| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 3,659,062 | 0 | C | A | 58.8% | 7.7 / 22.7 | 17 | A37S (GCG→TCG) | gadX | acid resistance transcriptional activator GadX |
| Reads supporting (aligned to +/- strand): ref base C (5/2); new base A (0/10); total (5/12) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 3.39e-03 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.36e-03 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
GCATCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATT > NZ_CP009273/3658975‑3659144 | gCATCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCaa < 2:625450/90‑1 (MQ=255) aTCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCaaaa > 2:339041/1‑90 (MQ=255) aTCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCaaaa > 1:80029/1‑90 (MQ=255) tCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCaaaaa > 1:148667/1‑90 (MQ=255) aatAAAAGCGTCTCCCTTGACACAAAAAAAAAATTTCCAACACCCTTATCTCCTAAATTTTGGCTTGCACCCGAAAAAACCAGGTCACCg < 2:273065/90‑1 (MQ=255) cGTGCCCCTTGACACGAATAAAAAATTTTCAACCCACTTATCTACTCGAATTTGGCTTGCACCCGAAAAACCCAGGTCACCGCCATTaaa < 1:21081/90‑1 (MQ=255) acacGAATAAAAATTTTTCAACCCCCTTATCTACTCAAATTTGGCTTGCACCCGAAAAAACCAGGTCACCGCCATTAAAATAGCGATAtt < 1:77846/90‑1 (MQ=255) cacaAATACAAATTTTCAAACCCACTTATCTCCTCGATTTTGGCTTGCACCCGAAAAAACCAGGTCACCGCCATTAAAATAGCGATATTc < 1:92104/90‑1 (MQ=255) cacaAATAAAAATTTTTAAACACACTTATCTCCTCGATTTTGGCTTGCACCCGAAAAACCCAGGTCACCGCCATTAAAATAGCGATATTc < 1:305801/90‑1 (MQ=255) aaTAAAAATTTTTAAACACATTTATCTACTCGATTTTGGCTTGCACCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCa < 1:381294/90‑1 (MQ=255) taaaaaaTTTCCAACACCCTTATCTCCTCAATTTTGGCTTCCACCCAAAAAACCCAGGTCCCCGCCATTAAAATAGCGATATTCACCAtt < 2:148667/87‑1 (MQ=255) ccAACACATTTATCTACTCAATTTTGGCTTCCACCCGAAAAACCCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTg < 1:541460/89‑1 (MQ=255) ccacTTATCTACTCAATTTTGGCTTCCACCCAAAAAAACCAGGTCCCCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAat < 2:508121/89‑1 (MQ=255) tATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATAtt > 1:591378/1‑90 (MQ=255) tGGCTTGCACCCGAAAAACCCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATAc < 1:3723/90‑1 (MQ=255) tGGCTTGCACCCAAAAAACCAAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATAc < 1:21996/90‑1 (MQ=255) gCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAAtt > 2:215259/1‑90 (MQ=255) | GCATCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATT > NZ_CP009273/3658975‑3659144 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 6 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |