| Position | Strand | Sequence | Score | Description | Distance upstream | Intergenic size |
| 2274745 | + | CTGGCACGAAGGTTGCT | 96 | - CC2063 N COG4786 flagellar basal-body rod protein FlgF | 34 | 1993 |
| 2844404 | + | TTGGCACGAGGGTTGCT | 95 | - CC2628 - - hfaA protein | 18 | 147 |
| 3546624 | + | CTGGCACGGGCGTTGCA | 95 | - CC3295 S COG5317 hypothetical protein | 40 | 182 |
| 1205446 | - | TTGGCACATTTCTTGCT | 94 | - CC1072 - - hypothetical protein | 196 | 328 |
| 1610309 | + | TTGGCCCGGCAATTGCT | 91 | - CC1461 N COG1344 flagellin FljK | 57 | 277 |
| 995775 | + | TTGGCCCGACCGTTGCT | 90 | - CC0901 N COG1843 flagellar hook assembly protein FlgD, putative | 1842 | 2199 |
| 2581745 | - | GTGGCAGACACCTTGCT | 89 | - CC2379 M COG1004 UDP-glucose 6-dehydrogenase | 412 | 582 |
| 534993 | - | CTGGCGCCGTTCTTGCT | 88 | - CC0506 H COG0408 coproporphyrinogen III oxidase, aerobic | 247 | 260 |
| 1683312 | - | TTGGCCCGCCCCTTGCG | 87 | - CC1521 I COG1835 antibiotic acyltransferase | 40 | 133 |
| 1609213 | + | CTGGCCCGCCGCTTGCG | 86 | - CC1460 N COG1344 flagellin FljL | 55 | 248 |
| 742750 | + | TTGGCCCGATCGTTGCG | 85 | - CC0675 - - articulin, putative | 36 | 143 |
| 1887218 | + | TTGGCCCGCGCCTTGCG | 85 | - CC1714 - - hypothetical protein | 378 | 492 |
| 2449505 | + | CCGGCACGCGACTTGCG | 85 | - CC2251 K COG1396 transcriptional regulator, Cro/CI family | 38 | 118 |
| 3361079 | - | CTGGCGCGGCTCATGCA | 85 | - CC3124 - - hypothetical protein | 79 | 89 |
