| 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% | 102.3 / ‑0.5 | 28 | coding (413/552 nt) | ampD | 1,6‑anhydro‑N‑acetylmuramyl‑L‑alanine amidase AmpD |
| Reads supporting (aligned to +/- strand): ref base G (2/0); new base . (14/12); total (16/12) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 4.92e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
CATGCGGGAGTCTCTCAGTATCAGGGGCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGCGGGCACTGATTGATTGCTATCCGGATATCG‑CTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCCGGTCCTGCATTTGATTGGGCACGGTTTCGTGTGCTGGTCAGCAAGGAGAC > NZ_CP009273/115505‑115764 | catgCGGGAGTCTCTCAGTATCAGGGGCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACtgattga < 2:37464/139‑1 (MQ=255) tgCGGGAGTCTCTCAGTATCAGGGGCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGCggca < 2:580238/129‑3 (MQ=255) tgCGGGAGTCTCTCAGTATCAGGGGCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGCggca > 1:580238/1‑127 (MQ=255) gCGGGAGTCTCTCAGTATCAGGGGCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCCCCGattgattg > 1:529985/1‑139 (MQ=255) ctctcAGTATCAGGGGCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATcccg > 1:550665/1‑137 (MQ=255) gcgAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGCGGG‑ACTGATTGATTGCTATTCGGGTATAGCCTaaaaaat > 2:508978/1‑136 (MQ=255) gcgAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGGTCTCG‑CTAAAAACAt > 2:305263/1‑138 (MQ=255) cgAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCG‑CTAAAAACATGa < 2:434245/139‑1 (MQ=255) gCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCG‑CTAAAAACATGACGGGc < 2:550665/139‑1 (MQ=255) gCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCG‑CTAAAAACATGACGGGc < 2:265501/139‑1 (MQ=255) tGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCG‑CTAAAAACATGAAGGGCCa > 1:572053/1‑139 (MQ=255) tttCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGGTATCG‑CTAAAAACATGACGGGCCATTGTGTTAtt > 2:30190/1‑139 (MQ=255) ggCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCG‑CTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATcc < 1:533331/139‑1 (MQ=255) aCCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGGTTGCTCTCCGGGTATCG‑ATAAAAAAATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATACCgg > 2:572892/1‑139 (MQ=255) aTACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCG‑CTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGGAAAACGATCCCGGTCCt > 1:406992/1‑139 (MQ=255) ccGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCG‑CTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCCGGTCCTGCATTTGATTGGGc < 2:603623/138‑1 (MQ=255) aTGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGGTTTCTATCCGGATATCG‑CTAAAAACATGACGGGGCCTTGTGATATTTCGCCGGGTCGGAAAAACGATCCCGGTCCTGCATTTTATTTGGCACgg > 2:397687/1‑139 (MQ=255) aTGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCG‑CTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAAcc < 2:8748/109‑1 (MQ=255) aTGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCG‑CTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAAcc > 1:8748/1‑109 (MQ=255) aTGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCAATGGTTTATTGCTATCCGGATATCG‑CTAAAAACATGACGGGCCCTTGTGATATTTCGCCGGATCGGGAAAACGATCCCCGGCCTGCATTTGATTTGGCGCgg > 2:417170/1‑139 (MQ=255) aTGCGCAGTATCAACAGCTTGCGGCGGTTAAGC‑GGCAATGATTGATTGCTATTCGGATATCG‑CTAAAAACATGACGGGGCATTGTGATATTGCGCCGGGTCGGGAAAACGAACCCGGGCCTGCATTTGATTGGGGACgg > 2:493192/1‑139 (MQ=255) tATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCG‑CTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCCGGTCCTGCATTTGATTGGGCACGGTTTCgtgt < 1:339435/139‑1 (MQ=255) gCTTGCGGCGGTTACGC‑GGCACTGATTGGTTGCTATCCGGATATCG‑CTAAAAACATGACggg > 1:161909/1‑62 (MQ=255) gCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCG‑CTAAAAACATGACggg < 2:161909/62‑1 (MQ=255) ttGCGGCGGTTACGCGGG‑ACTGATTGATTGTTATCCGGATATCG‑CTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAAACCATCCCGGTTCTGCATTTGATTGGGCACGGTTTTGTGTGCTGGTCAg > 1:177352/1‑138 (MQ=255) ttGCGGCGGTTACGC‑GGCACTGATTGGTTGCTTTCCGGATATCG‑CTAAAAACATGACGGGc > 1:106332/1‑61 (MQ=255) ttGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCG‑CTAAAAACATGACGGGc < 2:106332/61‑1 (MQ=255) tagcggcgGTTATGC‑GGCACTTGTTGATTGCGCACCGGATATTA‑GTAAAAACATGACGGGCCAATGTGGTATTGCGCCCGATCAGAAAAAAGATAACGGTGCGGCGTTTGGTTAGGCACGGGTTATTGTGCGGGttaag > 2:163798/3‑135 (MQ=255) gcggcgGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCG‑CTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCCGGTCCTGCATTTGATTGGGCACGGTTTCGTGTGCTGGTCAGCa < 2:524409/138‑1 (MQ=255) gTTACGC‑GGCACTGATTGATTGCTATCCGGATATCG‑CTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCCGGTCCTGCATTTGATTGGGCACGGTTTCGTGTGCTGGTCAGCAAGGAGac < 2:294912/139‑1 (MQ=255) | CATGCGGGAGTCTCTCAGTATCAGGGGCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGCGGGCACTGATTGATTGCTATCCGGATATCG‑CTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCCGGTCCTGCATTTGATTGGGCACGGTTTCGTGTGCTGGTCAGCAAGGAGAC > NZ_CP009273/115505‑115764 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |