| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 2,860,603 | 0 | A | T | 57.1% | ‑1.5 / 19.2 | 21 | V103E (GTA→GAA) | rpoS | RNA polymerase sigma factor RpoS |
| Reads supporting (aligned to +/- strand): ref base A (1/8); new base T (12/0); total (13/8) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 4.42e-05 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.95e-04 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
CCGCGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTACCACCAGACGCAAGTTACTCTCGATCATCCGGCGGCGAGAGGCGACATCTCCACGCAGTGCGCGACGCGCAAAATAAACTTCTTCTTC > NZ_CP009273/2860520‑2860691 | ccGCGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGGAAATTTTTccacca > 1:303089/1‑90 (MQ=255) gcgcgGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAAATTTTTccaccaaa > 2:421196/1‑88 (MQ=255) gcgGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTTCCACCAGACg > 2:169636/1‑90 (MQ=255) cccAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTACCACCAGACGCAAGTTActc < 1:681036/90‑1 (MQ=255) aGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTTCCACCAGACGCAAGTTACTCTCg > 2:520028/1‑90 (MQ=255) ctctTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGGAATTTTTTTCCCCCGACGCCAGTTACTCTCGATCATCcg > 1:692751/1‑90 (MQ=255) gTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGGAATTTTTTCCACCAGACGCAAGTTACTCTCGATCATTCGGCGGGGGGAggg > 2:618166/1‑89 (MQ=255) gTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTTCCACCAGACGCAAGTTACTCTCGATCATCCGGCGGCGAGAGGc > 1:803088/1‑90 (MQ=255) cAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTACCACCAGACGCAAGTTACTCTCGATCATCCGGCGGCGAGAGGCGAc < 1:413090/90‑1 (MQ=255) cAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTACCACCAGACGCAAGTTACTCTCGATCATCCGGCGGCGAGAGGCGAc < 2:692751/90‑1 (MQ=255) cAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTACCACCAGACGCAAGTTACTCTCGATCATCCGGCGGCGAGAGGCGAc < 2:591227/90‑1 (MQ=255) cAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTACCACCAGACGCAAGTTACTCTCGATCATCCGGCGGCGAGAGGCGAc < 1:557656/90‑1 (MQ=255) gCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTACCACCAGACGCAAGTTACTCTCGATCATCCGGCGGCGAGAGGCGACAt < 2:699928/90‑1 (MQ=255) cGCCAGACCACGATTGCCATAACGGCGGGGAATTTTTTCCACCAAACGCCAGGTACTCTCCATCATCCCGCGGCGGGGGGCGGCCTCTcc > 1:349822/1‑90 (MQ=255) gCCAGACCACGATTGCCATAACGGCGGGGAATTTTTTCCGCCCCACCCAAACTTCTCTCGGTCCCCCCGGGGCGGGGGGGGAAAACTCCa > 1:50691/1‑90 (MQ=255) gCCAGACCACGATTGCCATAACGGCGGGGAATTTTTTCCACCCAACGCAAGATACTCTCGATCATCCCGCGGCGAGAGGCGACAACTccc > 1:486303/1‑89 (MQ=255) gCCAGACCACGATTGCCATAACGGCGGGGAATTTTTTCCACCAAACGCCAGGTACTCTCGCTCATCCCGCGGCGGGAGGGGGCATCTccc > 1:591227/1‑89 (MQ=255) aGACCACGATTGCCATAACGGCGGGCAATTTTTACCACCAGACGCAAGTTACTCTCGATCATCCGGCGGCGAGAGGCGACATCTCCACGc < 2:803088/90‑1 (MQ=255) gcggGCAATTTTTTTCACCCGACGCAAGGTATTCTCGATCATCCGGCGGGGAGGGGGGACATCTCCACGCAGTGCGCGACGCGCAAAATa > 1:372818/1‑90 (MQ=255) gggCAATTTTTACCACCAGACGCAAGTTACTCTCGATCATCCGGCGGCGAGAGGCGACATCTCCACGCAGTGCGCGACGCGCAAAATaaa > 2:516322/1‑90 (MQ=255) tACCACCAGACGCAAGTTACTCTCGATCATCCGGCGGCGAGAGGCGACATCTCCACGCAGTGCGCGACGCGCAAAATAAACttcttcttc < 1:516322/90‑1 (MQ=255) | CCGCGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTACCACCAGACGCAAGTTACTCTCGATCATCCGGCGGCGAGAGGCGACATCTCCACGCAGTGCGCGACGCGCAAAATAAACTTCTTCTTC > NZ_CP009273/2860520‑2860691 |
| 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: ‑ |