| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 104,041 | G→T | 13.1% | intergenic (+80/‑151) | lpxC → / → secM | UDP‑3‑O‑acyl N‑acetylglucosamine deacetylase/regulator of secA translation |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP009273 | 104,041 | 0 | G | T | 13.1% | 1558.3 / 82.9 | 560 | intergenic (+80/‑151) | lpxC/secM | UDP‑3‑O‑acyl N‑acetylglucosamine deacetylase/regulator of secA translation |
| Reads supporting (aligned to +/- strand): ref base G (153/329); new base T (76/2); total (229/331) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 6.80e-31 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
Only 100 of 612 total aligned reads displayed.
TGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTAT > CP009273/103974‑104108 | tGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TGTTTTTTTg > 1:19447124/1‑68 (MQ=255)tGTCGTAAAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TGTTTTTTTg > 1:11254907/1‑68 (MQ=255) cGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAAt > 1:22227684/1‑68 (MQ=255) cGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAAt < 1:38227711/68‑1 (MQ=255) gTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAAtt < 1:39770785/68‑1 (MQ=255) gTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAAtt < 1:40789661/68‑1 (MQ=255) gTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAAtt < 1:36039765/68‑1 (MQ=255) ataAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTTAAtttt > 1:6404244/1‑68 (MQ=255) ataAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAAtttt < 1:18002661/68‑1 (MQ=255) ataAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAAtttt < 1:4927412/68‑1 (MQ=255) taAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTta < 1:2799636/68‑1 (MQ=255) aaaaTTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTtttattttat > 1:50700906/1‑68 (MQ=255) aaaaTTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTTTAtttttt > 1:31283581/1‑66 (MQ=255) aaaaTTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTTAAtttttt > 1:5133948/1‑66 (MQ=255) aaaaTTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTTAAtttttt > 1:4613181/1‑66 (MQ=255) aaaaTTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGTATTTtat > 1:16761297/1‑68 (MQ=255) aaaaTTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTtat > 1:14445102/1‑68 (MQ=255) aaaaTTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTtat > 1:45631472/1‑68 (MQ=255) aaaaTTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTtat > 1:28770382/1‑68 (MQ=255) aaaaTTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTtat > 1:8589828/1‑68 (MQ=255) aaaaTTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTtat > 1:10885260/1‑68 (MQ=255) aaaaTTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TGTTTTTTTGAAtttttt > 1:49723477/1‑66 (MQ=255) aaaaTTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TGTTTTTTTGAAtttttt > 1:40254278/1‑66 (MQ=255) aTTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TGGTTTTTTTTATTTTTTAag > 1:42827932/1‑68 (MQ=255) ttCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAaga < 1:1996125/68‑1 (MQ=255) cGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGc < 1:27078065/68‑1 (MQ=255) aCTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TGTTTTTTTTAATTTTATTACAGCta > 1:5613856/1‑68 (MQ=255) aCTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TGTTTTTTTGTATTTTTTTAGAGCta > 1:7424091/1‑68 (MQ=255) aCTGGCAAATCTGGCACTCACTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGTATTTTAAAAGAGcaa > 1:48734300/1‑66 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:41372441/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:39151644/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:47973470/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:345443/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:33613461/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:9244375/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:32852290/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:22938748/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:23449760/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:20510420/68‑1 (MQ=255) taaTGTGGCACTCTGTCCGGCCAGGTGAACCAGTGG‑TTTTTTTTTGAATTTTATAAGAGCTATaaaaa < 1:24033926/67‑1 (MQ=255) ggCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTg < 1:25352584/68‑1 (MQ=255) aCTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTTAATTTTTTAATAGCTATAAAAAACCGTGCGa > 1:4264748/1‑68 (MQ=255) aCTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGa > 1:15638822/1‑68 (MQ=255) aCTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGa > 1:37911331/1‑68 (MQ=255) tctcCGGCCTGGTGAACCAGTCG‑‑‑TTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTg < 1:41897674/68‑1 (MQ=255) ctcCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAAc > 1:47621250/1‑65 (MQ=255) ctcCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCt < 1:5987831/68‑1 (MQ=255) ccGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGt < 1:6851513/68‑1 (MQ=255) ccGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGt < 1:35699602/68‑1 (MQ=255) ccGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGt < 1:3400519/68‑1 (MQ=255) ccGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGt < 1:2237863/68‑1 (MQ=255) ccGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGt < 1:2111768/68‑1 (MQ=255) ccGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGt < 1:3227658/68‑1 (MQ=255) ccGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGt < 1:3006909/68‑1 (MQ=255) ccGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGt < 1:26752833/68‑1 (MQ=255) ggCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGttt < 1:37271756/68‑1 (MQ=255) gCCAGGTGAACCAGTCG‑TTTTTTTTTTAATTTTATAATAGCTATAAAAAAAGGTGCGAACGCTGtttt > 1:187306/1‑68 (MQ=255) gCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTTTAAGAGCTATAAAAAACGGTGCGAACGCTGtttt > 1:36212528/1‑68 (MQ=255) gCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTTTAAGAGCTATAAAAAACGGTGCGAACGCGGtttt > 1:10504088/1‑68 (MQ=255) gCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGtttt > 1:24297320/1‑68 (MQ=255) gCCAGGTGAACCAGTCG‑TGTTTTTTTTTATTTTTTAAGAGCTATAAAAAAAGGTGCGAACGCGGtttt > 1:10133147/1‑68 (MQ=255) gCCAGGTGAACCAGTCG‑TGTTTTTTTTAATTTTTTAAAAGCGATAAAAAAAAGTGGGAACGCTGtttt > 1:47062362/1‑68 (MQ=255) ccAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGtttt < 1:29017755/67‑1 (MQ=255) cAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCt < 1:32000114/68‑1 (MQ=255) cAGGTGAACCAGTCG‑TTTTTTTTTGAAATTTATAAGAGCTATAAAAAACCGGGCGAACGCGGttttgt > 1:14961382/1‑66 (MQ=255) ggTGAACCAGTCG‑TTTTTTTTTGAATTTTTTTATAGCTTTAAAAAACGGTGCGCACGGTGGTTTGTTa > 1:17486087/1‑68 (MQ=255) ggTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTa > 1:24769327/1‑68 (MQ=255) tGAACCAGTCG‑TTTTTTTTTTAATTTTATAAAAGCTATAAAAAAACGTGCGAACGCTGTTTTTTTaat > 1:26337628/1‑67 (MQ=255) tGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCGATAAAAAACCGTGCGAACGCTGTTTTATTaa > 1:37712994/1‑67 (MQ=255) ccAGTCG‑TTTTTTTTTTAATTTTATAAGAGCTATAAAAAACCGTGCGAACGCGGTTTTGTTAAGCAca > 1:21989147/1‑67 (MQ=255) ccAGTCG‑TTTTTTTTTTAAATTTATAATAGCTATAAAAAACCGGGCGAACCCTGTTTTATTAAGCAca > 1:27448342/1‑67 (MQ=255) ccAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCAca > 1:45062852/1‑67 (MQ=255) ccAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACt < 1:7890313/68‑1 (MQ=255) ccAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACt < 1:46284573/68‑1 (MQ=255) ccAGTCG‑TGTTTTTTTGTATTTTATAAGAGCTATTAAAAACGGTGCGAACGCTGTTTTGTTTAGccca > 1:2022335/1‑65 (MQ=255) cAGTCGTTTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACt < 1:36806172/68‑1 (MQ=255) cG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACttt < 1:16345300/65‑1 (MQ=255) cG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTcc < 1:44678170/68‑1 (MQ=255) cG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTcc < 1:22545658/68‑1 (MQ=255) ttttttttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGca < 1:29413034/68‑1 (MQ=255) ttttttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGcaca > 1:48618351/1‑68 (MQ=255) ttttttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGcaca < 1:13713706/68‑1 (MQ=255) ttttttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGcaca > 1:4671073/1‑68 (MQ=255) ttttttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGcaca < 1:18946879/68‑1 (MQ=255) ttttttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGcaca < 1:21594059/68‑1 (MQ=255) ttttttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGcaca < 1:8902513/68‑1 (MQ=255) ttttttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGcaca < 1:23920163/68‑1 (MQ=255) ttttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAAc < 1:12713977/68‑1 (MQ=255) ttttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAAc < 1:8421691/68‑1 (MQ=255) ttttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAAc < 1:25691490/68‑1 (MQ=255) ttttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAAc < 1:13309874/68‑1 (MQ=255) ttttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAAc < 1:17112593/68‑1 (MQ=255) ttttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAAc < 1:33143742/68‑1 (MQ=255) ttttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCGGTTTTCTTAAGCACTTTTCCGCACAAc < 1:30413006/68‑1 (MQ=255) tttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACt < 1:4388107/68‑1 (MQ=255) tttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACt < 1:11527035/68‑1 (MQ=255) tttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACt < 1:35150562/68‑1 (MQ=255) gAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTAt < 1:43192751/68‑1 (MQ=255) gAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTAt < 1:12271654/68‑1 (MQ=255) gAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTAt < 1:38820065/68‑1 (MQ=255) | TGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTAT > CP009273/103974‑104108 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |