| Predicted mutation | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | NZ_CP009273 | 3,454,146 | Δ1 bp | coding (971/1197 nt) | gspF → | type II secretion system inner membrane protein GspF |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 3,454,143 | 0 | T | . | 87.5% | 74.1 / 2.7 | 24 | coding (968/1197 nt) | gspF | type II secretion system inner membrane protein GspF |
| Reads supporting (aligned to +/- strand): ref base T (0/0); major base . (11/10); minor base A (0/3); total (11/13) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 2.23e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
CCTCGAAATTCGCCAGCGTCTGGCAAATGCGGCAGAGAACGTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTTCCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCTCGGCACATTAATGGTCAGAGCCGCAGATAA > NZ_CP009273/3454057‑3454227 | ccTCGAAATTCGCCAGCGTCTGGCAAATGCGGCAGAGAACGTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAAtttc > 2:210142/1‑89 (MQ=255) ttCGCCAGCGTCTGGCAAATGCGGCAGAAAACGTTCGCCAGGGTAACACCTTTCATCTTTCGCTGAAACAAACCGCAA‑TTTCCCGCCgat < 1:314923/90‑1 (MQ=255) tCGCCAGCGTCTGGCAAATGCGGCAGAGAACGTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAA‑TTTCCCGCCgatg > 1:519106/1‑90 (MQ=255) ccccAGCGCCCGGAAAATGCGCCAGAGAACGTCCCCCAGGGTAAAAACATTCTCCTTTCGCTGAAAAAACCCGCAA‑TTTCCCGCCgatga < 2:244165/88‑1 (MQ=255) cGCCGGCGTCTGGCAAATGCGGCAGAGAACTTTCGCCGGGGTAACAGCTTTCATTTTTCGCTGGAA‑AAACCCGAAATTTCCCGCCgatga < 2:366101/90‑1 (MQ=255) cGCCCGCGTCTGGCAAAGGCGGCAGAGACCGTTCCCCAGGGTAACAGCATTCATCTTTCGTTGGAAAAACCCGCAA‑TTTCCCGCCgatga < 2:490476/90‑1 (MQ=255) cGCCAGCGTCTGGCAAATGCGGCAGAGAACGTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAA‑TTTCCCGCCgatga < 2:120503/90‑1 (MQ=255) cAGCGTCTGGCAAATGCGGCAGAGAACGTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAA‑TTTCCCGCCGATGATGc < 1:210142/90‑1 (MQ=255) gCGTCTGGCAAATGCGGCAGAGAACGTTCGCCAGGGTAACAGCATCCATCTTTCGCTGGAACAAACCGCAA‑TTTCCCGCCGATGATGctc < 2:161245/90‑1 (MQ=255) gaACGTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAA‑TTTCCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGaa > 1:413296/1‑90 (MQ=255) ttCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAA‑TTTCCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAg > 1:207641/1‑90 (MQ=255) gggTAACAGCATTCATCTTTCGCTGGAACAAACCGCAA‑TTTCCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAg > 2:184775/1‑90 (MQ=255) tAACAGCATTCATCTTTCGCTGAAACAAACCGCAA‑TTTCCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCTc < 2:207558/90‑1 (MQ=255) tAACAGCATTCATCTTTCGCGGAAACAACCCGCAA‑TTTCCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCTc < 2:207641/90‑1 (MQ=255) gCATTCTTTTTTCGTTGAAACAACCCG‑AAATTCCCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCTCGGcac < 2:179730/90‑1 (MQ=255) cATTCATCTTTCGCTGGAACAAACCGCAA‑TTTCCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCTCGGcaca > 2:417443/1‑90 (MQ=255) aTTCATCTTTCGCTGGAACAAACCGCAA‑TTTCCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCTCGGcac < 1:463013/88‑1 (MQ=255) aTTCATCTTTCGCTGGAACAAACCGCAA‑TTTCCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCTCGGcac > 2:463013/1‑88 (MQ=255) cATCTTTCGCTGGAACAAACCGCAA‑TTTCCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCTCGGCACATTaa > 2:170789/1‑90 (MQ=255) cATCTTTCGCT‑GAACAAACCCGAAATTTCCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCTCGGCACATTaa < 2:497170/90‑1 (MQ=255) ttCGCTGGAACAAACCGCAA‑TTTCCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCTCGGCACATTAATGGTc > 1:488396/1‑90 (MQ=255) ttCGCTGGAACAAACCGCAA‑TTTCCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCTCGGCACATTAATGGTc > 1:476473/1‑90 (MQ=255) ttCGCTGGAACAAACCGCAA‑TTTCCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCTCGGCACATTAATGGTc > 2:357858/1‑90 (MQ=255) cAAACCGCAA‑TTTCCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCTCGGCACATTAATGGTCAGAGCCGCAg < 1:357858/90‑1 (MQ=255) ccGCAA‑TTTCCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCTCGGCACATTAATGGTCAGAGCCGCAGATaa > 2:309039/1‑90 (MQ=255) | CCTCGAAATTCGCCAGCGTCTGGCAAATGCGGCAGAGAACGTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTTCCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCTCGGCACATTAATGGTCAGAGCCGCAGATAA > NZ_CP009273/3454057‑3454227 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |