| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 2,371,314 | 0 | G | A | 53.6% | 10.0 / 34.0 | 28 | F475F (TTC→TTT) | menD | 2‑succinyl‑5‑enolpyruvyl‑6‑hydroxy‑3‑ cyclohexene‑1‑carboxylic‑acid synthase |
| Reads supporting (aligned to +/- strand): ref base G (12/1); new base A (0/15); total (12/16) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 4.27e-07 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.11e-04 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
CGCGGCGGCGTGCTCAAAATGGACGTTTTGCGGCATCAGATAGAAACGCTCACGCTCGCTTTGCGGCGTTGGCAACAGCGAGAAAATTTGCCCGCCGTTGTTGTTCACCACAATTAATACCAGCGGCGCAGAAACCTGACGCAATAACGCCAGCGCGTTGAGATCGTAAA > NZ_CP009273/2371233‑2371402 | cgcgGCGGCGTGCTCAAAATGGACGTTTTGCGGCATCAGATAGAAACGCTCACGCTCGCTTTGCGGCGTTGGCAACAGCGAGAAAATTTg > 2:526960/1‑90 (MQ=255)cgcgGCGGCGTGCTCAAAATGGACGTTTTGCGGCATCAGATAGAAACGCTCACGCTCGCTTTGCGGCGTTGGCAACAGCGAGAAAATTTg > 2:258725/1‑90 (MQ=255) gcggcggcgTGCTCAAAATGGACGTTTTGCGGCATCAGATAGAAACGCTCACGCTCGCTTTGCGGCGTTGGCAACAGCGAGAAAATTTGc > 2:636778/1‑90 (MQ=255) ggcgTGCTAAAAAGGGACGTTTTGCGGCATCAGATAGAACCGCTCCCGCTCGTTTTGCGGCGTTGGCAACAGCGAAAAAATTTGCccgcc < 1:207555/90‑1 (MQ=255) gCTCAAAATGGACGTTTTGCGGCATCAGATAGAAACGCTCACGCTCGCTTTGCGGCGTTGGCAACAGCGAGAAAATTTGCCCGCCgttgt > 1:199588/1‑90 (MQ=255) aaaGGGACTTTTGGCGGCATAAAAAAAAACCGCCCCCGCTCGTTTTGCGGCGTTGGAAACAGCGAAAAAATTTGCCCGCCGTTGTTGTTc < 1:332546/90‑1 (MQ=255) ggccGTTTTGCGGCATAAGAGACAACCGCCCGCCCTGCCTTGGGGGCTTTGACAACAGCGAAAAATTTTCCCCGCCGTTGTTGTTcacca < 1:875854/87‑1 (MQ=255) ggACTTTTGGCGGCATAAGAAAAAACCCCTCCCGCTCGTTTTGGGGCGTTGGCAACAGCGAAAAAATTTGCCCGCCGTTGTTGTTcacca < 1:258725/90‑1 (MQ=255) ggACGTTTTGCGGCATCAGATAGAACCGCTCCCGCTCGCTTTGCGGCGTTGGCAACAGCGAGAAAATTTGCCCGCCGTTGTTGTTcacca < 2:266623/90‑1 (MQ=255) gccttttgGCGGCATCAGATAAAACCCCCCCCGCTCGTTTTGGGGCGTTGGCAACAGCGAAAAAATTTGCCCGCCGTTGTTGTTcaccac < 1:759940/86‑1 (MQ=255) gACTTTTTGCGGCATAAGAAAAAACCCCCCCCGCTCGTTTTGCGGCGTTGGCAACAGCGAAAAAATTTCCCCGCCGTTGTTGTTcaccac < 1:383624/90‑1 (MQ=255) gACGTTTTGCGGCATCAGATAGAAACGCTCACGCTCGCTTTGCGGCGTTGGCAACAGCGAGAAAATTTGCCCGCCGTTGTTGTTcaccac > 2:786589/1‑90 (MQ=255) cATCAGATAGAAACGCTCACGCTCGCTTTGCGGCGTTGGCAACAGCGAGAAAATTTGCCCGCCGTTGTTGTTCACCACAATTAATACCAg > 2:541800/1‑90 (MQ=255) aGAACCGCTCCCGCTCGTTTTGCGGCGTTGGCAACAGCGAAAAAATTTGCCCGCCGTTGTTGTTCACCACAATTAATACCAGCGGCGCAg < 2:2255/90‑1 (MQ=255) gAAACGCTCACGCTCGCTTTGCGGCGTTGGCAACAGCGAGAAAATTTGCCCGCCGTTGTTGTTCACCACAATTAATACCAGCGGCGCAGa > 2:1027467/1‑90 (MQ=255) gctcacgctcGCTTTGCGGCGTTGGCAACAGCGAGAAAATTTGCCCGCCGTTGTTGTTCACCACAATTAATACCAGCGGCGCAGAAACCt > 1:985181/1‑90 (MQ=255) tcccgctcgctTTGCGGCGTTGGCAACAGCGAAAAAATTTGCCCGCCGTTGTTGTTCACCACAATTAATACCAGCGGCGCAGAAACCTGa < 2:887112/87‑1 (MQ=255) cgctTTGCGGCGTTGGCAACAGCGAGAAAATTTGCCCGCCGTTGTTGTTCACCACAATTAATACCAGCGGCGCAGAAACCTGACGCAATa > 2:176212/1‑90 (MQ=255) cgctTCGGGGGGTGGCCAACACGGAAAAATTTTCCCCGCCGTTGTTGTTCACCACAATTAATACCAGCGGCGCAGAAACCTGACGCAATa < 1:1032075/90‑1 (MQ=255) ctTTGCGGCGTTGGCAACAGCGAGAAAATTTGCCCGCCGTTGTTGTTCACCACAATTAATACCAGCGGCGCAGAAACCTGACGCAATAAc > 2:1024222/1‑90 (MQ=255) gcggggTTGGAAACAGCGAAAAATTTCCCCCGCCGTTGTTGTTCACCACAATTAATACCAGCGGCGCAGAAACCTGACGCAATAACGCCa < 1:636778/90‑1 (MQ=255) gcggcgTTGGCAACAGCGAGAAAATTTGCCCGCCGTTGTTGTTCACCACAATTAATACCAGCGGCGCAGAAACCTGACGCAATAACGCCa > 2:1005875/1‑90 (MQ=255) ggcgTTGGCAACAGCGAAAAAATTTGCCCGCCGTTGTTGTTCACCACAATTAATACCAGCGGCGCAGAAACCTGACGCAATAACGCCAgc < 2:199588/90‑1 (MQ=255) tGGCAACAGCGAAAAATTTTGCCCGCCGTTGTTGTTCACCACAATTAATACCAGCGGCGCAGAAACCTGACGCAATAACGCCAGCGCGtt < 2:105358/90‑1 (MQ=255) gCAACAGCGAAAAATTTTGCCCGCCGTTGTTGTTCACCACAATTAATACCAGCGGCGCAGAAACCTGACGCAATAACGCCAGCGCGTTga < 2:760443/90‑1 (MQ=255) gCAACAGAGAAAAATTTTGCCCGCCGTTGTTGTTCACCACAATTAATACCAGCGGCGCAGAAACCTGACGCAATAACGCCAGCGCGTTga < 2:565885/90‑1 (MQ=255) acacCGAAAAAATCTCCCCGCCGTTGTTGTTCACCACAATTAATACCAGCGGCGCAGAAACCTGACGCAATAACGCCAGCGCGTTGAGAt < 1:526960/90‑1 (MQ=255) gCGAGAAAATTTGCCCGCCGTTGTTGTTCACCACAATTAATACCAGCGGCGCAGAAACCTGACGCAATAACGCCAGCGCGTTGAGATCGt > 2:539551/1‑90 (MQ=255) gagaAAATTTGCCCGCCGTTGTTGTTCACCACAATTAATACCAGCGGCGCAGAAACCTGACGCAATAACGCCAGCGCGTTGAGATCGTaa > 1:5534/1‑90 (MQ=255) agaAAATTTCCCCGCCGTTGTTGTTCACCACAATTAATACCAGCGGCGCAGAAACCTGACGCAATAACGCCAGCGCGTTGAGATCGTaaa < 1:541800/90‑1 (MQ=255) | CGCGGCGGCGTGCTCAAAATGGACGTTTTGCGGCATCAGATAGAAACGCTCACGCTCGCTTTGCGGCGTTGGCAACAGCGAGAAAATTTGCCCGCCGTTGTTGTTCACCACAATTAATACCAGCGGCGCAGAAACCTGACGCAATAACGCCAGCGCGTTGAGATCGTAAA > NZ_CP009273/2371233‑2371402 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |