| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 3,659,062 | 0 | C | A | 60.0% | 6.0 / 31.3 | 20 | A37S (GCG→TCG) | gadX | acid resistance transcriptional activator GadX |
| Reads supporting (aligned to +/- strand): ref base C (5/3); new base A (0/12); total (5/15) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 3.61e-03 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.77e-05 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
TCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCA‑GGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATT > NZ_CP009273/3658978‑3659144 | tCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCaaaaa > 2:94659/1‑90 (MQ=255) gggAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAAcc < 1:94659/90‑1 (MQ=255) ggAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCa < 2:230154/90‑1 (MQ=255) gtgtCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCA‑GGTCACCGCCATTaaaa > 1:167494/1‑90 (MQ=255) gtgtCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCA‑GGTCACCGCCATTaaaa > 2:427512/1‑90 (MQ=255) cccTTGACACAAATAAAAATTTTTCAACCCACTTTTCTCCTCGATTTTGGCTTGCACCCGAAAAACCCG‑GGTCCCCGCCATTAAAATAGc < 2:220510/90‑1 (MQ=255) cgcaaaTAAAAATTTTCCAACACTCTTATCTCCTCAAATTTGGCTTGCATCCGAAAAACCCA‑GGTCACCGCCATTAAAATAGCGATATTc < 2:69767/86‑1 (MQ=255) cacaAATAAAAATTTTCCACCACTTTTTTCTCCTAGATTTTGTTTTCCACCCAAAAAACCCA‑GGTCCCCGCCATTAAAATAGCGATATTc < 1:398627/90‑1 (MQ=255) cacaAATAAAAATTTTCCAACACACTTATCTCCTCAATTTTGGCTTGCACCCGAAAAACCCA‑GGTCACCGCCATTAAAATAGCGATATTc < 2:102129/90‑1 (MQ=255) atttttCAACACTCTTATCTACTCAATTTTGGCTTCCACCCAAAAAAACCA‑GGTCCCCGCCATTAAAATAGCGATATTCACCATTAACCa < 1:225994/88‑1 (MQ=255) ttttCAACACTCTTATCTCCAAAATTTTGGCTTGC‑CCCCAAAAAACCAGGGCCCCCGCCATTAAAATAGCGATATTCACCATTAACCATg < 1:396949/90‑1 (MQ=255) taaaCACACTTATCTACTCAATTTTGGCTTGCACCCAAAAAAACCA‑GGTCCCCGCCATTAAAATAGCGATATTCACCATTAACCATGGTg < 2:411267/88‑1 (MQ=255) tCAACACATTTATCTCCTCAATTTTGGCTTCCACCCAAAAAACCCA‑GCTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTg < 2:429498/90‑1 (MQ=255) cGATTTTGGCTTGCATCCGCAAAAACCA‑GGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAat < 2:15743/77‑1 (MQ=255) cGAATTTGGCTTGCATCCGCAAAAACCA‑GGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAat > 1:15743/1‑77 (MQ=255) cGAATTTGGCTTGCATCCGCAAAAACCA‑GGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCtt > 2:346876/1‑90 (MQ=255) tGGCTTGCACCCGAAAAAACCA‑GGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATAc < 2:203263/90‑1 (MQ=255) tGGCTTGCACCCAAAAAACCCA‑GGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATAc < 2:167494/90‑1 (MQ=255) gggCTTCCACCCAAAAAACCCA‑GTTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATAc < 2:226398/89‑1 (MQ=255) gCATCCGAAAAACCCA‑GGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAAtt < 2:88305/90‑1 (MQ=255) | TCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCA‑GGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATT > NZ_CP009273/3658978‑3659144 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |