| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 1,995,399 | 0 | A | C | 57.1% | 5.8 / 25.1 | 21 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase sigma factor FliA/H48 family flagellin FliC |
| Reads supporting (aligned to +/- strand): ref base A (9/0); new base C (0/12); total (9/12) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 3.40e-06 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.95e-04 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
CCGTTTCTGCAGGGTTTTTAATCGGACGATTAGTGGGTGAAATGAGGGGTTATTTGGGGGTTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCTTATCCGG > NZ_CP009273/1995312‑1995477 | ccGTTTCTGCAGGGTTTTTAATCGGACGATTAGTGGGTGAAATGAGGGGTTATTTGGGGGTTACAGGTAAATTCCAGGCAGAAAAAAAcc > 2:668616/1‑90 (MQ=255) ggttttttAATCGGCCGATTAGGGGGTGAAATGAGGGTTTATTTGGGGGTTACAGGTAAATCCCAGGCAGAAAAAACCCCCGCCGGTGGc < 2:370148/87‑1 (MQ=255) ggTTTTAAATCGGACGATTAGGGGGTAAAAGGGGGGTTTTTTGGGGGGTTACAGGTAAATTCCAGGCAAAAAAAACCCCCGCCGGTGGCg < 1:351470/90‑1 (MQ=255) ggACGATTAGTGGGTGAAATGAGGGGTTATTTGGGGGTTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGt > 2:111404/1‑90 (MQ=255) gACGTTTGGGGGGGGAAAGGGGGGTTTTTTGGGGGGTTACAGGAAAATTCCAGGAAAAAAAAACCCCCGCCGGTGGCGGGGAAGCACGtt < 2:546069/90‑1 (MQ=255) tAGGGGGTGAAATGGGGGGTTTTTTGGGGGTTACAGGTAAATTCCAGGCAGAAAAAACCCCCGCCGGTGGCGGGGAAGCACGTTGCTGAc < 2:84885/90‑1 (MQ=255) gAAATGAGGGGTTATTTGGGGGTTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTgcg > 2:684286/1‑90 (MQ=255) ggcttATTGGGGGTTTAAAGGTAAATTCCAGGCAGAAAAAACCCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGt < 2:36868/87‑1 (MQ=255) tATTTGGGGGTTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGcc > 2:39591/1‑90 (MQ=255) ggggTTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATgc > 1:252199/1‑90 (MQ=255) gggTTACGGGAAATTCCCAGGAAAAAAAAACCCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATgcg < 1:106807/90‑1 (MQ=255) gggTTACAGGTAAATTCCAGGAAAAAAAAACCCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATgcg < 2:436184/90‑1 (MQ=255) tACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGt > 1:727244/1‑90 (MQ=255) aaGGAAAATCCCAGGAAAAAAAAACCCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTaa < 2:727244/89‑1 (MQ=38) aGGAAAATCCCAGGAAAAAAAAACCCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTaaa < 2:381677/90‑1 (MQ=38) tAAATCCCAGGCAAAAAAAACCCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGc < 2:272602/90‑1 (MQ=39) aaTTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCt > 1:272602/1‑90 (MQ=255) cAGGAAGAAAAAACCCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTGTGTTGCCGGATGCGGCGTAAACGCCTTATcc < 1:24140/90‑1 (MQ=37) aGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCTTATCCg > 2:194247/1‑90 (MQ=255) aGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCTTATCCg > 2:737706/1‑90 (MQ=255) ggCAAAAAAAACCCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCTTATCCgg < 1:194247/90‑1 (MQ=255) | CCGTTTCTGCAGGGTTTTTAATCGGACGATTAGTGGGTGAAATGAGGGGTTATTTGGGGGTTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCTTATCCGG > NZ_CP009273/1995312‑1995477 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |