| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 3,454,142 | 0 | A | T | 47.6% | 3.3 / 11.0 | 21 | I323F (ATT→TTT) | gspF | type II secretion system inner membrane protein GspF |
| Reads supporting (aligned to +/- strand): ref base A (5/6); new base T (0/10); total (5/16) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 3.51e-02 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.58e-01 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
TCGCCAGCGTCTGGCAAATGCGGCAGAGAACGTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTT‑CCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCTCGGCACATTAATGGTCAGAGCCGCAGATA > NZ_CP009273/3454066‑3454226 | cccccAGCGTCGGGAAAAGGGGGCAGAGACCGTTCGCCAGGGTAACAGCTTTCTTCTTTCGCTGGAAAAACCCGCATTTTC‑CCCGCCgat < 1:30949/87‑1 (MQ=255) gCCAGCGTCTGGCAAATGCGGCAGAGAACGTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAACCCGCAATTTT‑CCCGCCgatga < 2:231084/90‑1 (MQ=255) gCCAGCGTCTGGCAAATGCGGCAGAGAACGTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAACCCGCAATTTT‑CCCGCCgatga < 2:312839/90‑1 (MQ=255) cccAGCGTCTGGAAAATGCGGCAGAAAACGTTCGCCAGGGAAACAGCATTCATCTTTCGCTGAAACAACCCGAATTTTT‑CCCGCCgatga < 2:806059/89‑1 (MQ=255) cggCGTCTGGAAAATGCGGCAGAGAACGTTCGCCGGGGTAACACCATTCATTTTTCGCTGAAACAAACCGCATTTTT‑CCCGCCGatgatg < 2:706633/88‑1 (MQ=255) aGCTTCTGGCAAAGGCGGCAAAAAACGTTCGCCGGGAAAACACTTTTCTTTTTTCGGTGAAAAAACCCGAATTTTC‑CCCGCCGATGATGc < 1:587150/90‑1 (MQ=255) cGTCTGGAAAATGCGGCAGAGAACGTCCGCCAGGGAAACAGCTTTCTTTTTCCGCTGAAACAACCCGCATTTTC‑CCCGCCGATGATGctc < 2:340679/90‑1 (MQ=255) cGTCTGCAAAAGGCGGCAGAAACCGTCCCCCGGGGAAACACCATTCATTTTGCGCGGAAACAACCCGCATTTTC‑CCCGCCGATGATGctc < 1:828203/90‑1 (MQ=255) cTGGAAAATGCGGCAGAGAACTTCCGCCGGGGTAACAGCTTTCATTTTTCGCTGGAACAACCCGCATTTTC‑CCCGCCGATGATGCTCTAc < 2:530882/90‑1 (MQ=255) aTGCGGCAGAGAACGTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTT‑CCCGCCGATGATGCTCTACAtggtgg > 2:243640/1‑90 (MQ=255) ggCAGAGAACGTCCGCCAGGGTAACAGCCTTCATCTTTCGCGGAAACAACCCGCATTTTT‑CCCGCCGATGATGCTCTACATGGTGGCctc < 2:126076/90‑1 (MQ=255) gaACGTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTT‑CCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGa > 2:272767/1‑90 (MQ=255) aCGTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTT‑CCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGaaa > 1:380404/1‑90 (MQ=255) ttCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTT‑CCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGaaaaaa > 2:491067/1‑90 (MQ=255) gggTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTT‑CCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCa > 2:835636/1‑90 (MQ=255) ttttttCGC‑GGAAAAAACCCGAATTTTCCCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCTCGGCACATTaa < 1:175040/87‑1 (MQ=255) ttCTTCCGCTGAAACAACCCGCAATTTT‑CCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCTCGGCACATTaa < 2:670135/89‑1 (MQ=255) gAAAAACCCGAAATTTC‑CCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCTCGGCACATTAATGGTCAGAGcc < 2:288010/90‑1 (MQ=255) aaacccGCATTTTC‑CCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCTCGGCACATTAATGGTCAGAGCCGCa < 2:373019/86‑1 (MQ=255) aaaCCCAAATTTTCCCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCTCGGCACATTAATGGTCAGAGCCGCa < 1:730481/90‑1 (MQ=255) cggCATTTTC‑CCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCTCGGCACATTAATGGTCAGAGCCGCAGATa < 1:224138/88‑1 (MQ=255) cccaaaTTTC‑CCCGCCGATGATGCACTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCTCGGCACATTAATGGTCAGAGCCGCAGATa < 1:224139/86‑1 (MQ=255) | TCGCCAGCGTCTGGCAAATGCGGCAGAGAACGTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTT‑CCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCTCGGCACATTAATGGTCAGAGCCGCAGATA > NZ_CP009273/3454066‑3454226 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |