| Predicted mutation | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | NZ_CP009273 | 115,634 | Δ1 bp | coding (415/552 nt) | 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 | 115,632 | 0 | G | . | 91.2% | 123.1 / 3.3 | 34 | coding (413/552 nt) | ampD | 1,6‑anhydro‑N‑acetylmuramyl‑L‑alanine amidase AmpD |
| Reads supporting (aligned to +/- strand): ref base G (3/0); new base . (19/12); total (22/12) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 5.37e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
CATGGCATGCGGGAGTCTCTCAGTATCAGGGGCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCCGGTCCTGCATTTGATTGGGCACGGTTTCGTGTGCTGGTCAGCAAGGAGAC > NZ_CP009273/115500‑115764 | catggcatgCGGGAGTCTCTCAGTATCAGGGGCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGCggccctg > 1:198174/1‑134 (MQ=255) atggcatgCGGGAGTCTCTCAGTATCAGGGGCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACtga > 2:14923/1‑139 (MQ=255) catgCGGGAGTCTCTCAGTATCAGGGGCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGCGGG‑GCtgattgc > 2:422809/1‑138 (MQ=255) catgCGGGAGTCTCTCAGTATCAGGGGCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACtgattga < 1:754362/139‑1 (MQ=255) tctctcAGTATCAGGGGCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCg > 1:551281/1‑139 (MQ=255) ctcAGTATCAGGGGCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGCGGG‑ACTGATTGATTGCTAtaccga > 2:474713/1‑133 (MQ=255) aTCAGGGGCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGc > 1:668418/1‑138 (MQ=255) gggCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCTaaaaa < 1:597446/139‑1 (MQ=255) gcgAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCCCTGCTTGATTGCTATCCGGATATCGCTTAAAACAt > 2:2882/1‑138 (MQ=255) gCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGc < 2:82558/139‑1 (MQ=255) gCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGc < 1:14923/139‑1 (MQ=255) gCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGc < 1:2882/139‑1 (MQ=255) tttttCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATTCGGATATCGCTAAAAACATGACGGGCCCTTGTGata > 2:476201/1‑139 (MQ=255) gAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGGTTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTTTGATATTTCGCCGGATCGGa > 1:691431/1‑138 (MQ=255) gAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTTCGCCGGATCGGAAAACCGa > 1:705838/1‑139 (MQ=255) cACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCCg > 2:204959/1‑139 (MQ=255) aCCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTATG‑GGGCACTGATTGATTGCTATCCGGATATTGCTAAAAACATGACGGGCCCTTGTGGTTTTTCGCCGGAACGGGAAACCCATCCCgg > 1:485366/1‑139 (MQ=255) ccGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCCGGt > 1:452944/1‑139 (MQ=255) aTACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCCGGTCCt < 2:705838/139‑1 (MQ=255) cTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACtgatt > 1:388120/1‑56 (MQ=255) cTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACtgatt < 2:388120/56‑1 (MQ=255) taCCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCCGGTCCTGCATTTGATTgg < 2:452944/138‑1 (MQ=255) aTGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGGTTGATTTCTATCCGGATATCGCTAAAAAAATGACGGGCCATTGTGATATTGCGCCGGATCGGGAAACCGATCCCGGTCCTGCATTTGATTGGGCACgg > 1:718391/1‑139 (MQ=255) aTGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTTCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCCGGTCCTGCATTTGATTGGGCACgg > 1:754650/1‑139 (MQ=255) aTGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGGTCTCCGGATATCGCCTAAAACAAGACGGGCCGTTTGGGTTATGCGCCGGATCGGGAAAACCAGCCCCGGCCTGCATTTGAGTGGGCACgg > 2:574886/1‑139 (MQ=255) aTGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGc > 2:249343/1‑79 (MQ=255) aTGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGc < 1:249343/79‑1 (MQ=255) aTGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGc > 1:613800/1‑79 (MQ=255) aTGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGc < 2:613800/79‑1 (MQ=255) aTGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTTCGCCGGATCGGAAAAACGATCCCCGGCCTGCATTTTATTggggcagg > 2:637624/1‑134 (MQ=255) tATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTTCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTTCGCCGGATCGGAAAACCGATCCCGGGCCTGCATTTGATTGGGCACGGTTTCgtgt > 1:630905/1‑139 (MQ=255) ttGCGGCGGTTACGC‑GGCACTGATTGATTGCTATTCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTTCGCCGGAACGGAAAACCGATCCCGGTCCTGCATTTTATTGGGCGCGGGTTCGTGTGGTGGTCAg > 2:554512/1‑138 (MQ=255) ttGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCCGGTCCTGCATTTGATTGGGCACGGTTTCGTGTGCTGGTCAg > 1:158407/1‑138 (MQ=255) gcggcgGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCCGGTCCTGCATTTGATTGGGCACGGTTTCGTGTGCTGGTCAGCa < 2:754650/138‑1 (MQ=255) gTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCCGGTCCTGCATTTGATTGGGCACGGTTTCGTGTGCTGGTCAGCAAGGAGac < 1:667800/139‑1 (MQ=255) | CATGGCATGCGGGAGTCTCTCAGTATCAGGGGCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCCGGTCCTGCATTTGATTGGGCACGGTTTCGTGTGCTGGTCAGCAAGGAGAC > NZ_CP009273/115500‑115764 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |