| Predicted mutation | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | NZ_CP009273 | 115,488 | T→C | F90S (TTC→TCC) | ampD → | 1,6‑anhydro‑N‑acetylmuramyl‑L‑alanine amidase AmpD |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 115,488 | 0 | T | C | 90.6% | 82.1 / 1.8 | 32 | F90S (TTC→TCC) | ampD | 1,6‑anhydro‑N‑acetylmuramyl‑L‑alanine amidase AmpD |
| Reads supporting (aligned to +/- strand): ref base T (0/3); new base C (9/20); total (9/23) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 5.41e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.74e-01 | |||||||||||
CTGAGATCGCCCATTTGCGCGTCTCCGCTCACTGTTTGATTCGCCGTGATGGTGAAATAGTCCAGTATGTTCCTTTCGATAAACGTGCATGGCATGCGGGAGTCTCTCAGTATCAGGGGCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTG > NZ_CP009273/115413‑115571 | cTGAGATCGCCCATTTGCGCGTCTCCGCTCACTGTTTGATTCGCCGTGATGGTGAAATAGTCCAGTATGTTCCTTCCGATAAACGTgcat > 1:464287/1‑90 (MQ=255) gagaTCGCCCATTTGCGCGTCTCCGCTCACTGTTTGATTCGCCGTGATGGTGAAATAGTCCAGTATGTTCCTTCCGATAAACGTgcatgg < 2:27630/90‑1 (MQ=255) agaTCGCCCATTTGCGCGTCTCCGCTCACTGTTTGATTCGCCGTGATGGTGAAATAGTCCAGTATGTTCCTTCCGATAAACGTgcatggc > 1:752281/1‑90 (MQ=255) aTTTGCGCGTCTCCGCTCACTGTTTGATTCGCCGTGATGGTGAAATAGTCCAGTATGTTCCTTTCGATAAACGTGCATGGCATGCGGGAg < 1:426204/90‑1 (MQ=255) tttGCGCGTCTCCGCTCACTGTTTGATTCGCCGTGATGGTGAAATAGTCCAGTATGTTCCTTCCGATAAACGTGCATGGCATGCGGGAGt < 2:97979/90‑1 (MQ=255) tttGCGCGTCTCCGCTCACTGTTTGATTCGCCGTGATGGTGAAATAGTCCAGTATGTTCCTTCCGATAAACGTGCATGGCATGCGGGAGt < 1:359523/90‑1 (MQ=255) ttGCGCGTCTCCGCTCACTGTTTGATTCGCCGTGATGGTGAAATAGTCCAGTATGTTCCTTCCGATAAACGTGCATGGCATGCGGGAGtc < 2:685370/90‑1 (MQ=255) ttGCGCGTCTCCGCTCACTGTTTGATTCGCCGTGATGGTGAAATAGTCCAGTATGTTCCTTCCGATAAACGTGCATGGCATGCGGGAGtc < 1:15230/90‑1 (MQ=255) ttGCGCGTCTCCGCTCACTGTTTGATTCGCCGTGATGGTGAAATAGTCCAGTATGTTCCTTCCGATAAACGTGCATGGCATGCGGGAGtc < 1:563095/90‑1 (MQ=255) ttGCGCGTCTCCGCTCACTGTTTGATTCGCCGTGATGGTGAAATAGTCCAGTATGTTCCTTCCGATAAACGTGCATGGCATGCGGGAGtc < 1:629090/90‑1 (MQ=255) gcgcGTCTCCGCTCACTGTTTGATTCGCCGTGATGGTGAAATAGTCCAGTATGTTCCTTCCGATAAACGTGCATGGCATGCGGGAGtctc < 2:731187/90‑1 (MQ=255) cgcgTCTCCGCTCACTGTTTGATTCGCCGTGATGGTGAAATAGTCCAGTATGTTCCTTCCGATAAACGTGCATGGCATGCGGGAGtctct < 1:775349/90‑1 (MQ=255) cgcgTCTCCGCTCACTGTTTGATTCGCCGTGATGGTGAAATAGTCCAGTATGTTCCTTCCGATAAACGTGCATGGCATGCGGGAGtctct < 2:464287/90‑1 (MQ=255) cgcgTCTCCGCTCACTGTTTGATTCGCCGTGATGGTGAAATAGTCCAGTATGTTCCTTCCGATAAACGTGCATGGCATGCGGGAGtctct < 2:41480/90‑1 (MQ=255) gcgTCTCCGCTCACTGTTTGATTCGCCGTGATGGTGAAATAGTCCAGTATGTTCCTTCCGATAAACGTGCATGGCATGCGGGAGtctctc < 1:384445/90‑1 (MQ=255) cgTCTCCGCTCACTGTTTGATTCGCCGTGATGGTGAAATAGTCCAGTATGTTCCTTTCGATAAACGTGCATGGCATGCGGGAGTCTCTCa < 1:331992/90‑1 (MQ=255) gCTCACTGTTTGATTCGCCGTGATGGTGAAATAGTCCAGTATGTTCCTTCCGATAAACGTGCATGGCATGCGGGAGTCTCTCAGTATCAg < 2:231606/90‑1 (MQ=255) gCTCACTGTTTGATTCGCCGTGATGGTGAAATAGTCCAGTATGTTCCTTCCGATAAACGTGCATGGCATGCGGGAGTCTCTCAGTATCAg < 1:308703/90‑1 (MQ=255) tGATTCGCCGTGATGGTGAAATAGTCCAGTATGTTCCTTCCGATAAACGTGCATGGCATGCGGGAGTCTCTCAGTATCAGGGGCGCGAAc > 2:103863/1‑90 (MQ=255) aTTCGCCGTGATGGTGAAATAGTCCAGTATGTTCCTTCCGATAAACGTGCATGGCATGCGGGAGTCTCTCAGTATCAGGGGCGCGAACGc < 2:95251/90‑1 (MQ=255) cGCCGTGATGGTGAAATAGTCCAGTATGTTCCTTCCGATAAACGTGCATGGCATGCGGGAGTCTCTCAGTATCAGGGGCGCGAACGCTGc > 1:702440/1‑90 (MQ=255) cGCCGTGATGGTGAAATAGTCCAGTATGTTCCTTCCGATAAACGTGCATGGCATGCGGGAGTCTCTCAGTATCAGGGGCGCGAACGCTGc > 1:322894/1‑90 (MQ=255) ccGTGATGGTGAAATAGTCCAGTATGTTCCTTCCGATAAACGTGCATGGCATGCGGGAGtctctc > 1:291930/1‑65 (MQ=255) ccGTGATGGTGAAATAGTCCAGTATGTTCCTTCCGATAAACGTGCATGGCATGCGGGAGtctctc < 2:291930/65‑1 (MQ=255) ccGTGATGGTGAAATAGTCCAGTATGTTCCTTCCGATAAACGTGCATGGCATGCGGGAGtctct > 1:221689/1‑64 (MQ=255) ccGTGATGGTGAAATAGTCCAGTATGTTCCTTCCGATAAACGTGCATGGCATGCGGGAGtctct < 2:221689/64‑1 (MQ=255) gATGGTGAAATAGTCCAGTATGTTCCTTCCGATAAACGTGCATGGCATGCGGGAGTCTCTCAGTATCAGGGGCGCGAACGCTGCAATGAt > 2:432285/1‑90 (MQ=255) aTAGTCCAGTATGTTCCTTCCGATAAACGTGCATGGCATGCGGGAGTCTCTCAGTATCAGGGGCGCGAACGCTGCAATGATTTTTCTAtt < 2:72573/90‑1 (MQ=255) gTCCAGTATGTTCCTTCCGATAAACGTGCATGGCATGCGGGAGTCTCTCAGTATCAGGGGCGCGAACGCTGCAATGATTTTTGTATTggg > 2:384629/1‑90 (MQ=255) cAGTATGTTCCTTCCGATAAACGTGCATGGCATGCGGGAGTCTCTCAGTATCAGGGGCGCGAACGCTGCAATGATTTTTCTATTGGGAtt < 1:607580/90‑1 (MQ=255) aTGTTCCTTTCGATAAACGTGCATGGCATGCGGGAGTCTCTCAGTATCAGGGGCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGc < 2:440915/90‑1 (MQ=255) aTGTTCCTTCCGATAAACGTGCATGGCATGCGGGAGTCTCTCAGTATCAGGGGCGCGAACGGTGCAATGATTTTTCTATTGGGATTGAGc < 2:792161/90‑1 (MQ=255) ttccttccGATAAACGTGCATGGCATGCGGGAGTCTCTCAGTATCAGGGGCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTg > 1:44616/1‑90 (MQ=255) | CTGAGATCGCCCATTTGCGCGTCTCCGCTCACTGTTTGATTCGCCGTGATGGTGAAATAGTCCAGTATGTTCCTTTCGATAAACGTGCATGGCATGCGGGAGTCTCTCAGTATCAGGGGCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTG > NZ_CP009273/115413‑115571 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |