| 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 | -5.332e+02 | 0.0000 | 1445.0 | 35.01% | 3063.4 | 14.63% | motif file (matrix) |
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| 2 |  | REB1/SacCer-Promoters/Homer | 1e-192 | -4.440e+02 | 0.0000 | 929.0 | 22.51% | 1605.3 | 7.67% | motif file (matrix) |
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| 3 |  | RLR1?/SacCer-Promoters/Homer | 1e-71 | -1.652e+02 | 0.0000 | 2002.0 | 48.51% | 7299.5 | 34.87% | motif file (matrix) |
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| 4 |  | c-Myc(bHLH)/LNCAP-cMyc-ChIP-Seq(Unpublished)/Homer | 1e-61 | -1.418e+02 | 0.0000 | 569.0 | 13.79% | 1364.2 | 6.52% | motif file (matrix) |
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| 5 |  | SeqBias: CG-repeat | 1e-59 | -1.363e+02 | 0.0000 | 776.0 | 18.80% | 2159.1 | 10.31% | motif file (matrix) |
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| 6 |  | bHLHE40(bHLH)/HepG2-BHLHE40-ChIP-Seq(GSE31477)/Homer | 1e-51 | -1.178e+02 | 0.0000 | 429.0 | 10.39% | 977.4 | 4.67% | motif file (matrix) |
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| 7 |  | n-Myc(bHLH)/mES-nMyc-ChIP-Seq(GSE11431)/Homer | 1e-48 | -1.118e+02 | 0.0000 | 636.0 | 15.41% | 1756.9 | 8.39% | motif file (matrix) |
pdf |
| 8 |  | Cbf1(bHLH)/Yeast-Cbf1-ChIP-Seq(GSE29506)/Homer | 1e-47 | -1.097e+02 | 0.0000 | 405.0 | 9.81% | 927.5 | 4.43% | motif file (matrix) |
pdf |
| 9 |  | CLOCK(bHLH)/Liver-Clock-ChIP-Seq(GSE39860)/Homer | 1e-46 | -1.062e+02 | 0.0000 | 559.0 | 13.54% | 1495.1 | 7.14% | motif file (matrix) |
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| 10 |  | DPL-1(E2F)/cElegans-Adult-ChIP-Seq(modEncode)/Homer | 1e-44 | -1.030e+02 | 0.0000 | 1029.0 | 24.93% | 3416.8 | 16.32% | motif file (matrix) |
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| 11 |  | USF1(bHLH)/GM12878-Usf1-ChIP-Seq(GSE32465)/Homer | 1e-43 | -1.007e+02 | 0.0000 | 475.0 | 11.51% | 1213.2 | 5.79% | motif file (matrix) |
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| 12 |  | Usf2(bHLH)/C2C12-Usf2-ChIP-Seq(GSE36030)/Homer | 1e-41 | -9.522e+01 | 0.0000 | 389.0 | 9.43% | 932.8 | 4.46% | motif file (matrix) |
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| 13 |  | Max(bHLH)/K562-Max-ChIP-Seq(GSE31477)/Homer | 1e-33 | -7.732e+01 | 0.0000 | 569.0 | 13.79% | 1704.0 | 8.14% | motif file (matrix) |
