| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 3,529,363 | Δ1 bp | 100% | coding (581/720 nt) | ompR ← | response regulator in two‑component regulatory system with EnvZ |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP009273 | 3,529,363 | 0 | T | . | 100.0% | 99.8 / NA | 23 | coding (581/720 nt) | ompR | response regulator in two‑component regulatory system with EnvZ |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base . (12/11); total (12/11) | |||||||||||
| Rejected as polymorphism: Frequency below/above cutoff threshold. | |||||||||||
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. | |||||||||||
AGCACCACCAGATAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCAATAACGTACGGGCAAATGAACTTCGTGGCGAGAAGCGCAATCGCCTCATGCTTTAGAGCCGTCCGGTACAAAGACGTAGCCCAGACCCCAGACGGTCTGAATGTAACGCGGATGCGCTGGATCTTCTTCCACCATGCGGCGCAGACGCGAAATCTGCACGTCGATGGAGCGTTCCATTGCGGAATATTCACGACCACGGGCAAGGTTCATCAGCTTATCGCGGGAGAGCGGCTCACGCGGATGGCTGACCAGTGCCTTCAGTACCGCAAACTCACCGCTGGTGAGCGGCATCGGCTCGTCTTCGCGGAACATTTCGCGCGTACCGAGGTTAAGTTTGAACTTACCGAAAGCAATTACCGCCTCTTCCTGTGACGGTGCGCCTGGCAGTTCGTTCGCCTGACGACGCAGCACCGCACGGATACGGGCCAGCAGTTCACG > CP009273/3529124‑3529616 | agggccaccaGATAAGGCGGCACCAGGCGGGCGACCAGCAAGGTGACGATGAGCAATAACGTGCGGGCAAATGAGCTTCGTCGCGAGAAGCGCAATCGCCTCATGCTTTAGAGCCGTCCGGTACAAAGACGTAGCCCAGACCCCAGACGGTCTGAATGTAACGCGGATGCGCTGGATCTTCTTCCACCATGCGGCGCAGACGCGAAATCTGCACGTCGATGGAGCGTTCCATTGCGGAA‑ATTCACGACCACGGGCAAGGTTCATCAGCTTATcgc < 2:166922/271‑1 (MQ=255) tACGGGCAAATGAACTTCGTGGCGAGAAGCGCAATCGCCTCATGCTTTAGAGCCGTCCGGTACAAAGACGTAGCCCAGACCCCAGACGGTCTGAATGTAACGCGGATGCGCTGGATCTTCTTCCACCATGCGGCGCAGACGCGAAATCTGCACGTCGATGGAGCGTTCCATTGCGGAA‑ATTCACGACACCGGACAAGGTTCATCAGCTTCTCGCGGGAGAGGGGCGCACGCGGATGGCAGGCCAGTGCCCTCCGTACCGCAAACTCatagcagc > 2:104556/1‑267 (MQ=255) tctctccGTCCGGTACACAGTCGTAGCCCAGACCCCAGACGGTCTGACTGTAACGCGGATGCGCTGGATCTTCTTCCCCCATGCGGCGCAGACGCGAAATCTGCACGTCGATTGGGTGTTCCATTGCGGAA‑ATTCACGACCACGGGCAAGGTTCATCAGCTTATCGCGGGAGTGCGGCTCACGCGGATGGCTGACCAGTGCCTTCAGTACCGCAAACTCACCGCTGGTGAGCGGCATCGGCTCGTCTTCGCGGAACATTTCGCGCGTACCGAGGt < 1:17832/270‑1 (MQ=255) tCCGGTACAAAGACGTAGCCCAGACCCCAGACGGTCTGAATGTAACGCGGATGCGCTGGATCTTCTTCCACCATGCGGCGCAGACGCGAAATCTGCACGTCGATGGAGCGTTCCATTGCGGAA‑ATTCACGACCACGGGCAAGGTTCATCAGCTTATCGCGGGAGAGCGGCTAACGCGGATGGCNGACCAGTGCCTTCAGTACCGCAAACTCACCGCTGGTGAGCGGCATCAGCTCGTCTTCCAGGAACATTTCGCGCGACCCGAGGGTAAGTTTg > 1:369361/1‑275 (MQ=255) tCCGGTACAAAGACGTAGCCCAGACACCAGACGGTCTGAATGTAACGCGGATGCGCTGGATCTTCTTCCACCATGCGGCGCAGACGCGAAATCTGCACGTCGATGGAGCGTTCCATTGCGGAA‑ATTCACGACCACGGGCAAGGTTCGTCAGCTTATCGNGGGAGAGCGGCTCACGCGGATGGCTGACCAGTGACTTCAGTACCGCAAACTCACCGCTGGTGAGCGGAATCGGCTCGTCTTCGCGGAACATTTCGCGCGTACCGAGATTAAGATTg > 1:437984/1‑275 (MQ=255) ccGGTACAAAGACGTAGCCNAGACCCCANACGGTCTGAATGTAACGCGGATGCGCTGGATCTTCTTCCACCATGCGGCGCAGACGCGAAATCTGCACGTCGATGGAGCGTTCCATTGCGGAA‑ATTCACGACCACGGGCAAGGTTCATCAGCTTATCGCGGGAGAGCGGCTCACGCGGTTGGCTGATCAGTGCCTTCAGTACCGCAAACTCAc < 1:336633/212‑1 (MQ=255) aGACGTAGCCCAGACCCCAGACGGTCTGAATGTAACGCGGATGCGCTGGATCTTCTTCCACCATGCGGCGCAGACGCGAAATCTGCACGTCGATGGAGCGTTCCATTGCGGAA‑ATTCACGACCACGGGCAAGGTTCATCAGCTTATCGCGGGAGAGCGGCCCa > 2:311263/1‑163 (MQ=255) gTAGCCCAGACCCCAGACGGTCTGAATGTAACGCGGATGCGCTGGATCTTCTGCCACCATGCGGCGCAGACGCGAAATCTGCACGTCGATGGAGCGTTCCATTGCGGAA‑ATTCACGACCACGGGCAAGGTTCATCAGCTTATCGCGGGAGAGCGGCTCAcgcg < 1:311274/163‑1 (MQ=255) gaccccagacGGTCTGAATGTAACGCGTATGCGCTGGATCTTCTTCCACCATGCGGCGCAGACGCGAAATCTGCACGTCGATGGAGCGTTCCATTGCGGAA‑ATTCACGACCACGGGCAAGGTTCATCAGCTTATCGCGGGAGAGCGGCTCACGCGGATGGCTGACCAGTGCCTTCAGTACCGCAAACTCACCGCTGGTGAGCGGCATCGGCTCGTCTTCGCGGAAAATTTCGCGCGTCACGAGGTTAAGTTTGAAATTACCGAAAGCAAATACCg > 1:299776/1‑275 (MQ=255) agacGGTCTGAATGTAACGCGGATGCGCTGGATCTTCTTCCACCATGCGGCGCAGACGCGAAATCTGCACGTCGATGGAGCGTTCCATTGCGGAA‑ATTCACGACAACGGGCAAGGTTCATCAGCTTATCGCGGGAGAGCGGCTCCCGCGGATGGCTGACACGTGCCTTCAGTACCGCAAACTCACCGCTGGTGAGCGGCATCGGCTCGTCTTCGCGGAACATTACGCGCGTACCGAGGTTAAGTTTGAACTTACCGACAACAATTACCACcact > 1:181245/1‑274 (MQ=255) aaccaTGCGGCGCAGCGGCGAAATCTGCACGTCGATGGAGCGTTCCATGGCGGAA‑ATTCACGACCACGGGCAAGGTTCATCAGCTTATCGCGGGAGAGCGGCTCACGCGGATGGCTGACCAGTGCCTTCAGTACCGCAAACTCACCGCTGGTGAGCGGCATCGGCTCGTCTTCGCGGAACATTTCGCGCGTACCGAGGTTAAGTTTGAACTTACCGAAAGCAATTACCGCCTCTTCCTGTGACGGTGCGCCTGGCAGTTCGTTCGCCTGacgacg < 1:104557/274‑1 (MQ=255) tGCGGCGCAGACGCGAAATCTGCACGTCGATGGAGCGTTCCATTGCGGAA‑ATTCACGACCACGGGCAAGGTTCATCAGCTTATCGCGGGAGAGCGGCTCACGCGGATGGCTGACCAGTGCCTTCAGTACCGCAAACTCACCGCTGGTGAGCGGCa > 1:143896/1‑155 (MQ=255) tGCGGCGCAGACGCGAAATCTGCACGTCGATGGAGCGTTCCATTGCGGAA‑ATTCACGACCACGGGCAAGGTTCATCAGCTTATCGCGGGAGAGCGGCTCACGCGGATGGCTGACCAGTGCCTTCAGTACCGCAAACTCACCGCTGGTGAGCGGCATCGGCTCGTCTTCGCGGAACATTTCGCGCGTACCCAGGTTAAGTTTGAACTTACCGAAAGCAATTACCGCCTCTTCCTGTGACGGTGCGCCTGGCCGTTCGGTCGCCTGCCGACgcatac > 2:154715/1‑272 (MQ=255) tGCGGCGCAGACGCGAAATCTGCACGACGATGGAGCGTTCCATTGCGGAA‑ATTCACGACCACGGGCAAGGTTCATCAGCTTATCGCGGGAGAGCGGCTCACGCGGATGGCTGACCAGTGCCTTCAGTACCGCAAACTCACCGCTGGTGAGCGGCATCGGCTCGTCTTCGCGGAACATTTCGCGCGTACCg > 1:346974/1‑190 (MQ=255) gcgcAGACGCGAAATCTGCACGTCGATGGAGCGTTCCATTGCGGAA‑ATTCACGACCACGGGCAAGGTTCATCAGCTTATCGCGGGAGAGCGGCTCACGCGGATGGCTGACCAGTGCCTTCAGTACCGCAAACTCACCGCTGGTGAGCGGCATCgg < 2:143894/155‑1 (MQ=255) gcgcAGACGCGAAATCTGCACGTCGATGGAGCGTTCCATTGCGGAA‑ATTCACGACCACGGGCAAGGTTCATCAGCTTATCGCGGGAGAGCGGCTCACGCGGATGGCTGACCAGTGCCTTCAGTACCGCAAACTCACCGCTGGTGAGCGGCATCGGCTCGTCTTCGCGGAACATTTCGCGCGTACCGAGGt < 2:346962/190‑1 (MQ=255) cACGTCGATGGAGCGTTCCATTGCGGAA‑ATTCACGACCACGGGCAAGGTTCATCAGCTTATCGCGGGAGAGCGGCTCACGCGGATGGCTGACCAGTGCCTTCAGTACCGCAAACTCACCGCTGGTGAGCGGCATCGGCTCGTCTTCGCGGAACATTTCGCGCGTACCg > 2:178291/1‑168 (MQ=255) tCGATGGAGCGTTCCATTGCGGAA‑ATTCACGACCACGGGCAAGGTTCATCAGCTTATCGCGGGAGAGCGGCTCACGCGGATGGCTGACCAGTGCCTTCAGTACCGCAAACTCACCGCTGGTGAGCGGCATCGGCTCGTCTTCGCGGAACATTTCGCGCGTACCGAGGt < 1:178298/168‑1 (MQ=255) gATGGAGCGGTCCATTGAGGAA‑ATTCACGAACACGGTCAAGGTTCATCAGCTTATCGCGGGAGAGCGGCTCACGCGGAGGGCGGACCAGTGCCTTAAGTACCGCAAACGCACCGCTGGGGAGCGGCATCGGCTCGTCGTCGCGGAACATTTCGCGCGTACCGAGGTTAAGTTTGAACTTACCGAAAGCAATTACCGCCTCTTCCTGTGACGGTGCGCCTGGCAGTTCGTTCGCCTGACGACGCAGCACCGCACGGATACGGGCCAGCAGTTCAcg < 2:181238/275‑1 (MQ=255) ttCCATTGCGGAA‑ATTCACGACCACGGGCAAGGTTCATCAGCTTATCGCGGGAGAGCGGCTCACGCGGATGGCTGACCAGTGCCTTCAGTAc > 2:121150/1‑92 (MQ=255) ttCCATTGCGGAA‑ATTCACGACCACGGGCAAGGTTCATCAGCTTATCGCGGGAGAGCGGCTCACGCGGATGGCTGACCAGTGCCTTCAGTACCGCAAACTCACCGCTGGTGAGCGGCATCGGCTCGTCTTCGCGGAACATTTCGCGCGTACCGAGGTTAAGTTTGAACTTACCGAAAGCAATTACCGCCTCTTCCTGTGa > 2:242437/1‑200 (MQ=255) aTTGCGGAA‑ATTCACGACCACGGGCAAGGTTCATCAGCTTATCGCGGGAGAGCGGCTCACGCGGATGGCTGACCAGTGCCTTCAGTACCGCa < 1:121151/92‑1 (MQ=255) aTTGCGGAA‑ATTCACGACCACGGGCAAGGTTCATCAGCTTATCGCGGGAGAGCGGCTCACGCGGATGGCTGACCAGTGCCTTCAGTACCGCAAACTCACCGCTGGTGAGCGGCATCGGCTCGTCTTCGCGGAACATTTCGCGCGTACCGAGGTTAAGTTTGAACTTACCGAAAGCAATTACCGCCTCTTCCTGTGACGGt < 1:242446/200‑1 (MQ=255) | AGCACCACCAGATAAGTCGTCACCAGGCTGGCGAACAGCAAGGTGACGATGAGCAATAACGTACGGGCAAATGAACTTCGTGGCGAGAAGCGCAATCGCCTCATGCTTTAGAGCCGTCCGGTACAAAGACGTAGCCCAGACCCCAGACGGTCTGAATGTAACGCGGATGCGCTGGATCTTCTTCCACCATGCGGCGCAGACGCGAAATCTGCACGTCGATGGAGCGTTCCATTGCGGAATATTCACGACCACGGGCAAGGTTCATCAGCTTATCGCGGGAGAGCGGCTCACGCGGATGGCTGACCAGTGCCTTCAGTACCGCAAACTCACCGCTGGTGAGCGGCATCGGCTCGTCTTCGCGGAACATTTCGCGCGTACCGAGGTTAAGTTTGAACTTACCGAAAGCAATTACCGCCTCTTCCTGTGACGGTGCGCCTGGCAGTTCGTTCGCCTGACGACGCAGCACCGCACGGATACGGGCCAGCAGTTCACG > CP009273/3529124‑3529616 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 9 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |