| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 1,460,653 | G→T | 8.9% | 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 | 8.9% | 1309.1 / 8.9 | 488 | pseudogene (1005/2513 nt) | ydbA | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| Reads supporting (aligned to +/- strand): ref base G (203/195); new base T (4/49); total (212/276) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 2.21e-10 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
Only 100 of 503 total aligned reads displayed.
CCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGATCTGGATGTCA > CP009273/1460586‑1460720 | ccggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAg > 1:40386679/1‑68 (MQ=40) cggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAgg < 1:36252185/68‑1 (MQ=40) cggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAgg < 1:34979058/68‑1 (MQ=40) cggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAgg < 1:50531235/68‑1 (MQ=40) cggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAgg < 1:39201967/68‑1 (MQ=40) cccAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTcc < 1:34690328/68‑1 (MQ=39) ccAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTcc > 1:44847143/1‑67 (MQ=37) ccAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTcc > 1:31915454/1‑67 (MQ=37) ccAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTcc > 1:53874514/1‑67 (MQ=37) ccAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTcc > 1:7993693/1‑67 (MQ=37) ccAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTcc > 1:11891467/1‑67 (MQ=37) ccAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCa < 1:12882684/68‑1 (MQ=37) gATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCg > 1:54680752/1‑68 (MQ=35) gATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCg > 1:51671922/1‑68 (MQ=35) ttAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCAcc < 1:41213850/65‑1 (MQ=35) ttAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGt > 1:44738419/1‑68 (MQ=35) ttAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGt < 1:30737407/68‑1 (MQ=35) ttAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGt < 1:26136801/68‑1 (MQ=35) ttAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGt < 1:25735714/68‑1 (MQ=35) ttAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGt < 1:28303412/68‑1 (MQ=35) ttAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGt < 1:48595657/68‑1 (MQ=35) ttAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGt < 1:56795809/68‑1 (MQ=35) ttAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGt < 1:33432069/68‑1 (MQ=35) ttAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGt > 1:53337785/1‑68 (MQ=35) aaTGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTAc > 1:47777283/1‑68 (MQ=35) tGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACgg < 1:2011529/68‑1 (MQ=31) tGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACgg > 1:55166191/1‑68 (MQ=31) tGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACgg > 1:52201542/1‑68 (MQ=31) aCGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATAAAc > 1:21347481/1‑68 (MQ=14) cGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACg < 1:5951428/68‑1 (MQ=39) agCCACAGTAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACg < 1:51060142/67‑1 (MQ=11) gCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACTGAAATCAACgg < 1:15771491/68‑1 (MQ=255) ccACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGt > 1:42636032/1‑68 (MQ=255) aCGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGtaa > 1:50858540/1‑68 (MQ=255) cGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGtaat < 1:39743365/68‑1 (MQ=255) ggCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGtaata < 1:57714010/68‑1 (MQ=255) gCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGtaata > 1:42230764/1‑67 (MQ=255) gCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATAGACGGtaata > 1:3776837/1‑67 (MQ=255) acaacaatGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGa < 1:19672954/68‑1 (MQ=255) acaacaacGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATAAACGGAAATAACGGa > 1:45622784/1‑68 (MQ=255) tcaatGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTTCGGAAATCATCGGTAATAACGGaaaa < 1:6502145/67‑1 (MQ=14) acaatGGCAAAACCACCGTTGACGGCAATGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa < 1:17204923/68‑1 (MQ=255) acaatGGCAAAACCACCGTTGACGGCAATGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa < 1:10312943/68‑1 (MQ=255) acaatGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa < 1:2178679/68‑1 (MQ=255) acaatGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa < 1:14142187/68‑1 (MQ=255) acaatGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa < 1:9275023/68‑1 (MQ=255) acaatGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa < 1:3680746/68‑1 (MQ=255) acaatGGCAAAACCACCGTTGACGGAAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa < 1:48940897/68‑1 (MQ=255) acaacGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa < 1:10080969/68‑1 (MQ=255) acaacGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa < 1:38395649/68‑1 (MQ=255) acaacGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGaaaa < 1:27123735/68‑1 (MQ=255) aacGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGt < 1:18619586/68‑1 (MQ=255) atggCAAAACCACCGTTGACGGCAATGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGtt < 1:7425531/66‑1 (MQ=255) acGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGtt > 1:16776895/1‑68 (MQ=255) cGGCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTa < 1:25032380/68‑1 (MQ=255) ggCAAAACCACCGTTGACGGGAATGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTAt < 1:45208126/68‑1 (MQ=255) ggCAAAACCACCGTTGACGGCTAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTAt < 1:47398920/68‑1 (MQ=255) ggCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGa < 1:8412725/60‑1 (MQ=255) ggCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTAt < 1:42851471/68‑1 (MQ=255) ggCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTAt > 1:24613533/1‑68 (MQ=255) ggCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTAt > 1:55580493/1‑68 (MQ=255) ggCAAAACCACCGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTAt > 1:29306724/1‑68 (MQ=255) ggCAAAACCACCGTTGACGGCAACGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTAt < 1:2080146/68‑1 (MQ=255) aaCCACCGTTGACGGCAACGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAgg < 1:49296076/68‑1 (MQ=255) aaCCACCGTTGACGGCAACGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAgg < 1:18435607/68‑1 (MQ=255) accaccGTTGACGGCAAGGATTCCACCGGTACGGAAATCTACGGTAATAACGGAAATGTTATTCAgg > 1:23928841/1‑67 (MQ=255) accaccGTTGACGGCAAGGATTCCACCGGTACGGAAATCACCGGTAATAACGGCAAAGTTATTCAgg > 1:44284028/1‑67 (MQ=255) accaccGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAgg > 1:28889349/1‑67 (MQ=255) accaccGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAgg > 1:16539579/1‑67 (MQ=255) ccaccGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGAc > 1:11120822/1‑68 (MQ=255) accGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACgg < 1:22822078/68‑1 (MQ=255) ccGTTGACGGTAATGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGc < 1:53045385/68‑1 (MQ=255) ccGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGc < 1:26495554/68‑1 (MQ=255) ccGTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGc < 1:57065440/68‑1 (MQ=255) ccGTTGACGGCAACGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGc < 1:9583490/68‑1 (MQ=255) gTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGa > 1:17762611/1‑68 (MQ=255) gTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGa > 1:16392726/1‑68 (MQ=255) gTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGa > 1:49708041/1‑68 (MQ=255) gTTGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGa < 1:47002341/68‑1 (MQ=255) tGACGGTAACGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGAt < 1:35981101/67‑1 (MQ=255) tGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGa > 1:32371058/1‑66 (MQ=255) tGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGAt < 1:22308608/67‑1 (MQ=255) tGACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGAt < 1:26926704/67‑1 (MQ=255) tGACGGCAACGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGAt < 1:31337614/67‑1 (MQ=255) tGACGGCAAAGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGAt < 1:5616896/67‑1 (MQ=255) gACGGCAATGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGATCt < 1:1211125/68‑1 (MQ=255) gACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGATCt < 1:13463944/68‑1 (MQ=255) gACGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGATCt < 1:38684245/68‑1 (MQ=255) aCGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGATCTg > 1:3423539/1‑68 (MQ=255) cGGCAAGGATTCCACCGGTACGGAAATCACCGGGAATAACGGAAAAGTTATTCAGGACGGCGATCTgg > 1:41711380/1‑68 (MQ=255) cGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGATCTgg > 1:52417992/1‑68 (MQ=255) cGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGATCTgg > 1:23473900/1‑68 (MQ=255) cGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGATCTgg < 1:19082410/68‑1 (MQ=255) cGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGATCTgg > 1:50115186/1‑68 (MQ=255) cGGCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGATCTgg < 1:14840319/68‑1 (MQ=255) gCAAGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGATCTGGAt > 1:46536369/1‑68 (MQ=255) aaGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGATCTGGATg > 1:48226551/1‑67 (MQ=255) aaGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGATCTGGATg < 1:40018357/67‑1 (MQ=255) aaGGATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGATCTGGATg < 1:32890524/67‑1 (MQ=255) ggATTCCACCGGTACGGAAATCAACGGTAATAACGGAAAAGTTATTCAGGACGGCGATCTGGATGTCa > 1:43656978/1‑68 (MQ=255) | 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: ‑ |