| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 1,906,011 | 0 | T | G | 58.8% | 14.1 / 17.7 | 17 | T275P (ACC→CCC) | htpX | protease HtpX |
| Reads supporting (aligned to +/- strand): ref base T (1/6); new base G (10/0); total (11/6) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 5.66e-04 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.36e-03 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
TTTACTTCATATTACTTCAGGTATTCACCCGTACGCAGAGCTTCAATTCGTTTATCCAGCGGCGGGTGGGTCATGAACAACTCACTGAGCGATTTCGACTTACCGTTAATGCAGAGAGCCATCATGCTGGTTGCTTCTTGCGGTTCATAGCTGGTTTT > NZ_CP009273/1905941‑1906098 | tttACTTCATATTACTTCAGGTATTCACCCGTACGCAGAGCTTCAATTCGTTTATCCAGCGGCGGGGGGGGCATGAACAAATCACTGAGc > 1:26985/1‑90 (MQ=255) tACTTCATATTACTTCAGGTATTCACCCGTACGCAGAGCTTCAATTCGTTTATCCAGCGGCGGGGGGGGCATGAACAACTCACTGAGCGa > 2:396202/1‑90 (MQ=255) tACTTCATATTACTTCAGGTATTCACCCGTACGCAGAGCTTCAATTCGTTTATCCAGCGGCGGGGGGGGCAAGAAAAAACCACTGAGCGa > 2:952406/1‑90 (MQ=255) ttACTTCAGGTATTCACCCGTACGCAGAGCTTCAATTCGTTTATCCAGCGGCGGGTGGGTCATGAACAACTCACTGAGCGATTTCGACtt < 1:97019/90‑1 (MQ=255) aCTTCAGGTATTCACCCGTACGCAGAGCTTCAATTCGTTTATCCAGCGGCGGGTGGGTCATGAACAACTCACTGAGCGGTTTTGACTTAc > 2:512258/1‑90 (MQ=255) cTTCAGGTATTCACCCGTACGCAGAGCTTCAATTCGTTTATCCAGCGGCGGGTGGGTCATGAACAACTCACTGAGCGATTTCGACTTAcc < 1:6799/90‑1 (MQ=255) cTTCAGGTATTCACCCGTACGCAGAGCTTCAATTCGTTTATCCAGCGGCGGGTGGGTCATGAACAACTCACTGAGCGATTTCGACTTAcc < 1:168133/90‑1 (MQ=255) cTTCAGGTATTCACCCGTACGCAGAGCTTCAATTCGTTTATCCAGCGGCGGGTGGGGCATGAACAACTCACTGAGCGGTTTTGACTTAcc > 2:355511/1‑90 (MQ=255) tCAGGTATTCACCCGTACGCAGAGCTTCAATTCGTTTATCCAGCGGCGGGTGGGTCATGAACAACTCACTGAGCGATTTCGACTTACCGt < 1:952406/90‑1 (MQ=255) aGGTATTCACCCGTACGCAGAGCTTCAATTCGTTTATCCAGCGGCGGGGGGGGCATGAACAACTCACTGAGCGATTTCGACTTACCGTTa > 2:29877/1‑90 (MQ=255) cccGTACGCAGAGCTTCAATTCGTTTATCCAGCGGCGGGTGGGTCATGAACAACTCACTGAGCGATTTCGACTTACCGTTAATGCagaga < 2:702859/90‑1 (MQ=255) gTACGCAGAGCTTCAATTCGTTTATCCAGCGGCGGGGGGGGCATGAAAAACTCACTGAGCGATTTTGACTTTCCGTTAATGCAGAGAGcc > 1:206178/1‑90 (MQ=255) gagCTTCAATTCGTTTATCCAGCGGCGGGTGGGTCATGAACAACTCACTGAGCGATTTCGACTTACCGTTAATGCAGAGAGCCATCATGc < 1:844740/90‑1 (MQ=255) gagCTTCAATTCGTTTATCCAGCGGCGGGGGGGGCATGAACAACTCACTGAGCGGTTTCGACTTTCCGTTTATGCAGAGAGCCATCATGc > 1:378468/1‑90 (MQ=255) gagCTTCAATTCGTTTATCCAGCGGCGGGGGGGGCATGAACAACTCACTGAGCGATTTCGACTTACCGTTAATGCAGAGAGCCATCATGc > 2:310886/1‑90 (MQ=255) gagCTTCAATTCGTTTATCCAGCGGCGGGGGGGGCATGAACAACTCACCGAGCGATTTTGACTTTCCGGTAATGGAGAGAGCCATCATGc > 1:109850/1‑90 (MQ=255) gagCTTCAATTCGTTTATCCAGCGGCGGGGGGGGCATGAAAAACTCACTGAGCGGTTTTGACTTACCGTTAATGCAGAGAGCCATCATGc > 2:911012/1‑90 (MQ=255) ggtCATGAACAACTCACTGAGCGATTTCGACTTACCGTTAATGCAGAGAGCCATCATGCTGGTTGCTTCTTGCGGTTCATAGCTGGtttt > 1:458360/1‑90 (MQ=255) | TTTACTTCATATTACTTCAGGTATTCACCCGTACGCAGAGCTTCAATTCGTTTATCCAGCGGCGGGTGGGTCATGAACAACTCACTGAGCGATTTCGACTTACCGTTAATGCAGAGAGCCATCATGCTGGTTGCTTCTTGCGGTTCATAGCTGGTTTT > NZ_CP009273/1905941‑1906098 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |