| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 3,659,062 | 0 | C | A | 52.0% | 11.3 / 37.9 | 25 | A37S (GCG→TCG) | gadX | acid resistance transcriptional activator GadX |
| Reads supporting (aligned to +/- strand): ref base C (9/3); new base A (0/13); total (9/16) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.08e-04 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.94e-04 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
GCATCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATT > NZ_CP009273/3658975‑3659144 | gCATCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCaa > 1:16647/1‑90 (MQ=255) tCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCaaaaa > 2:58045/1‑90 (MQ=255) cGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAAc > 1:332485/1‑90 (MQ=255) gggAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAAcc > 2:172870/1‑90 (MQ=255) aaatGAAAGCGTGTCCCTTGACACGAATAAAAAATTTTCAACACACTTATCTCCTCGAATTTGGCTTGCACCCGCAAAACCCAGGTCAcc < 2:115821/89‑1 (MQ=255) aatGAAGGCGTGCCCCTTAACAAAAAAAAAAAATTTTCAACACATTTATCTACTCGATTTTGGCTTGCACCCGAAAAACCCAGGTCCCCg < 1:139182/90‑1 (MQ=255) cctttGACACAAAAAAAAAATTTCAAACACCTTTATCTCCCCAATTTTGGCTTCCACCCGAAAAACCCAGTCCACCGCCATTAAAATAGc < 2:332485/87‑1 (MQ=255) cacGAATAAAAAATTTTAAACCCATTTATCTACTAAATTTTGGCTTGCATCCGAAAAAACCCGAACACCGCCATTAAAATAGCGATATTc < 1:39475/90‑1 (MQ=255) aaaaTAAAAAATTTCCAACACACTTATCTACTCAATTTTGGCTTCCACCCAAAAAACCCAGGTCACCGCCATTAAAATAGCGATATTCAc < 1:58045/88‑1 (MQ=255) taaaaatTTTTCAACACATTTATCTACTCGATTTTGGCTTGCATCCGAAAAAACCAGGTCCCCGCCATTAAAATAGCGATATTCACCAtt < 2:208785/87‑1 (MQ=255) aaCAAAATTTTCAACACACTTATCTTCTCGATTTTGGTTCGCACCCGAAAAACCCGGGTCACCGCCATTAAAATAGCGATATTCACCAtt < 2:82819/89‑1 (MQ=255) aCAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTa < 2:59636/90‑1 (MQ=255) atttttCAACACCTTTATCTCCCCAATTTTGGCTTCCACCCAAAAAACCCGGGCCCCCGCCATTAAAATAGCGATATTCACCATTAACCa < 2:274326/88‑1 (MQ=255) aaTTTTCAACACACTTATCTCCTCGAATTTGGCTTGCACCCACAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCa < 2:145247/90‑1 (MQ=255) tCAACACACTTATCTCCTCGAATTTGGCTTGCACCCGAAAAACCCGGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTg < 2:5077/90‑1 (MQ=255) ccccTTTTCTACTCGATTTTGGTTTGCACCCGAAAAACCCGGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAat < 1:117183/87‑1 (MQ=255) ccacTTATCTACTCGATTTTGGCTTGCACCCAAAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAat < 2:173087/89‑1 (MQ=255) tACTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATg > 1:146238/1‑90 (MQ=255) cTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTTAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTc > 2:116973/1‑90 (MQ=255) cTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTc > 2:16723/1‑90 (MQ=255) cTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTc > 1:76182/1‑90 (MQ=255) cGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCtt > 1:323461/1‑90 (MQ=255) tGGCTTCCACCCGAAAAACCCAGGTCCCCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATAc < 2:57422/90‑1 (MQ=255) tGGCTTCCACCCAAAAAACCCGGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATAc < 1:207771/90‑1 (MQ=255) ccacccGAAAAACCCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAAtt < 2:76971/86‑1 (MQ=255) | GCATCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATT > NZ_CP009273/3658975‑3659144 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |