Table 3. Specific short DNA sequences found to be statistically enriched in the promoters of module member genes.
| Module | DNA Element | Number of Hits | Number of Promoters | FDR |
| Module 01 | TTAAAAA | 346 | 267 | 4.94E-08 |
| TTTAAAA | 301 | 197 | 1.71E-07 | |
| CTCGTC | 423 | 342 | 3.52E-05 | |
| ACGTGGGC | 139 | 120 | 6.03E-05 | |
| CGGCC | 380 | 299 | 4.80E-05 | |
| Module 02 | CAACGGTC | 57 | 48 | 3.79E-17 |
| AACGGCT | 90 | 79 | 1.02E-09 | |
| AGCCGTTG | 47 | 39 | 2.43E-09 | |
| CCAACGG | 121 | 104 | 2.43E-08 | |
| CAACGGC | 115 | 98 | 5.38E-05 | |
| Module 04 | AAACCCT | 311 | 248 | 2.02E-69 |
| AGCCCAA | 161 | 134 | 1.86E-14 | |
| AGGCCCA | 211 | 169 | 1.02E-28 | |
| AAGCCCAT | 57 | 50 | 2.57E-11 | |
| GCCCAAC | 115 | 100 | 1.86E-08 | |
| Module 05 | ACAAAA | 550 | 345 | 2.00E-05 |
| CAATA | 617 | 368 | 7.05E-08 | |
| ACAATA | 197 | 151 | 4.04E-05 | |
| ACAATAA | 80 | 71 | 6.02E-06 | |
| AATAA | 1078 | 463 | 1.71E-05 | |
| Module 06 | GAACCTTC | 33 | 30 | 3.47E-15 |
| CTAGAAG | 55 | 46 | 9.78E-11 | |
| CTTCCAGA | 28 | 26 | 3.98E-10 | |
| AAGCTTC | 61 | 40 | 1.01E-07 | |
| GAAGCTTC | 20 | 20 | 1.04E-06 | |
| Module 07 | ACGTGGC | 69 | 55 | 4.83E-12 |
| CCACGTC | 59 | 53 | 1.39E-07 | |
| GACGTGGC | 25 | 21 | 5.88E-06 | |
| CACGTGGC | 26 | 20 | 1.27E-06 | |
| CCTATC | 92 | 81 | 1.12E-09 | |
| GGGATA | 83 | 78 | 7.11E-07 | |
| AGATAA | 126 | 105 | 0.00026 | |
| Module 09 | ACGTAT | 50 | 32 | 3.91E-05 |
| ACGTATA | 23 | 14 | 1.14E-05 | |
| ACACGTA | 31 | 28 | 1.38E-06 | |
| CACGTAC | 36 | 28 | 1.29E-05 | |
| CGTAA | 118 | 83 | 0.000276 | |
| Module 10 | CGATCG | 47 | 35 | 0.00227 |
| CCGATCG | 28 | 18 | 0.00049 | |
| ATCGC | 122 | 83 | 0.00424 | |
| Module 12 | GTACGTA | 27 | 13 | 6.08E-06 |
| GTACAC | 41 | 36 | 1.44E-05 | |
| ACGTACG | 27 | 14 | 2.08E-05 |