| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 3,291,244 | 0 | A | C | 52.9% | 10.0 / 13.2 | 17 | V85G (GTG→GGG) | yraQ | permease |
| Reads supporting (aligned to +/- strand): ref base A (5/3); new base C (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 = 7.32e-02 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
CCGCGAAAGCGCGATTGCCCAAGCGTACGCAACAACCAGTCACGCGGGATCAGCACCTGAATCAACGAACCGAGGATCACCCCCAGCACCGCCGCTTTCCATACCGCGAGGAAATAGATCATCGCGTAATCCAACGCCGCCTGCCATGGGTTAGCATCCGCCTGCGC > NZ_CP009273/3291166‑3291332 | ccGCAAAAGGGCGATTGCCCACGCGTACGCAACAACCAGTCACGCGGGCTAAGCACCTGAATCGCCGAAACGAGGATCACACACAGCAcc > 2:221070/1‑90 (MQ=255) gAAAGCGCGATTGCCCAAGCGTACGCAACAACCAGTCACGCGGGATCAGCACCTGAATCAACGAACCGAGGATCCCCCCCAGCAccgccg < 2:132800/90‑1 (MQ=255) tGCCCAAGCGTACGCAACACCCAGCCACGGGGGATCAGCCCCTGAATCAACGAACCGAGGATCCCCCCCAGCACCGCCGCTTTCCATAcc < 2:75124/90‑1 (MQ=255) ccAAGCGTACGCAACAACCAGTCACGCGGGATCAGCACCTGAATCAACGAACCGAGGATCCCCCCCAGCACCGCCGCTTTCCATACcgcg < 1:186206/90‑1 (MQ=255) cAAGCGTCCGCAACAACCAGTCCCGCGGGATCACCACCTGAATCAACGAACCGAGGATCCCCCCCAGCACCGCCGCTTTCCATACCGCGa < 2:96964/90‑1 (MQ=255) cAAGCGTACGCAACAACCAGTCACGCGGGATCAGCACCTGAATCAACGAACCGAGGATCACCCCCAGCACCGCCGCTTTCCATACCGCGa < 1:243027/90‑1 (MQ=255) caacCAGTCACGCGGGATCAGCACCTGAATCAACGAACCGAGGATCCCCCCCAGCACCGCCGCTTTCCATACCGCGAGGAAATAGatcat < 1:157532/90‑1 (MQ=255) acCAGTCACGCGGGATCAGCACCTGAATCAACGAACCGAGGATCACCCCCAGCACCGCCGCTTTCCATACCGCGAGGAAATAGATCATcg > 1:199901/1‑90 (MQ=255) aGTCACGCGGGATCAGCACCTGAATCAACGAACCGAGGATCCCCCCCAGCACCGCCGCTTTCCATACCGCGAGGAAATAGATCATCGCGt < 1:326447/90‑1 (MQ=255) aGTCACGCGGGATCAGCACCTGAATCAACGAACCGAGGATCACCCCCAGCACCGCCGCTTTCCATACCGCGAGGAAATAGATCATCGCGt > 2:159811/1‑90 (MQ=255) gATCAGCACCTGAATCAACGAACCGAGGATCACCCCCAGCAccgc > 1:352726/1‑45 (MQ=255) gATCAGCACCTGAATCAACGAACCGAGGATCACCCCCAGCAccgc < 2:352726/45‑1 (MQ=255) cTGAATCAACGAACCGAGGACCCCCCCCAGCCCCGCCGCTTTCCATACCGCGAGGAAATAGATCATCGCGTAATCCAACGCCGCCTGCCa < 2:311163/90‑1 (MQ=255) tGAATCAACGAACCGAGGATCCCCCCCAGCACCGCCGCTTTCCATACCGCGAGGAAATAGATCATCGCGTAATCCAACGCCGCCTGCCAt < 1:202481/90‑1 (MQ=255) gAATCAACGAACCGAGGATCACCCCCAGCACCGCCGCTTTCCATACCGCGAGGAAATAGATCATCGCGTAATCCAACGCCGCCTGCCATg > 1:249140/1‑90 (MQ=255) cAACGAACCGAGGACCCCCCCCAGCCCCGCCGCTTTCCATACCGCGAGGAAATAGATCATCGCGTAATCCAACGCCGCCTGCCATGGGtt < 2:68282/90‑1 (MQ=255) cACCCCCAGCACCGCCGCTTTCCATACCGCGAGGAAATAGATCATCGCGTAATCCAACGCCGCCTGCCATGGGTTAGCATCCGCCTgcgc < 1:65492/90‑1 (MQ=255) | CCGCGAAAGCGCGATTGCCCAAGCGTACGCAACAACCAGTCACGCGGGATCAGCACCTGAATCAACGAACCGAGGATCACCCCCAGCACCGCCGCTTTCCATACCGCGAGGAAATAGATCATCGCGTAATCCAACGCCGCCTGCCATGGGTTAGCATCCGCCTGCGC > NZ_CP009273/3291166‑3291332 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |