| Predicted mutation | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | 1 | 1,484,245 | 2 bp→TT | coding (1194‑1195/1281 nt) | unknown → | Type II/IV secretion system ATP hydrolase TadA/VirB11/CpaF, TadA subfamily |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | 1 | 1,484,245 | 0 | A | T | 87.5% | 12.7 / ‑2.8 | 8 | G398G (GGA→GGT) | unknown | Type II/IV secretion system ATP hydrolase TadA/VirB11/CpaF, TadA subfamily |
| Reads supporting (aligned to +/- strand): ref base A (1/0); new base T (5/2); total (6/2) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
| * | 1 | 1,484,246 | 0 | C | T | 87.5% | 10.8 / ‑4.0 | 8 | L399L (CTA→TTA) | unknown | Type II/IV secretion system ATP hydrolase TadA/VirB11/CpaF, TadA subfamily |
| Reads supporting (aligned to +/- strand): ref base C (1/0); new base T (5/2); total (6/2) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.67e-01 | |||||||||||
GGTTATGATGTCGAATGCATCCCTACCGTTAGAGGCAATTCGCCGTAATATCTCTTCAGCAGTAAACATAATAGTGCAGGCGTCCCGTTTAAATGATGGTTCAAGAAAAATTATGAATATCACTGAGGTTATGGGAATGGAAAACGGTCAAATCGTTTTACAGGATATATTTTCCTATAAGGCAAGTAAATATCGTGATAAAGAGGGTAAAATTCTTGGTGAGTTTATTAATCACGGACTACTAACTCGTTCTGTTGTATTCCAAAATGCTCAAGTATTCAATCTGAGTGCTGAACTACAAAGTATCTTCGGAGAAGCTGAGTAATGAATTATTATTTGTATTATGCCGTCCTAACAATAGGTGGGCTGTTATTTATATATACCTTAAGTAGTTGGTTTTCCACTAAAAGAAAAATTAATGAGTATGATACCTCTGTAAGTAGAACAAC > 1/1484008‑1484456 || ggTTATGATGTCGAATGCATCCCTACCGTTGGAGGCAATTCGCCGTAATATTTCTTCAGCAGTAAACATAATAGTGCAGGCGTCCCGCTTAAACGATGGTTCAAGAAAAATTATGAATATCACTGAAGTTATGGGAATGGAAAACGGTCAAATCGTTTTGCAAGATATATTTTCCTATAAGGCAAGTAAATATCGTGATAAAGAGGGTAAAATTCTTGGCGAGTTTATTAATCACGGACTACTAAc > 1:507049/1‑246 (MQ=255) gggcAAATTGTTTTACAAGATATTTTTTCTTATAAGGCAAGTAAGTACCGTGATAAAGATGGCAAAATTATTGGTGAATTTGTTAACCATGGTTTATTAACTCGCTCTGCTGTTTTCCAAAATGCTCAAGTATTTAATCTGAGTACTGAGTTACAAAGTATTTTCGGAGAAGCTGAGTGATGAGCCATTATTTATATTATGCCGTCCTTACAATAGGTGGACTATTATTTATATATACCTTAAGTAGTTgg > 1:322659/4‑251 (MQ=255) aaGGCAAGTAAGTACCGTGATAAAGATGGCAAAATTATTGGTGAATTTGTTAACCATGGTTTATTAACTCGCTCTGCTGTTTTCCAAAATGCTCAAGTATTTAATCTGAGTACTGAGTTACAAAGTATTTTCGGAGAAGCTGAGTGATGAGCCATTATTTATATTATGCCGTCCTTACAATAGGTGGACTATTATTTATATATACCTTAAGTAGTTGGTTTTCTACTAAAAGAAAAATTAATGAGTATGAt < 1:604769/251‑1 (MQ=255) aGGCAAGTAAGTACCGTGATAAAGATGGCAAAATTATTGGTGAATTTGTTAACCATGGTTTATTAACTTGCTCTGCTGTTTTCCAAAATGCTCAAGTATTTAATCTGAGTACTGAGTTACAAAGTATTTTCGGAGAAGCTGAGTGATGAGCCATTATTTATATTATGCCGTCCTTACAATAGGTGGACTATTATTTATATATACCTTAAGTAGTTGGTTTTCTACTAAAAGAAAAATTAATGAGTATGATa > 1:699117/1‑251 (MQ=255) gCAAGTAAGTACCGTGATAAAGATGGCAAAATTATTGGTGAATTTGTTAACCATGGTTTATTAACTCGCTCTGCTGTTTTCCAAAATGCTCAAGTATTTAATCTGAGTACTGAGTTACAAAGTATTTTCGGAGAAGCTGAGTGATGAGCCATTATTTATATTATGCCGTCCTTACAATAGGTGGACTATTATTTATATATACCTTAAGTAGTTGGTTTTCTACTAAAAGAAAAATTAATGAGTATGATAc > 1:818760/1‑250 (MQ=255) agtaagtaCCGTGATAAAGATGGCAAAATTATTGGTGAATTTGTTAACCATGGTTTATTAACTCGCTCTGCTGTTTTCCAAAATGCTCAAGTATTTAATCTGAGTACTGAGTTACAAAGTATTTTCGGAGAAGCTGAGTGATGAGCCATTATTTATATTATGCCGTCCTTACAATAGGTGGACTATTATTTATATATACCTTAAGTAGTTGGTTTTCTACTAAAAGAAAAATTAATg > 1:549885/1‑237 (MQ=255) cGTGATAAAGATGGCAAAATTATTGGTGAATTTGTTAACCATGGTTTATTAACTCGCTCTGCTGTTTTCCAAAATGCTCAAGTATTTAATCTGAGTACTGAGTTACAAAGTATTTTCGGAGAAGCTGAGTGATGAGCCATTATTTATATTATGCCGTCCTTACAATAGGTGGACTATTATTTATATATACCTTAAGTAGTTGGTTTTCTACTAAAAGAAAAATTAATGAGTATGAt > 1:794038/1‑236 (MQ=255) tAAAGATGGCAAAATTATTGGTGAATTTGTTAACCATGGTTTATTAACTCGCTCTGCTGTTTTCCAAAATGCTCAAGTATTTAATCTGAGTACTGAGTTACAAAGTATTTTCGGAGAAGCTGAGTGATGAGCCATTATTTATATTATGCCGTCCTTACAATAGGTGGACTATTATTTATATATACCTTAAGTAGTTGGTTTTCTACTAAAAGAAAAATTAATGAGTATGATACCTCTATAAGTAGgacaac < 1:538473/251‑1 (MQ=255) || GGTTATGATGTCGAATGCATCCCTACCGTTAGAGGCAATTCGCCGTAATATCTCTTCAGCAGTAAACATAATAGTGCAGGCGTCCCGTTTAAATGATGGTTCAAGAAAAATTATGAATATCACTGAGGTTATGGGAATGGAAAACGGTCAAATCGTTTTACAGGATATATTTTCCTATAAGGCAAGTAAATATCGTGATAAAGAGGGTAAAATTCTTGGTGAGTTTATTAATCACGGACTACTAACTCGTTCTGTTGTATTCCAAAATGCTCAAGTATTCAATCTGAGTGCTGAACTACAAAGTATCTTCGGAGAAGCTGAGTAATGAATTATTATTTGTATTATGCCGTCCTAACAATAGGTGGGCTGTTATTTATATATACCTTAAGTAGTTGGTTTTCCACTAAAAGAAAAATTAATGAGTATGATACCTCTGTAAGTAGAACAAC > 1/1484008‑1484456 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 17 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |