| 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 | | Sp1(Zf)/Promoter/Homer | 1e-4 | -1.030e+01 | 0.0089 | 105.0 | 2.33% | 701.2 | 1.54% | motif file (matrix) | |
| 2 | | Maz(Zf)/HepG2-Maz-ChIP-Seq(GSE31477)/Homer | 1e-2 | -5.897e+00 | 0.3628 | 621.0 | 13.79% | 5649.8 | 12.40% | motif file (matrix) | |
| 3 | | ETS:E-box(ETS,bHLH)/HPC7-Scl-ChIP-Seq(GSE22178)/Homer | 1e-2 | -5.854e+00 | 0.3628 | 95.0 | 2.11% | 713.4 | 1.57% | motif file (matrix) | |
| 4 | | Brachyury(T-box)/Mesoendoderm-Brachyury-ChIP-exo(GSE54963)/Homer | 1e-2 | -5.283e+00 | 0.3628 | 378.0 | 8.40% | 3356.0 | 7.37% | motif file (matrix) |