| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 468,126 | Δ1 bp | 39.1% | coding (73/339 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 | 468,126 | 0 | A | . | 39.1% | 30.9 / 28.3 | 23 | coding (73/339 nt) | glnK | nitrogen assimilation regulatory protein for GlnL, GlnE, and AmtB |
| Reads supporting (aligned to +/- strand): ref base A (8/6); new base . (3/6); total (11/12) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 4.00e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.20e-01 | |||||||||||
TTTCTGGCACACCGCTTGCAATACCTTCTTCGTGTAGCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCTGGAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGAT > CP009273/467982‑468274 | tttCTGGCACACCCCTTGCAATACCTTCTTCGTGTAGCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTTATAATCAAACCATTCAAGCTGGAAGACGTTCGTGAAGCGTTATCTTCCATTGGT‑TTCAg < 1:238615/149‑1 (MQ=255) ttCTGGCACACCGCTTGCAATACCTTCTTCGTGTAGCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATTATCAAATCATTTAAGCTGGAAGACGTTCGTGAAGCGTTATCTCCCATTGGT‑TTCAgg < 1:28957/149‑1 (MQ=255) gCACACCGCTTGCAATACCTTCTTCGTGTAGCAGAACCATTACCGAATTATGACAGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCTGGAAGACGTTCGTGCAGCGTTATCTTCCATTGGTATTCAGGGCCt > 1:84959/1‑149 (MQ=255) cacaCCGCTTGCAATACCTTCTTCGTGTAGCAGAACCCTTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCTGGAAGACGTTCGTGAAGCGATATCTTCCATTGGT‑TTCAGGGCCTGa < 1:338310/149‑1 (MQ=255) gCAATACCTTCTTCGTGTAGCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCTGGAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCg > 1:325339/1‑149 (MQ=255) gCAATACCTTCTTCGTGTAGCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCTGGAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCATGACCGTCACCg > 2:315034/1‑149 (MQ=255) gtAGCCGAACCTTTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCTGGAAGACGTTCGTGAAGTGTTATCTTTCATTGGT‑TTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCggg < 1:162741/149‑1 (MQ=255) gtAGCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCTGGAAGACGTTCGAGATGTTTTGTCTGCCATGGGT‑TTAAGGGCCTGACCGTCACCGAAGTGAAAGGGTTCggg > 1:241153/1‑149 (MQ=255) cATTACCTAATTCTGACCGGAGGCGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCTGGAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCGGGCGTCAGaaa < 2:91426/149‑1 (MQ=255) ctcccaaTTCTGACCCGAGGGGATCTATGAAGCTGGTGAACGTGATAATTAATCCATTCAAGCTGTAAGACGTTCGTGAAGCGTTATCGTTCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCGGGCGTCAGAAAggg < 2:130162/144‑1 (MQ=255) gAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAATCATTCAAGCTGGAAGACATTCGTGCAGCGTTATCTTCCATTGGTATTCAGGGCCTGTACGGCACCGAAGTGACAGGTTTAGGGCGTCAGAAAGGGCATGCCGAGGTGTAcc > 2:14382/1‑149 (MQ=255) tATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCTGGAAGACGTTCGTGAAGCGTTACCTTCCATTGGT‑TTCAGGGCCTGACCGTCACCGAAGTGAAAGGGTTCGGGCGACAGAAAGCGTATGCCAAGCTGTGCCGGGGGGCGGa > 1:56817/1‑149 (MQ=255) tGATAATCAAACCATTCAAGCTGGAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCATGACCGTCACCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTc > 1:28140/1‑149 (MQ=255) tGATAATCAAACCATTCAAGCTGGAAGACGTTCGTGAAGCGTTATCTTCCATTGGT‑TTCAGGGCCTGACCGTCCCCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACACCGTCAATTTcc > 2:295390/1‑149 (MQ=255) tGAGAATCAAACCATTCAAGCTGGAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCTCCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTc < 1:226154/149‑1 (MQ=255) aTCAAACCATTCAAGCTGGAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGcc > 1:319986/1‑149 (MQ=255) aTCAAACCATTCAAGCTGGAAGACGTTCGTCAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGGCAATTTCCTGcc > 1:168480/1‑149 (MQ=255) aaCCATTCAAGCTGGAAGACGTTCGTGCAGCGATAGCGTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGGATACAGCGTCAATTTCCTGCCaaaa > 2:68032/1‑149 (MQ=255) aGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAATGTAAAAATTGATGTgg < 1:203762/149‑1 (MQ=255) gTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGTAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGAt < 1:14382/149‑1 (MQ=255) gCGTTATCTGCCATCGGT‑TTCAGTGCCGGACCGTCACCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGAc < 1:106916/149‑1 (MQ=255) ttCCATTGGT‑TGCAGGGCCTGACCTGCACCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGa < 1:311672/149‑1 (MQ=255) tCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGa < 2:319986/149‑1 (MQ=255) aTTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGCTAAAAGAACATCAGCAAAATGCAAGTGCTGATGACCAACTCGATGAAGTGAt < 1:244511/149‑1 (MQ=255) | TTTCTGGCACACCGCTTGCAATACCTTCTTCGTGTAGCAGAACCATTACCGAATTCTGACCGGAGGGGATCTATGAAGCTGGTGACCGTGATAATCAAACCATTCAAGCTGGAAGACGTTCGTGAAGCGTTATCTTCCATTGGTATTCAGGGCCTGACCGTCACCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGAT > CP009273/467982‑468274 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |