| Position | Strand | Sequence | Score | Description | Distance upstream | Intergenic size |
| 2762158 | - | TTGGCACGATCCTTGCA | 96 | levD Bsu2703 G COG2893 phosphotransferase system (PTS) fructose-specific enzyme IIA component | 55 | 190 |
| 878467 | + | CTGGCACACTTCTTGCA | 94 | acoA Bsu0806 C COG1071 acetoin dehydrogenase E1 component (TPP-dependent alpha subunit) | 24 | 232 |
| 4144789 | - | TTGGCACAGAACTTGCA | 94 | rocD Bsu4031 E COG4992 ornithine aminotransferase | 75 | 241 |
| 2503955 | - | CTGGCATGGAACTTGCA | 93 | yqiS Bsu2407 C COG0280 similar to phosphate butyryltransferase | 55 | 125 |
| 3879377 | - | ATGGCATGATTCTTGCA | 92 | rocA Bsu3775 C COG1012 pyrroline-5 carboxylate dehydrogenase | 65 | 227 |
| 3880927 | - | CTGGTACGGATCTTGCA | 91 | yweB Bsu3776 E COG0334 alternate gene name: ipa-75d~similar to glutamate dehydrogenase | 114 | 177 |
| 3017342 | - | TTGGCATAAACTTTGCA | 88 | ytgI Bsu2945 O COG2077 similar to thiol peroxidase | 71 | 110 |
| 2319416 | - | ATGGCACGCAAGTTTCT | 86 | xpt Bsu2207 F COG0503 xanthine phosphoribosyltransferase | 150 | 331 |
