| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 2,007,693 | 0 | T | C | 53.3% | 9.3 / 14.0 | 16 | P328P (CCT→CCC) | fliF | flagellar basal‑body MS‑ring/collar protein FliF |
| Reads supporting (aligned to +/- strand): ref base T (4/3); new base C (0/8); total (4/12) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 2.56e-02 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.83e-02 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
AGCGGTTCCGGTTATCCGGGCGGCGTACCGGGGGCGTTGTCGAATCAACCGGCACCTGCGAATAACGCGCCAATCAGCACGCCTCCGGCAAATCAAAATAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGTAGCACACAGCGGAATGAAA > NZ_CP009273/2007610‑2007772 | aGCGGTTCCGGTTATCCGGGCGGCGTACCGGGGGCGTTGTCGAATCAACCGGCACCTGCGAATAACGCGCCAATCAGCACGCCTCCGGCa < 2:845277/90‑1 (MQ=255) tATCCGGGCGGCGTACCGGGGGCGTTGTCGAATCAACCGGCACCTGCGAATAACGCGCCAATCAGCACGCCTCCGGCAAATCAAAATAAc > 2:795700/1‑90 (MQ=255) tCCGGGCGGCGTACCGGGGGCGTTGTCGAATCAACCGGCACCTGCGAATAACGCGCCAATCAGCACGCCTCCGGCAAATCAAAATAACCg > 2:533099/1‑90 (MQ=255) ggcggcGTACCGGGGGCGTTGTCGAATCAACCGGCACCTGCGAATAACGCGCCAATCAGCACGCCTCCGGCAAATCAAAATAACCGCcag > 1:461064/1‑90 (MQ=255) gcggcgTACCGGGGGCGTTGTCGAATCAACCGGCACCTGCGAATAACGCGCCAATCAGCACGCCTCCGGCAAATCAAAATAACCGCcagc > 1:90298/1‑90 (MQ=255) gcgTCCGGGGGGCGTTGTCAAATAACCCGGCCCCTGCAAAAACCGCGCCAATCAGCACGCCCCCGGCAAATAAAAATAACCGCcagcagc < 1:885347/90‑1 (MQ=255) gcgTACGGGGGGCGTTGTCGAAACACCCGGCACCTGCGAAAAACGCGCCAATCAGCACGCCCCCGGCAAATAAAAATAACCGCcagcagc < 1:725289/90‑1 (MQ=255) cGGGGGCGTTGTCGAATCACCCGGCCCCTGCGAATAACGCGCCAATCAGCACGCCTCCGGCAAATCAAAAAAACCGCCAGCAGCAGGCGa < 1:833940/90‑1 (MQ=255) ggggCGTTGTCAAACCAACCGGCCCCTGCAAATAACGCGCCAATCAGCACCCCCCCGGCAAATAAAAATAACCGCCAGCAGCAGGCGAGc < 1:533099/90‑1 (MQ=255) atgtGTCGAATCAACAGGCCGCTGCGAAAAGCGCCCAAATAAGCACGCTGCCGGCAAACAAAAAAAACCGCCAGCAGCAGGCGAGcacca < 1:674050/87‑1 (MQ=255) gccccTGCGAATAACGCGCCAATCAGCCCGCCCCCGGCAAATCAAAATAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCcg < 1:752749/87‑1 (MQ=255) gccccTGCGAATAACGCGCAAATCCGCACGCCCCCGGGAAACTAAAATATCCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCcg < 2:556703/87‑1 (MQ=255) gAATAACGCGCCAATCAGCACGCCTCCGGCAAATCAAAATAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGTAGcac < 2:72254/90‑1 (MQ=255) aCGCGCCAACCACCACCCCCCCGGAAAATCAAAAAAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGTAGCACACAGc < 1:165036/90‑1 (MQ=255) cccAATCAGCACCCCCCCGGAAAAAAAAAATAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGTAGCACACAGCGGaa < 1:589838/89‑1 (MQ=255) tCAGCACGCCCCCGGCAAATCAAAATAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGTAGCACACAGCGGAATGaaa < 2:778922/90‑1 (MQ=255) | AGCGGTTCCGGTTATCCGGGCGGCGTACCGGGGGCGTTGTCGAATCAACCGGCACCTGCGAATAACGCGCCAATCAGCACGCCTCCGGCAAATCAAAATAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGTAGCACACAGCGGAATGAAA > NZ_CP009273/2007610‑2007772 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |