| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 468,093 | Δ1 bp | 33.3% | coding (40/339 nt) | glnK → | nitrogen assimilation regulatory protein for GlnL, GlnE, and AmtB |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP009273 | 468,092 | 0 | G | . | 33.3% | 39.6 / 23.7 | 21 | coding (39/339 nt) | glnK | nitrogen assimilation regulatory protein for GlnL, GlnE, and AmtB |
| Reads supporting (aligned to +/- strand): ref base G (7/6); new base . (4/3); total (11/10) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.90e-01 | |||||||||||
TGCTCTCTTTCTCGTTTTTCATTTCTGGCACACCGCTTGCAATACCTTCTTCGTGTAGCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCTGGAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAA > CP009273/467961‑468232 | tGCTCTCTTTCTCGTTTTTCATTTCTGGCACACCGCTTGCAATACCTTCTTCGTGTAGCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCTGGAAGACGTTCGTGAAGc > 1:241725/1‑149 (MQ=255) ctTTCTTGTTGTTCCTTTCTGGCACACCGCTTGCAATACCTTCTTCGTGTAGCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCT‑GAAGACGTTCGTGAAGCGTTATCt < 2:315555/149‑1 (MQ=255) ttttCATTTCTGGCACACCGCTTGCCATACCTTCTTCGTGTAGCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTCACCGTGATAATCAAACCATTCAAGCT‑GAAGACGTTCGTGAAGCGTTATCTTCCATTGGt < 1:1003/149‑1 (MQ=255) cttCTGGCACACCGTTTGCAATACCGTCTTCGTGTAGCGGAAACTTTCCCAAATTCGGCCCGGGGGTGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCGTGAAGACGTTCGTGGAGCGTTATCTTCCATTGGTATTCa < 1:85337/148‑1 (MQ=255) ttccgggccacCGCTTGCAATACCTTCTTCGTGTAGCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCTGGAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAg < 1:270001/141‑1 (MQ=255) cTGGCACACCGCTTGCAATACCTTCTTCGTGGAGCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCT‑GAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGc < 1:228757/149‑1 (MQ=255) ttGCAATACCTTCTTCGTGTAGCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCTGGAAGACGTTGGTGAAGCGTTCTCTTCCATTGGTATTCAGGGCCTGACCGTccc > 1:200823/1‑147 (MQ=255) aTACCTTCTTCGTGTAGCAGAACCATTACCGAATTCTGACCGGGGGGGATCTATGAAGCTGGTGACCGGGATAATCAAACCATTCAAGCTGGAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAg < 1:99571/149‑1 (MQ=255) ttgtcGTGTAGCAGAACCATTTCCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCTGGAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAg < 1:135539/146‑1 (MQ=255) tcctcGTGTAGCAGACTCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCTGGAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAg < 1:239793/146‑1 (MQ=255) tcGTGTAGCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCTGGAAGACGTTCGTGAAGCGTCATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGGGAAAGGtt > 1:304218/1‑149 (MQ=255) cGTGTAGCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCTGGAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGttt < 2:270110/149‑1 (MQ=255) gCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCTGGAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCGGGCg > 1:96724/1‑149 (MQ=255) gCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCTGGAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCGGGCg > 2:112736/1‑149 (MQ=255) gAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCTGGAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATg < 2:241725/149‑1 (MQ=255) gggATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCTGGAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCggg > 2:108680/1‑149 (MQ=255) aTCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCT‑GAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGAGAAGGGTACCGGACGTCAGAAAGGGCATGCCGAGCTGTACCggggggg > 2:333463/1‑148 (MQ=255) aaTCAAACCATTCAAGCT‑GAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGCCACCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGCGCGGAATACAGCGACAATTTCCTGcc > 1:29780/1‑149 (MQ=255) aaaCCATTCAAGCT‑GAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCaaaa > 1:304934/1‑149 (MQ=255) aaCCATTCAAGCTGGAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCGGGCGTCAGAAATGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGCCAATTTCCTGCCaaaa > 2:201576/1‑149 (MQ=255) aTTCAAGCT‑GAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACGGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTaaa > 1:96763/1‑149 (MQ=255) | TGCTCTCTTTCTCGTTTTTCATTTCTGGCACACCGCTTGCAATACCTTCTTCGTGTAGCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCTGGAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAA > CP009273/467961‑468232 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |