| 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 |  | BORIS(Zf)/K562-CTCFL-ChIP-Seq(GSE32465)/Homer | 1e-10536 | -2.426e+04 | 0.0000 | 30426.0 | 66.82% | 5795.6 | 7.76% | motif file (matrix) |
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| 2 |  | CTCF(Zf)/CD4+-CTCF-ChIP-Seq(Barski_et_al.)/Homer | 1e-10300 | -2.372e+04 | 0.0000 | 28522.0 | 62.63% | 4425.0 | 5.92% | motif file (matrix) |
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| 3 |  | CTCF-SatelliteElement(Zf?)/CD4+-CTCF-ChIP-Seq(Barski_et_al.)/Homer | 1e-129 | -2.982e+02 | 0.0000 | 2645.0 | 5.81% | 2185.0 | 2.93% | motif file (matrix) |
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| 4 |  | Erra(NR)/HepG2-Erra-ChIP-Seq(GSE31477)/Homer | 1e-44 | -1.016e+02 | 0.0000 | 21289.0 | 46.75% | 31829.8 | 42.61% | motif file (matrix) |
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| 5 |  | NeuroD1(bHLH)/Islet-NeuroD1-ChIP-Seq(GSE30298)/Homer | 1e-37 | -8.576e+01 | 0.0000 | 9896.0 | 21.73% | 13950.5 | 18.68% | motif file (matrix) |
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| 6 |  | Unknown-ESC-element(?)/mES-Nanog-ChIP-Seq(GSE11724)/Homer | 1e-33 | -7.608e+01 | 0.0000 | 8001.0 | 17.57% | 11154.7 | 14.93% | motif file (matrix) |
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| 7 |  | Unknown3/Drosophila-Promoters/Homer | 1e-14 | -3.315e+01 | 0.0000 | 989.0 | 2.17% | 1159.4 | 1.55% | motif file (matrix) |
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| 8 |  | THRa(NR)/C17.2-THRa-ChIP-Seq(GSE38347)/Homer | 1e-5 | -1.353e+01 | 0.0001 | 4211.0 | 9.25% | 6315.5 | 8.46% | motif file (matrix) |
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| 9 |  | SeqBias: polyC-repeat | 1e-3 | -8.586e+00 | 0.0080 | 45532.0 | 99.99% | 74658.3 | 99.95% | motif file (matrix) |
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| 10 |  | E2A(bHLH),near_PU.1/Bcell-PU.1-ChIP-Seq(GSE21512)/Homer | 1e-3 | -6.928e+00 | 0.0379 | 14697.0 | 32.27% | 23466.2 | 31.42% | motif file (matrix) |
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| 11 |  | PRDM9(Zf)/Testis-DMC1-ChIP-Seq(GSE35498)/Homer | 1e-2 | -6.418e+00 | 0.0574 | 4093.0 | 8.99% | 6344.2 | 8.49% | motif file (matrix) |
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| 12 |  | SeqBias: G/A bias | 1e-2 | -5.662e+00 | 0.1121 | 45536.0 | 100.00% | 74679.1 | 99.98% | motif file (matrix) |
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| 13 |  | DPL-1(E2F)/cElegans-Adult-ChIP-Seq(modEncode)/Homer | 1e-2 | -4.803e+00 | 0.2442 | 5788.0 | 12.71% | 9141.9 | 12.24% | motif file (matrix) |
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| 14 |  | SCL(bHLH)/HPC7-Scl-ChIP-Seq(GSE13511)/Homer | 1e-2 | -4.685e+00 | 0.2551 | 34194.0 | 75.09% | 55633.3 | 74.48% | motif file (matrix) |
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