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| 14 |  | SFP1/SacCer-Promoters/Homer | 1e-32 | -7.455e+01 | 0.0000 | 598.0 | 14.49% | 1839.2 | 8.78% | motif file (matrix) |
pdf |
| 15 |  | E-box/Arabidopsis-Promoters/Homer | 1e-32 | -7.452e+01 | 0.0000 | 501.0 | 12.14% | 1456.0 | 6.95% | motif file (matrix) |
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| 16 |  | PIF5ox(bHLH)/Arabidopsis-PIF5ox-ChIP-Seq(GSE35062)/Homer | 1e-31 | -7.267e+01 | 0.0000 | 836.0 | 20.26% | 2845.2 | 13.59% | motif file (matrix) |
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| 17 |  | PIF4(bHLH)/Seedling-PIF4-ChIP-Seq(GSE35315)/Homer | 1e-29 | -6.718e+01 | 0.0000 | 921.0 | 22.32% | 3265.2 | 15.60% | motif file (matrix) |
pdf |
| 18 |  | IBL1(bHLH)/Seedling-IBL1-ChIP-Seq(GSE51120)/Homer | 1e-28 | -6.595e+01 | 0.0000 | 1277.0 | 30.94% | 4883.0 | 23.32% | motif file (matrix) |
pdf |
| 19 |  | E-box(bHLH)/Promoter/Homer | 1e-28 | -6.571e+01 | 0.0000 | 131.0 | 3.17% | 209.6 | 1.00% | motif file (matrix) |
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| 20 |  | TATA-box/SacCer-Promoters/Homer | 1e-27 | -6.283e+01 | 0.0000 | 1925.0 | 46.64% | 8015.0 | 38.28% | motif file (matrix) |
pdf |
| 21 |  | Pho2(bHLH)/Yeast-Pho2-ChIP-Seq(GSE29506)/Homer | 1e-26 | -6.124e+01 | 0.0000 | 403.0 | 9.76% | 1159.7 | 5.54% | motif file (matrix) |
pdf |
| 22 |  | E2F4(E2F)/K562-E2F4-ChIP-Seq(GSE31477)/Homer | 1e-25 | -5.954e+01 | 0.0000 | 781.0 | 18.92% | 2730.2 | 13.04% | motif file (matrix) |
pdf |
| 23 |  | Egr2(Zf)/Thymocytes-Egr2-ChIP-Seq(GSE34254)/Homer | 1e-22 | -5.175e+01 | 0.0000 | 134.0 | 3.25% | 254.9 | 1.22% | motif file (matrix) |
pdf |
| 24 |  | SPCH(bHLH)/Seedling-SPCH-ChIP-Seq(GSE57497)/Homer | 1e-22 | -5.156e+01 | 0.0000 | 1020.0 | 24.72% | 3880.0 | 18.53% | motif file (matrix) |
pdf |
| 25 |  | NPAS2(bHLH)/Liver-NPAS2-ChIP-Seq(GSE39860)/Homer | 1e-21 | -4.904e+01 | 0.0000 | 760.0 | 18.42% | 2746.8 | 13.12% | motif file (matrix) |
pdf |
| 26 |  | FHY3(FAR1)/Arabidopsis-FHY3-ChIP-Seq(GSE30711)/Homer | 1e-17 | -4.106e+01 | 0.0000 | 386.0 | 9.35% | 1234.5 | 5.90% | motif file (matrix) |
pdf |
| 27 |  | KLF14(Zf)/HEK293-KLF14.GFP-ChIP-Seq(GSE58341)/Homer | 1e-16 | -3.870e+01 | 0.0000 | 525.0 | 12.72% | 1836.3 | 8.77% | motif file (matrix) |
pdf |
| 28 |  | Arnt:Ahr(bHLH)/MCF7-Arnt-ChIP-Seq(Lo_et_al.)/Homer | 1e-16 | -3.724e+01 | 0.0000 | 993.0 | 24.06% | 3947.8 | 18.86% | motif file (matrix) |
pdf |
| 29 |  | SeqBias: TA-repeat | 1e-15 | -3.553e+01 | 0.0000 | 3707.0 | 89.82% | 17920.2 | 85.60% | motif file (matrix) |
pdf |
| 30 |  | c-Myc(bHLH)/mES-cMyc-ChIP-Seq(GSE11431)/Homer | 1e-14 | -3.385e+01 | 0.0000 | 327.0 | 7.92% | 1053.2 | 5.03% | motif file (matrix) |
pdf |
| 31 |  | KLF10(Zf)/HEK293-KLF10.GFP-ChIP-Seq(GSE58341)/Homer | 1e-14 | -3.375e+01 | 0.0000 | 233.0 | 5.65% | 681.7 | 3.26% | motif file (matrix) |
pdf |
| 32 |  | BMAL1(bHLH)/Liver-Bmal1-ChIP-Seq(GSE39860)/Homer | 1e-14 | -3.360e+01 | 0.0000 | 1315.0 | 31.86% | 5522.0 | 26.38% | motif file (matrix) |
pdf |
| 33 |  | KLF5(Zf)/LoVo-KLF5-ChIP-Seq(GSE49402)/Homer | 1e-13 | -3.137e+01 | 0.0000 | 439.0 | 10.64% | 1544.1 | 7.38% | motif file (matrix) |
pdf |
| 34 |  | Klf9(Zf)/GBM-Klf9-ChIP-Seq(GSE62211)/Homer | 1e-13 | -3.109e+01 | 0.0000 | 131.0 | 3.17% | 320.1 | 1.53% | motif file (matrix) |
pdf |
| 35 |  | Klf4(Zf)/mES-Klf4-ChIP-Seq(GSE11431)/Homer | 1e-13 | -3.107e+01 | 0.0000 | 148.0 | 3.59% | 380.7 | 1.82% | motif file (matrix) |
pdf |
| 36 |  | TOD6?/SacCer-Promoters/Homer | 1e-12 | -2.885e+01 | 0.0000 | 298.0 | 7.22% | 977.7 | 4.67% | motif file (matrix) |
pdf |
| 37 |  | Pho4(bHLH)/Yeast-Pho4-ChIP-Seq(GSE29506)/Homer | 1e-12 | -2.869e+01 | 0.0000 | 152.0 | 3.68% | 407.7 | 1.95% | motif file (matrix) |
pdf |
| 38 |  | SUT1?/SacCer-Promoters/Homer | 1e-11 | -2.556e+01 | 0.0000 | 2765.0 | 67.00% | 12967.9 | 61.94% | motif file (matrix) |
pdf |
| 39 |  | HIF-1b(HLH)/T47D-HIF1b-ChIP-Seq(GSE59937)/Homer | 1e-10 | -2.500e+01 | 0.0000 | 1541.0 | 37.34% | 6787.7 | 32.42% | motif file (matrix) |
pdf |
| 40 |  | ZNF467(Zf)/HEK293-ZNF467.GFP-ChIP-Seq(GSE58341)/Homer | 1e-10 | -2.488e+01 | 0.0000 | 290.0 | 7.03% | 980.7 | 4.68% | motif file (matrix) |
pdf |
| 41 |  | MITF(bHLH)/MastCells-MITF-ChIP-Seq(GSE48085)/Homer | 1e-9 | -2.251e+01 | 0.0000 | 705.0 | 17.08% | 2849.0 | 13.61% | motif file (matrix) |
pdf |
| 42 |  | EKLF(Zf)/Erythrocyte-Klf1-ChIP-Seq(GSE20478)/Homer | 1e-9 | -2.169e+01 | 0.0000 | 100.0 | 2.42% | 256.6 | 1.23% | motif file (matrix) |
pdf |
| 43 |  | Maz(Zf)/HepG2-Maz-ChIP-Seq(GSE31477)/Homer | 1e-9 | -2.127e+01 | 0.0000 | 267.0 | 6.47% | 919.4 | 4.39% | motif file (matrix) |
pdf |
| 44 |  | GAGA-repeat/Arabidopsis-Promoters/Homer | 1e-9 | -2.114e+01 | 0.0000 | 489.0 | 11.85% | 1888.4 | 9.02% | motif file (matrix) |
pdf |
| 45 |  | HIF2a(bHLH)/785_O-HIF2a-ChIP-Seq(GSE34871)/Homer | 1e-8 | -1.987e+01 | 0.0000 | 678.0 | 16.43% | 2770.2 | 13.23% | motif file (matrix) |
pdf |
| 46 |  | Egr1(Zf)/K562-Egr1-ChIP-Seq(GSE32465)/Homer | 1e-8 | -1.842e+01 | 0.0000 | 285.0 | 6.91% | 1026.6 | 4.90% | motif file (matrix) |
pdf |
| 47 |  | CRE(bZIP)/Promoter/Homer | 1e-7 | -1.799e+01 | 0.0000 | 195.0 | 4.72% | 651.8 | 3.11% | motif file (matrix) |
pdf |
| 48 |  | ZBTB33(Zf)/GM12878-ZBTB33-ChIP-Seq(GSE32465)/Homer | 1e-7 | -1.783e+01 | 0.0000 | 55.0 | 1.33% | 119.9 | 0.57% | motif file (matrix) |
pdf |
| 49 |  | HIF-1a(bHLH)/MCF7-HIF1a-ChIP-Seq(GSE28352)/Homer | 1e-6 | -1.572e+01 | 0.0000 | 438.0 | 10.61% | 1741.1 | 8.32% | motif file (matrix) |
pdf |
| 50 |  | BATF(bZIP)/Th17-BATF-ChIP-Seq(GSE39756)/Homer | 1e-6 | -1.495e+01 | 0.0000 | 575.0 | 13.93% | 2384.4 | 11.39% | motif file (matrix) |
pdf |
| 51 |  | E2F1(E2F)/Hela-E2F1-ChIP-Seq(GSE22478)/Homer | 1e-5 | -1.305e+01 | 0.0000 | 181.0 | 4.39% | 642.8 | 3.07% | motif file (matrix) |
pdf |
| 52 |  | E2F7(E2F)/Hela-E2F7-ChIP-Seq(GSE32673)/Homer | 1e-5 | -1.204e+01 | 0.0000 | 117.0 | 2.83% | 385.3 | 1.84% | motif file (matrix) |
pdf |
| 53 |  | Pax8(Paired,Homeobox)/Thyroid-Pax8-ChIP-Seq(GSE26938)/Homer | 1e-4 | -1.117e+01 | 0.0001 | 131.0 | 3.17% | 451.0 | 2.15% | motif file (matrix) |
pdf |
| 54 |  | ZNF519(Zf)/HEK293-ZNF519.GFP-ChIP-Seq(GSE58341)/Homer | 1e-4 | -1.062e+01 | 0.0002 | 55.0 | 1.33% | 152.3 | 0.73% | motif file (matrix) |
pdf |
| 55 |  | Elk4(ETS)/Hela-Elk4-ChIP-Seq(GSE31477)/Homer | 1e-4 | -1.018e+01 | 0.0003 | 950.0 | 23.02% | 4289.1 | 20.49% | motif file (matrix) |
pdf |
| 56 |  | PU.1-IRF(ETS:IRF)/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer | 1e-4 | -9.526e+00 | 0.0005 | 1316.0 | 31.89% | 6106.0 | 29.17% | motif file (matrix) |
pdf |
| 57 |  | NRF(NRF)/Promoter/Homer | 1e-4 | -9.492e+00 | 0.0005 | 84.0 | 2.04% | 273.9 | 1.31% | motif file (matrix) |
pdf |
| 58 |  | Fosl2(bZIP)/3T3L1-Fosl2-ChIP-Seq(GSE56872)/Homer | 1e-4 | -9.459e+00 | 0.0005 | 193.0 | 4.68% | 739.5 | 3.53% | motif file (matrix) |
pdf |
| 59 |  | Zic(Zf)/Cerebellum-ZIC1.2-ChIP-Seq(GSE60731)/Homer | 1e-3 | -9.190e+00 | 0.0007 | 369.0 | 8.94% | 1544.3 | 7.38% | motif file (matrix) |
pdf |
| 60 |  | p53(p53)/Saos-p53-ChIP-Seq(GSE15780)/Homer | 1e-3 | -8.856e+00 | 0.0009 | 66.0 | 1.60% | 207.0 | 0.99% | motif file (matrix) |
pdf |
| 61 |  | p53(p53)/Saos-p53-ChIP-Seq/Homer | 1e-3 | -8.856e+00 | 0.0009 | 66.0 | 1.60% | 207.0 | 0.99% | motif file (matrix) |
pdf |
| 62 |  | Dorsal(RHD)/Embryo-dl-ChIP-Seq(GSE65441)/Homer | 1e-3 | -8.734e+00 | 0.0010 | 196.0 | 4.75% | 763.4 | 3.65% | motif file (matrix) |
pdf |
| 63 |  | Fra1(bZIP)/BT549-Fra1-ChIP-Seq(GSE46166)/Homer | 1e-3 | -8.650e+00 | 0.0011 | 496.0 | 12.02% | 2152.2 | 10.28% | motif file (matrix) |
pdf |
| 64 |  | RFX(HTH)/K562-RFX3-ChIP-Seq(SRA012198)/Homer | 1e-3 | -8.605e+00 | 0.0011 | 73.0 | 1.77% | 237.0 | 1.13% | motif file (matrix) |
pdf |
| 65 |  | RXR(NR),DR1/3T3L1-RXR-ChIP-Seq(GSE13511)/Homer | 1e-3 | -8.433e+00 | 0.0013 | 461.0 | 11.17% | 1992.4 | 9.52% | motif file (matrix) |
pdf |
| 66 |  | Jun-AP1(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer | 1e-3 | -8.302e+00 | 0.0015 | 98.0 | 2.37% | 342.1 | 1.63% | motif file (matrix) |
pdf |
| 67 |  | Trl(Zf)/S2-GAGAfactor-ChIP-Seq(GSE40646)/Homer | 1e-3 | -8.212e+00 | 0.0016 | 1549.0 | 37.53% | 7315.4 | 34.94% | motif file (matrix) |
pdf |
| 68 |  | ETS(ETS)/Promoter/Homer | 1e-3 | -7.464e+00 | 0.0033 | 315.0 | 7.63% | 1330.9 | 6.36% | motif file (matrix) |
pdf |
| 69 |  | ZNF711(Zf)/SHSY5Y-ZNF711-ChIP-Seq(GSE20673)/Homer | 1e-3 | -7.285e+00 | 0.0038 | 695.0 | 16.84% | 3145.2 | 15.02% | motif file (matrix) |
pdf |
| 70 |  | Elk1(ETS)/Hela-Elk1-ChIP-Seq(GSE31477)/Homer | 1e-3 | -7.112e+00 | 0.0045 | 776.0 | 18.80% | 3544.3 | 16.93% | motif file (matrix) |
pdf |
| 71 |  | TATA-box/Drosophila-Promoters/Homer | 1e-3 | -6.999e+00 | 0.0050 | 199.0 | 4.82% | 805.7 | 3.85% | motif file (matrix) |
pdf |
| 72 |  | PAX5(Paired,Homeobox)/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer | 1e-3 | -6.932e+00 | 0.0052 | 195.0 | 4.72% | 788.5 | 3.77% | motif file (matrix) |
pdf |
| 73 |  | PBX1(Homeobox)/MCF7-PBX1-ChIP-Seq(GSE28007)/Homer | 1e-2 | -6.556e+00 | 0.0075 | 32.0 | 0.78% | 90.1 | 0.43% | motif file (matrix) |
pdf |
| 74 |  | GEI-11(Myb?)/cElegans-L4-GEI11-ChIP-Seq(modEncode)/Homer | 1e-2 | -6.482e+00 | 0.0080 | 41.0 | 0.99% | 125.0 | 0.60% | motif file (matrix) |
