| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 3,549,566 | 0 | T | C | 44.4% | 31.3 / 10.5 | 27 | S215G (AGT→GGT) | rtcA | RNA 3'‑terminal phosphate cyclase |
| Reads supporting (aligned to +/- strand): ref base T (15/0); new base C (0/12); total (15/12) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 5.75e-08 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
TTTCGACTTCAAGCGAGACGGTATTACCCGGCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAACTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACAAT > NZ_CP009273/3549485‑3549647 | tttCGACTTCAAGCGAGACGGTATTACCCGGCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAACTCCCCGCCa > 1:289961/1‑90 (MQ=255) ttCAAGCGAGACGTTATTCCCCGGCCCCGGGCCGCGGGGCGGGTTATGAATTTTCTGTTCATGCAGGAAAAACCCCCCCGCCAGTGTAGc < 2:379095/90‑1 (MQ=255) gaCGGTATTACCCGGCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAACTCCCCGCCAGTGTAGCGATTTCACg > 2:617457/1‑90 (MQ=255) aCGTTATTCCCCGCCCCCTGGTCGCGCGGCAGGTTATAAATTTTCTGTTCATGCAGGAAAAACCCCCCCGCCAGTGTAGCGATTTCACGc < 1:386017/90‑1 (MQ=255) ccGCCCCCGGGGCGCGCGGGGGGTTATAAATTTTTTGTTCAGGGGGGAAAAACCCCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACAt < 2:467119/90‑1 (MQ=255) gCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGGAAAACTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGgc > 1:123271/1‑90 (MQ=255) gCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAACTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGgc > 1:232643/1‑90 (MQ=255) gCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAACTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGgc > 2:572270/1‑90 (MQ=255) gCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAACTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGgc > 2:371455/1‑90 (MQ=255) gCCCCTGGTCGCGCGGCAGGT‑‑TGAATATTCTGTTCATGCAGGGAAAAACTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGgcgc > 1:599607/1‑90 (MQ=255) cccTGGCCGCGCGGGAGGTTATAAATTTTTTGTTCAGGCAGGAAAAACCCCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGgcgc < 2:289961/90‑1 (MQ=255) tGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAACTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGc > 2:699498/1‑90 (MQ=255) ataaaTTTTCTGTCCATGAAGGAAAAACCCCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAAc < 2:695880/87‑1 (MQ=255) aaTTTTCTGTTCATGCGGGAAAAACCCCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTtc < 1:47822/90‑1 (MQ=255) atTCTGTTCATGCAGGGAAAAACTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTcc > 1:695880/1‑90 (MQ=255) ttCTGTTCATGCAGGGAAAAACTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCa > 1:650308/1‑90 (MQ=255) ttCTGTTCATGCAGGGAAAAACTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCa > 1:542403/1‑90 (MQ=255) tCTGTTCAGGAAGGAAAAACCCCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCAc < 2:46091/90‑1 (MQ=255) tGTTCATGCAGGGAAAAACTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGc > 1:339842/1‑90 (MQ=255) ggTTCAGGAAGGAAAAACCCCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGc < 2:140598/89‑1 (MQ=255) gTTCATGCAGGGAAAAACTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCa > 1:50556/1‑90 (MQ=255) ggggggAAACCCCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGcac < 2:123271/88‑1 (MQ=255) cAGGAAAAACCCCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGcac < 1:404913/90‑1 (MQ=255) aGGGAAAAACTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCAc > 2:550386/1‑79 (MQ=255) aGGAAAAAACCCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCAc < 1:550386/79‑1 (MQ=255) ggaaaaacCCCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACaa < 2:497132/87‑1 (MQ=255) ggAAAAACTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACaac > 1:140598/1‑89 (MQ=255) | TTTCGACTTCAAGCGAGACGGTATTACCCGGCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAACTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACAAT > NZ_CP009273/3549485‑3549647 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 17 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |