| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 2,371,314 | 0 | G | A | 48.6% | 25.2 / 19.7 | 38 | F475F (TTC→TTT) | menD | 2‑succinyl‑5‑enolpyruvyl‑6‑hydroxy‑3‑ cyclohexene‑1‑carboxylic‑acid synthase |
| Reads supporting (aligned to +/- strand): ref base G (14/5); new base A (0/18); total (14/24) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 2.41e-06 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
TCGCGGCGGCGTGCTCAAAATGGACGTTTTGCGGCATCAGATAGAAACGCTCACGCTCGCTTTGCGGCGTTGGCAACAGCGAGAAAATTTGCCCGCCGTTGTTGTTCACCACAATTAATACCAGCGGCGCAGAAACCTGACGCAATAACGCCAGCGCGTTGAGATC > NZ_CP009273/2371232‑2371397 | tCGCGGCGGCGTGCTCAAAATGGACGTTTTGCGGCATCAGATAGAAACGCTCACGCTCGCTTTGCGGCGTTGGCAACAGCGAGAAAAttt > 2:187137/1‑90 (MQ=255) ggcgTCCTCAAAATGGACGTTTTGCGGAATCAGATAAAAACGCTCCCGCTCGCTTTGCGGCGTTGGCAACAGCGAAAAAATTTGCccgcc < 2:1477762/90‑1 (MQ=255) gTGCTCAAAATGGACGTTTTGCGGCATCAGATAGAAACGCTCACGCTCGCTTTGCGGCGTTGGCAACAGCGAGAAAATTTGCCCGCCgtt > 2:478278/1‑90 (MQ=255) gCTCAAAATGGACGTTTTGCGGCATCAGATAGAAACGCTCACGCTCGCTTTGCGGCGTTGGCAACAGCGAGAAAATTTGCCCGCCgttgt > 1:2333967/1‑90 (MQ=255) gCTCAAAATGGACGTTTTGCGGCATCAGATAGAAACGCTCACGCTCGCTTTGCGGCGTTGGCAACAGCGAGAAAATTTGCCCGCCgttgt > 1:1713010/1‑90 (MQ=255) gCTAAAAAGGGCCTTTTTGGGGCATAAGATAAAACCGCTCACGCTCGCTTTGCGGCTTTGGCAACAGCGAAAAAATTTGCCCGCCgttgt < 2:380007/90‑1 (MQ=255) cAAAATGGACTTTTGGCGGCATCAGATAGAACCGCCCCCGCTCGTTTTGCGGCGTTGGCAACAGCAAAAAAATTTGCCCGCCgttgttgt < 2:97142/90‑1 (MQ=255) gggACTTTTTGGGGCATAAGATAGAACCGCCCCCGCTCGCTTTGCGGCGTTGGCAACAGC‑A‑AAAATTTGCCCGCCGTTGTTGTTcaccac < 2:1215535/89‑1 (MQ=255) ggccGTTTGGCGCAATAAAATAAAACCGCCCCCGCTTGTTTTGCGGCGTTGGCAACAGCGAAAAAATTTCCCCGCCGTTGTTGTTcacca < 1:632547/87‑1 (MQ=255) ggACGTTTTGCGGCATCAGATAGAAACGCTCACGCTCGCTTTGCGGCGTTGGCAACAGCGAGAAAATTTGCTCGCCGTTGTTGTTcacca < 2:1088575/90‑1 (MQ=255) ggACGTTTTGCGGCATCAGATAGAAACGCTCACGCTCGCTTTGCGGCGTTGGCAACAGCGAGAAAATTTGCCCGCCGTTGTTGTTcacca > 1:1218581/1‑90 (MQ=255) ggACGTTTTGCGGCATAAGATAGAAACCCCCCCGCTCGTTTTGCGGCGTTGGAAACAGCGAAAAATTTTGCCCGCCGTTGTTGTTcacca < 1:2286134/90‑1 (MQ=255) gccGTTTTGCGGCATCAGATAGAAACGCTCCCGCTCGCTTTGCGGCGTTGGCAACAGCGAAAAAATTTGCCCGCCGTTGTTGTTcaccac < 2:1286586/88‑1 (MQ=255) gACGTTTTGCGGCATCAGATAGAAACGCTCACGCTCGCTTTGCGGCGTTGGCAACAGCGAGAAAATTTGCCCGCCGTTGTTGTTcaccac < 2:1723710/90‑1 (MQ=255) gACGTTTTGCGGCATCAGATAGAAACGCTCACGCTCGCTTTGCGGCGTTGGCAACAGCGAGAAAATTTGCCCGCCGTTGTTGTTcaccac > 1:259787/1‑90 (MQ=255) gACGTTTTGCGGCATCAGATAAAACCGCCCCCGCTCGTTTTGCGGCGTTGGCAACAGCGAAAAATTTTGCCCGCCGTTGTTGTTcaccac < 1:1467769/90‑1 (MQ=255) gACGTTTTGCGGCATCAGAAAAAACCGCTCCCGCTCGTTTTGCGGCGTTGGCAACAGCGAAAAAATTTGCCCGCCGTTGTTGTTcaccac < 1:1776960/90‑1 (MQ=255) gACGTTTGGCGGCATAAGATAGAACCGCTCACGCTCGTTTTGCGGCGTTGGCAACAGCGAAAAAATTTGCCCGCCGTTGTTGTTcaccac < 2:1824889/90‑1 (MQ=255) gTTTTGCGGCATCAGATAGAAACGCTCACGCTCGCTTTGCGGCGTTGGCAACAGCGAGAAAATTTGCCCGCCGTTGTTGTTCACCACAAt > 1:2360820/1‑90 (MQ=255) ttggCGGCATAAGATAAAACCGCCCCCGCTCTTTTTGCGGCGTTGGCAACAGCGAAAAAATTTGCCCGCCGTTGTTGTTCACCACAATTa < 1:1443909/87‑1 (MQ=255) ttggCGGCATAAGAAAGAACCCCCCCCGCTCGTTTGGCGGGGTTGCCAACAGCGAAAAATTTTCCCCGCCGTTGTTGTTCACCACAATTa < 1:2109935/87‑1 (MQ=255) gCGGCATCAGATAAAACCCCCCCCGCCCGTTTGGCGGCGTTGGCAACAGGAAAAAATTTTCCCCGCCGTTGTTGTTCACCACAATTAATa < 1:478278/90‑1 (MQ=255) gCGGCATCAGAAAAAACCCCCCCCGCCCGTTTTGCGGCGTTGGAAACGGGGAAAAATTTTGCCCGCCGTTGTTGTTCACCACAATTAATa < 2:368566/90‑1 (MQ=255) aTCAGATAGAAACGCTCACGCTCGCTTTGCGGCGTTGGCAACAGCGAGAAAATTTGCCCGCCGTTGTTGTTcaccac > 1:85342/1‑77 (MQ=255) aTCAGATAGAAACGCTCACGCTCGCTTTGCGGCGTTGGCAACAGCGAGAAAATTTGCCCGCCGTTGTTGTTcaccac < 2:85342/77‑1 (MQ=255) aataTAGAACCGCCCCCGCTCGTTTGGCGGCTTTGACAAAAGGAAAAAAATTTCCCCGCCGTTGTTGTTCACCACAATTAATACCAgcgg < 1:986693/87‑1 (MQ=255) gAAACGCTCCCGCTCGTTTTGCGGCGTTGGCAACAGCGAGAAAATTTGCCCGCCGTTGTTGTTCACCACAATTAATACCAGCGGCGCAGa < 2:1585798/90‑1 (MQ=255) cgctcacgctcGCTTTGCGGCGTTGGCAACAGCGAGAAAATTTGCCCGCCGTTGTTGTTCACCACAATTAATACCAGCGGCGCAGAAAcc > 2:986693/1‑90 (MQ=255) ctcacgctcGCTTTGCGGCGTTGGCAACAGCGAGAAAATTTGCCCGCCGTTGTTGTTCACCACAATTAATACCAGCGGCGCAGAAACCTg > 1:164245/1‑90 (MQ=255) ctcacgctcGCTTTGCGACGTTGGCAACAGCGAGAAAATTTGCCCGCCGTTGTTGTTCACCACAATTAATACCAGCGGCGCAGAAAccct > 2:719361/1‑88 (MQ=255) ccgcccgttTGGCGGGGTGGCCAAAAGGGAAAAATTTTCCCCGCCGTTGTTGTTCACCACAATTAATACCAGCGGCGCAGAAACCTGACg < 1:2450861/89‑1 (MQ=255) gctTTGCGGCGTTGGCAACAGCGAGAAAATTTGCCCGCCGTTGTTGTTCACCACAATTAATACCAGCGGCGCAGAAACCTGACGCAATaa > 1:1687365/1‑90 (MQ=255) ttGGGGCGTTGCAAACAGAGAAAAAATTTGCCCGCCGTTGTTGTTCACCACAATTAATACCAGCGGCGCAGAAACCTGACGCAATAACGc < 2:449145/90‑1 (MQ=255) ggggcgTTGGCAACAGCGAAAAATTTTGCCCGCCGTTGTTGTTCACCACAATTAATACCAGCGGCGCAGAAACCTGACGCAATAACGCCa < 2:259787/88‑1 (MQ=255) gCAAAAGCGAAAAAATTTGCCCGCCGTTGTTGTTCACCACAATTAATACCAGCGGCGCAGAAACCTGACGCAATAACGCCAGCGCGTTga < 1:1012447/90‑1 (MQ=255) cAACAGCGAGAAAATTTGCCCGCCGTTGTTGTTCACCACAATTAATACCAGCGGCGCAg > 1:437081/1‑59 (MQ=255) cAACAGCGAGAAAATTTGCCCGCCGTTGTTGTTCACCACAATTAATACCAGCGGCGCAg < 2:437081/59‑1 (MQ=255) cAGCGAGAAAATTTGCCCGCCGTTGTTGTTCACCACAATTAATACCAGCGGCGCAGAAACCTGACGCAATAACGCCAGCGCGTTGAGATc > 2:1072753/1‑90 (MQ=255) | TCGCGGCGGCGTGCTCAAAATGGACGTTTTGCGGCATCAGATAGAAACGCTCACGCTCGCTTTGCGGCGTTGGCAACAGCGAGAAAATTTGCCCGCCGTTGTTGTTCACCACAATTAATACCAGCGGCGCAGAAACCTGACGCAATAACGCCAGCGCGTTGAGATC > NZ_CP009273/2371232‑2371397 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |