| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 2,860,603 | 0 | A | T | 53.3% | ‑0.4 / 23.8 | 30 | V103E (GTA→GAA) | rpoS | RNA polymerase sigma factor RpoS |
| Reads supporting (aligned to +/- strand): ref base A (5/9); new base T (16/0); total (21/9) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.40e-04 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.09e-02 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
CTCTACCGCGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTACCACCAGACGCAAGTTACTCTCGATCATCCGGCGGCGAGAGGCGACATCTCCACGCAGTGCGCGACGCGCAAAATAAACTTCTTCTTC > NZ_CP009273/2860515‑2860691 | ctctACCGCGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTac < 2:525134/90‑1 (MQ=255) ccGCGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCTGACCACGATTGCCATAACGGCGGGCAATTTTTTtcacca > 1:31796/1‑90 (MQ=255) ccGCGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTTccacca > 1:128176/1‑90 (MQ=255) gcgcgGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCCATTTTTACCCCCCGa > 1:618186/1‑90 (MQ=255) gcgcgGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTTTCACCAGa > 1:454164/1‑90 (MQ=255) gcgcgGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTTACCCCAGa > 2:374143/1‑90 (MQ=255) gcgcgGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAAATTTTTccaccaaa > 1:68080/1‑88 (MQ=255) gcgGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCGAATTTTTTCACCACACg > 1:739974/1‑90 (MQ=255) gcgGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTACCACCAGACg < 1:41121/90‑1 (MQ=255) gcgGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTACCACCAGACg > 2:140551/1‑90 (MQ=255) cgGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTACCACCAGACGc < 1:706142/90‑1 (MQ=255) aGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTTCCCCCAAACGCAAGGTACTCTCg > 1:286180/1‑90 (MQ=255) gCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTTCCACCCAACGCAAGGTACTCTCGatcat > 1:149413/1‑90 (MQ=255) gCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTTCCACCAGACGCAAGTTACTCTCGatcat > 2:734051/1‑90 (MQ=255) tAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTACCACCAGACGCAAGTTACTCTCGATCATCCGGCGGCgag < 1:710919/90‑1 (MQ=255) aGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTACCACCAGACGCAAGTTACTCTCGATCATCCGGCGGCGagag < 1:88895/90‑1 (MQ=255) gTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTTCCACCAGACGCAAGTTACTCTCGATCATCCGGCGGCGAGAGGc > 2:60204/1‑90 (MQ=255) gTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAAATTTTACCACCAAAAGCAAGGGACCCTCGATCATCCCGCGGGGTGAggg > 2:600981/1‑89 (MQ=255) cAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTACCACCAGACGCAAGTTACTCTCGATCATCCGGCGGCGAGAGGCGAc > 2:688480/1‑90 (MQ=255) gCCAGACCACGATTGCCATAACGGCGGGCAATTTTTTCCACCCAACGCAAGTTACTCTCCATCATCCGGCGGCGGGAGGGGACAACTccc > 1:737634/1‑89 (MQ=255) gCCAGACCACGATTGCCATAACGGCGGGCAAATTTTTCCACCACACCCCAGATAATCTCGATCCTCCCGCGGCGGGAGGGGACCTCTccc > 1:408841/1‑89 (MQ=255) aGACCACGATTGCCATAACGGCGGGCAATTTTTACCACCAGACGCAAGTTACTCTCGATCATCCGGCGGCGAGAGGCGACATCTCCACGc < 2:144313/90‑1 (MQ=255) gACCACGATTGCCATAACGGCGGGCAATTTTTACCACCAGACGCAAGTTACTCTCGATCATCCGGCGGCGAGAGGCGACATCTCCACGCa < 2:564934/90‑1 (MQ=255) aCGATTGCCATAACGGCGGGCAATTTTTTCCACCAGACGCAAGTTACTCTCGATCATCCGGCGGCGGGGGGCGGCATCTCCACGCAGGgc > 2:326992/1‑90 (MQ=255) aTAACGGCGGGCAATTTTTACCACCAGACGCAAGTTACTCTCGATCATCCGGCGGCGAGAGGCGACATCTCCACGCAGTGCGCGACgcgc < 2:737634/90‑1 (MQ=255) ggcggGCAATTTTTACCACCAGACGCAAGTTACTCTCGATCATCCGGCGGCGAGAGGCGACATCTCCACGCAGTGCGCGACGCGCAAAAt < 2:538221/90‑1 (MQ=255) gcggGCAATTTTTTCCACCAGACGCAAGTTAATCTCGATCATCCGGCGGCGGGGGGGGGCATCTCCACCCAGGGCGCGACGCGCAAAATa > 1:91826/1‑90 (MQ=255) cggGCAATTTTTTCCACCAGACGCAAGTTACTCTCGATCATCCGGCGGCGGGAGGGGACATCTCCCCGCAGGGCGCGACGCGCAaaaaaa > 1:74722/1‑90 (MQ=255) gggCAATTTTTTCCACCAGACGCAAGTTACTCTCGATCATCCGGCGGGGAGAGGGGACATCTCCACGCAGTGCGCGACGCGCAAAATaaa > 2:457769/1‑90 (MQ=255) gggCAATTTTTACCACCAGACGCAAGTTACTCTCGATCATCCGGCGGCGAGAGGCGACATCTCCACGCAGTGCGCGACGCGCAAAATaaa > 1:319152/1‑90 (MQ=255) tACCACCAGACGCAAGTTACTCTCGATCATCCGGCGGCGAGAGGCGACATCTCCACGCAGTGCGCGACGCGCAAAATAAACttcttcttc < 2:408841/90‑1 (MQ=255) | CTCTACCGCGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTACCACCAGACGCAAGTTACTCTCGATCATCCGGCGGCGAGAGGCGACATCTCCACGCAGTGCGCGACGCGCAAAATAAACTTCTTCTTC > NZ_CP009273/2860515‑2860691 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |