| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 1,460,653 | G→T | 13.5% | pseudogene (1005/2513 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 | 1,460,653 | 0 | G | T | 13.5% | 732.0 / 10.2 | 298 | pseudogene (1005/2513 nt) | ydbA | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| Reads supporting (aligned to +/- strand): ref base G (133/99); new base T (3/42); total (137/161) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 4.77e-11 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
Only 100 of 310 total aligned reads displayed.
CCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGATCTGGATGTCA > CP009273/1460586‑1460720 | ccggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAg > 1:33966982/1‑68 (MQ=40) cggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAgg < 1:1064691/68‑1 (MQ=40) cggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAgg < 1:34866303/68‑1 (MQ=40) cggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAgg < 1:6807081/68‑1 (MQ=40) ggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGa < 1:21170936/68‑1 (MQ=40) accCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGAtt < 1:19465986/67‑1 (MQ=40) ccAGATTAATGGTGATGACGCCACGGCCAACAACAGGGGCCAACCCACAGTTGACGGCAAGGATTcc > 1:2341826/1‑67 (MQ=11) ccAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTcc > 1:5687515/1‑67 (MQ=37) gATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCg > 1:12575940/1‑68 (MQ=35) gATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCg > 1:5533988/1‑68 (MQ=35) gATTAATGGTGATGACGCCACGGCAAAAAACAACGGAAAAACCACCGTTGAAGGAAAGGATTCCACCg > 1:36592050/1‑68 (MQ=11) ttACTGGTGATGACGCCACTGCAAACAACAAAGGCAAAACCACCGTTGACGGCAAGGATTCCACCgg < 1:38368233/67‑1 (MQ=11) ttAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGt < 1:32119421/68‑1 (MQ=35) ttAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGt > 1:17013330/1‑68 (MQ=35) ttAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGt < 1:14224835/68‑1 (MQ=35) ttAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGt < 1:8736093/68‑1 (MQ=35) aTGGTGATGACGCCACGGCAAACAACAAGGGAAAAAACAAAGTTGACGGAAATGAATCCACCGGTAc > 1:34604902/1‑67 (MQ=11) aTGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCa > 1:4507513/1‑60 (MQ=33) aTGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACg > 1:17176809/1‑68 (MQ=33) aTGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACg > 1:31181661/1‑68 (MQ=33) tgaCGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCa < 1:3739301/68‑1 (MQ=33) aCGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAAc > 1:32480831/1‑68 (MQ=37) aCGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAAc > 1:33539930/1‑68 (MQ=37) aCGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAAc > 1:26472207/1‑68 (MQ=37) tgCCACTGAAAACAACAATGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACg < 1:27422016/67‑1 (MQ=11) cGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATGAACg > 1:6492899/1‑68 (MQ=18) cGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACg > 1:20568881/1‑68 (MQ=39) cGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATAAACg > 1:6973842/1‑68 (MQ=18) gCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACgg < 1:34237610/68‑1 (MQ=40) cACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGta < 1:19788879/68‑1 (MQ=255) gCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCACCGGgaata > 1:1888522/1‑67 (MQ=255) gCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGtaata > 1:11224078/1‑67 (MQ=255) aaaCAACAATGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACg < 1:1843423/68‑1 (MQ=25) aaaCAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTTCGGAAATCGACGGGAATAACg > 1:8337173/1‑68 (MQ=14) aaaCAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACg < 1:35851970/68‑1 (MQ=255) acaacaatGGCAAAACCACCGTTGACGGCAATGATTCCACCGGTACGGAAATCAACGGTAATAACGGa < 1:16488114/68‑1 (MQ=255) acaacaacGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGa > 1:14741016/1‑68 (MQ=255) acaatGGCAAAACCACCGTTGACGGCAATGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa < 1:8559777/68‑1 (MQ=255) acaatGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa < 1:28224350/68‑1 (MQ=255) acaatGGCAAAACCACCGTTGACGGCAACGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa < 1:15709739/68‑1 (MQ=255) acaacGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCCCCGGGAATAACGGcaat > 1:12193647/1‑67 (MQ=11) acaacGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa > 1:10889589/1‑68 (MQ=255) acaacGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa < 1:15509962/68‑1 (MQ=255) acaacGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa < 1:32696296/68‑1 (MQ=255) acaacGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa < 1:26941345/68‑1 (MQ=255) acaacGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa > 1:9047046/1‑68 (MQ=255) acaacGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATAACCGGTAATAACGGaaaa > 1:29611308/1‑68 (MQ=255) acaacGGCAAAACCACCGGTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa < 1:31838885/68‑1 (MQ=255) acaaaGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa < 1:17709583/68‑1 (MQ=255) caacGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAg < 1:36162587/68‑1 (MQ=255) aacGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGt > 1:13006375/1‑68 (MQ=255) aacGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGt < 1:10394027/68‑1 (MQ=255) atggCAAAACCACCGTTGACGGCAACGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGtt < 1:4037775/66‑1 (MQ=255) acGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGGAATAACGGAAAAGtt > 1:25674155/1‑68 (MQ=255) ggCAAAACCACCGTTGACGGCAATGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTAt < 1:24654604/68‑1 (MQ=255) ggCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCTACGGTAATAACGGAAAAGTTAt > 1:27849801/1‑68 (MQ=255) ggCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTAt < 1:20912342/68‑1 (MQ=255) ggCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTAt > 1:33745527/1‑68 (MQ=255) ggCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTAt > 1:25439448/1‑68 (MQ=255) ggCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTAt < 1:1491506/68‑1 (MQ=255) ggCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATAAAAGGTAATAACGGAAAAGTTAt > 1:4961363/1‑68 (MQ=255) ggCAAAACCACCGTTGACGGCAACGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTAt < 1:10252645/68‑1 (MQ=255) cAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTc > 1:32196975/1‑68 (MQ=255) aaaaCCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTc < 1:3819059/67‑1 (MQ=255) aaCCACCGTTGACGGTAATGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAgg < 1:6225240/68‑1 (MQ=255) aaCCACCGTTGACGGCAATGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAgg < 1:25017237/68‑1 (MQ=255) aaCCACCGTTGACGGCAATGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAgg < 1:10025869/68‑1 (MQ=255) aaCCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAgg < 1:38840250/68‑1 (MQ=255) aaCCACCGTTGACGGAAATGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAgg < 1:32976117/68‑1 (MQ=255) accaccGTTGACGGCAAGGATTCCACCGGTACGGAAATCAAGGGTAATAACGGAAAAGTTATTCAgg > 1:22636977/1‑67 (MQ=255) accaccGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAgg > 1:6733676/1‑67 (MQ=255) accaccGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAgg > 1:20690586/1‑67 (MQ=255) accaccGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAgg > 1:21650571/1‑67 (MQ=255) accaccGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGGAATAACGGAAAAGTTATTCAgg > 1:26329581/1‑67 (MQ=255) ccaccGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGAc < 1:30383954/68‑1 (MQ=255) ccaccGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGAc > 1:17390768/1‑68 (MQ=255) ccaccGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGAc > 1:35588321/1‑68 (MQ=255) ccaccGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGAc > 1:27051608/1‑68 (MQ=255) caccGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGAAATAACGGAAAAGTTATTAAGCACg > 1:27934180/1‑68 (MQ=17) accGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGT‑ATAACGGAAAAGTTATTCAGGACGGc < 1:36278292/68‑1 (MQ=255) ccGTTGACGGCAATGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGc < 1:7871046/68‑1 (MQ=255) ccGTTGACGGCAATGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGc < 1:17903271/68‑1 (MQ=255) ccGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGc < 1:1192691/68‑1 (MQ=255) ccGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGc < 1:29121315/68‑1 (MQ=255) ccGTTGACGGCAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGc < 1:23034031/68‑1 (MQ=255) gTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGa < 1:22275026/68‑1 (MQ=255) ttGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAgg < 1:13727029/60‑1 (MQ=255) tGACGGTAACGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGAt < 1:13356208/67‑1 (MQ=255) tGACGGCAATGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGAt < 1:15157804/67‑1 (MQ=255) tGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGa > 1:19124368/1‑66 (MQ=255) tGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGAt < 1:5895094/67‑1 (MQ=255) tGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGAt < 1:7204477/67‑1 (MQ=255) tGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGAt < 1:1808571/67‑1 (MQ=255) tGACGGCAAGGATTCCACCGGTACGGAAATAAACGGGAATAACGGAAAAGTTATTCAGGACGGCGa > 1:20410170/1‑66 (MQ=17) tGACGGCAACGATTCCACCGGTACGGAAAGCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGAt < 1:14392040/67‑1 (MQ=255) gACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGATCt < 1:23665898/68‑1 (MQ=255) cGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGATCTgg < 1:11704327/68‑1 (MQ=255) cGGAAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGATCTgg < 1:9266306/68‑1 (MQ=255) gCAAGGATTCCACCGGTACGGAAATCCACGGTAATAACGGAAAAGTAAATAAGGACGGCGAACTGGAt > 1:17548039/1‑68 (MQ=14) gCAAGGATTACACCGGTACGGAAATCAACGGAAATAACGGCAATGTTATTCAGGACGGAGATATTGAt > 1:4683019/1‑68 (MQ=14) | CCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGATCTGGATGTCA > CP009273/1460586‑1460720 |
| 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: ‑ |