| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 1,906,011 | 0 | T | G | 61.1% | 9.9 / 16.9 | 18 | T275P (ACC→CCC) | htpX | protease HtpX |
| Reads supporting (aligned to +/- strand): ref base T (1/6); new base G (11/0); total (12/6) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 3.77e-04 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.92e-04 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
GGACGCGCTTTTTAGTATTTACTTCATATTACTTCAGGTATTCACCCGTACGCAGAGCTTCAATTCGTTTATCCAGCGGCGGGTGGGTCATGAACAACTCACTGAGCGATTTCGACTTACCGTTAATGCAGAGAGCCATCATGCTGGTTGCTTCTTGCGGTTCATAGCTGGTTTTCA > NZ_CP009273/1905924‑1906100 | ggACGCGCTTTTTAGTATTTACTTCATATTACTCCAGGTATTCACCCGTACGCAGAGCTTCAATTCGTTTATCCAGCGGCGGGTGGGTCa < 1:461917/90‑1 (MQ=255) cgcTTTTTAGTATTTACTTCATATTACTTCAGGTATTCACCCGTACGCAGAGCTTCAATTCGTTTATCCAGCGGCGGGGGGGGCATGaaa > 1:708652/1‑89 (MQ=255) tAGTATTTACTTCATATTACTTCAGGTATTCACCCGTACGCAGAGCTTCAATTCGTTTATCCAGCGGCGGGTGGGTCATGAACAACTCAc < 2:170014/90‑1 (MQ=255) tACTTCATATTACTTCAGGTATTCACCCGTACGCAGAGCTTCAATTCGTTTATCCAGCGGCGGGGGGGGCATTAACAACGCCCTGAgggg > 2:630160/1‑87 (MQ=255) tACTTCATATTACTTCAGGTATTCACCCGTACGCAGAGCTTCAATTCGTTTATCCAGCGGCGGGGGGGGCATGAAAAACTCCCTGAGCgg > 1:675390/1‑89 (MQ=255) ttACTTCAGGTATTCACCCGTACGCAGAGCTTCAATTCGTTTATCCAGCGGCGGGTGGGTCATGAACAACTCACTGAGCGATTTCGACtt < 2:642445/90‑1 (MQ=255) cTTCAGGTATTCACCCGTACGCAGAGCTTCAATTCGTTTATCCAGCGGCGGGTGGGTCATGAACAACTCACTGAGCGATTTCGACTTAcc < 1:464612/90‑1 (MQ=255) ggTATTCACCCGTACGCAGAGCTTCAATTCGTTTATCCAGCGGCGGGGGGGGGCTGAAAAACTCACTGAGCGATTTTGACTTACCGTTaa > 1:748655/1‑90 (MQ=255) ttCACCCGTACGCAGAGCTTCAATTCGTTTATCCAGCGGCGGGGGGGGGATGAACAAATCACCGAACGAGTTCTGCTTCCCTCTAATGcg > 2:280433/1‑89 (MQ=255) tCACCCGTACGCAGAGCTTCAATTCGTTTATCCAGCGGCGGGTGGGGCAAGAAAAACTCCCTGAGCGATTTCTACTTACCCCTAATTCaa > 2:791027/1‑89 (MQ=255) gagCTTCAATTCGTTTATCCAGCGGCGGGTGGGTCATGAACAACTCACTGAGCGATTTCGACTTACCGTTAATGCagaga > 1:786400/1‑80 (MQ=255) gagCTTCAATTCGTTTATCCAGCGGCGGGTGGGTCATGAACAACTCACTGAGCGATTTCGACTTACCGTTAATGCagaga < 2:786400/80‑1 (MQ=255) gagCTTCAATTCGTTTATCCAGCGGCGGGTGGGGCATGAAAAAACCACTCCGGGAATTTGGCTTACCCTTAAACTAAAGAGGCACCATGc > 2:577673/1‑90 (MQ=255) gagCTTCAATTCGTTTATCCAGCGGCGGGGGGGGCATGAACAACTCACTGAGCGATTTTGACTTACCGTTAATGCAGAGAGCCATCATGc > 1:626157/1‑90 (MQ=255) gagCTTCAATTCGTTTATCCAGCGGCGGGGGGGGCATGAACAACCCACTGAGGGGTTTTTTCTTTCCGTTAATGCAGAGAGGCATCATGc > 2:661870/1‑90 (MQ=255) gcggcgGGTGGGTCATGAACAACTCACTGAGCGATTTCGACTTACCGTTAATGCAGAGAGCCATCATGCTGGTTGCTTCTTGCGGTTCAt < 2:575199/90‑1 (MQ=255) gcggcgGGGGGGGCATGAAAAAATCACTGAGCGGTTTTGACTTTCCCTTTATGGAGAGAGCCATCATGCTGGTTGGTTCTTTCGGttttt > 2:330397/1‑87 (MQ=255) gcggcgGGGGGGGCATGAAAAAATCACTGAGCGGTTTCTGCTTACCGTTAATGCAGAGGGCCCCCATACTGGGTGGTTCTTTCGGGTCAt > 2:673940/1‑90 (MQ=255) tCATGAACAACTCACTGAGCGATTTCGACTTACCGTTAATGCAGAGAGCCATCATGCTGGTTGCTTCTTGCGGTTCATAGCTGGTTTTCa < 1:321776/90‑1 (MQ=255) | GGACGCGCTTTTTAGTATTTACTTCATATTACTTCAGGTATTCACCCGTACGCAGAGCTTCAATTCGTTTATCCAGCGGCGGGTGGGTCATGAACAACTCACTGAGCGATTTCGACTTACCGTTAATGCAGAGAGCCATCATGCTGGTTGCTTCTTGCGGTTCATAGCTGGTTTTCA > NZ_CP009273/1905924‑1906100 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |