| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 3,659,058 | 0 | T | C | 61.5% | 4.2 / 11.6 | 13 | D38G (GAT→GGT) | gadX | acid resistance transcriptional activator GadX |
| Reads supporting (aligned to +/- strand): ref base T (4/1); new base C (0/8); total (4/9) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 6.99e-03 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.13e-03 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
GCATCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACG > NZ_CP009273/3658975‑3659139 | gCATCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCaa < 1:277462/90‑1 (MQ=255) tCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCaaaaa > 2:164942/1‑90 (MQ=255) aatGAAAGCGTGTCCCTTGACACAAAAAAAAATTTTTCAACACCCTTATCTACTAAATTTTGGCTTCCCCCCGAAAAAACCAGGCCACCg < 2:283751/90‑1 (MQ=255) gtgtCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTaaaa > 2:300864/1‑90 (MQ=255) tgccccTTGACACGAATAAAAAATTTCCACCACATTTATCTACCCGAATTTGGCTTCCCCCCACAAAAACCAGGTCACCGCCATTAAAAt < 2:57843/87‑1 (MQ=255) cctttGACACAAATAAAAAATTTTCAACATACTTATCTACTAGATTTTGGCTTCCACCCAAAAAACCCAGGTCACCGCCATTAAAATAGc < 1:244325/87‑1 (MQ=255) cacaAATAAAAATTTTTCAACCCTTTTATCTCCTCGATTTTGGCTTGCACCCGAAAAACCCAGGTCACCGCCATTAAAATAGCGATATTc < 2:234297/90‑1 (MQ=255) cacGAATAAAAAATTTCCAACACTCTTATCTCCTCAATTTTGTCTTCCACCCAAAAAAACCAGGCCACCGCCATTAAAATAGCGATATTc < 1:123392/90‑1 (MQ=255) cacGAAAAAAAATTTTTCAACACATTTTTCTTCTGGATTTGGGTTTGCCCCCGAAAAAACCGGGTCCCCGCCATTAAAATAGCGATATTc < 2:270862/90‑1 (MQ=255) aaTACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCa > 2:328984/1‑90 (MQ=255) caaaCACTCTTATCTCCCCAATTTTGGCTTCCACCCAAAAAACCCGGGCCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTg < 1:328984/88‑1 (MQ=255) ccatttATCTACTAAATTTTGGTTTCCACCCAAAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAat < 1:411392/86‑1 (MQ=255) ggCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACg > 1:44306/1‑90 (MQ=255) | GCATCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACG > NZ_CP009273/3658975‑3659139 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 6 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 17 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |