| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 2,447,248 | 0 | A | C | 53.8% | 6.8 / 14.9 | 13 | pseudogene (1233/2646 nt) | yfcU | fimbrial usher protein YfcU |
| Reads supporting (aligned to +/- strand): ref base A (4/2); new base C (0/7); total (4/9) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 2.10e-02 | |||||||||||
| 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. | |||||||||||
GTATGCGAATGAGTAACATCAAACGCGACCGCGCCGAAGGTAGACAAATCGCGACCGACGCCCAGCGCCGCAGACTGATAGTTTTCATCACCCAGCGCACCGCCATATAACGACCAGCCGTTAGCGATGCCCCAGGAGGCTTCAGCACCAGAGAAAAATCCCCCCTCGACATGGTG > NZ_CP009273/2447159‑2447334 | gTATGCGAATGAGTAACATCAAACGCGACCGCGCCGAAGGTAGACAAATCGCGACCGACGCCCAGCGCCGCAGACTGATAGTTTtcatca > 2:477117/1‑90 (MQ=255) gAGTAACATCAAACGCGACCGCGCCGAAGGTAGACAAATCGCGACCGACGCCCAGCGCCGCAGACTGATAGTTTTCATCCCCCAGCCCAc < 2:577183/90‑1 (MQ=255) aGTAACATCAAACGCGACCGCGCCGAAGGTAGACAAATCGCGACCGACGCCCAGCGCCGCAGACTGATAGTTTTCATCACCCAGCGCAcc < 1:477117/90‑1 (MQ=255) aaGGTAGACAAATCGCGACCGACGCCCAGCGCCGCAGACTGATAGTTTTCATCCCCCAGCGCACCGCCATATAACGACCAGCCGTTAGCg < 1:698211/90‑1 (MQ=255) ggTAGACAAATCGCGACCGACGCCCAGCGCCGCAGACTGATAGTTTTCATCACCCAGCGCACCGCCATATAACGACCAGCCGTTAGCGAt < 1:224375/90‑1 (MQ=255) aGACAAATCGCGACCGACGCCCAGCGCCGCAGACTGATAGTTTTCATCACCCAGCGCACCGCCATATAACGACCAGCCGTTAGCGATGcc > 1:548132/1‑90 (MQ=255) aTCGCGACCGACGCCCAGCGCCGCAGACTGATAGTTTTCATCACCCAGCGCACCGCCATATAACGACCAGCCGTTAGCGATGCCCCagga > 2:812672/1‑90 (MQ=255) ccgcAGACTGATAGTTTTCATCACCCAGCGCACCGCCATATAACGACCAGCCGTTAGCGATGCCCCAGGAGGCTTCAGCACCAGAGaaaa > 1:251462/1‑90 (MQ=255) cAGACTGATAGTTTTCACCCCCCAGCCCCCCGCCATATAACGACCAGCCGTTAGCGATGCCCCAGGAGGCTTCAGCACCAGAGAAAAATc < 2:251462/90‑1 (MQ=255) cTGATGGTTTTCACCCCCCACCCCGCCGCCATATAACGACCAGCCGTTAGCGATGCCCCAGGAGGCTTCAGCACCAGAGAAAAATccccc < 2:651412/90‑1 (MQ=255) cTGATATTTTCCACCCCCCACCGCCCCGCCATAAAACGACCAGCCGTTAGCGATGCCCCAGGAGGCTTCAGCACCAGAGAAAAATccccc < 2:691567/90‑1 (MQ=255) gATAGTTTTCATCACCCAGCGCACCGCCATATAACGACCAGCCGTTAGCGATGCCCCAGGAGGCTTCAGCACCAGAGAAAAATCCCCCCt > 1:209819/1‑90 (MQ=255) aTAGTTTTCACCCCCCAGCGCACCGCCATATAACGACCAGCCGTTAGCGATGCCCCAGGAGGCTTCAGCACCAGAGAAAAATCCCCCCTc < 2:94334/90‑1 (MQ=255) tttttCACCCCCCAGCCCACCGCCATATAACGACCAGCCGTTAGCGATGCCCCAGGAGGCTTCAGCACCAGAGAAAAATCCCCCCTCGAc < 2:737794/89‑1 (MQ=255) atcaCCCAGCGCACCGCCATATAACGACCAGCCGTTAGCGATGCCCCAGGAGGCTTCAGCACCAGAGAAAAATCCCCCCTCGACAtggtg > 1:618826/1‑90 (MQ=255) | GTATGCGAATGAGTAACATCAAACGCGACCGCGCCGAAGGTAGACAAATCGCGACCGACGCCCAGCGCCGCAGACTGATAGTTTTCATCACCCAGCGCACCGCCATATAACGACCAGCCGTTAGCGATGCCCCAGGAGGCTTCAGCACCAGAGAAAAATCCCCCCTCGACATGGTG > NZ_CP009273/2447159‑2447334 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 19 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |