| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 3,659,058 | 0 | T | C | 52.6% | 18.2 / 26.9 | 19 | D38G (GAT→GGT) | gadX | acid resistance transcriptional activator GadX |
| Reads supporting (aligned to +/- strand): ref base T (6/3); new base C (0/10); total (6/13) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 3.10e-03 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.68e-05 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
GAGCATCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGC > NZ_CP009273/3658973‑3659134 | gAGCATCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGc < 2:300759/90‑1 (MQ=255) aGCATCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCa < 1:32425/90‑1 (MQ=255) gCATCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCaa < 2:368792/90‑1 (MQ=255) cGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAAc > 2:151929/1‑90 (MQ=255) aatAAACGCGTTTCCCTTGACAAAAATAAAAAATTTTCAACCCCCTTATCTACTCGATTTTGGTTTGCACCCGAAAAACCCGGGTCCCCg < 1:359951/90‑1 (MQ=255) gtCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATa > 2:321785/1‑90 (MQ=255) cTTGCCACAAAAAAAAAATTTTCAACACACTTATCTACCCAATTTTGGCTTCCACCCAAAAAAACCAGGTCCCCGCCATTAAAATAGCGa < 1:107974/90‑1 (MQ=255) cacaAATAAAAATTTTTCACCCCATTTATCTCCTCAATTTTGGCTTCCACCCAAAAAACCCAGGTCACCGCCATTAAAATAGCGATATTc < 1:165164/90‑1 (MQ=255) cacaAATAAAAATTTTTCAACCCATTTATCTACTCAATTTTGGCTTGCACCCGAAAAACCCGGGTCACCGCCATTAAAATAGCGATATTc < 2:211577/90‑1 (MQ=255) gAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCAcc > 1:398443/1‑90 (MQ=255) gAATACAAAATTTTCAACACACTTATATACTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCAcc > 1:244660/1‑90 (MQ=255) aaaaaaaTTTTCACCACCCTTATCTACTCAATTTTGTCTTGCACCCAAAAAACCCAGGTCACCGCCATTAAAATAGCGATATTCACCAtt < 1:288603/87‑1 (MQ=255) aaCAAAATTTTCAACCCATTTATCTCCTCAATTTTGGCTTGCACCCGAAAAACCCAGGTCCCCGCCATTAAAATAGCGATATTCACCAtt < 2:174345/89‑1 (MQ=255) tCAACACACTTATCTCCTCGAATTTGGCTTGCACCCGAAAAACCCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTg < 2:107813/90‑1 (MQ=255) acacatTAATATCCTCAATTTGGGTTTGTACCCCCAAAACCCAGACCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTgaga < 2:244660/90‑1 (MQ=255) ccacTTATCTACTCAATTTTGGTTTCCACCCAAAAAAACCGGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAat < 1:358630/89‑1 (MQ=255) tACTCGATTTTGGCTTGCACCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATg < 2:73853/90‑1 (MQ=255) aaTTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGc > 1:246206/1‑90 (MQ=255) aaTTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGc > 1:232032/1‑90 (MQ=255) | GAGCATCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGC > NZ_CP009273/3658973‑3659134 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |