| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 1,460,356 | T→C | 10.7% | pseudogene (708/2513 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP009273 | 1,460,356 | 0 | T | C | 10.7% | 1646.5 / 110.0 | 556 | pseudogene (708/2513 nt) | ydbA | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| Reads supporting (aligned to +/- strand): ref base T (330/149); new base C (7/51); total (355/201) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 3.44e-17 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
Only 100 of 588 total aligned reads displayed.
ACGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGACGGCGATCTGGAT > CP009273/1460289‑1460422 | aCGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGt > 1:27611603/1‑68 (MQ=255)aCGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGt > 1:10754813/1‑68 (MQ=255)aCGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGt > 1:30619191/1‑68 (MQ=255)aCGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGt > 1:18865028/1‑68 (MQ=255)aCGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGt > 1:17867061/1‑68 (MQ=255) ggTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTaa > 1:31726405/1‑68 (MQ=255) ggTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTaa > 1:21854644/1‑68 (MQ=255) ggTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTaa > 1:4109768/1‑68 (MQ=255) gAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAg < 1:28844640/67‑1 (MQ=255) gAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGa > 1:25221277/1‑68 (MQ=255) gAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGa < 1:2063721/68‑1 (MQ=255) aGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGCAAGGa < 1:20129470/67‑1 (MQ=255) gCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGAAAAGAt > 1:29877553/1‑67 (MQ=255) tGTTATTACGGGTGATCATGCCACTGTAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCa < 1:26940564/68‑1 (MQ=14) tGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTcc > 1:6983637/1‑67 (MQ=255) tGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGCaa > 1:3085368/1‑60 (MQ=255) tattaCGGGTGATTATGCCACTGTAAACAACAATGGCAAAACCACCGTTGACGGCAAGGATTCCAcc < 1:15754474/67‑1 (MQ=17) attaCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCgg > 1:7239387/1‑68 (MQ=255) attaCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCgg > 1:8074361/1‑68 (MQ=255) attaCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCgg > 1:19559593/1‑68 (MQ=255) attaCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCgg > 1:31816483/1‑68 (MQ=255) attaCGGGTGATAATGCCACAGTAAACAACAAAGGCAAAACCACCGTTGACGGCaagg < 1:12335454/58‑3 (MQ=18) ttaCTGGTGATTATGCCACAGTAAACAACAAAGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGt < 1:2318303/68‑1 (MQ=11) ttaCTGGTGATAAAGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGt < 1:27887832/68‑1 (MQ=14) ttaCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGt < 1:15438300/68‑1 (MQ=255) ttaCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGt < 1:22274863/68‑1 (MQ=255) ttaCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGt < 1:8533435/68‑1 (MQ=255) ttaCGGGTGATAATGCCACAGTAAACAACAAAGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGt < 1:25565521/68‑1 (MQ=17) aCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACGGGTa > 1:10050123/1‑67 (MQ=255) aCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTAc > 1:11497108/1‑68 (MQ=255) aCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTAc > 1:8749068/1‑68 (MQ=255) aCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTAc > 1:30499183/1‑68 (MQ=255) aCGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTAc > 1:16561072/1‑68 (MQ=255) cGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTa > 1:8607070/1‑66 (MQ=255) cGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACg > 1:4300195/1‑68 (MQ=255) cGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACg > 1:30153845/1‑68 (MQ=255) gggTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACgg > 1:18701705/1‑68 (MQ=255) ggTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGa > 1:32093484/1‑68 (MQ=255) ggTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGGAAAGATTCCACCGGTACGGa > 1:31100896/1‑68 (MQ=255) gTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGa < 1:7733936/67‑1 (MQ=255) gTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGa < 1:17381278/67‑1 (MQ=255) gTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGa < 1:16956924/67‑1 (MQ=255) gTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGa < 1:24182529/67‑1 (MQ=255) gATAAAGCCACAGGAAACAACAAAGGCAAAACCACCGTTGACGGGAATGATTCCACCGGTACGGaaa < 1:27233836/67‑1 (MQ=14) aTAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATc > 1:1107638/1‑68 (MQ=255) aTGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCTACCGGTACGGAAATCAAc > 1:23084204/1‑68 (MQ=255) aTGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAAc > 1:27417905/1‑68 (MQ=255) tGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACg < 1:26852662/68‑1 (MQ=255) gCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACgg < 1:19775878/68‑1 (MQ=255) gCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACgg > 1:4764780/1‑68 (MQ=255) gCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACgg < 1:5284015/68‑1 (MQ=255) ccACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGaa > 1:11760888/1‑59 (MQ=255) ccACAGTAAACAACAATGGCAAAACCACCGTTGACGGCAAGGATTCCAc > 1:9244902/1‑49 (MQ=11) cacaGTAAACAACAATGGGAATACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGta < 1:3159195/68‑1 (MQ=255) acaGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGtaa > 1:8407812/1‑68 (MQ=255) acaGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGtaa > 1:26233466/1‑68 (MQ=255) acaGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGtaa < 1:23819248/68‑1 (MQ=255) acaGTAAACAACAATGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACgg > 1:24058030/1‑55 (MQ=11) aGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGtaata > 1:18352609/1‑68 (MQ=255) aGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGtaata > 1:20992081/1‑68 (MQ=255) aaaCAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGtaata < 1:5644204/65‑1 (MQ=255) aaaCAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGtaata < 1:16240359/65‑1 (MQ=255) aaaCAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAAc < 1:9593824/67‑1 (MQ=255) aaaCAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACg > 1:5115096/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAATGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa < 1:193828/68‑1 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGaa > 1:10145924/1‑47 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa > 1:25984828/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa < 1:2449163/68‑1 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGTaaa > 1:13005522/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:29750324/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:14010577/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:14759019/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:15006950/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:13808493/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:13324703/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:18115180/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:29330012/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:29486292/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:20813393/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:21344819/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:8905862/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:22746618/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:23468946/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:23632498/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa < 1:24818586/68‑1 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:10251526/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGaaa > 1:28563645/1‑68 (MQ=255) acaaTGGCAAAACCACCGTTGACGGGAAAGATTCCACCGGTACGGAAATCAAGGGTAATAACGGGaaa > 1:6221220/1‑68 (MQ=14) aaTGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGt > 1:2155726/1‑68 (MQ=255) ggCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGAt < 1:12134236/68‑1 (MQ=255) ggCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGAt < 1:28248698/68‑1 (MQ=255) ggCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGAt < 1:6517406/68‑1 (MQ=255) ggCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGAt < 1:6057623/68‑1 (MQ=255) ggCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGAt > 1:3502936/1‑68 (MQ=255) ggCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGCAATAACGGGAAAGTGAt < 1:3851579/68‑1 (MQ=255) cAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTc > 1:25039016/1‑68 (MQ=255) aaCCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAgg < 1:12671174/68‑1 (MQ=255) accaccGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAgg > 1:26508974/1‑67 (MQ=255) ccaccGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGAc > 1:7461584/1‑68 (MQ=255) caccGTTGACGGTAAAGATTCCACCGGTACGGAAATAAACGGTAATAACGGGAAAGTGATTCAGGACg > 1:18546017/1‑68 (MQ=255) | ACGGTGAGCTTGTTATTACGGGTGATAATGCCACAGTAAACAACAATGGCAAAACCACCGTTGACGGTAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGGAAAGTGATTCAGGACGGCGATCTGGAT > CP009273/1460289‑1460422 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |