| Predicted mutation | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | NZ_CP009273 | 56,392 | A→C | Y240D (TAC→GAC) | lptD ← | LPS assembly protein LptD |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 56,392 | 0 | A | C | 94.7% | 45.8 / NA | 19 | Y240D (TAC→GAC) | lptD | LPS assembly protein LptD |
| Reads supporting (aligned to +/- strand): ref base A (0/0); major base C (9/9); minor base G (1/0); total (10/9) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
GACGATGCATATAATGCGGCGTGATGGTGGCATCCATATTTGGCGCGATGTTCCAGTAATATGGCAGGTAGAACTCAAAGTAGTTGGTGGTGGTGTACTTGGCGTTCGGGATCAAGAAACCAGAGCGACGTTTGTCACCCACCGGCAACTGCAAATAGGGGCTATAA > NZ_CP009273/56311‑56477 | gacgaTGCATATAATGCGGCGTGATGGTGGCATCCATATTTGGCGCGATGTTCCAGTAATATGGCAGGTAGAACTCAAAGTCGTtggt < 2:395909/88‑1 (MQ=255)gacgaTGCATATAATGCGGCGTGATGGTGGCATCCATATTTGGCGCGATGTTCCAGTAATATGGCAGGTAGAAATCAAAGTCGTtggt > 1:395909/1‑88 (MQ=255) cgaTGCATATAATGCGGCGTGATGGTGGCATCCATATTTGGCGCGATGTTCCAGTAATATGGCAGGTAGAACTCAAAGTCGTtggtggtg < 1:412757/90‑1 (MQ=255) aTGCATATAATGCGGCGTGATGGTGGCATCCATATTTGGCGCGATGTTCCAGTAATATGGCAGGGGGAAATCAAAGGGGTtggtgggggg > 2:7843/1‑89 (MQ=255) aTGCGGCGTGATGGTGGCATCCATATTTGGCGCGATGTTCCAGTAATATGGCAGGGAGAAATCAAAAGCGTTGGTGGGGGGGGACTTGGc > 2:527787/1‑90 (MQ=255) tGCGGCGTGATGGTGGCATCCATATTTGGCGCGATGTTCCAGTAATATGGCAGGGGGAACTCAAAATCGTTGGGGGGGGTGTAGTTGGCg > 2:436488/1‑90 (MQ=255) gcgTGATGGTGGCATCCATATTTGGCGCGATGTTCCAGTAATATGGCAGGTAGAACTCAAAGTCGTTGGTGGTGGTGTACTTGGCGTTCg > 1:259354/1‑90 (MQ=255) tGATGGTGGCATCCATATTTGGCGCGATGTTCCAGTAATATGGCAGGTAGAACTCAAAGTCGTTGGTGGTGGTGTACTTGGCGTTCGGGa < 1:578394/90‑1 (MQ=255) cATCCATATTTGGCGCGATGTTCCAGTAATATGGCAGGTAGAAATCAAAATCGTTGGGGGGGGGGGACTTGGGGTTCGGGGTCAAGAAAc > 2:578394/1‑90 (MQ=255) tatTTGGCGCGATGTTCCAGTAATATGGCAGGTAGAACTCAAAGTCGTTGGTGGTGGTGTACTTGGCGTTCGGGATCAAGAAACCAGAGc < 1:336785/90‑1 (MQ=255) tGGCGCGATGTTCCAGTAATATGGCAGGGAGAAATCAAAGTCGTTGGGGGGGGGGTACTTGGCGTTCGGGATCAAAAAAACAGAGCGACg > 2:180130/1‑90 (MQ=255) gcgcGATGTTCCAGTAATATGGCAGGTAGAACTCAAAGTCGTTGGTGGGGGTGTACTTGGCGTTCGGGATCAAGAAACCAGAGCGACGtt > 1:29860/1‑90 (MQ=255) gcgcGATGTTCCAGTAATATGGCAGGTAGAACTCAAAGTCGTTGGTGGGGGGGTACTTGGCGTTCGGGAGCAAAAAACCAGAGCGACggt > 1:590907/1‑88 (MQ=255) gATGTTCCAGTAATATGGCAGGTAGAACTCAAAGTCGTTGGTGGTGGTGTACTTGGCGTTCGGGATCAAGAAACCAGAGCGACGTTTGTc < 1:527787/90‑1 (MQ=255) atatGGCAGGTAGAACTCAAAGTCGTTGGTGGTGGTGTACTTGGCGTTCGGGATCAAGAAACCAGAGCGACGTTTGTCACCCACCGGCaa < 1:102313/90‑1 (MQ=255) tatGGCAGGTAGAACTCAAAGTCGTTGGTGGTGGTGTACTTGGCGTTCGGGATCAAGAAACCAGAGCGACGTTTGTCACCCACCGGCAAc < 1:403631/90‑1 (MQ=255) tAGAACTCAAAGTCGTTGGTGGTGGTGTACTTGGCGTTCGGGATCAAGAAACCAGAGCGACGTTTGTCACCCACCGGCAACTGCAAATAg < 2:259354/90‑1 (MQ=255) tAGAACTCAAAGTCGTTGGTGGTGGTGTACTTGGCGTTCGGGATCAAGAAACCAGAGCGACGTTTGTCACCCACCGGCAACTGCAAATAg < 2:279701/90‑1 (MQ=255) aaGTCGTTGGTGGTGGTGTACTTGGCGTTCGGGATCAAGAAACCAGAGCGACGTTTGTCACCCACCGGCAACTGCAAATAGGGGCTATaa > 2:630361/1‑90 (MQ=255) | GACGATGCATATAATGCGGCGTGATGGTGGCATCCATATTTGGCGCGATGTTCCAGTAATATGGCAGGTAGAACTCAAAGTAGTTGGTGGTGGTGTACTTGGCGTTCGGGATCAAGAAACCAGAGCGACGTTTGTCACCCACCGGCAACTGCAAATAGGGGCTATAA > NZ_CP009273/56311‑56477 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |