| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 3,124,782 | 0 | G | C | 55.6% | 5.2 / 10.0 | 9 | pseudogene (986/1065 nt) | yghQ | lipopolysaccharide biosynthesis protein |
| Reads supporting (aligned to +/- strand): ref base G (3/1); new base C (0/5); total (3/6) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 4.76e-02 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.17e-02 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
CCTTCCCTAAATCAGGTCATACGCTTCGAGATACTTAACGCCAAACACCAGCGAAATGAGCGGCTTGCCGACGATCAACACCGCGAGCGCCACCAGAATACCGATTCCGCCCGCCAGTAAACCGGACTTCACACCTAACAACCACGGTCTGGTGGTGCGCGGATCTAAAC > NZ_CP009273/3124694‑3124863 | ccTTCCCTAAATCAGGTCATACGCTTCGAGATACTTAACGCCAAACACCAGCGAAATGAGCGGCTTGCCGACGATCAACACCGCCAgcgc > 2:567387/1‑90 (MQ=255) cTTCCCTAAATCAGGTCATACGCTTCGAGATACTTAACGCCAAACACCAGCGAAATGAGCGGCTTGCCGACGATCAACACCGCGAGCGcc < 1:98507/90‑1 (MQ=255) ggTCATACGCTTCGAGATACTTAACGCCAAACACCAGCGAAATGAGCGGCTTGCCGACGATCAACACCGCGAGCGCCACCAGAATACCGa > 1:172820/1‑90 (MQ=255) ggTCATACGCTTCGAGATACTTAACGCCAAACACCAGCGAAATGAGCGGCTTGCCGACGATCAACACCGCGAGCGCCACCAGAATACCGa > 2:490470/1‑90 (MQ=255) aaCACCAGCGAAATGAGCGGCTTGCCGACGATCAACACCGCGAGCGCCACCAGAATACCGATTCCGCCCGCCAGTAAACCGGACTTcaca > 2:263881/1‑90 (MQ=255) aGCAAAATGGGCGGCTTGCCGACAACCAACCCCGCGACCCCCACAAAAATCCCGTTCCCCCCCGCCAGTAAACCGGACTTCACACCTaac < 1:177756/90‑1 (MQ=255) aTGGGCGGCTTGCCGACGATCACCCCCGCGAGCCCCACAAAAATCCCGTTCCCCCCCGCCAGTAAACCGGACTTCACACCTAACAACCAc < 1:103512/90‑1 (MQ=255) aTGAGCGGCTTGCCGACGACCAACCCCGCGAGCCCCACCAAAATCCCGATCCCCCCCGCCAGTAAACCGGACTTCACACCTAACAACCAc < 1:3671/90‑1 (MQ=255) ccGCGGGCCCCACAAAAACCCCGTTCCCCCCCGCCAGTAAACCGGACTTCACACCTAACAACCACGGTCTGGTGGTGCGCGGATCTAAAc < 1:490470/90‑1 (MQ=255) ccGCGAGCCCCACAAGAATCCCGTTCCCCCCCGCCAGTAAACCGGACTTCACACCTAACAACCACGGTCTGGTGGTGCGCGGATCTAAAc < 1:182346/90‑1 (MQ=255) | CCTTCCCTAAATCAGGTCATACGCTTCGAGATACTTAACGCCAAACACCAGCGAAATGAGCGGCTTGCCGACGATCAACACCGCGAGCGCCACCAGAATACCGATTCCGCCCGCCAGTAAACCGGACTTCACACCTAACAACCACGGTCTGGTGGTGCGCGGATCTAAAC > NZ_CP009273/3124694‑3124863 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |