| 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 |  | CTCF(Zf)/CD4+-CTCF-ChIP-Seq(Barski et al.)/Homer | 1e-15 | -3.565e+01 | 0.0000 | 18.0 | 10.17% | 0.6 | 0.38% | motif file (matrix) |
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| 2 |  | Erra(NR)/HepG2-Erra-ChIP-Seq(GSE31477)/Homer | 1e-12 | -2.812e+01 | 0.0000 | 72.0 | 40.68% | 28.0 | 18.17% | motif file (matrix) |
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| 3 |  | Sox3(HMG)/NPC-Sox3-ChIP-Seq(GSE33059)/Homer | 1e-10 | -2.469e+01 | 0.0000 | 45.0 | 25.42% | 13.1 | 8.49% | motif file (matrix) |
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| 4 |  | BORIS(Zf)/K562-CTCFL-ChIP-Seq(GSE32465)/Homer | 1e-9 | -2.202e+01 | 0.0000 | 17.0 | 9.60% | 2.7 | 1.73% | motif file (matrix) |
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| 5 |  | Hnf1(Homeobox)/Liver-Foxa2-Chip-Seq(GSE25694)/Homer | 1e-8 | -1.962e+01 | 0.0000 | 12.0 | 6.78% | 0.3 | 0.21% | motif file (matrix) |
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| 6 |  | AP-1(bZIP)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer | 1e-7 | -1.761e+01 | 0.0000 | 23.0 | 12.99% | 5.8 | 3.76% | motif file (matrix) |
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| 7 |  | ERE(NR/IR3)/MCF7-ERa-ChIP-Seq(Unpublished)/Homer | 1e-6 | -1.597e+01 | 0.0000 | 14.0 | 7.91% | 2.3 | 1.49% | motif file (matrix) |
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| 8 |  | Sox2(HMG)/mES-Sox2-ChIP-Seq(GSE11431)/Homer | 1e-6 | -1.558e+01 | 0.0000 | 26.0 | 14.69% | 7.9 | 5.12% | motif file (matrix) |
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| 9 |  | MafK(bZIP)/C2C12-MafK-ChIP-Seq(GSE36030)/Homer | 1e-6 | -1.490e+01 | 0.0000 | 10.0 | 5.65% | 0.0 | 0.00% | motif file (matrix) |
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| 10 |  | Nur77(NR)/K562-NR4A1-ChIP-Seq(GSE31363)/Homer | 1e-6 | -1.490e+01 | 0.0000 | 10.0 | 5.65% | 0.6 | 0.36% | motif file (matrix) |
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| 11 |  | BATF(bZIP)/Th17-BATF-ChIP-Seq(GSE39756)/Homer | 1e-5 | -1.328e+01 | 0.0000 | 20.0 | 11.30% | 5.1 | 3.32% | motif file (matrix) |
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| 12 |  | Bach2(bZIP)/OCILy7-Bach2-ChIP-Seq(GSE44420)/Homer | 1e-5 | -1.268e+01 | 0.0001 | 9.0 | 5.08% | 1.5 | 0.94% | motif file (matrix) |
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| 13 |  | FOXP1(Forkhead)/H9-FOXP1-ChIP-Seq(GSE31006)/Homer | 1e-5 | -1.268e+01 | 0.0001 | 9.0 | 5.08% | 2.0 | 1.27% | motif file (matrix) |
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| 14 |  | USF1(HLH)/GM12878-Usf1-ChIP-Seq(GSE32465)/Homer | 1e-5 | -1.268e+01 | 0.0001 | 9.0 | 5.08% | 1.7 | 1.11% | motif file (matrix) |
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| 15 |  | Jun-AP1(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer | 1e-5 | -1.229e+01 | 0.0001 | 12.0 | 6.78% | 2.4 | 1.58% | motif file (matrix) |
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| 16 |  | PPARE(NR/DR1)/3T3L1-Pparg-ChIP-Seq(GSE13511)/Homer | 1e-5 | -1.227e+01 | 0.0001 | 29.0 | 16.38% | 10.5 | 6.79% | motif file (matrix) |
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| 17 |  | FOXA1(Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer | 1e-5 | -1.194e+01 | 0.0001 | 25.0 | 14.12% | 8.3 | 5.36% | motif file (matrix) |
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| 18 |  | FOXA1(Forkhead)/MCF7-FOXA1-ChIP-Seq(GSE26831)/Homer | 1e-5 | -1.184e+01 | 0.0001 | 21.0 | 11.86% | 6.3 | 4.06% | motif file (matrix) |
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| 19 |  | EBF1(EBF)/Near-E2A-ChIP-Seq(GSE21512)/Homer | 1e-4 | -1.083e+01 | 0.0003 | 24.0 | 13.56% | 8.7 | 5.66% | motif file (matrix) |
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| 20 |  | NF-E2(bZIP)/K562-NFE2-ChIP-Seq(GSE31477)/Homer | 1e-4 | -1.058e+01 | 0.0003 | 8.0 | 4.52% | 0.0 | 0.00% | motif file (matrix) |
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| 21 |  | Sox6(HMG)/Myotubes-Sox6-ChIP-Seq(GSE32627)/Homer | 1e-4 | -1.032e+01 | 0.0004 | 37.0 | 20.90% | 16.8 | 10.92% | motif file (matrix) |
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| 22 |  | HNF4a(NR/DR1)/HepG2-HNF4a-ChIP-Seq(GSE25021)/Homer | 1e-4 | -9.852e+00 | 0.0006 | 30.0 | 16.95% | 12.4 | 8.05% | motif file (matrix) |
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| 23 |  | RXR(NR/DR1)/3T3L1-RXR-ChIP-Seq(GSE13511)/Homer | 1e-4 | -9.622e+00 | 0.0007 | 33.0 | 18.64% | 14.8 | 9.59% | motif file (matrix) |
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| 24 |  | Fox:Ebox(Forkhead:HLH)/Panc1-Foxa2-ChIP-Seq(GSE47459)/Homer | 1e-4 | -9.549e+00 | 0.0007 | 28.0 | 15.82% | 11.5 | 7.48% | motif file (matrix) |
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| 25 |  | Atf3(bZIP)/GBM-ATF3-ChIP-Seq(GSE33912)/Homer | 1e-4 | -9.472e+00 | 0.0008 | 19.0 | 10.73% | 6.2 | 4.03% | motif file (matrix) |
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| 26 |  | Tcf4(HMG)/Hct116-Tcf4-ChIP-Seq(SRA012054)/Homer | 1e-4 | -9.430e+00 | 0.0008 | 17.0 | 9.60% | 5.5 | 3.55% | motif file (matrix) |
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| 27 |  | Nkx3.1(Homeobox)/LNCaP-Nkx3.1-ChIP-Seq(GSE28264)/Homer | 1e-3 | -9.126e+00 | 0.0010 | 46.0 | 25.99% | 23.5 | 15.26% | motif file (matrix) |
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| 28 |  | RUNX(Runt)/HPC7-Runx1-ChIP-Seq(GSE22178)/Homer | 1e-3 | -8.541e+00 | 0.0017 | 20.0 | 11.30% | 7.7 | 5.02% | motif file (matrix) |
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| 29 |  | Foxa2(Forkhead)/Liver-Foxa2-ChIP-Seq(GSE25694)/Homer | 1e-3 | -8.372e+00 | 0.0020 | 18.0 | 10.17% | 6.5 | 4.24% | motif file (matrix) |
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| 30 |  | AP-2gamma(AP2)/MCF7-TFAP2C-ChIP-Seq(GSE21234)/Homer | 1e-3 | -7.779e+00 | 0.0034 | 26.0 | 14.69% | 11.7 | 7.57% | motif file (matrix) |
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| 31 |  | Tcf3(HMG)/mES-Tcf3-ChIP-Seq(GSE11724)/Homer | 1e-3 | -7.425e+00 | 0.0047 | 9.0 | 5.08% | 2.4 | 1.57% | motif file (matrix) |
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| 32 |  | AP-2alpha(AP2)/Hela-AP2alpha-ChIP-Seq(GSE31477)/Homer | 1e-2 | -6.869e+00 | 0.0080 | 20.0 | 11.30% | 8.0 | 5.22% | motif file (matrix) |
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| 33 |  | bHLHE40(HLH)/HepG2-BHLHE40-ChIP-Seq(GSE31477)/Homer | 1e-2 | -6.741e+00 | 0.0081 | 6.0 | 3.39% | 1.2 | 0.79% | motif file (matrix) |
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| 34 |  | c-Myc(HLH)/LNCAP-cMyc-ChIP-Seq(unpublished)/Homer | 1e-2 | -6.741e+00 | 0.0081 | 6.0 | 3.39% | 1.0 | 0.63% | motif file (matrix) |
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| 35 |  | Nrf2(bZIP)/Lymphoblast-Nrf2-ChIP-Seq(GSE37589)/Homer | 1e-2 | -6.741e+00 | 0.0081 | 6.0 | 3.39% | 0.0 | 0.00% | motif file (matrix) |
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| 36 |  | Usf2(HLH)/C2C12-Usf2-ChIP-Seq(GSE36030)/Homer | 1e-2 | -6.741e+00 | 0.0081 | 6.0 | 3.39% | 1.1 | 0.72% | motif file (matrix) |
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| 37 |  | RUNX2(Runt)/PCa-RUNX2-ChIP-Seq(GSE33889)/Homer | 1e-2 | -6.312e+00 | 0.0121 | 21.0 | 11.86% | 9.0 | 5.85% | motif file (matrix) |
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| 38 |  | AR-halfsite(NR)/LNCaP-AR-ChIP-Seq(GSE27824)/Homer | 1e-2 | -6.309e+00 | 0.0121 | 89.0 | 50.28% | 60.9 | 39.57% | motif file (matrix) |
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| 39 |  | c-Myc/mES-cMyc-ChIP-Seq(GSE11431)/Homer | 1e-2 | -6.002e+00 | 0.0156 | 8.0 | 4.52% | 2.6 | 1.70% | motif file (matrix) |
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| 40 |  | Foxo1(Forkhead)/RAW-Foxo1-ChIP-Seq(Fan et al.)/Homer | 1e-2 | -5.130e+00 | 0.0364 | 41.0 | 23.16% | 24.7 | 16.06% | motif file (matrix) |
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| 41 |  | Bach1(bZIP)/K562-Bach1-ChIP-Seq(GSE31477)/Homer | 1e-2 | -5.042e+00 | 0.0364 | 5.0 | 2.82% | 0.9 | 0.61% | motif file (matrix) |
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| 42 |  | Phox2a(Homeobox)/Neuron-Phox2a-ChIP-Seq(GSE31456)/Homer | 1e-2 | -5.042e+00 | 0.0364 | 5.0 | 2.82% | 0.9 | 0.56% | motif file (matrix) |
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| 43 |  | Rfx2(HTH)/LoVo-RFX2-ChIP-Seq(GSE49402)/Homer | 1e-2 | -5.042e+00 | 0.0364 | 5.0 | 2.82% | 0.0 | 0.00% | motif file (matrix) |
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| 44 |  | X-box(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer | 1e-2 | -5.042e+00 | 0.0364 | 5.0 | 2.82% | 1.9 | 1.26% | motif file (matrix) |
pdf |
| 45 |  | Nkx6.1(Homeobox)/Islet-Nkx6.1-ChIP-Seq(GSE40975)/Homer | 1e-2 | -4.900e+00 | 0.0407 | 55.0 | 31.07% | 35.2 | 22.85% | motif file (matrix) |
pdf |
| 46 |  | RUNX1(Runt)/Jurkat-RUNX1-ChIP-Seq(GSE29180)/Homer | 1e-2 | -4.744e+00 | 0.0465 | 22.0 | 12.43% | 11.3 | 7.34% | motif file (matrix) |
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| 47 |  | ZNF711(Zf)/SH-SY5Y-ZNF711-ChIP-Seq(GSE20673)/Homer | 1e-2 | -4.620e+00 | 0.0516 | 44.0 | 24.86% | 27.6 | 17.93% | motif file (matrix) |
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