| 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 | |
| 1 | | CTCF(Zf)/CD4+-CTCF-ChIP-Seq(Barski et al.)/Homer | 1e-41 | -9.539e+01 | 0.0000 | 9145.0 | 7.64% | 1158.4 | 6.64% | motif file (matrix) | |
| 2 | | BORIS(Zf)/K562-CTCFL-ChIP-Seq(GSE32465)/Homer | 1e-21 | -5.011e+01 | 0.0000 | 10837.0 | 9.05% | 1442.2 | 8.27% | motif file (matrix) | |
| 3 | | GATA-IR4(Zf)/iTreg-Gata3-ChIP-Seq(GSE20898)/Homer | 1e-3 | -7.197e+00 | 0.0614 | 2467.0 | 2.06% | 337.1 | 1.93% | motif file (matrix) |