| Predicted mutation | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | NZ_CP009273 | 1,350,506 | G→T | R288S (CGT→AGT) | sapA ← | peptide ABC transporter substrate‑binding protein SapA |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 1,350,506 | 0 | G | T | 92.7% | 130.7 / ‑5.3 | 42 | R288S (CGT→AGT) | sapA | peptide ABC transporter substrate‑binding protein SapA |
| Reads supporting (aligned to +/- strand): ref base G (1/0); major base T (18/20); minor base C (3/0); total (22/20) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 2.32e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.85e-01 | |||||||||||
GATGGATTGCATCAGGCGCTGGTTATTAATCGCCAGTGCCAGCGCATGGCGGACAGCGGGATTATTTAGCGGCGGTTTGGCGGTGTTAAATGCCAGATAGGCGACGTTCAT‑CCCAGGACGCAGCGTTAAACGCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGGCAGCAGGCCAGGCCAGAACGTCGCATTCCCCGGTCAGGAGTTTCGACAGACGTCCGGTGCCGCCGGAGCCTAAATCCACCACTACCTGCGGCATTA > NZ_CP009273/1350375‑1350640 | gATGGATTGCATCAGGCGCTGGTTATTAATCGCCAGTGCCAGCGCATGGCGGACAGCGGGATTATTTAGCGGCGGGTTTGCGGGGGTAAATGCCAGCTAGGGGGCGTTCCTCCCCAGGA‑GCAGCGGTAAAACCAAgccc > 2:499283/1‑137 (MQ=255) aTGGATTGCATCAGGCGCTGGTTATTAATCGCCAGTGCCAGCGCATGGCGGACAGCGGGATTATTTAGCGGCGGTTTGGCGGGGGTAAATACCAAAGAGGCGAAGGTCAA‑CCCAGGACGCAGCGTTAAACGCAAGagcg > 1:411152/1‑139 (MQ=255) ggATTGCATCAGGCGCTGGTTATTAATCGCCAGTGCCAGCGCATGGCGGACAGCGGGATTATTTAGCAGCGGTTTGGCGGTGTTAAATGCCAGATAGGCGACGTTCAT‑CCCAGGACGCAGCGTTAAACTCAAGCGCggg > 1:1042486/1‑139 (MQ=255) aTTGCATCAGGCGCTGGTTATTAATCGCCAGTGCCAGCGCATGGCGGACAGCGGGATTATTTAGCGGCGGTTTTGCGGGGTTAAAAGCCAGATAGGGGACGTTTCT‑CCCCGGACGCAGCGTTAAAATCAAACGCGGgtc > 2:172844/1‑139 (MQ=255) attaATCGCCAGTGCCAGCGCATGGCGGACAGCGGGATTATTTAGCGGCGGTTTGGCGGGGTTAAAAGCCAGATAGGCGACGTTCAT‑CCCCAGACGCAGCGGTAAAATCAAGCGCGGGGCGGCACGCAAAAAGGATAgc > 1:321374/1‑139 (MQ=255) gCCAGTGCCAGCGCATGGCGGACAGCGGGATTATTTAGCGGCGGATTGGCGGTGTTAAATGCCAGATAGGCGACGTTCAT‑CCCAGGACGCAGCGTTAAAATCAAGCGCGGGTCGTCACGCAAAATGGATAGctggctgg > 2:769627/1‑139 (MQ=255) cAGCGCATGGCGGACAGCGGGATTATTTAGCGGCGGTTTGGCGGTGTTAAATGCCAGATAGGCGACGTTCAT‑CCCAGGACGCAGCGTTAAACTCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGGCAGcaggc < 2:441397/139‑1 (MQ=255) cAGCGCATGGCGGACAGCGGGATTATTTAGCGGCGGATTGGCGGTGTTAAATGCCAGATAGGCGACGTTCAT‑CCCAGGACGCAGCGTTAAACTCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGGCAGcaggc < 1:769627/139‑1 (MQ=255) tGGCGGACAGCGGGATTATTTAGCGGCGGTTTGGCGGTGTTAAATGCCAGATAGGCGACGTTCAT‑CCCAGGACGCAGCGTTAAACTCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGGCAGCAggccaggcca < 2:368129/139‑1 (MQ=255) tGGCGGACAGCGGGATTATTTAGCGGCGGTTTGGCGGGGTTAAATGCCAGATAGCCGAAGTTCAT‑CCCCGGACGCCGCGTTAAACCCAAGTGCGGGTCGGCCATCAAAATGGATAGCTGGCTGGCAGcacgctcggc > 1:1003731/1‑132 (MQ=255) ggACAGCGGGATTATTTAGCGGCGGTTTGGCGGTGTTAAATGCCAGATAGGCGACGTTCAT‑CCCAGGACGCAGCGTTAAACTCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGGCAGCAGGCCAGGCCAGAAc < 1:1256561/139‑1 (MQ=255) cGGGATTATTTAGCGGCGGTTTTGCGGGGTTAAAAGCCACAAAGGGGGCGTTTAT‑CCCCGGACGCCGCGGTAAACCCAAGCGCGGGGGGGCACGGAAAAAGGGAAGCGGGCCGGCAGCCGGCCACGGCCGAAAGGCGCa > 2:177237/1‑139 (MQ=255) ggATTATTTAGCGGCGGTTTGGCGGTGTTAAATGCCAGATAGGCGACGTTCAT‑CCCAGGACGCAGCGTTAAACTCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGGCAGCAGGCCAGGCCAGAACGTCGCAtt < 2:411152/139‑1 (MQ=255) tttAGCGGCGGTTTGGCGGTGTTAAATGCCAGATAGGCGACGTTCAT‑CCCAGGACGCAGCGTTAAACTCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGGCAGCAGGCCAGGCCAGAACGTCGCATTCCCCg < 1:629174/138‑1 (MQ=255) ggCGGTGTTAAATGCCAGATAGGCGACGTTCAT‑CCCAGGACGCAGCGTTAAACTCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGGCAGCAGGCCAGGCCAGAACGTCGCATTCCCCGGTCAGGAGTTTCGa < 2:159208/138‑1 (MQ=255) ttAAATGCTAGATAGGCGACGTTCAT‑CCCAGGACGCAGCGTTAAACTCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGGCAGCAGGCCAGGCCAGAACGTCGCATTCCCCGGTCAGGAGTTTCGACAGACGTc > 1:214126/1‑139 (MQ=255) ttAAATGCCAGATAGGCGACGTTCAT‑CCCAGGACGCAGCGTTAAACTCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGGCAGcaggccaggc < 1:20413/98‑1 (MQ=255) ttAAATGCCAGATAGGCGACGTTCAT‑CCCAGGACGCAGCGTTAAACTCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGGCAGcaggccaggc > 2:20413/1‑98 (MQ=255) ttAAATGCCAGATAGGCGACGTTCAT‑CCCAGGACGCAGCGTTAAACTCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGGCAGCAGGCCAGGCCAGAACGTCGCATTCCCCGGTCAGGAGTTTCGACAGACGt < 2:984987/138‑1 (MQ=255) ttAAATGCCAGATAGGCGACGTTCAT‑CCCAGGACGCAGCGTTAAACTCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGGCAGCAGGCCAGGCCAGAACGTCGCATTCCCCGGTCAGGAGTTTCGACAGACGTc < 2:605186/139‑1 (MQ=255) ttAAATGCCAGATAGGCGACGTTCAT‑CCCAGGACGCAGCGTTAAACTCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGGCAGCAGGCCAGGCCAGAACGTCGCATTCCCCGGTCAGGAGTTTCGACAGACGTc > 1:984987/1‑139 (MQ=255) tGCCAGATAGGCGACGTTCAT‑CCCAGGACGCAGCGTTAAACTCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGGCAGCAGGCCAGGCCAGAACGTCGCATTCCCCGGTCAGGAGTTTCGACAGACGTCCGGTg < 2:1003731/139‑1 (MQ=255) cAGATAGGCGACGTTCAT‑CCCAGGACGCAGCGTTAAACTCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGgcag < 2:519415/80‑1 (MQ=255) cAGATAGGCGACGTTCAT‑CCCAGGACGCAGCGTTAAACTCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGgcag > 1:519415/1‑80 (MQ=255) gATAGGCGACGTTCAT‑CCCAGGACGCAGCGTTAAACTCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGGCAGCAGGCCAGGCCAGAACGTCGCATTCCCCGGTCAGGAGTTTCGACAGACGTCCGGTgccgcc > 2:8007/1‑139 (MQ=255) aTAGGCGACGTTCAT‑CCCAGGACGCAGCGTTAAACTCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGGCAGCAGGCCAGGCCAGAACGTCGCATTCCCCGGTCAGGAGTTTCGACAGACGTCCGGTGccgccg < 1:710480/139‑1 (MQ=255) cGACGTTCAT‑CCCAGGACGCAGCGTTAAACTCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGGCAGCAGGCCAGGCCAGAACGTCGCATTCCCCGGTCAGGAGTTTCGACAGACGTCCGGTGCCGCCGGAGcc > 1:782346/1‑139 (MQ=255) aGGACGCAGCGTTAAACTCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGGCAGCAGGCCAGGCCAGAACGTCGCATTCCCCGGTCAGGAGTTTCGACAGACGTCCGGTGCCGCCGGAGCCTAAATCcaccac > 2:560615/1‑138 (MQ=255) gACGCAGCGTTAAACTCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGGCAGCAGGCCAGGCCAGAACGTCGCATTCCCCGGTCAGGAGGTTCGACAGACGTCCGGTGCCGCCGGAGCCTAAATCCACCACTAc > 1:213698/1‑139 (MQ=255) cAGCGTTAAACTCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGGCAGCAGGCCAGGCCAGAACGTCGCATTCCCCGGTCAGGAGTTTCGACAGACGTCCGGTGCCGCCGGAGCCTAAATCCACCACTACCTGc < 2:16213/139‑1 (MQ=255) aGCGTTAAACTCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGgcag < 1:824816/52‑1 (MQ=255) aGCGTTAAACTCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGgcag > 2:824816/1‑52 (MQ=255) aGCGTTAAACTCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGGCAGcagg > 2:35342/1‑56 (MQ=255) aGCGTTAAACTCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGGCAGcagg < 1:35342/56‑1 (MQ=255) aGCGTTAAACTCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGGCAGCAGGCCAGGCCAGAACGTCGCGTTCCCCGGTCAGGAGTTTCGACAGACGTCCGGTGCCGCCGGAGCCTAAATCCACCACTACCTGCg > 2:12952/1‑139 (MQ=255) aGCGTTAAACTCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGGCAGCAGGCCAGGCCAGAACGTCGCATTCCCCGGTCa > 2:841610/1‑85 (MQ=255) aGCGTTAAACTCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGGCAGCAGGCCAGGCCAGAACGTCGCATTCCCCGGTCa > 2:1216593/1‑85 (MQ=255) aGCGTTAAACTCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGGCAGCAGGCCAGGCCAGAACGTCGCATTCCCCGGTCa < 1:841610/85‑1 (MQ=255) aGCGTTAAACTCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGGCAGCAGGCCAGGCCAGAACGTCGCATTCCCCGGTCa < 1:1216593/85‑1 (MQ=255) aGCGTTAAACTCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGGCAGCAGGCCAGGCCAGAACGTCGCATTCCCCGGTCAGGAGTTTCGACAGACGTCCGGTGCCGCCGGAGCCTAAATCCACCACTACCTGCg > 2:1009787/1‑139 (MQ=255) ttAAACTCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGGCAGCAGGCCAGGCCAGAACGTCGCATTCCCCGGTCAGGAGTTTCGACAGACGTCCGGTGCCGCCGGAGCCTAAATCCACCACTACCTGCGGCAt < 2:214126/139‑1 (MQ=255) aaCTCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGGCAGCAGGCCAGGCCAGAACGTCGCATTCCCCGGTCAGGAGTTTCGACAGACGTCCGGTGCCGCCGGAGCCTAAATCCACCACTACCTGCGGCATTa < 1:1009787/138‑1 (MQ=255) | GATGGATTGCATCAGGCGCTGGTTATTAATCGCCAGTGCCAGCGCATGGCGGACAGCGGGATTATTTAGCGGCGGTTTGGCGGTGTTAAATGCCAGATAGGCGACGTTCAT‑CCCAGGACGCAGCGTTAAACGCAAGCGCGGGTCGTCACGCAAAATGGATAGCTGGCTGGCAGCAGGCCAGGCCAGAACGTCGCATTCCCCGGTCAGGAGTTTCGACAGACGTCCGGTGCCGCCGGAGCCTAAATCCACCACTACCTGCGGCATTA > NZ_CP009273/1350375‑1350640 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |