| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 1,995,399 | 0 | A | C | 53.8% | 7.7 / 14.3 | 13 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase sigma factor FliA/H48 family flagellin FliC |
| Reads supporting (aligned to +/- strand): ref base A (5/1); new base C (0/7); total (5/8) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 4.66e-03 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.13e-02 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
GGGTTTTTAATCGGACGATTAGTGGGTGAAATGAGGGGTTATTTGGGGGTTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCT > NZ_CP009273/1995323‑1995470 | ggttttttAATCGGACGATTAGTGGGTGAAAGGAGGGGTTATTGGGGGGTTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGc < 1:307148/87‑1 (MQ=255) aTCGGCCGATTGGGGGGTAAAATGGGGGTTTATTGGGGGGTTACAGGTAAATTCCAGGCAAAAAAAACCCCCGCCGGTGGCGGGGAAGCa < 1:511068/90‑1 (MQ=255) tgggaggaTTAGGGGGTAAAGTGGGGGTTTTTTGGGGGGTTAAAGGAAAATCCCAGGAAAAAAAAACCCCCGCCGGTGGCGGGGAAGCAc < 2:794080/88‑1 (MQ=255) ggACGATTAGTGGGTGAAATGAGGGGTTATTTGGGGGTTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGt > 2:490589/1‑90 (MQ=255) ggACGATTAGTGGGTGAAATGAGGGGTTATTTGGGGGTTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGt > 2:55875/1‑90 (MQ=255) aTGGGGGGTTTTTTGGGGGTAAAGGGAAAATTCCAGGCAAAAAAAACCCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCtt < 2:583814/90‑1 (MQ=255) gggggTTACAGGTAAATTCCAGGCAGAAAAAACCCccgccg < 1:525130/41‑1 (MQ=255) gggggTTACAGGTAAATTCCAGGCAGAAAAAAACCccgccg > 2:525130/1‑41 (MQ=255) ggggTTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATgc > 1:481421/1‑90 (MQ=255) cAGGTAAATCCCAGGCAAAAAAAACCCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTaa < 1:55875/90‑1 (MQ=39) cAGGTAAATCCCAGGAAAAAAAAACCCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTaa < 1:490589/90‑1 (MQ=39) cAGGTAAATCCCAGAAAAAAAAAACCCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTaa < 2:51365/90‑1 (MQ=38) aaTTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCt > 1:334921/1‑90 (MQ=255) | GGGTTTTTAATCGGACGATTAGTGGGTGAAATGAGGGGTTATTTGGGGGTTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCT > NZ_CP009273/1995323‑1995470 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |