Table 5. Gain of transcription factor binding sites due to repetitive elements in the promoter regions of orthologous genes.
| Solanum tuberosum | |||
| TF name | Gain in repeat overlapping region | Gain in Total 2kb region | Percentage of TFBS gain due to repeats |
| ARF | 11 | 574 | 1.92 |
| BoxII | 102 | 1,245 | 8.19 |
| BZIP | 1,369 | 265,990 | 0.51 |
| CCAAT | 437,839 | 25,186,369 | 1.74 |
| FHY3 | 45,132 | 3,328,200 | 1.36 |
| G_box | 12 | 89 | 13.48 |
| HD-ZIP | 1,519 | 3,453,104 | 0.04 |
| Ibox | 49 | 134 | 36.57 |
| LFY | 386 | 22,590 | 1.71 |
| MADS | 2,952 | 19,959 | 14.79 |
| SORLIP1 | 6 | 154 | 3.90 |
| SORLIP2 | 580 | 2,489 | 23.30 |
| T_box | 153 | 7,237 | 2.11 |
| WRKY | 458 | 14,375 | 3.19 |
| Solanum lycopersicum | |||
| TF name | Gain in Repeat overlapping region | Gain in Total 2kb region | Percentage of TFBS gain due to repeats |
| ACE | 45 | 217 | 20.74 |
| GCC | 25 | 195 | 12.82 |
| Hexamer | 484 | 2,221 | 21.79 |
| L1_box | 35,998 | 51,380 | 70.06 |
| LTRE | 194 | 936 | 20.73 |