pdf |
| 75 |  | X-box(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer | 1e-2 | -6.369e+00 | 0.0088 | 109.0 | 2.64% | 412.5 | 1.97% | motif file (matrix) |
pdf |
| 76 |  | FOXP1(Forkhead)/H9-FOXP1-ChIP-Seq(GSE31006)/Homer | 1e-2 | -6.263e+00 | 0.0097 | 690.0 | 16.72% | 3156.1 | 15.08% | motif file (matrix) |
pdf |
| 77 |  | SpiB(ETS)/OCILY3-SPIB-ChIP-Seq(GSE56857)/Homer | 1e-2 | -5.990e+00 | 0.0126 | 253.0 | 6.13% | 1074.8 | 5.13% | motif file (matrix) |
pdf |
| 78 |  | AP-1(bZIP)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer | 1e-2 | -5.834e+00 | 0.0145 | 577.0 | 13.98% | 2623.9 | 12.53% | motif file (matrix) |
pdf |
| 79 |  | CTCF(Zf)/CD4+-CTCF-ChIP-Seq(Barski_et_al.)/Homer | 1e-2 | -5.805e+00 | 0.0148 | 41.0 | 0.99% | 130.3 | 0.62% | motif file (matrix) |
pdf |
| 80 |  | Rfx2(HTH)/LoVo-RFX2-ChIP-Seq(GSE49402)/Homer | 1e-2 | -5.800e+00 | 0.0148 | 73.0 | 1.77% | 263.6 | 1.26% | motif file (matrix) |
pdf |
| 81 |  | NRF1(NRF)/MCF7-NRF1-ChIP-Seq(Unpublished)/Homer | 1e-2 | -5.702e+00 | 0.0160 | 35.0 | 0.85% | 107.4 | 0.51% | motif file (matrix) |
pdf |
| 82 |  | Fli1(ETS)/CD8-FLI-ChIP-Seq(GSE20898)/Homer | 1e-2 | -5.633e+00 | 0.0169 | 1212.0 | 29.37% | 5752.6 | 27.48% | motif file (matrix) |
pdf |
| 83 |  | NFkB-p65-Rel(RHD)/ThioMac-LPS-Expression(GSE23622)/Homer | 1e-2 | -5.598e+00 | 0.0173 | 60.0 | 1.45% | 210.7 | 1.01% | motif file (matrix) |
pdf |
| 84 |  | E2F6(E2F)/Hela-E2F6-ChIP-Seq(GSE31477)/Homer | 1e-2 | -5.412e+00 | 0.0206 | 248.0 | 6.01% | 1065.0 | 5.09% | motif file (matrix) |
pdf |
| 85 |  | ELF1(ETS)/Jurkat-ELF1-ChIP-Seq(SRA014231)/Homer | 1e-2 | -5.164e+00 | 0.0260 | 524.0 | 12.70% | 2390.3 | 11.42% | motif file (matrix) |
pdf |
| 86 |  | GABPA(ETS)/Jurkat-GABPa-ChIP-Seq(GSE17954)/Homer | 1e-2 | -5.113e+00 | 0.0271 | 719.0 | 17.42% | 3342.8 | 15.97% | motif file (matrix) |
pdf |
| 87 |  | E2F(E2F)/Hela-CellCycle-Expression/Homer | 1e-2 | -4.902e+00 | 0.0331 | 108.0 | 2.62% | 429.4 | 2.05% | motif file (matrix) |
pdf |
| 88 |  | PPARE(NR),DR1/3T3L1-Pparg-ChIP-Seq(GSE13511)/Homer | 1e-2 | -4.686e+00 | 0.0406 | 432.0 | 10.47% | 1962.4 | 9.37% | motif file (matrix) |
pdf |
| 89 |  | PAX5(Paired,Homeobox),condensed/GM12878-PAX5-ChIP-Seq(GSE32465)/Homer | 1e-2 | -4.637e+00 | 0.0421 | 70.0 | 1.70% | 264.5 | 1.26% | motif file (matrix) |
pdf |