| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 3,659,062 | 0 | C | A | 55.6% | 8.3 / 41.7 | 27 | A37S (GCG→TCG) | gadX | acid resistance transcriptional activator GadX |
| Reads supporting (aligned to +/- strand): ref base C (10/2); new base A (0/15); total (10/17) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 7.82e-06 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.52e-05 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
TCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTC‑AACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATAC > NZ_CP009273/3658978‑3659138 | tCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTC‑AACACACTTATCTACTCGAATTTGGCTTGCATCCGCaaaaa > 2:755668/1‑90 (MQ=255) cGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTC‑AACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAAc > 2:497717/1‑90 (MQ=255) aaGCGTTTCCCTTGACACGAATAAAAATTTTTC‑AACACATTTATCTCCTCGAATTTGGCTTGCACCCGAAAAACCCAGGTCACCGCCAtt < 2:101822/90‑1 (MQ=255) aaGCGTGTCCCTTGACACGAATACAAAATTTTC‑AACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCAtt > 1:639929/1‑90 (MQ=255) aaGCGTGTCCCTTGACACAAAAAAAAAATTTCA‑AACCCCCTTATCTTCTCAATTTTGCTTTTCAACCAAAAAACCCGGGCCCCCGCCAtt < 1:681091/90‑1 (MQ=255) cccTTGACCCAAAAAAAAAATTTAC‑AACACATTTATCTAATCAAATTTGGTTTGCACCCGCAAAACCCAGGCCACCGCCATTAAAATAGc < 1:352480/90‑1 (MQ=255) ttGACACGAATACAAAATTTTC‑AACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGat > 2:395972/1‑90 (MQ=255) acaaaTAAAAATTTTCC‑AACACCTTTATCTCCTCAATTTTGTCTTCCACCCGAAAAACCCAGGTCACCGCCATTAAAATAGCGATATTCa < 1:3229/87‑1 (MQ=255) cGAATACAAAATTTTC‑AACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCAc > 1:152036/1‑90 (MQ=255) aaTACAAAATTTTC‑AACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCa > 2:896117/1‑90 (MQ=255) aaTAAAAATTTTTC‑AACACACTTATCTCCTCGATTTTGGCTTGCACCCGAAAAACCCAGGCCACCGCCATTAAAATAGCGATATTCACCa < 2:357422/90‑1 (MQ=255) aaaaaaaaTTTTCAAACCCTCTTTTCTACTAAATTTTGGCTTGCACCCAAAAAACCCAGGTCACCGCCATTAAAATAGCGATATTCACCa < 1:34712/86‑1 (MQ=255) aaaaaaaaTTTTCAAACCCTCTTATCTACTAAATTTTGGTTTCCACCCAAAAAAACCAGGCCCCCGCCATTAAAATAGCGATATTCACCa < 1:389154/86‑1 (MQ=255) aaTTTTC‑AACACACTTATCTACTCGAATTTGGCTTGCACCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCa < 2:232748/90‑1 (MQ=255) ttC‑AACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGt > 1:888280/1‑90 (MQ=255) tC‑AACCCCCTTATCTCCTCGATTTTGGCTTGCATCCGAAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTg < 2:665467/90‑1 (MQ=255) tC‑AACACCCTTATCTACCAAAATTTGGTTTCCCCCCCAAAAACCCGGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTg < 1:475237/90‑1 (MQ=255) cc‑AACACACTTATCTACTCGATTTTGGCTTGCATCCAAAAAACCCAGGTCCCCGCCATTAAAATAGCGATATTCACCATTAACCATGGTg < 2:501879/89‑1 (MQ=255) aaCACCCTTATCTACTAAATTTTGGCTTCCACCCAAAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTgag < 1:208069/90‑1 (MQ=255) ccctttATCTCCTCGATTTTGGCTTGCACCCGAAAAACCCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAat < 2:372394/86‑1 (MQ=255) ccccTTTTCTCCTCGATTTTGGTTTGCATCCGAAAAACCCAGGTCCCCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAat < 2:805210/87‑1 (MQ=255) acacTTATCTCCTCGATTTTGGCTTGCACCCGAAAAACCCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAat < 2:285697/90‑1 (MQ=255) cTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTc > 1:722270/1‑90 (MQ=255) cTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTc > 2:875398/1‑90 (MQ=255) cTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTc > 1:677812/1‑90 (MQ=255) tgtcTTCCACCCGAAAAACCCGGGCCCCCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAACATATTTATGTCTTGCATAc < 2:639929/87‑1 (MQ=255) tGGCTTGCACCCAAAAAAACCAGGTCCCCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATAc < 2:152036/90‑1 (MQ=255) | TCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTC‑AACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATAC > NZ_CP009273/3658978‑3659138 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 6 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |