| Position | Strand | Sequence | Score | Description | Distance upstream | Intergenic size |
| 4003406 | - | TTGGCACGGTATTTGCT | 96 | yqiS BA4388 - - phosphate butyryltransferase | 59 | 196 |
| 2583666 | - | TTGGCACAGTACTTGCA | 94 | acoA BA2776 - - TPP-dependent acetoin dehydrogenase E1 alpha-subunit | 52 | 170 |
| 2632020 | - | TTGGCACGTCAATTGCA | 94 | - BA2835 - - glycine oxidase, putative | 56 | 181 |
| 4933694 | - | TTGGCACGCTAATTGCA | 94 | celA-2 BA5444 - - PTS system, cellobiose-specific IIB component | 84 | 384 |
| 3694780 | + | TTGGCACACTATTTGCT | 92 | - BA4014 - - proline dipeptidase, putative | 16 | 328 |
| 915973 | + | TTGGCATGATATTTGCA | 90 | - BA0901 - - proline racemase, putative | 21 | 233 |
| 2147603 | + | TTGGCATAACTATTGCT | 90 | kamA BA2300 - - L-lysine 2,3-aminomutase | 22 | 211 |
| 3401065 | + | CTGGCACTCACTTTGCA | 90 | kinA BA3702 - - sporulation kinase A | 107 | 237 |
| 487425 | + | TTGGTACGCATTTTGCA | 89 | - BA0490 - - conserved hypothetical protein | 62 | 274 |
| 332190 | + | TTGGCATACATTTTGCA | 88 | gabT BA0325 - - 4-aminobutyrate aminotransferase | 27 | 155 |
| 1233197 | - | CGGGCACGATCATTGCA | 87 | - BA1281 - - hypothetical protein | 234 | 278 |
| 1796971 | + | TTGGCCCGTTATTTGCA | 87 | - BA1910 - - glyoxalase family protein | 1129 | 1681 |
| 466385 | + | TTGGCAAACTAGTTGCT | 86 | - BA0467 - - prophage LambdaBa04, prohead protease, putative | 982 | 1184 |
| 1040352 | + | ATGGCTCGTCTTTTGCG | 86 | - BA1056 - - hypothetical protein | 67 | 1550 |
| 1769019 | + | TTGGAACGCCGGTTGCG | 86 | - BA1887 - - enterotoxin | 1775 | 3033 |
| 1841703 | - | TTGGCCCTACAATTGCT | 86 | - BA1953 - - hydrolase, alpha/beta fold family | 1368 | 2081 |
| 2633839 | + | TTGGCATATTTTTTGCA | 86 | - BA2837 - - hypothetical protein | 59 | 109 |
| 3019158 | - | GTGGCAAGGCAGGTGCA | 85 | - BA3281 - - conserved hypothetical protein | 541 | 1410 |
| 4238858 | + | TTGGCATAATTGTTGCC | 85 | - BA4663 - - aminotransferase, class V | 129 | 155 |
| 4647859 | + | TTGGCACGGCAACGGCT | 85 | - BA5124 - - hypothetical protein | 182 | 713 |
| 4904353 | - | TTGGAATGGTTGTTGCA | 85 | - BA5414 - - carboxyl-terminal protease | 4 | 146 |
