| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 3,659,062 | 0 | C | A | 61.5% | 0.5 / 17.1 | 13 | A37S (GCG→TCG) | gadX | acid resistance transcriptional activator GadX |
| Reads supporting (aligned to +/- strand): ref base C (5/0); new base A (0/8); total (5/8) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 7.77e-04 | |||||||||||
| 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. | |||||||||||
TCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTT‑CAACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGG‑TCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATTAGAC > NZ_CP009273/3658978‑3659148 | tCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTT‑CAACACACTTATCTACTCGAATTTGGCTTGCATCCGCaaaaa > 2:13159/1‑90 (MQ=255) agaAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTT‑CAACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAgg > 1:122043/1‑90 (MQ=255) aatAAAAGCGTGTCCCTTGACACAAAAACAAAATTTT‑CAACACCCTTATCTACTCAAATTTGGCTTGCATCCGAAAAAACCAGG‑TCACCg < 2:49169/90‑1 (MQ=255) gtCCCTTGACACGAATACAAAATTTT‑CAACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGG‑TCACCGCCATTAAAATa > 1:128847/1‑90 (MQ=255) taaaaaTTTTCCAACCCACTTATCTACTCGATTTTGGCTTGCACCCGAAAAAACCAGG‑TCACCGCCATTAAAATAGCGATATTCACCAtt < 1:224346/88‑1 (MQ=255) t‑CAACACATTTATCTACTCAATTTTGGCTTGCACCCAAAAAAACCAGG‑TCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTg < 2:37433/90‑1 (MQ=255) ccAACACTTTTATCTCCTCGATTTTGGCTTCCACCCAAAAAACCCAGG‑TCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTg < 2:122043/89‑1 (MQ=255) ccacTTATCTACTCAATTTTGGTTTCCACCCAAAAAAACCAGG‑TCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAat < 2:138337/89‑1 (MQ=255) atttATCTCCTCGATTTTGGCTTGCACCCGAAAAAACCAGG‑TCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAatat < 1:13159/88‑1 (MQ=255) cTCGAATTTGGCTTGCATCCGCAAAAACCAGG‑TCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTc > 1:343456/1‑90 (MQ=255) tGGCTTGCACCCGAAAAACCCAGG‑TCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATAc < 1:45249/90‑1 (MQ=255) tGGCTTCCACCCGAAAAAACCAGG‑TCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATAc < 1:147026/90‑1 (MQ=255) ccGCAAAAACCAGG‑TCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATTAGAc > 2:328173/1‑90 (MQ=255) cccAAAAACCCGGTTCCCCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATTAGAc < 2:239832/88‑1 (MQ=255) | TCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTT‑CAACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGG‑TCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATTAGAC > NZ_CP009273/3658978‑3659148 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |