| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 1,267,278 | 0 | T | G | 55.6% | 16.8 / 23.1 | 18 | T10P (ACC→CCC) | chaA | sodium‑potassium/proton antiporter ChaA |
| Reads supporting (aligned to +/- strand): ref base T (1/7); new base G (10/0); total (11/7) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 2.51e-04 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.38e-04 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
GTCTGGCTGCTTCCCCACAGGAACAGCACTACCAGCGCCAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGCGGGTTTTTACCGCCTCTTGAGCA‑TTTGACATTATGGTTA‑TCCCTTTGCAGATGAATTTATCGAAAA > NZ_CP009273/1267202‑1267340 | gtCTGGCTGCTTCCCCACAGGAACAGCACTACCAGCGCCAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGCGGGGTTTTTTCGCccct > 2:353731/1‑90 (MQ=255)gtCTGGCTGCTTCCCCACAGGAACAGCACTACCAGCGCCAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGCGGGGTTTTTTCCCctct > 2:110492/1‑90 (MQ=255)gtCTGGCTGCTTCCCCACAGGAACAGCACTACCAGCGCCAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGCGGGGTTTTTCCCCccct > 1:1115836/1‑90 (MQ=255) cTGGCTGCTTCCCCACAGGAACAGCACTACCAGCGCCAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGCGGGTTTTTACCg > 2:532924/1‑83 (MQ=255) cTGGCTGCTTCCCCACAGGAACAGCACTACCAGCGCCAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGCGGGTTTTTACCg < 1:532924/83‑1 (MQ=255) cTGGCTGCTTCCCCACAGGAACAGCACTACCAGCGCCAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGCGGGGTTTTTTCGCCCCttt > 1:391051/1‑89 (MQ=255) cTGGCTGCTTCCCCACAGGAACAGCACTACCAGCGCCAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGCGGGGTTTTTTCCCCTCttt > 1:992672/1‑89 (MQ=255) gctgctTCCCCACAGGAACAGCACTACCAGCGCCAGAACCGGGAAAATAAGCGAAGTCTCCTTATGGCGGGTTTTTACCGCCTCTTGAGc < 1:238846/90‑1 (MQ=255) ctTCCCCACAGGAACAGCACTACCAGCGCCAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGCGGGTTTTTACCGCCTCTTGAGCA‑ttt < 1:594347/90‑1 (MQ=255) cacaGGAACAGCACTACCAGCGCCAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGCGGGTTTTTACCGCCTCTTGAGCA‑TTTGACAtt < 1:1216009/90‑1 (MQ=255) acaGGAACAGCACTACCAGCGCCAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGCGGGTTTTTACCGCCTCTTGAGCA‑TTTGACATTa < 1:785428/90‑1 (MQ=255) gCACTACCAGCGCCAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGCGGGGTTTTTCCCCCCCTTTTGCA‑TTTTGCATTATGGTTT‑Tcc > 1:94311/1‑90 (MQ=255) aCCAGCGCCAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGCGGGGTTTTTCCGCCCCTTGAGCA‑TTTTACATTATTGTTATTCCCttt > 1:404913/1‑90 (MQ=255) aGCGCCAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGCGGGGTTTTTTCCCCCCTTTTGCATTTTTAATTTTTGGTTT‑TCCCtttcag > 1:676013/1‑87 (MQ=255) aGCGCCAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGCGGGGTTTTTCCCCCCCTTTTGCC‑TTTTACATTATTGTTT‑TTCCTTTGcct > 2:1099238/1‑88 (MQ=255) cgcCAGAACCGGGGAAATAAGCGAAGTCTCCTTGTGGCGGGTTTTTACCGCCTCTTGAGCA‑TTTGACATTATGGTTA‑TCCCTTTGCAGAt < 1:575791/90‑1 (MQ=255) cgcCAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGCGGGGTTTTTCCCCCCCTTTAGGA‑TTTTACATTTTTGGTT‑TCCCTTTTCAGAt > 1:194947/1‑90 (MQ=255) aaaTAAGCGAAGTCTCCTTGTGGCGGGTTTTTACCGCCTCTTGAGCA‑TTTGACATTATGGTTA‑TCCCTTTGCAGATGAATTTATCGaaaa < 1:338632/90‑1 (MQ=255) | GTCTGGCTGCTTCCCCACAGGAACAGCACTACCAGCGCCAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGCGGGTTTTTACCGCCTCTTGAGCA‑TTTGACATTATGGTTA‑TCCCTTTGCAGATGAATTTATCGAAAA > NZ_CP009273/1267202‑1267340 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |