| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 2,419,933 | G→T | 45.4% | A112D (GCC→GAC) | hisJ ← | histidine/lysine/arginine/ornithine transporter subunit |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP009273 | 2,419,933 | 0 | G | T | 45.4% | 5.7 / 16.3 | 23 | A112D (GCC→GAC) | hisJ | histidine/lysine/arginine/ornithine transporter subunit |
| Reads supporting (aligned to +/- strand): ref base G (4/8); new base T (7/3); total (11/12) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.98e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
ACGATTTCAATGCCTTTTGGTGCCCAATGTTCATTACCGAACGTCTCCTGGGTGGTGCCCTGCAATACGCCTACCCGTTTGCCTTTCAGCGACTCGACTGTCGGCTGAATGTCAGAATTTTTCGCCACCACCAAACGAGAATCGGCAGCGTACAGTTTGTCGGTGAAGGCTATTTCTTGCTGACGTTTTTCCGTAATGGAAAGCGATGACATGATGGCGTCAATCTTCTTCGCTTTTAAGGACGGGATTAACGCATCCAGCGGATTTTCGACAAACGTAC > CP009273/2419789‑2420068 | aCGATTTCAATGCCTTTTGGTGCCCAATGTTCATTACCGAACGTCTCCTGGGTGGTGCCCTGCAATACGCCTACCCGTTTGCCTTTCAGCGACTCGACTGTCGGCTGAATGTCAGATTTTTTCGCCACCACCAAACAGGAATCTTCAGc > 1:222345/1‑149 (MQ=255) gATTTCAATGCCTTTTGGTGCCCAATGTTCATTACCGAACGTCTCCTGGGTGGTGCCCTGCAATACGCCTACCCGTTTGCCTTTCAGCGACTCGACTGTCGGCTGAATGTCAGAATTTTTCGCCACCACCAAACGAGAATCgg > 2:467011/1‑143 (MQ=255) tCAGTGCCTTTTGGTGCCCAATGTTCATTCCCGAACGTCTCCTGGGTGGTGCCCTGCAATACGCCTACCCGTTTGCCTTTCAGCGACTCGACTGTCGGCTGAATGTCAGAATTTTTCGCCACCACCAAACGAGAATCGTCAGc < 2:23369/143‑1 (MQ=255) ttGGTGCCCAATGTTCATTACCGAACGTCTCCTGGGTGGTGCCCTGCAATACGCCTACCCGTTTGCCTTTCAGCGACTCGACTGTCGGCTGAATGTCAGAATTTTTCGCCACCACCAAACGAGAATCGGCAGCGTACAGTTTGTCGGTg < 1:426552/149‑1 (MQ=255) tCATTACGCAACGTCTCCTGGGTGGTGCCTTGCCATACGCCTACCCGTTTGCCTTTCAGCGACTCGACTGTCGGCTGAATGTCAGAATTTTTCGCCACCACCAAACGAGAATCGTCAGCGTACAGTTTGTCGGTGAAGGCTATTTCTTg < 1:51864/149‑1 (MQ=255) tcCTGGGTGGTGCCCTGCAATACGCCTACCCGTTTGCCTTTCAGCGACTCGACTGTCGGCTGAATGTCAGAATTTTTCGCCACCACCAAACGAGAATCGGCAGCGTACAGTTTGTCGGTGAAGGCTATTTCTTGCTGACGTTTTTCCGt > 1:356067/1‑149 (MQ=255) gggTGGTGCCCTGCAATACGCCTACCCGTTTGCCTTTCAGCGACTCGACTGTCGGCTGAATGTCAGAATTTTTCGCCACCACCAAACGAGAATCGGCAGCGTACAGTTTGTCGGTGAAGGCTATTTCTTGCTGACGTTTTTCCGTAATg < 1:141769/149‑1 (MQ=255) ggtggtGCCCTGCAATACGCCTACCCGTTTGCCTTTCAGCGACTCGACTGTCGGCTGAATGTCAGAATTTTTCGCCACCACCAAACGAGAATCGGCAGCGTACAGTTTGTCGGTGAAGGCTATTTCTTGCTGACGTTTTTCCGTAATgg < 1:314056/149‑1 (MQ=255) tggtgCCCTGCAATACGCCTACCCGTTTGCCTTTCAGCGACTCGACTGGCGGCTGAATGGCAGACTTTTTCGCCACCACCAAACGAGAATCGGCAGCGTACAGTTTGTCGGTGAAGGGTATTTAATGCGGACGTGTTTCCGCTATggga > 1:250935/1‑147 (MQ=255) gtgCCCTGCAATACGCCTACCCGTTTGCCTTTCAGCGACTCGACTGTCGGCTGAATGTCAGAATTTTTCGCCACCACCAAACGAGAATCGTCAGCGTACAGTTTGTCGGTGAAGGCTATTTCTTGCTGACGTTTTTCCGTAATGGAAAg < 1:447242/149‑1 (MQ=255) cccTGCAATCCGCCCACCCGTTTTCTTTTCAGCGACTCGACTGTCGGCTGAATGTCAGAATTTTTCGCCACGCCAAAACGAGAATCGGCAGCGTACAGTTTTTCGGTGAAGGCTATTCCTTGCTGGCGTTTCGCCGTAATTGa < 2:241038/143‑1 (MQ=255) cccTGCAATACGCCTACCCGTTTGCGTTTCAGCGACTCGACTGTCGGATGAATGTCAGAATTTTTCGCCACCACCAAACGAGAATCGTCAGCGTACAGTTTGTCGGTGAAGGCGATTTCTTGCTGACGTTTTTCCGTAATGGAAAGCGa > 1:295547/1‑149 (MQ=255) ccTGCAATACGCCTACCCGTTTGCCTTTCAGCGACTCGACTGTCGGCTGAATGTCAGAATTTTTCGCCACCACCAAACGAGAATCGCCAGCGTACAGTTTGTCGGTGAAGGCTATTTCTTGCTGACGTTTTTCCGTAATGGAAAGCgct < 1:22612/149‑3 (MQ=255) agCAATACGCCTACCCGTTTGCCTTTCAGCGACTCGACTGTCGGCTGAATGTCGGAATTGTTCGCCACCACCAAACGAGAATCGTCAGCGGACAGTTTGTCGGTGAAGGCTATTTCTTGCTGACGTTTTTCCGTAATGGaaggggaatg > 1:24978/2‑141 (MQ=255) aaTACGCCTACCCGTTTGCCTTTCAGCGACTCGACTGTCGGCTGAATGTCAGAATTTTTCGCCACCACCAAACGAGAATCGTCAGCGTACAGTTTGTCGGTGAAGGCTATTTCTTGCTGACGTTTTTCCGTAATGGAAAGCGATGACat > 1:313319/1‑149 (MQ=255) aTACGCCTACCCGTTTGCCTTTCAGCGACTCGACTGTCGGCTGAATGTCAGAATTTTTCGCCACCACCAAACGAGAATCGTCAGCGTACAGTTTGTCGGTGAAGGCTATTTCTTGCCGACGTTTTTCCGTAATGGAAAGCAAt > 2:24726/1‑143 (MQ=255) tACCCGTTTGCCTTTCAGCGACTCGACTGTCGGCTGAATGTCAGAATTTTTCGCCACCACCAAACGAGAATCGGCAGCGTACAGTTTGTCGGTGAAGGCTATTTCTTGCTGACGTTTTTCCGTAATGGAAAGCGATGACATGATGGCGt > 1:291329/1‑149 (MQ=255) ttGCCTTTCAGCGACTCGACTGTCGGCTGAATGTCAGAATTTTTCGGCACCCCCAAACGAGAATCGGCAGCGTCCAGTTTGTCGGTGAAGGCTATTTCTTGCTGACGTTTTTCCGTAATGGAAAGCGATGACATGATGGCGTc < 2:415795/143‑1 (MQ=255) ccTTTCAGCGACTCGACTGTCGGCTGAATGTCAGAATTTTTCGCCACCACCAAACGAGAATCGTCAGCGTACAGTTTGTCGGTGAAGGCTATTTCTTGCTGACGTTTTTCCGTAATGGAAAGCGATGACATGATGGCGTCAAt > 2:363960/1‑143 (MQ=255) tttCAGCGACTCGGCTGTCGGCTGAATGTCAGAATTTTTCGCCACCACCAAACGAGAATCGTCAGCGTCCAGTTTGTCGGTGAAGGCTATTTCTTGCTGACGTTTTTCCGTAATGGCAAGCGATGACATGATGGCGTCAATCTTCTTCg > 1:361136/1‑149 (MQ=255) tcgactGTCGGCTGAATGTCAGAATTTTTCGCCACCACCAAACGAGAATCGGCAGCGTACAGTTTGTCGGTGAAGGCTATTTCTTGCTGACGTTTTTCCGTAATGGAAAGCGATGACATGATGGCGTCAATCTTCTTCGCttt > 2:405479/1‑143 (MQ=255) cGCCACCACCAAACGAGAATCGGCAGCGTACAGGTTGGCGGTGAAGGCTATTTCTTGCTGACGTTTTTCCGTAATTGAAAGCGATGACATGATGGCGTCAATCTTCTTCGCGGTTAAGGACGGGATTAACGCATCCAGCGGATTTTCGa < 1:282995/149‑1 (MQ=255) caccaccaAACGAGAATCGGCAGCGTACAGTTTGTCGGTGAAGGCTATTTCTTGCTGACGTTTTTCCGTAATGGAAAGCGATGACATGATGGCGTCAATCTTCTTCGCTTTTAAGGACGGGATTAACGCATCCAGCGGAtttt < 2:400020/143‑1 (MQ=255) atgaTCGGCAGCGTACAGTTTGGCGGTGAAGGCTATTTCTTGCTGACGTTTTTCCGTAATGGAAAGCGATGACATGATGGCGTCAATCTTCTTCGCTTTTAAGGACGGGATTAACGCATCCAGCGGATTTTCGACAAACGTAc < 2:220619/140‑1 (MQ=255) | ACGATTTCAATGCCTTTTGGTGCCCAATGTTCATTACCGAACGTCTCCTGGGTGGTGCCCTGCAATACGCCTACCCGTTTGCCTTTCAGCGACTCGACTGTCGGCTGAATGTCAGAATTTTTCGCCACCACCAAACGAGAATCGGCAGCGTACAGTTTGTCGGTGAAGGCTATTTCTTGCTGACGTTTTTCCGTAATGGAAAGCGATGACATGATGGCGTCAATCTTCTTCGCTTTTAAGGACGGGATTAACGCATCCAGCGGATTTTCGACAAACGTAC > CP009273/2419789‑2420068 |
| 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: ‑ |