| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 3,774,505 | C→G | 6.7% | intergenic (+128/‑70) | lldD → / → trmL | L‑lactate dehydrogenase, FMN‑linked/tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP009273 | 3,774,505 | 0 | C | G | 6.7% | 3351.4 / 44.3 | 968 | intergenic (+128/‑70) | lldD/trmL | L‑lactate dehydrogenase, FMN‑linked/tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent |
| Reads supporting (aligned to +/- strand): ref base C (783/104); new base G (3/76); total (787/181) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 0.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
Only 100 of 1014 total aligned reads displayed.
ATGTACTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGTGAGGGGAAAAGGCCGCACTGCTCACCAATTTTCTGCTATCCTGCCCCCGCACTAAGGGGGC > CP009273/3774438‑3774571 | atgtaCTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGcc > 1:21816288/1‑68 (MQ=255)atgtaCTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGcc > 1:32379429/1‑68 (MQ=255)atgtaCTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGcc > 1:32134847/1‑68 (MQ=255) gtaCTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCgg > 1:6941901/1‑68 (MQ=255) gtaCTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCgg > 1:12164806/1‑68 (MQ=255) taCTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCggg > 1:33971217/1‑68 (MQ=255) taCTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCggg > 1:7606219/1‑68 (MQ=255) taCTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCggg > 1:24861247/1‑68 (MQ=255) taCTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCggg > 1:19387777/1‑68 (MQ=255) aCTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCgggg < 1:18066531/68‑1 (MQ=255) aCTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCgggg > 1:27996449/1‑68 (MQ=255) aCTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCggg < 1:1753652/67‑1 (MQ=255) aCTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCggg < 1:14951585/67‑1 (MQ=255) cTCCCTCACTCTGAAACGACACCGCCCTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGt > 1:16410734/1‑68 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCggggg > 1:18454189/1‑67 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGt > 1:24429140/1‑68 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGt > 1:25706853/1‑68 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGt > 1:22447789/1‑68 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGt > 1:24215317/1‑68 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGt > 1:6059008/1‑68 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGt > 1:23969910/1‑68 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGt > 1:26178001/1‑68 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGt > 1:26665910/1‑68 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGt > 1:27753722/1‑68 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGt > 1:29879441/1‑68 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGt > 1:39635503/1‑68 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGt > 1:3105513/1‑68 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGt > 1:31343544/1‑68 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGt > 1:31613500/1‑68 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGt > 1:33755694/1‑68 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGt > 1:35087968/1‑68 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGt > 1:36535980/1‑68 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGt > 1:37333856/1‑68 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGt > 1:8016752/1‑68 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGt > 1:10771775/1‑68 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGt > 1:11105389/1‑68 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGt > 1:11492187/1‑68 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGt > 1:12821134/1‑68 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGt > 1:13440282/1‑68 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGt > 1:8657570/1‑68 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGt > 1:15158914/1‑68 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGt > 1:17003792/1‑68 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGt > 1:17211075/1‑68 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGt > 1:17729732/1‑68 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGt > 1:19884028/1‑68 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGt > 1:1888634/1‑68 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGt > 1:7291540/1‑68 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCC‑CCGGGGAGAGGGCCGGGGTg > 1:20422425/1‑68 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCATCGCCCCTCCGGGGAGAGGGCCGGGGt > 1:33319438/1‑68 (MQ=255) cTCCCTCACTCTGAAACGACACCGCACTCTTTTTT‑‑TCCCTCGCCCCTCCGGGGAGAGGGCCGGGGTGa < 1:15827259/68‑1 (MQ=37) cTCCCTCACTCTGAAACGACACCGCACTCTTTCTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGt > 1:13238981/1‑68 (MQ=255) cTCCCTCACTCTGAAAAGACACCGCACTCTTTTTTTCTCCCTCCCCCCTCCGGGGAGAGGGCCGGGGt > 1:6708688/1‑68 (MQ=38) cccTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGTGa > 1:22798184/1‑68 (MQ=255) cccTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGTGa > 1:6351433/1‑68 (MQ=255) cccTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGTGa > 1:38006667/1‑68 (MQ=255) cccTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGTGa > 1:5303480/1‑68 (MQ=255) cccTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGTGa > 1:29701602/1‑68 (MQ=255) cTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGTGAgg < 1:13860240/68‑1 (MQ=255) cTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGTGAgg < 1:20917240/68‑1 (MQ=255) cTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGTGAgg < 1:4170218/68‑1 (MQ=255) tCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGTGAggg > 1:385300/1‑68 (MQ=255) tctGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGTGAGGGGaaa > 1:29358887/1‑68 (MQ=255) ctGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGTGAGGGGaaaa > 1:36030481/1‑68 (MQ=255) ccccACTATTTTTTTCCCCCGCCCCCCTCCGGGGCGCGGGCGGGGGTGAGGGGAAAAGGCCGCACTGc < 1:26967319/65‑1 (MQ=21) ccGCATTTTTTTTTGCCCCCCCCCCCCGGGGGGGCGGGGGGGGGGGTGGGGGCACAAGGCCGCACTGc < 1:14551704/68‑1 (MQ=255) ccGCACTGTTTTTTTCTCCCCCCCCCCGCGGGGTCTCGGGGCGGGGTGTGGGTAAAAGGCCGCACTGc < 1:27355089/68‑1 (MQ=255) aCTCTTTTTTCCCCCCGCCCCCCCCGGGGGAGTGGGCGGGGGTGTGGGTAAAAGGCCGCACTGCTCa < 1:9199959/67‑1 (MQ=255) tctcCCTCGCCCCTCCGGGGAGAGGGCCGGGGTGAGGGGAAAAGGCCGCa > 1:25353781/1‑50 (MQ=255) tctcCCTCGCCCCTCCGGGGAGAGGGCCGGGGTGAGGGGAAAAGGCCGCACTGCTCACCAATTTTCt > 1:31800956/1‑67 (MQ=255) tctcCCTCGCCCCTCCGGGGAGAGGGCCGGGGTGAGGGGAAAAGGCCGCACTGCTCACCAATTTTCt > 1:32770046/1‑67 (MQ=255) tctcCCTCGCCCCTCCGGGGAGAGGGCCGGGGTGAGGGGAAAAGGCCGCACTGCTCACCAATTTTCt > 1:37530319/1‑67 (MQ=255) tctcCCTCGCCCCTCCGGGGAGAGGGCCGGGGTGAGGGGAAAAGGCCGCACTGCTCACCAATTTTCTg > 1:5631060/1‑68 (MQ=255) tctcCCTCGCCCCTCCGGGGAGAGGGCCGGGGTGAGGGGAAAAGGCCGCACTGCTCACCAAGTTTCt > 1:30743390/1‑67 (MQ=255) tctcCCTCGCCCCTCCGGGGAGAGGGCCGGGGGGAGGGGAAAAGGCCGCACTGCTCACCAATTTTCt > 1:34466761/1‑67 (MQ=255) tcCCTCGCCCCTCCGGGGAGAGGGCCGGGGTGAGGGGAAAAGGCCGCACTGCTCACCAATTTTCTGCt > 1:28497336/1‑68 (MQ=255) ccTCCCCCCCCGGGGGAGGGGGGGGGGGTGTGGGGAAAAGGCCGCACTGCTCACCAATTTTCTGCTAt < 1:35340191/68‑1 (MQ=255) ccccTCCGGGGAGAGGGCCGGGGTGAGGGGAAAAGGCCGCACTGCTCACCAATTTTCTGCTATCCTg > 1:836053/1‑67 (MQ=255) ccccTCCGGGGAGAGGGCCGGGGTGAGGGGAAAAGGCCGCACTGCTCACCAATTTTCTGCTATCCTg > 1:23033428/1‑67 (MQ=255) cccTGCGGGGCGTGGGCGGGGGTGCGGGCAAAAGGCCGCACTGCTCACCAATTTTCTGCTATCCTGcc < 1:34752401/68‑1 (MQ=255) cccTCCGGGGAGAGGGCCGGGGTGAGGGGAAAAGGCCGCACTGCTCACCAATTTTCTGCTATCATGc > 1:15436912/1‑67 (MQ=255) ccGGGGAGAGGGCCGGGGTGAGGGGAAAAGGCCGCACTGCTCACCAATTTTCTGCTATCCTGccccc > 1:28883733/1‑67 (MQ=255) ggggcgggggcgGGGGGGGGGGCACAAGGCCGCACTGCTCACCAATTTTCTGCTATCCTGCCCCCGCa < 1:4601602/68‑1 (MQ=255) ggggAGAGGGCCGGGGTGAGGGGAAAAGGCCGCACTGCTCACCAATTTTCTGCTATCCTGCCCCCGc > 1:30292210/1‑67 (MQ=255) ggggAGAGGGCCGGGGTGAGGGGAAAAGGCCGCACTGCTCACCAATTTTCTGCTATCCTGCCCCCGc > 1:10021217/1‑67 (MQ=255) gtgagtGGGCCGGGCTGTTGGCAAAAGGCCGCACTGCTCACCAATTTTCTGCTATCCTGCCCCCGCa < 1:37004427/65‑1 (MQ=255) ggtagagGGCTGGTTTGAGGGTAAAAGGCCGCACTGCTCACCAATTTTCTGCTATCCTGCCCCCGCa < 1:25086937/64‑1 (MQ=255) gggAGTGGGCGGGGGTGTGGGTAAAAGGCCGCACTGCTCACCAATTTTCTGCTATCCTGCCCCCGCa < 1:8962689/67‑1 (MQ=255) gggAGTGGGCGGGGGCGTGGGCACAAGGCCGCACTGCTCACCAATTTTCTGCTATCCTGCCCCCGCa < 1:975433/67‑1 (MQ=255) ggAGAGGGCCGGGGTGAGGGGAAAAGGCCGCACTGCTCACCAATTTTCTGCTATCCTGCCCCCGCACt > 1:2209918/1‑68 (MQ=255) ggAGAGGGCCGGGGTGAGGGGAAAAGGCCGCACTGCTCACCAATTTTCTGCTATCCTGCCCCCGCACt > 1:16743615/1‑68 (MQ=255) agagGGCCGGGGTGAGGGGAAAAGGCCGCACTGCTCACCAATTTTCTGCTATCCTGCCCCCGCACTaa > 1:4990673/1‑68 (MQ=255) agagGGCCGGGGTGAGGGGAAAAGGCCGCACTGCTCACCAATTTTCTGCTATCCTGCCCCCGCACTaa > 1:12504546/1‑68 (MQ=255) agagGGCCGGGGTGAGGGGAAAAGGCCGCACTGCTCACCAATTTTCTGCTATCCTGCCCCCGCACTaa > 1:21259703/1‑68 (MQ=255) agagGGCCGGGGTGAGGGGAAAAGGCCGCACTGCTCACCAATTTTCTGCTATCCTGCCCCCGCACTaa > 1:20240589/1‑68 (MQ=255) agagGGCCGGGGTGAGGGGAAAAGGCCGCACTGCTCACCAATTTTCTGCTATCCTGCCCCCGCACTaa > 1:9448164/1‑68 (MQ=255) agagGGCCGGGGTGAGGGGAAAAGGCCGCACTGCTCACCAATTTTCTGCTATCCTGCCCCCGCACTaa > 1:14206327/1‑68 (MQ=255) agagGCCCGGGGTGAGGGCAAAAGTCCGCACTGCACACCAATTTTATTCTATACTGCCCCAGAACTaa > 1:23421222/1‑68 (MQ=255) gagGGCCGGGGTGAGGGGAAAAGGCCGCACTGCTCACCAATTTTCTGCTATCCTGCCCCCGCACTAAg < 1:38954823/68‑1 (MQ=255) ggCCGGGGTGCGGGCAAAAGGCCGCACTGCTCACCAATTTTCTGCTATCCTGCCCCCGCACTAAggg < 1:38164816/67‑1 (MQ=255) gCCGGGGTGCGGGGAAAAGGCCGCACTGCTCACCAATTTTCTGCTATCCTGCCCCCGCACTAAgggg < 1:35679107/67‑1 (MQ=255) | ATGTACTCCCTCACTCTGAAACGACACCGCACTCTTTTTTTCTCCCTCGCCCCTCCGGGGAGAGGGCCGGGGTGAGGGGAAAAGGCCGCACTGCTCACCAATTTTCTGCTATCCTGCCCCCGCACTAAGGGGGC > CP009273/3774438‑3774571 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |