| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 3,549,559 | 0 | G | A | 44.0% | 18.1 / 11.5 | 25 | S217F (TCC→TTC) | rtcA | RNA 3'‑terminal phosphate cyclase |
| Reads supporting (aligned to +/- strand): ref base G (14/0); new base A (0/11); total (14/11) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 2.24e-07 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
CACTTTCGACTTCAAGCGAGACGGTATTACCCGGCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAACTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACAA > NZ_CP009273/3549482‑3549646 | cACTTTCGACTTCAAGCGAGACGGTATTACCCGGCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAACTCCCCg > 1:193717/1‑90 (MQ=255) ttCAAGCGAGACGGTATTCCCCGGCCCCTGGTCGCGCGGCGGTTTATAAATTTTCTGTTCAGGAAGGAAAAAACTCCCCGCCAGTGTAGc < 2:80155/90‑1 (MQ=255) aaGCGAGACGGTATTACCCGGCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAACTCCCCGCCAGTGTAGCGAt > 1:297039/1‑90 (MQ=255) ggTATTCCCCGACCCTTGTGCGCGCGGCCGTTTATGAATTTTTTATTCCTGAAGGAAAAACCTCCCCGCCAGTGTAGCGATTTCACGCTc < 2:329548/90‑1 (MQ=255) gCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAACTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGgc > 1:341804/1‑90 (MQ=255) gCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAACTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGgc > 1:67274/1‑90 (MQ=255) gCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAACTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGgc > 1:232324/1‑90 (MQ=255) gCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAACTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGgc > 1:84761/1‑90 (MQ=255) gCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAACTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGgc > 2:166225/1‑90 (MQ=255) gCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAACTCCCCGCCAGTGGAGCGATTTCACGCTCAGCAACATGgc > 2:298823/1‑90 (MQ=255) cccTGGCCGCGCGGCAGTTTATAAATTTTCTGTTCAGGCAGGAAAAACCCCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGgcgc < 1:64789/90‑1 (MQ=255) cccGGGTCGCGCGGCAGTTTATAAATTTTCTGTTCATGCAGGAAAAACCCCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGgcgc < 2:193717/90‑1 (MQ=255) cccGGGCCGCGCGGCGGTTTATAAATTTTCTTTTCAGGAAGGAAAAACCCCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGgcgc < 2:327004/90‑1 (MQ=255) gcgGGAGGTTATAAATTTTCTGTTCATGCAGGAAAAACCCCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAg < 2:227632/90‑1 (MQ=255) gcgGCAGTTTATAAATTTTTTTTTCAGGCAGGAAAAACCCCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAg < 1:153644/90‑1 (MQ=255) gcgGAAGGTTATAAATTTTTTGTTCAGGCAGGAAAAACCCCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAg < 2:232324/90‑1 (MQ=255) gcgGAAGGTTATAAATTTTCTTTTCAGGCAGGAAAAACCCCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAg < 2:28571/90‑1 (MQ=255) tATGAATATTCTGTTCATGCAGGGAAAAACTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGaa > 2:297843/1‑90 (MQ=255) aaTTTTCTTTTCATGCAGGAAAAACCCCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTtc < 2:67274/90‑1 (MQ=255) atTCTGTTCATGCAGGGAAAAACTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTcc > 2:115273/1‑90 (MQ=255) atTCTGTTCATGCAGGGAAAAACTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTcc > 2:56664/1‑90 (MQ=255) atTCTGTTCATGCAGGGAAAAACTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTcc > 1:75581/1‑90 (MQ=255) ttttttCAGGGAGGAAAAACCCCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCAc < 2:320024/86‑1 (MQ=255) tGTTCATGCAGGGAAAAACTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGc > 2:42596/1‑90 (MQ=255) cATGCAGGGAAAAACTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCt > 2:140874/1‑90 (MQ=255) gggAAAAACTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACaa < 2:341804/90‑1 (MQ=255) | CACTTTCGACTTCAAGCGAGACGGTATTACCCGGCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAACTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACAA > NZ_CP009273/3549482‑3549646 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |