| Predicted mutation | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | NC_000913_3_pae_tpiA | 1,544,022 | 1 bp→AA | coding (39/1389 nt) | narU ← | nitrate/nitrite transporter |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913_3_pae_tpiA | 1,544,021 | 1 | . | A | 78.3% | 58.9 / 14.0 | 23 | coding (40/1389 nt) | narU | nitrate/nitrite transporter |
| Reads supporting (aligned to +/- strand): ref base . (3/2); new base A (8/10); total (11/12) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 6.40e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.76e-01 | |||||||||||
| * | NC_000913_3_pae_tpiA | 1,544,022 | 0 | C | A | 100.0% | 74.2 / NA | 23 | L13F (TTG→TTT) | narU | nitrate/nitrite transporter |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base A (11/12); total (11/12) | |||||||||||
ACGGTAACTGCGCTAAATAGCATCCAGACACAGAA‑GGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCC‑AGTCGCG‑C‑AAAA‑GATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGAATTAAGGATGAATTGGGTGAAGTGCTGATTGAAAGA > NC_000913_3_pae_tpiA/1543888‑1544172 ||| aCGGTAACTGCGCTAAATAGCATCCAGACACAGAACACCCAGAGGT‑TACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCT‑AGTTGCGAA‑AAAA‑GATAAcagct > 1:295381/1‑146 (MQ=255) tAAATAGCATCCAGACACAGAA‑GGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCC‑AGTCGCG‑AAAAAA‑GATAACGACTATTTTTCTCAttt > 2:105857/1‑150 (MQ=255) aaTAGCATCCAGACACAGAA‑GGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCC‑AGTCGCG‑A‑AAAATGATAACGACTATTTTTCTCATTTTg < 2:500295/150‑1 (MQ=255) aTCCAGACACAGAA‑GGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTATTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCC‑AGTCGCGAA‑AAAA‑GATCACGACTCTTTTTCTCATTTTGCCGTGc > 2:152748/1‑150 (MQ=255) aGACACAGAA‑GGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCC‑AGTCGCGAA‑AAAA‑GATAACGACTATTTTTCTCATTTTGCAGTGCCata < 1:105857/150‑1 (MQ=255) aagaagTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCC‑AGTCGCGAA‑AAAA‑GATAACGACTATTTTTCTCATTTTGCa > 2:57497/1‑129 (MQ=255) aagaagTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCC‑AGTCGCGAA‑AAAA‑GATAACGACTATTTTTCTCATTTTGCa < 1:57497/129‑1 (MQ=255) aagaagTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCC‑AGTCGCGAA‑AAAA‑GATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACAt < 1:86679/150‑1 (MQ=255) agaagTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCC‑AGTCGCGAA‑AAAA‑GATAACGACTATTTTTCTCATTTTGCAGTGcc < 1:211107/133‑1 (MQ=255) agaagTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCC‑AGTCGCGAA‑AAAA‑GATAACGACTATTTTTCTCATTTTGCAGTGcc > 2:211107/1‑133 (MQ=255) agaagTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCC‑AGTCGCGAA‑AAAA‑GATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATg < 1:152748/150‑1 (MQ=255) agTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTAA‑AAAAAAAAA‑AAAA‑GATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGcac < 2:138498/150‑1 (MQ=255) actgaTATGCAGAGAGTGCTTCGAGCAATATGTTTTCCTTTATTTTCACAGAAGGCCGGATTTTTTGGTTTCCAAAAAAAA‑A‑AAAA‑GATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATg < 2:586261/150‑1 (MQ=255) actgaTATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCC‑AGTCGCGAA‑AAAA‑GATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATg > 1:354832/1‑150 (MQ=255) atatCCAGAGCTTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCC‑AGTCGCGAA‑AAAA‑GATAACGACTATTTTTCTCATTTTGCAGTGCCCTATTGTTCCTCACATGCACACATGGGTAATGaaaa > 1:173139/1‑150 (MQ=255) ttcaaacAATATGTCTTCCTTTACTTACCAACAAGGCCGGATTTTCTGGTTTCC‑AGTCGCGAA‑AAAA‑GATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGa < 1:110735/144‑1 (MQ=255) tttCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCC‑AGTCGCGAA‑AAAA‑GATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATa > 1:357117/1‑150 (MQ=255) tttCTGGTTTCC‑AGTCGCGAA‑AAAA‑GATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGc > 1:269593/1‑75 (MQ=255) tttCTGGTTTCC‑AGTCGCGAA‑AAAA‑GATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGc < 2:269593/75‑1 (MQ=255) ttCTGGTTTCC‑AGGCGCGAA‑AAAA‑GATAAAGAATATCATTTTAAATATCCATTTCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGAACTAGCCAGTCATTAGAACTACGGATGCAttcg < 2:568833/150‑3 (MQ=255) c‑AGTCGCGAA‑AAAA‑GATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGtt < 1:22870/54‑1 (MQ=255) c‑AGTCGCG‑AAAAAA‑GATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGtt > 2:22870/1‑54 (MQ=255) c‑AGTCGCG‑AAAAAA‑GATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGAATTAAGGATGAATTGGGTGAAGTGCt > 1:431512/1‑150 (MQ=255) gcgaaaaaa‑GATAACGACTATTTTTTTCATTTTGCAGTGACATATTGTTCCCCACATGCACACATTGGTAAAGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGAATTAAGGATGAATTGGGTGAAGTGCTGATTg < 2:322604/145‑1 (MQ=255) aaaa‑GATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGAATTAAGGATGAATTGGGTGAAGTGCTGATTGAAAGa < 1:548814/150‑1 (MQ=255) ||| ACGGTAACTGCGCTAAATAGCATCCAGACACAGAA‑GGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCC‑AGTCGCG‑C‑AAAA‑GATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGAATTAAGGATGAATTGGGTGAAGTGCTGATTGAAAGA > NC_000913_3_pae_tpiA/1543888‑1544172 |
| 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: ‑ |