/GBM-Klf9-ChIP-Seq(GSE62211)/Homer | 1e-10 | -2.325e+01 | 0.0000 | 130.0 | 2.94% | 335.0 | 1.59% | motif file (matrix) |
pdf |
| 39 |  | HIF-1a(bHLH)/MCF7-HIF1a-ChIP-Seq(GSE28352)/Homer | 1e-9 | -2.214e+01 | 0.0000 | 496.0 | 11.22% | 1783.7 | 8.49% | motif file (matrix) |
pdf |
| 40 |  | ZBTB33(Zf)/GM12878-ZBTB33-ChIP-Seq(GSE32465)/Homer | 1e-8 | -2.036e+01 | 0.0000 | 62.0 | 1.40% | 124.4 | 0.59% | motif file (matrix) |
pdf |
| 41 |  | KLF5(Zf)/LoVo-KLF5-ChIP-Seq(GSE49402)/Homer | 1e-8 | -2.014e+01 | 0.0000 | 448.0 | 10.13% | 1609.3 | 7.66% | motif file (matrix) |
pdf |
| 42 |  | Egr1(Zf)/K562-Egr1-ChIP-Seq(GSE32465)/Homer | 1e-8 | -1.886e+01 | 0.0000 | 290.0 | 6.56% | 976.2 | 4.64% | motif file (matrix) |
pdf |
| 43 |  | HIF-1b(HLH)/T47D-HIF1b-ChIP-Seq(GSE59937)/Homer | 1e-8 | -1.860e+01 | 0.0000 | 1615.0 | 36.52% | 6831.0 | 32.50% | motif file (matrix) |
pdf |
| 44 |  | EKLF(Zf)/Erythrocyte-Klf1-ChIP-Seq(GSE20478)/Homer | 1e-7 | -1.825e+01 | 0.0000 | 104.0 | 2.35% | 271.8 | 1.29% | motif file (matrix) |
pdf |
| 45 |  | E2F1(E2F)/Hela-E2F1-ChIP-Seq(GSE22478)/Homer | 1e-7 | -1.762e+01 | 0.0000 | 194.0 | 4.39% | 609.6 | 2.90% | motif file (matrix) |
pdf |
| 46 |  | SeqBias: TA-repeat | 1e-7 | -1.748e+01 | 0.0000 | 3935.0 | 88.99% | 18124.1 | 86.23% | motif file (matrix) |
pdf |
| 47 |  | Maz(Zf)/HepG2-Maz-ChIP-Seq(GSE31477)/Homer | 1e-7 | -1.645e+01 | 0.0000 | 272.0 | 6.15% | 931.0 | 4.43% | motif file (matrix) |
pdf |
| 48 |  | GAGA-repeat/Arabidopsis-Promoters/Homer | 1e-6 | -1.515e+01 | 0.0000 | 504.0 | 11.40% | 1921.8 | 9.14% | motif file (matrix) |
pdf |
| 49 |  | CRE(bZIP)/Promoter/Homer | 1e-6 | -1.459e+01 | 0.0000 | 202.0 | 4.57% | 669.1 | 3.18% | motif file (matrix) |
pdf |
| 50 |  | PU.1-IRF(ETS:IRF)/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer | 1e-6 | -1.455e+01 | 0.0000 | 1431.0 | 32.36% | 6090.0 | 28.98% | motif file (matrix) |
pdf |
| 51 |  | E2F7(E2F)/Hela-E2F7-ChIP-Seq(GSE32673)/Homer | 1e-5 | -1.335e+01 | 0.0000 | 127.0 | 2.87% | 388.0 | 1.85% | motif file (matrix) |
pdf |
| 52 |  | NRF(NRF)/Promoter/Homer | 1e-5 | -1.232e+01 | 0.0000 | 91.0 | 2.06% | 261.6 | 1.24% | motif file (matrix) |
pdf |
| 53 |  | FOXP1(Forkhead)/H9-FOXP1-ChIP-Seq(GSE31006)/Homer | 1e-5 | -1.163e+01 | 0.0001 | 774.0 | 17.50% | 3181.7 | 15.14% | motif file (matrix) |
pdf |
| 54 |  | TATA-box/Drosophila-Promoters/Homer | 1e-4 | -1.113e+01 | 0.0001 | 223.0 | 5.04% | 794.4 | 3.78% | motif file (matrix) |
pdf |
| 55 |  | E2F(E2F)/Hela-CellCycle-Expression/Homer | 1e-4 | -1.083e+01 | 0.0001 | 127.0 | 2.87% | 410.9 | 1.95% | motif file (matrix) |
pdf |
| 56 |  | BATF(bZIP)/Th17-BATF-ChIP-Seq(GSE39756)/Homer | 1e-4 | -1.076e+01 | 0.0001 | 573.0 | 12.96% | 2307.3 | 10.98% | motif file (matrix) |
pdf |
| 57 |  | Elk4(ETS)/Hela-Elk4-ChIP-Seq(GSE31477)/Homer | 1e-4 | -1.015e+01 | 0.0003 | 1008.0 | 22.80% | 4279.8 | 20.36% | motif file (matrix) |
pdf |
| 58 |  | NRF1(NRF)/MCF7-NRF1-ChIP-Seq(Unpublished)/Homer | 1e-4 | -9.903e+00 | 0.0003 | 43.0 | 0.97% | 105.8 | 0.50% | motif file (matrix) |
pdf |
| 59 |  | Elk1(ETS)/Hela-Elk1-ChIP-Seq(GSE31477)/Homer | 1e-4 | -9.698e+00 | 0.0004 | 830.0 | 18.77% | 3484.4 | 16.58% | motif file (matrix) |
pdf |
| 60 |  | HIF2a(bHLH)/785_O-HIF2a-ChIP-Seq(GSE34871)/Homer | 1e-4 | -9.490e+00 | 0.0005 | 692.0 | 15.65% | 2869.0 | 13.65% | motif file (matrix) |
pdf |
| 61 |  | Rfx5(HTH)/GM12878-Rfx5-ChIP-Seq(GSE31477)/Homer | 1e-3 | -9.164e+00 | 0.0007 | 273.0 | 6.17% | 1033.5 | 4.92% | motif file (matrix) |
pdf |
| 62 |  | p53(p53)/Saos-p53-ChIP-Seq(GSE15780)/Homer | 1e-3 | -8.606e+00 | 0.0011 | 69.0 | 1.56% | 206.7 | 0.98% | motif file (matrix) |
pdf |
| 63 |  | p53(p53)/Saos-p53-ChIP-Seq/Homer | 1e-3 | -8.606e+00 | 0.0011 | 69.0 | 1.56% | 206.7 | 0.98% | motif file (matrix) |
pdf |
| 64 |  | RFX(HTH)/K562-RFX3-ChIP-Seq(SRA012198)/Homer | 1e-3 | -8.491e+00 | 0.0012 | 78.0 | 1.76% | 241.7 | 1.15% | motif file (matrix) |
pdf |
| 65 |  | SpiB(ETS)/OCILY3-SPIB-ChIP-Seq(GSE56857)/Homer | 1e-3 | -8.137e+00 | 0.0017 | 277.0 | 6.26% | 1068.6 | 5.08% | motif file (matrix) |
pdf |
| 66 |  | Rfx2(HTH)/LoVo-RFX2-ChIP-Seq(GSE49402)/Homer | 1e-3 | -8.116e+00 | 0.0018 | 87.0 | 1.97% | 279.4 | 1.33% | motif file (matrix) |
pdf |
| 67 |  | Dorsal(RHD)/Embryo-dl-ChIP-Seq(GSE65441)/Homer | 1e-3 | -7.484e+00 | 0.0032 | 207.0 | 4.68% | 780.0 | 3.71% | motif file (matrix) |
pdf |
| 68 |  | Unknown-ESC-element(?)/mES-Nanog-ChIP-Seq(GSE11724)/Homer | 1e-3 | -7.345e+00 | 0.0037 | 180.0 | 4.07% | 668.8 | 3.18% | motif file (matrix) |
pdf |
| 69 |  | Stat3(Stat)/mES-Stat3-ChIP-Seq(GSE11431)/Homer | 1e-3 | -7.345e+00 | 0.0037 | 475.0 | 10.74% | 1954.8 | 9.30% | motif file (matrix) |
pdf |
| 70 |  | ELF1(ETS)/Jurkat-ELF1-ChIP-Seq(SRA014231)/Homer | 1e-3 | -7.293e+00 | 0.0038 | 559.0 | 12.64% | 2331.3 | 11.09% | motif file (matrix) |
pdf |
| 71 |  | BORIS(Zf)/K562-CTCFL-ChIP-Seq(GSE32465)/Homer | 1e-2 | -6.650e+00 | 0.0071 | 41.0 | 0.93% | 116.5 | 0.55% | motif file (matrix) |
pdf |
| 72 |  | ZNF519(Zf)/HEK293-ZNF519.GFP-ChIP-Seq(GSE58341)/Homer | 1e-2 | -6.458e+00 | 0.0084 | 49.0 | 1.11% | 147.4 | 0.70% | motif file (matrix) |
pdf |
| 73 |  | GATA:SCL(Zf,bHLH)/Ter119-SCL-ChIP-Seq(GSE18720)/Homer | 1e-2 | -6.285e+00 | 0.0099 | 109.0 | 2.46% | 387.8 | 1.85% | motif file (matrix) |
pdf |
| 74 |  | PAX5(Paired,Homeobox)/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer | 1e-2 | -5.920e+00 | 0.0140 | 199.0 | 4.50% | 773.0 | 3.68% | motif file (matrix) |
pdf |
| 75 |  | E2F6(E2F)/Hela-E2F6-ChIP-Seq(GSE31477)/Homer | 1e-2 | -5.896e+00 | 0.0142 | 245.0 | 5.54% | 973.7 | 4.63% | motif file (matrix) |
pdf |
| 76 |  | PBX1(Homeobox)/MCF7-PBX1-ChIP-Seq(GSE28007)/Homer | 1e-2 | -5.888e+00 | 0.0142 | 30.0 | 0.68% | 81.4 | 0.39% | motif file (matrix) |
pdf |
| 77 |  | Myf5(bHLH)/GM-Myf5-ChIP-Seq(GSE24852)/Homer | 1e-2 | -5.718e+00 | 0.0165 | 339.0 | 7.67% | 1391.7 | 6.62% | motif file (matrix) |
pdf |
| 78 |  | CTCF(Zf)/CD4+-CTCF-ChIP-Seq(Barski_et_al.)/Homer | 1e-2 | -5.375e+00 | 0.0230 | 41.0 | 0.93% | 125.5 | 0.60% | motif file (matrix) |
pdf |
| 79 |  | NFkB-p50,p52(RHD)/Monocyte-p50-ChIP-Chip(Schreiber_et_al.)/Homer | 1e-2 | -5.363e+00 | 0.0230 | 37.0 | 0.84% | 110.1 | 0.52% | motif file (matrix) |
pdf |
| 80 |  | RXR(NR),DR1/3T3L1-RXR-ChIP-Seq(GSE13511)/Homer | 1e-2 | -5.354e+00 | 0.0230 | 482.0 | 10.90% | 2042.6 | 9.72% | motif file (matrix) |
pdf |
| 81 |  | Pax8(Paired,Homeobox)/Thyroid-Pax8-ChIP-Seq(GSE26938)/Homer | 1e-2 | -5.245e+00 | 0.0252 | 114.0 | 2.58% | 422.7 | 2.01% | motif file (matrix) |
pdf |
| 82 |  | ETS(ETS)/Promoter/Homer | 1e-2 | -5.180e+00 | 0.0266 | 330.0 | 7.46% | 1365.5 | 6.50% | motif file (matrix) |
pdf |
| 83 |  | GEI-11(Myb?)/cElegans-L4-GEI11-ChIP-Seq(modEncode)/Homer | 1e-2 | -4.913e+00 | 0.0343 | 39.0 | 0.88% | 121.8 | 0.58% | motif file (matrix) |
pdf |
| 84 |  | X-box(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer | 1e-2 | -4.910e+00 | 0.0343 | 118.0 | 2.67% | 444.3 | 2.11% | motif file (matrix) |
pdf |
| 85 |  | PAX5(Paired,Homeobox),condensed/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer | 1e-2 | -4.832e+00 | 0.0363 | 70.0 | 1.58% | 245.4 | 1.17% | motif file (matrix) |
pdf |
| 86 |  | Fra1(bZIP)/BT549-Fra1-ChIP-Seq(GSE46166)/Homer | 1e-2 | -4.661e+00 | 0.0425 | 486.0 | 10.99% | 2083.2 | 9.91% | motif file (matrix) |
pdf |