| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 1,558,373 | 0 | C | T | 52.9% | 6.4 / 17.4 | 17 | E540K (GAG→AAG) | dosP | oxygen‑sensing cyclic‑di‑GMP phosphodiesterase |
| Reads supporting (aligned to +/- strand): ref base C (5/3); new base T (0/9); total (5/12) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 9.05e-03 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.53e-03 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
TGCGAAGATTTGCGGCTGGTAAACCAGTTTCAGTTGGTTATTGCTAATCGCTTCTTTCAGCGCTGCGCCTAAAACCAAACGCTCTTTTACCATTTCGTTCATCGCCGGGCTGAAGAAC‑TGCCAGCCGTTACCGCCATTCTTGCGAATATAATCCATTGCATTGTGA > NZ_CP009273/1558290‑1558455 | tGCGAACATTTGCGGCTGGTAACCCAATTTCAGTTGGTTATTGCTAATCGCTTCTTTCAGCGCTGCGCCTAAAACCAAACGCTCTTTTAc < 2:416795/90‑1 (MQ=255) cGAAGATTTGCGGCTGGTAAACCAGTTTCAGTTGGTTATTGCTAATCGCTTCTTTCAGCGCTGCGCCTAAAACCAAACGCTCTTTTACCa > 2:62478/1‑90 (MQ=255) tGCGGCTGGTAAACCAGTTTCAGTTGGTTATTGCTAATCGCTTCTTTCAGCGCTGCGCCTAAAACCAAACGCTCTTTTACCATTTCGTTc < 1:506564/90‑1 (MQ=255) ggTTATTGCTAATCGCTTCTTTCAGCGCTGCGCCTAAAACCAAACGCTCTTTTACCATCTCGTTCATCGCCGGGCTGAAGAAC‑TGCCAGc > 1:799721/1‑90 (MQ=255) aTTGCTAATCGTTTTTTCCGGCGCTGCGCCAAAACCCAACCCCTCTTTTCCCTTTTCGTTCATCGCGGGGCTGAAAACC‑TGCCAGCCGtt < 2:44085/90‑1 (MQ=255) aTTGCTAATCGCTTCTTTCAGCGCTGCGCCTAAAACCAAACGCTTTTTTACCATTTCTTTCATCGCCGGGCTGAAGAAC‑TGCCAGCCGtt < 1:327318/90‑1 (MQ=255) tttCAGCGCGGGCCCAAAAACCAACCCCTTTTTTCCTTTTTCTTTCACCGCCGGGCGGAAAAAC‑GGCAGGCCGTTACCGCCATTCTTGCg < 2:542616/90‑1 (MQ=255) aGCGCTGCGCCTAAACCCAAACGCTTTTTTCCCATTTCTTTCATCGCCGGGCTGAAGAAC‑TGCCAGCCGTTACCGCCATTCTTGCGAata < 1:450067/90‑1 (MQ=255) ccgcgGCGCATAAACCCACACTCTTTTTTCCCTTTTCGTCCA‑CCCCGGGCCTAAAAACTTGCCAGCCGTTCCCGCCATTCTTGCGAatat < 2:667691/89‑1 (MQ=255) tGCGCCTAAAACCAACCGCTTTTTTCCCATTTCTTTCATCGCGGGGCTGAAGAAC‑TGCCAGCCGTTACCGCCATTCTTGCGAATATAATc < 1:10913/90‑1 (MQ=255) tGCCCCAAAAACAAAACGCTTTTTTCCCATTTCGTTCATCGCCGGGCTGAAGAAC‑TGCCAGCCGTTACCGCCATTCTTGCGAATATAATc < 1:62478/90‑1 (MQ=255) gcgcCTAAAACCAAACGCTCTTTTACCATTTCGTTCATCGCCGGGCTGAAGAAC‑TGCCAGCCGTTACCGCCATTCTTGCGAATATAATcc > 2:162420/1‑90 (MQ=255) aCCAAACGCTTTTTTCCCATTTCGTTCATCGCCGGGCTAAAGAAC‑TGCCAGCCGTTACCGCCATTCTTGCGAATATAATCcattgcattg < 1:204015/90‑1 (MQ=255) cAACCGCTTTTTTCCCATTTCTTTCACCGCCGGGTTAAAAACC‑TGCCAGCCGTTACCGCCATTCTTGCGAATATAATCCATTGCATtgtg < 2:913304/90‑1 (MQ=255) cAACCGCTTTTTACCCTTTTCTTTCACCCCGGGGCTGAAGAAC‑TGCCAGCCGTTCCCGCCATTCTTGCGAATATAATCCATTGCATtgtg < 2:601231/90‑1 (MQ=255) aaaCGCTCTTTTACCATTTCGTTCATCGCCGGGCTGAAGAAC‑TGCCAGCCGTTACCGCCATTCTTGCGAATATAATCCATTGCATTGTGa > 2:50747/1‑90 (MQ=255) aaaCGCTCTTTTACCATTTCGTTCATCGCCGGGCTGAAGAAC‑TGCCAGCCGTTACCGCCATTCTTGCGAATATAATCCATTGCATTGTGa > 1:700935/1‑90 (MQ=255) | TGCGAAGATTTGCGGCTGGTAAACCAGTTTCAGTTGGTTATTGCTAATCGCTTCTTTCAGCGCTGCGCCTAAAACCAAACGCTCTTTTACCATTTCGTTCATCGCCGGGCTGAAGAAC‑TGCCAGCCGTTACCGCCATTCTTGCGAATATAATCCATTGCATTGTGA > NZ_CP009273/1558290‑1558455 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |