| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 1,033,811 | 0 | T | G | 56.2% | 11.9 / 17.4 | 16 | Y206D (TAT→GAT) | appC | cytochrome bd‑II oxidase subunit 1 |
| Reads supporting (aligned to +/- strand): ref base T (3/4); new base G (9/0); total (12/4) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.92e-02 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.80e-04 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
GGTCAGCCAGGTGAAATTTGTGCACACCGTAATGGCGGGCTACGTGACCGGGGCCATGTTTATTATGGCGATCAGCGCCTGGTATTTACTGCGCGGACGGGAGCGCAATGTCGCATTACGCTCGTTTGCCATCGGTTCCGTCTTCGGTACTCTGGCGATTATCGGTAC > NZ_CP009273/1033729‑1033896 | ggTCAGCCAGGTGAAATTTGTGCACACCGTAATGGCGGGCTACGTTACCCGGGGCATGTTTTTTTTTGCGATCAGCGCCCGGGATTTTCt > 1:425775/1‑90 (MQ=255) gTCAGCCAGGTGAAATTTGTGCACACCGTAATGGCGGGCTACGTGACCGGGGCCATGTTTATTATGGCGATCAGCGCCTGGTATTTACTg < 1:459666/90‑1 (MQ=255) aaTTTGTGCACACCGTAATGGCGGGCTACGTGACCGGGGCCATGTTTTTTATTGCGATCAGCGCCTGGGATTTACTTCGCGGGCGGGGgc > 1:209690/1‑90 (MQ=255) gtgCACACCGTAATGGCGGGCTACGTGACCGGGGCCATGTTTATTATGGCGATCAGCGCCTGGGATTTACTGCGCGGACGGGAGCGCAAt > 2:227035/1‑90 (MQ=255) ccGTAATGGCGGGCTACGTGACCGGGGGCATGTTTTTTATGGGGATCAAGGGCGGGGTTTTACTGCGGGGCCGGGGGCGCGATGTCggca > 1:106060/1‑87 (MQ=255) gggCTACGTGACCGGGGCCATGTTTTTTATGGCGATCAGCGCCTGGGATTTTCTTCGCGGGCGGGGGCGCAATGTCGCCTTACGCTCggt > 1:568748/1‑88 (MQ=255) gggCTACGTGACCGGGGCCATGTTTTTTATGGCGATCAGCGCCTGGGATTTTCTGCGCGGGCGGGGGCGCAATGTCGCATTACGCTCGtt > 1:220385/1‑90 (MQ=255) gggCTACGTGACCGGGGCCATGTTTATTATGGCGATCAGCGCCTGGTATTTACTGCGCGGACGGGAGCGCAATGTCGCATTACGCTCGtt > 1:451186/1‑90 (MQ=255) gggCTACGTGACCGGGGCCATGTTTATTATGGCGATCAGCGCCTGGGATTTTCTGCGCGGACGGGAGCGCAATGTCGCATTACGCTCGtt > 2:523101/1‑90 (MQ=255) gggCTACGTGACCGGGGCCATGTTTATTATGGCGATCAGCGCCTGGGATTTACTGCGCGGGCGGGGGCGCAATGTCGCATTACGCTCGtt > 1:6177/1‑90 (MQ=255) gggCTACGTGACCGGGGCCATGTTTATTATGGCGATCAGCGCCTGGGATTTACTGCGCGGACGGGGGCGCAATGTCGCATTACGCTCGtt > 2:90631/1‑90 (MQ=255) gggCCATGTTTATTATGGCGATCAGCGCCTGGTATTTACTGCGCGGACGGGAGCGCAATGTCGCATTACGCTCGTTTGCCATCGGTTCCg < 2:158274/90‑1 (MQ=255) gCGATCAGCGCCTGGTATTTACTGCGCGGACGGGAGCGCAATGTCGCATTACGCTCGTTTGCCATCGGTTCCGTCTTCGGTACTCTGGCg > 2:429712/1‑90 (MQ=255) gATCAGCGCCTGGTATTTACTGCGCGGACGGGAGCGCAATGTCGCATTACGCTCGTTTGCCATCGGTTCCGTCTTCGGTACTCTGGCGAt > 2:189963/1‑90 (MQ=255) aTCAGCGCCTGGTATTTACTGCGCGGACGGGAGCGCAATGTCGCATTACGCTCGTTTGCCATCGGTTCCGTCTTCGGTACTCTGGCGAtt < 2:6177/90‑1 (MQ=255) cTGGTATTTACTGCGCGGACGGGAGCGCAATGTCGCATTACGCTCGTTTGCCATCGGTTCCGTCTTCGGTACTCTGGCGATTATCGGTAc < 2:568748/90‑1 (MQ=255) | GGTCAGCCAGGTGAAATTTGTGCACACCGTAATGGCGGGCTACGTGACCGGGGCCATGTTTATTATGGCGATCAGCGCCTGGTATTTACTGCGCGGACGGGAGCGCAATGTCGCATTACGCTCGTTTGCCATCGGTTCCGTCTTCGGTACTCTGGCGATTATCGGTAC > NZ_CP009273/1033729‑1033896 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |