| Position | Strand | Sequence | Score | Description | Distance upstream | Intergenic size |
| 215072 | + | CTGGCACGCTTCCTGCA | 91 | - Atu0210 - - conserved hypothetical protein | 163 | 365 |
| 303388 | + | GTGGCACGTTGCTTGCG | 91 | - Atu0311 - - conserved hypothetical protein | 42 | 184 |
| 2369904 | - | GCGGCACGGTTCTTGCT | 91 | ureG Atu2396 - - urease accessory protein | 84 | 258 |
| 251899 | - | TTGCCACGGTTTTTGCA | 88 | - Atu0253 - - conserved hypothetical protein | 61 | 302 |
| 1740150 | + | TTGGCACGAAAATCGCT | 88 | - Atu1754 - - conserved hypothetical protein | 9 | 317 |
| 2386298 | + | CTGGCACGCGGCATGCA | 88 | glnA Atu2416 - - glutamine synthetase II | 80 | 490 |
| 1753683 | + | CTGGCACAATACGTGCA | 87 | glnB Atu1769 - - nitrogen regulatory protein PII | 44 | 359 |
| 2029515 | - | CTGGCAAACGAATTGCA | 87 | - Atu2067 - - conserved hypothetical protein | 96 | 141 |
| 2757085 | + | CTGGCACGCCCTTTGAA | 87 | glnK Atu2757 - - nitrogen regulatory protein PII | 59 | 214 |
| 861175 | - | TTGGAACATCCTTTGCT | 86 | - Atu0863 - - conserved hypothetical protein | 103 | 104 |
| 910831 | + | ATGGCGCGACCGTTGCC | 86 | - Atu0922 - - conserved hypothetical protein | 583 | 1146 |
| 2355182 | + | ACGGCACAAGCTTTGCT | 86 | amaB Atu2385 - - N-carbamoyl-beta-alanine amidohydrolase | 37 | 279 |
| 2666910 | - | ATGGCGCAAGGCTTGCA | 86 | - Atu2683 - - conserved hypothetical protein | 74 | 372 |
| 1970119 | - | TTGGCAAGGCACTGGCT | 85 | - Atu2008 - - hypothetical protein | 174 | 649 |
