| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 3,291,063 | 0 | A | C | 62.5% | 3.6 / 12.4 | 16 | G145G (GGT→GGG) | yraQ | permease |
| Reads supporting (aligned to +/- strand): ref base A (5/1); new base C (0/10); total (5/11) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.37e-03 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.53e-04 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
ATCGCCGCAAAACCCCAGCCGAGGACAAAGCCCATAAACACCAGCGTCGCCGGGTTTAACACCGG‑ATTGCCCATCCAGAATGCCAGCGCACCGCCCATCGACACCTGTTGGCGACGCATTCCCGCCGCGACCGGAGCCGCACAGCAGGTACAC > NZ_CP009273/3290974‑3291126 | aTCGCCGCAAAACCCCAGCCGAGGACAAAGCCCATAAACACCAGCGTCGCCGGGTTTAACACCGG‑ATTGCCCATCCAGAATGCCAGCGCa > 1:238504/1‑90 (MQ=255) cgcAAAACCCCAGCCGAGGACAAAGCCCATAAACACCAGCGTCGCCGGGTTTAACACCGG‑ATTGCCCATCCAGAATGCCAGCGCACCGcc < 2:525044/90‑1 (MQ=255) gCCGAGGACAAAGCCCATAAACACCAGCGTCGCCGGGTTTAACACCGG‑ATTGCCCATCCAGAATGCCAGCGCACCGCCCATCGACACCTg > 2:283395/1‑90 (MQ=255) aaGCCCATAAACACCAGCGTCGCCGGGTTTAACACCGG‑ATTGCCCATCCAGAATGCCAGCGCACCGCCCATCGACACCTGTTGGCGACGc > 1:497091/1‑90 (MQ=255) aTAAACACCAGCGTCGCCGGGTTTAACACCGG‑ATTGCCCATCCAGAATGCCAGCGCACCGCCCATCGACACCTGTTGGCGACGCATTccc > 1:261167/1‑90 (MQ=255) aGCGTCGCCGGGTTTAACCCCGG‑ATTGCCCATCCAGAGTGCCAGCGCCCCGCCCATCGACCCCTGTTGGCGACGCATTCCCGCCGCGAcc < 1:370421/90‑1 (MQ=255) aGCGTCGCCGGGTTTAACCCCGG‑ATTGCCCATCCAGAATGCCAGCGCCCCGCCCATCGACCCCTGTTGGCGACGCATTCCCGCCGCGAcc < 1:91796/90‑1 (MQ=255) gCGTCGCCGGGTTTAACACCGG‑ATTGCCCATCCAGAATGCCAGCGCACCGCCCATCGACACCTGTTGGCGACGCATTCCCGCCGCGACCg > 2:617882/1‑90 (MQ=255) ccccGGGTTTAACCCCGG‑ATTGCCCACCCAAAATGCCCGCCCCCCCCCCATCGACACCTGTTGGCGACGCATTCCCGCCGCGACCGGAGc < 1:548143/88‑1 (MQ=255) gcGGGGTTAACCCCGGAATCCCCCACCAAGAAGGCCGCCCCCCCCCCCCCCGACCCCTTTTGGCGACGCTTCCCCGCCGCGACCGGAGcc < 2:456734/89‑1 (MQ=255) ggttttAACCCCGG‑ATCCCCCACCCAGAAGGCCAGCCCCCCCCCCATCGACCCCTGTTGGCGCCGCATTCCCGCCGCGACCGGAGCCGca < 2:497091/87‑1 (MQ=255) ttttACCCCCGG‑TTTGCCCACCAAGAATGCCAGCCCCCCCCCAATCGACACCTGTTGGCGACGATTTCCCGCCGCGACCGGAGCCGcaca < 1:617882/89‑1 (MQ=255) gTTTACCACCGG‑ATTGCCCATCCAGAATGCCAGCCCCCCGCCCATCGACACCTGTTGGCGACGCATTCCCGCCGCGACCGGAGCCGcaca < 1:498698/90‑1 (MQ=255) ttAACACCGG‑ATTGCCCACCCAGAATGCCAGCGCCCCGCCCATCGACCCCTTTTGGCGACGCATTCCCGCCGCGACCGGAGCCGCAcagc < 1:323781/90‑1 (MQ=255) ccGG‑TTTGCCCATCCAGAATGCCAGCGCCCCGCCCATCGACCCCTGTTGGCGACGCATTCCCGCCGCGACCGGAGCCGCACAGCAGGTac < 1:422603/90‑1 (MQ=255) ccGG‑TTTCCCCACCCAGAATCCCCGCCCCCCCCCCACCGACCCCTGTTGGCGCCGCTTTCCCGCCGCGACCGGAGCCGCACAGCAGGTac < 2:330410/90‑1 (MQ=255) gg‑ATTGCCCATCCAGAATGCCAGCGCACCGCCCATCGACACCTGTTGGCGACGCATTCCCGCCGCGACCGGAGCCGCACAGCAGGTacac > 2:228834/1‑90 (MQ=255) | ATCGCCGCAAAACCCCAGCCGAGGACAAAGCCCATAAACACCAGCGTCGCCGGGTTTAACACCGG‑ATTGCCCATCCAGAATGCCAGCGCACCGCCCATCGACACCTGTTGGCGACGCATTCCCGCCGCGACCGGAGCCGCACAGCAGGTACAC > NZ_CP009273/3290974‑3291126 |
| 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: ‑ |