| 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 | . | 88.9% | 90.0 / 4.7 | 27 | 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 . (12/12); total (15/12) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 2.31e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
CATGCGGGAGTCTCTCAGTATCAGGGGCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCCGGTCCTGCATTTGATTGGGCA‑CGGTTTCGTGTGCTGGTCAGCAA > NZ_CP009273/115505‑115758 | catgCGGGAGTCTCTCAGTATCAGGGGCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGCGGG‑ACtgattga > 1:113336/1‑139 (MQ=255) atgCGGGAGTCTCTCAGTATCAGGGGCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACtgattgat < 1:311030/139‑1 (MQ=255) cGGGAGTCTCTCAGTATCAGGGGCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGattgattg < 1:153643/138‑1 (MQ=255) tctctcAGTATCAGGGGCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGGTTGATTGCTCTCCg > 2:211410/1‑139 (MQ=255) tctctcAGTATCAGGGGCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGGTAAGC‑GGCACTGGATGATTGCTATccc > 1:178618/1‑138 (MQ=255) ctcAGTATCAGGGGCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGa > 1:272645/1‑138 (MQ=255) gTATCAGGGGCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGAATGATTTCTTTCCGGATATCg > 1:392839/1‑139 (MQ=255) aGGGGCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGGTTTGTTTCTATTCGGGTATCGCTaa > 2:189839/1‑138 (MQ=255) ggggCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCTaaaa < 1:138967/139‑1 (MQ=255) gcgcGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCTaaaaaaa > 1:287606/1‑137 (MQ=255) ttGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCgg < 1:444881/139‑1 (MQ=255) cGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCCGGTc < 2:272645/139‑1 (MQ=255) cGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCCGGTc < 2:436539/139‑1 (MQ=255) ccGATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCCGGTCCTGCATTTGATTGGGc < 2:146933/138‑1 (MQ=255) gATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGCCGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCCGGTCCTGCATTTGATTGGGCA‑Cg < 2:392839/139‑1 (MQ=255) gATGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCCGGTCCTGCATTTGATTGGGCA‑Cg < 2:345410/139‑1 (MQ=255) aTGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTTCGCCGGATCGGGAAACCGATCCCGGTCCTGCATTTGATTGGGGA‑Cgg > 2:326763/1‑139 (MQ=255) aTGCGCAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTTCGCCGGATCGGAAAACCGATCCCGGTCCTGCATTTGATTGGGCA‑Cgg > 1:351084/1‑139 (MQ=255) cgcAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGGTTGATTGCTATCCGGATATCGCTAAAAACATGACGGGGCATTGTGATATTTCGCCGGATCGGGAAAACGATCCCGGTCCTGCATTTGATTGGGGA‑CGGttt > 2:426657/1‑139 (MQ=255) cgcAGTATCAACAGCTTGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCCGGTCCTGCATTTGATTGGGCA‑CGGtt < 1:296202/138‑1 (MQ=255) cAGTATCAACAGCTTGCGGCGGTTAAGCGGG‑ACTGATTGATTGCTATCCGGGTATCGCCAAAAAAATGACGGGCCCTTGTGATATTTCGCCGGAGCGGGAAAACGAACCCCGGCCCGCCTTTGATTTGGCACCGGtttg > 2:203649/1‑138 (MQ=255) aCAGCTTGCGGCGGTTACGC‑GGCACTGATTTATTTCTATCCGGGTATCGCTAAAAACATGACGGGCCATTGTGATATTTCGCCGGATCGGAAAACCGATCCCGGTCCTGCATTTGATTGGGCA‑CGGGTTCGTGTGCTgg > 1:392685/1‑139 (MQ=255) ttGCGGCGGTTACGCGGCCAC‑GATTTATTGCTATCCGGATATCGCTAAAAAAATGACGGGCCCTTGTGATATTTCGCCGGATCCGGAAACCGATCCCGGTCCTTCCATTGATTGGGCA‑CGGATTTGTGTGATGGTTAgg > 1:275137/1‑138 (MQ=255) ttGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCCGGTCCTGCATTTGATTGGGCA‑Cg < 2:333603/120‑1 (MQ=255) ttGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCCGGTCCTGCATTTGATTGGGCA‑CGGTTTCGTGTGCTGGTCAg > 2:434636/1‑138 (MQ=255) ttGCGGCGGTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCCAAAAACATGACGGGCCATTGTGATATTTCGCCGGATCGGAAAACCGATCCCGGTCCTGCATTTGATTGGGCA‑Cg > 1:333603/1‑120 (MQ=255) cggcggTTACGC‑GGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCCGGTCCTGCATTTGATTGGGCA‑CGGTTTCGTGTGCTGGTCAGCaa < 2:275137/138‑1 (MQ=255) | CATGCGGGAGTCTCTCAGTATCAGGGGCGCGAACGCTGCAATGATTTTTCTATTGGGATTGAGCTTGAAGGCACCGATACGCTGGCGTATACCGATGCGCAGTATCAACAGCTTGCGGCGGTTACGCGGGCACTGATTGATTGCTATCCGGATATCGCTAAAAACATGACGGGCCATTGTGATATTGCGCCGGATCGGAAAACCGATCCCGGTCCTGCATTTGATTGGGCA‑CGGTTTCGTGTGCTGGTCAGCAA > NZ_CP009273/115505‑115758 |
| 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: ‑ |