| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 3,689,128 | A→C | 27.6% | pseudogene (218/753 nt) | bcsQ ← | involved in cellulose production, minD superfamily (pseudogene) |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP009273 | 3,689,128 | 0 | A | C | 27.6% | 1212.4 / inf | 615 | pseudogene (218/753 nt) | bcsQ | involved in cellulose production, minD superfamily (pseudogene) |
| Reads supporting (aligned to +/- strand): ref base A (105/340); new base C (26/144); total (131/484) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 2.74e-02 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
Only 100 of 627 total aligned reads displayed.
GGATTTTCTTGTTCTTCAATGGATAACTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAGCCCTGACGGTGGGTAAAATC > CP009273/3689062‑3689195 | ggATTTTCTTGTTCTTCAATGGATAACTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCa > 1:35080493/1‑67 (MQ=255) aTTTTCTTGTTCTTCAATGGATAACTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCAAc < 1:2696734/67‑1 (MQ=255) aTTTTCTTGTTCTTCAATGGATAACTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCAAc < 1:2779154/67‑1 (MQ=255) aTTTTCTTGTTCTTCAATGGATAACTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCAAc < 1:15118419/67‑1 (MQ=255) aTTTTCTTGTTCTTCAATGGATAACTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCAAc < 1:24277073/67‑1 (MQ=255) ttCTTGTTCTTCAATGGATAACTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCAACCCa > 1:25473686/1‑67 (MQ=255) tCTTGTTCTTCAATGGATAACTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCCACCCAGc < 1:29308113/68‑1 (MQ=255) tCTTGTTCTTCAATGGATAACTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCAACCCAGc < 1:7111971/68‑1 (MQ=255) cTTGTTCTTCAATGGATAACTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCAACCCAGCg > 1:37513677/1‑68 (MQ=255) tcttcAATGGATAACTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCCACCCAGCGTCAc > 1:46861103/1‑67 (MQ=255) tcttcAATGGATAACTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCAc > 1:10095428/1‑67 (MQ=255) tcttcAATGGATAACTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCAc > 1:124133/1‑67 (MQ=255) ttcAATGGATAACTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCCACCCAGCGTCACGcc < 1:6833966/68‑1 (MQ=255) tcAATGGATAACTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCa > 1:37145907/1‑68 (MQ=255) cAATGGATAACTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAg < 1:1540607/68‑1 (MQ=255) cAATGGATAACTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAg < 1:34707182/68‑1 (MQ=255) cAATGGATAACTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAg < 1:39133664/68‑1 (MQ=255) cAATGGATAACTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAg < 1:42964093/68‑1 (MQ=255) cAATGGATAACTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAg < 1:11902976/68‑1 (MQ=255) cAATGGATAACTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAg < 1:26516868/68‑1 (MQ=255) aaTGGATAACTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCCACCCAGCGTCACGCCAGt < 1:5314209/68‑1 (MQ=255) aaTGGATAACTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCCACCCAGCGTCACGCCAGt < 1:10877918/68‑1 (MQ=255) aaTGGATAACTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGt < 1:12974465/68‑1 (MQ=255) aaTGGATAACTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGt < 1:49517706/68‑1 (MQ=255) aaTGGATAACTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGt < 1:11146736/68‑1 (MQ=255) aaTGGATAACTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGGAGCGCAACCCAGCGTCACGCCAgg < 1:43259543/68‑2 (MQ=255) aaTGGATAACTGACCAAAAGGCAGCAAATCGAGCTGCGAGGGGTAGCGCAACCCAGCGTCACGCCAGt < 1:25758401/68‑1 (MQ=255) ggATAACTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCCACCCAGCGTCACGCCAGt > 1:35810025/1‑65 (MQ=255) aTAACTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCCACCCAGCGTCACGCCAGTCCTg > 1:5995949/1‑67 (MQ=255) aTAACTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCCACCCAGCGTCACGCCAGTCCTg < 1:367005/67‑1 (MQ=255) aTAACTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTg < 1:17068397/67‑1 (MQ=255) aTAACTGACCAAAAGGCAGCAAAACGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTg > 1:11602742/1‑67 (MQ=255) aaCTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGcc < 1:46313953/68‑1 (MQ=255) aCTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCa > 1:30903700/1‑68 (MQ=255) aCTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCa > 1:29804100/1‑68 (MQ=255) aCTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCa > 1:44571135/1‑68 (MQ=255) cTGACGAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCAt < 1:14052371/68‑1 (MQ=255) cTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCCACCCAGCGTCACGCCAGTCCTGGCCAt < 1:19963485/68‑1 (MQ=255) cTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCAt < 1:23926124/68‑1 (MQ=255) cTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCAt < 1:18306777/68‑1 (MQ=255) tGACCAAAAGGCAGCAAATCGAGCTGCGAGTTGTAGCGCAACCCAGCGACACGCCAGTCCTGGCCAt > 1:1769851/1‑67 (MQ=255) tGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCAt > 1:24736318/1‑67 (MQ=255) ccAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCCACCCAGCGTCACGCCAGTCCTGGCCATCCa < 1:8399639/67‑1 (MQ=255) cAAAAGGCAGCAAATCGCGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCATTCCTGGCCATCCAGc < 1:23175185/68‑1 (MQ=255) cAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCCACCCAGCGTCACGCCAGTCCTGGCCATCCAGc < 1:31581387/68‑1 (MQ=255) aGGCAGCAAATCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATc > 1:17427991/1‑67 (MQ=255) aGGCACCAAATCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCg < 1:18816973/68‑1 (MQ=255) ctgcaAATCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGACAGTCCTGGCCATCCAGCATCGc < 1:26330284/64‑1 (MQ=255) cagcaAATCGAGCTGCGAGGTGTAGCGCCACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGct < 1:12606268/67‑1 (MQ=255) cagcaAATCGAGCTGCGAGGTGTAGCGCCACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGc < 1:50294139/66‑1 (MQ=255) cagcaAATCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGct < 1:2217097/67‑1 (MQ=255) cagcaAATCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGct < 1:43695445/67‑1 (MQ=255) cagcaAATCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGct < 1:28287499/67‑1 (MQ=255) cagcaAATCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGc < 1:36497076/66‑1 (MQ=255) cagcaAATCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGc < 1:19376222/66‑1 (MQ=255) cagcaAATCGAGCGGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGct < 1:21539715/67‑1 (MQ=255) gcaAATCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTg > 1:18961901/1‑68 (MQ=255) aaaTCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCCTCGCTCTGGc < 1:50629286/68‑1 (MQ=255) aaaTCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTgg < 1:28686334/67‑1 (MQ=255) aaaTCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTgg < 1:4516554/67‑1 (MQ=255) aaaTCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGc < 1:39979771/68‑1 (MQ=255) aaaTCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGc < 1:13434686/68‑1 (MQ=255) cGAGCTGCGAGGTGTAGCGCCACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAg < 1:33831454/68‑1 (MQ=255) cGAGCTGCGAGGTGTAGCGCCACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAg < 1:28108094/68‑1 (MQ=255) cGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAg < 1:45009486/68‑1 (MQ=255) gAGCTGCGAGGTGTAGCGCCACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAGc < 1:38764444/68‑1 (MQ=255) gAGCTGCGAGGTGTAGCGCCACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAGc < 1:48315428/68‑1 (MQ=255) gAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAGc < 1:38537898/68‑1 (MQ=255) gAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAGc < 1:45511397/68‑1 (MQ=255) gAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAGc < 1:1457120/68‑1 (MQ=255) gAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAGc < 1:9306254/68‑1 (MQ=255) gAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAGc < 1:42013759/68‑1 (MQ=255) gAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAGc < 1:36248126/68‑1 (MQ=255) gAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATAGCTCTGGCCCAGc < 1:8733208/68‑1 (MQ=255) aGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAGc > 1:10349739/1‑67 (MQ=255) gCTGCGAGGTGTAGCGCCACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAGcc < 1:32636970/67‑1 (MQ=255) gCTGCGAGGTGTAGCGCCACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAGcc < 1:20942461/67‑1 (MQ=255) gCTGCGAGGTGTAGCGCCACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAGcc < 1:21857003/67‑1 (MQ=255) gCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAGcc < 1:16157279/67‑1 (MQ=255) gCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAGcc < 1:32055267/67‑1 (MQ=255) gCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAGcc < 1:33146156/67‑1 (MQ=255) gCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAGcc < 1:4725459/67‑1 (MQ=255) gCTCCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAGcc < 1:47951335/67‑1 (MQ=255) aGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAGCCCTGACgg > 1:34281564/1‑68 (MQ=255) tgtAGCGCCACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAGCCCTGACGGTg < 1:44098366/67‑1 (MQ=255) gtAGCGCCACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAGCCCTGACGGTgg < 1:41372098/67‑1 (MQ=255) gtAGCGCAACCCAGCGTCCCGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAGCCCTGACGGTgg < 1:39470286/67‑1 (MQ=255) gtAGCGCAACCCAGCGTCACGCCAGTCCTGGCGATCCAGCATCGCTCTGGCCCAGCCCTGACGGTggg < 1:45848056/68‑1 (MQ=255) gtAGCGCAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAGCCCTGACGGTggg > 1:48605594/1‑68 (MQ=255) gtAGCGCAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAGCCCTGACGGTggg < 1:20702143/68‑1 (MQ=255) gtAGCGCAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAGCCCTGACGGTgg < 1:7543937/67‑1 (MQ=255) gtAGCGCAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAGCCCTGACGGTgg < 1:16689441/67‑1 (MQ=255) gcAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAGCCCTGACGGTGGGTaaaa < 1:49229851/68‑1 (MQ=255) gcAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAGCCCTGACGGTGGGTaaaa > 1:37714218/1‑68 (MQ=255) gcAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAGCCCTGACGGTGGGTaaaa > 1:32490431/1‑68 (MQ=255) gcAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAGCCCTGACGGTGGGTaaaa > 1:31040632/1‑68 (MQ=255) gcAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAGCCCTGACGGTGGGTaaaa > 1:3044491/1‑68 (MQ=255) gcAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAGCCCTGACGGTGGGTaaaa > 1:40684062/1‑68 (MQ=255) gcAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAGCCCTGACGGTGGGTaaaa < 1:40915769/68‑1 (MQ=255) gcAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAGCCCTGACGGTGGGTaaaa > 1:9768632/1‑68 (MQ=255) | GGATTTTCTTGTTCTTCAATGGATAACTGACCAAAAGGCAGCAAATCGAGCTGCGAGGTGTAGCGCAACCCAGCGTCACGCCAGTCCTGGCCATCCAGCATCGCTCTGGCCCAGCCCTGACGGTGGGTAAAATC > CP009273/3689062‑3689195 |
| 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: ‑ |