| 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 | . | 92.9% | 47.7 / ‑2.6 | 14 | coding (413/552 nt) | ampD | 1,6‑anhydro‑N‑acetylmuramyl‑L‑alanine amidase AmpD |
| Reads supporting (aligned to +/- strand): ref base G (1/0); new base . (9/4); total (10/4) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.89e-01 | |||||||||||
CATGCGGGAGTCTCTCAGTATCAGGGGCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCCGGTCCTGCATTTGATTGGGCACGGTTTCGTGTGCTGGTCAG > NZ_CP009273/115505‑115755 | catgCGGGAGTCTCTCAGTATCAGGGGCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACttattga > 2:192947/1‑139 (MQ=255) aGTATCAGGGGCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGata < 2:101627/137‑1 (MQ=255) gcgAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACG‑GGGGACTGTTTTATTTCTATCCGGATATCGCTaaaaaaaa > 2:361752/1‑135 (MQ=255) cACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGGTATCCGGAGATCGCTAAAAAAAAGACGGGGCAATGTGGTATTGCGCCGGAGCGGGAAACCGATTCCg > 2:182580/1‑139 (MQ=255) cGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCCGGTc < 2:1828/139‑1 (MQ=255) tataCCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTTTGATATTGCGCCGGATCGGAAAAACGATCCCGGTCCTGCATTTGATTg > 2:126251/1‑139 (MQ=255) aTGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTTCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCCGGTCCTGCATTTGATTGGGCACgg > 1:370025/1‑139 (MQ=255) aTGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGGTATCGCTAAAAACATGACGGGCCATTGTGATATTTCGCCGGATCGGAAAAACGATCCCGGTCCTGCATTTGATTGGGCACgg > 1:71869/1‑139 (MQ=255) aTGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCCGGTc < 1:62441/119‑1 (MQ=255) aTGCGCAGTATCAACAGCTTGCGGCGGTTAAGC‑GGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCCGGTc > 2:62441/1‑119 (MQ=255) ttGCGGCGGTTACGC‑GGCACTGGTTGATTTCTATCCGGATATCGCTAAAAACATGACGGGCCATTTTGATATTTCGCCGGGTCGGGAAACCGAACCCGGGCCTGCCTTTGATTTGGCACGGGTTTGTGTGCTGGTCAg > 2:129439/1‑138 (MQ=255) ttGCGGCGGTTACGC‑GGCACTGATTGATTTCTATCCGGATATCGCt > 2:454066/1‑46 (MQ=255) ttGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCt < 1:454066/46‑1 (MQ=255) ttGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCCGGTCCTGCATTTGATTGGGCACGGTTTCGTGTGCTGGTCAg > 1:227976/1‑138 (MQ=255) | CATGCGGGAGTCTCTCAGTATCAGGGGCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCCGGTCCTGCATTTGATTGGGCACGGTTTCGTGTGCTGGTCAG > NZ_CP009273/115505‑115755 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |