Table 8. Motif 2; upstream of differentially regulated transcripts overlapping genes.
| Transcript touching gene(s) | Start | P-value | Sequence (Consensus = TTGACCGGCTTTTCTTTTTTTACAGGGTG) |
| mnmE | 28 | 1.57E-12 | TTGACCGCCTTTTTTCTTTTCGTAGGGCG |
| yidB | 10 | 1.36E-10 | ATCTCCGCCCTTTTTATTTCTGCAATCCG |
| prfA | 59 | 2.09E-10 | AGTACATCATTTTCTTTTTTTACAGGGTG |
| thiL | 59 | 7.78E-09 | ATCGCCGGCCTTTTCTTTTTTACCTGCTG |
| add | 40 | 2.23E-08 | TTACCCTGCTTTGTTTTTATAATGGTGCG |
| ynhF | 55 | 4.46E-08 | ATGACGGGAGATTTTTTCATCACAGTGTG |
| sbmC | 0 | 9.41E-08 | AGGCCTGACCTTTCTTTTGCAGCAGACTG |
| nrdA, nrdB | 21 | 1.74E-07 | TTCTAAGCAGCTTCCCGTACTACAGGTAG |
| uvrD | 64 | 2.89E-07 | TTCTCCGCCCAACCTATTTTTACGCGGCG |
| yhdZ | 9 | 3.14E-07 | TCTACTGGATCTTCTGTTTCAGCATGTCG |
| yhdH | 19 | 3.40E-07 | TTCATCGGCTTTGCTTTTCCATTAGCGAG |
| hycC, hycB | 3 | 4.68E-07 | AGCTGAGGCTTTGCCCGTTTTGCAGGCGT |
| dinQ | 61 | 5.06E-07 | TTGCAAGGACGTGCTGGTTTTATAACCTG |
| recF | 59 | 5.91E-07 | TGGTCGGGCGTTTCGCAGTTTGCAGATTG |
| yhjH | 59 | 1.24E-06 | AGGAACGGCGTTTTTGGTTGCAGTGTGAG |
| cvpA | 66 | 1.54E-06 | TTATCATCAGATGTTTTTTTGATTATCTG |
| ryeB | 35 | 2.48E-06 | AAAACCGCCTCAGTTCTTTCACCAGAACG |
Start denotes the start of the motif sequence counted from the start of the 100-mer upstream of the detected upregulated transcript.