| Predicted mutation | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | CP009273 | 3,729,347 | G→A | E337K (GAG→AAG) | xylR → | xylose divergent operon transcriptional activator |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP009273 | 3,729,347 | 0 | G | A | 97.4% | 261.6 / ‑3.9 | 77 | E337K (GAG→AAG) | xylR | xylose divergent operon transcriptional activator |
| Reads supporting (aligned to +/- strand): ref base G (2/0); new base A (39/36); total (41/36) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 4.96e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
TCCAATCTTGAGAAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAATGAGATATCGCA > CP009273/3729284‑3729411 | tCCAATCTTGAGAAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGaa > 1:2038947/1‑68 (MQ=255)tCCAATCTTGAGAAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCAAGaa < 1:3184005/68‑1 (MQ=255)tCCAATCTTGAGAAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCAAGaa < 1:3938859/68‑1 (MQ=255)tCCAATCTTGAGAAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCAAGaa < 1:4097646/68‑1 (MQ=255)tCCAATCTTGAGAAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCAAGaa < 1:2182083/68‑1 (MQ=255)cccAATCCTGAGAAGCGTTTTAAAGAAGAGGTGGGAGAAACCATCCATGCCATGATTCATGCCAAGaa < 1:4316110/67‑1 (MQ=255) cAATCTTGAGAAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCAAGAAGc < 1:4477948/68‑1 (MQ=255) cTTGAGAAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGga > 1:2834079/1‑68 (MQ=255) cTTGAGAAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCAAGAAGCTGga > 1:4194486/1‑68 (MQ=255) cTTGAGAAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCAAGAAGCTGga > 1:2612504/1‑68 (MQ=255) cTTGAGAAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCAAGAAGCTGga > 1:2635389/1‑68 (MQ=255) cTTGAGAAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCAAGAAGCTGga > 1:833056/1‑68 (MQ=255) tGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCAAGAAGCTGgaga > 1:949000/1‑68 (MQ=255) tGAGAAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCAAGAAGCTGgaga > 1:725503/1‑68 (MQ=255) gaAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCAAGAAGCTGGAGAAAg < 1:2772647/68‑1 (MQ=255) gaAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCAAGAAGCTGGAGAAAg > 1:1937732/1‑68 (MQ=255) gaAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCAAGAAGCTGGAGAAAg > 1:2576472/1‑68 (MQ=255) gaAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCAACAAGCTGGAGAAAg > 1:2851884/1‑68 (MQ=255) aGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCAAGAAGCTGGAGAAAgcg > 1:490791/1‑68 (MQ=255) aGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGAGTCATGCCAAGAAGCTGGAGAAAgcg > 1:3315954/1‑68 (MQ=255) cGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCAAGAAGCTGGAGAAAgcgcg > 1:998886/1‑68 (MQ=255) tttAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCAAGAAGCTGGAGAAAGCGCGCAg < 1:2144020/68‑1 (MQ=255) tAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTc < 1:3203431/68‑1 (MQ=255) aaaGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTct > 1:1885763/1‑68 (MQ=255) aaaGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTct < 1:1558092/68‑1 (MQ=255) aaaGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTct > 1:2910083/1‑68 (MQ=255) agaagaGGTGGGTGAAACCATCCATGCCATGATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTctgc > 1:1772223/1‑68 (MQ=255) agaagaGGTGGGTGAAACCATCCATGCCATGATACATGCCAAGAAGCTGGAGAAAGCGCGCAGTctgc > 1:3413798/1‑68 (MQ=255) agagGTGGGTGAAACCATCCATGCCATGATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGa > 1:51905/1‑68 (MQ=255) agagGTGGGTGAAACCATCCATGCCAAGATTAATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGa > 1:4529650/1‑68 (MQ=255) tagGTGGGTGAAACCATCCATGCCATGATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGAt < 1:1280382/67‑1 (MQ=255) gagGTGGGTGAAACCATCCATGCCATGATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGAt < 1:3430158/68‑1 (MQ=255) ggtgggtgAAACCATCCATGCCATGATTCATGCCAAGAAGCTGGAGAATGCGCGCAGTCTGCTGAttt < 1:2676631/68‑1 (MQ=255) ggtgggtgAAACCATCCATGCCATGATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGactg > 1:4279297/1‑65 (MQ=255) ggtgggtgAAACCATCCATGCCATGATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGAttt < 1:1234471/68‑1 (MQ=255) tgggtgAAACCATCCATGCCATGATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCa > 1:3108129/1‑68 (MQ=255) tgggtgAAACCATCCATGCCATGATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCa < 1:3528147/68‑1 (MQ=255) tgggtgAAACCATCCATGCCATGATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCa > 1:3611141/1‑68 (MQ=255) gtgAAACCATCCATGCCATGATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAacc > 1:2369630/1‑68 (MQ=255) gAAACCATCCATGCCATGATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAaccac < 1:1874764/68‑1 (MQ=255) gAAACCATCCATGCCATGATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAaccac > 1:926358/1‑68 (MQ=255) aaaCCATCCATGCCATGATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAaccacc < 1:1116069/68‑1 (MQ=255) aaaCCATCCATGCCATGATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAaccacc < 1:2604415/68‑1 (MQ=255) aaaCCATCCATGCCATGATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAaccacc < 1:4149425/68‑1 (MQ=255) aaaCCATCCATGCCATGATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAaccacc < 1:2885040/68‑1 (MQ=255) aaCCATCCATGCCATGATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCt < 1:4412220/68‑1 (MQ=255) accaccCATGCCATGATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCtt < 1:543544/68‑1 (MQ=255) aCCATCCATGCCATGATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCtt > 1:3027918/1‑68 (MQ=255) aCCATCCATGCCATGATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCtt > 1:1771242/1‑68 (MQ=255) ccatccatGCCATGATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTg > 1:39170/1‑68 (MQ=255) ccatccatGCCATGATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTg > 1:4043788/1‑68 (MQ=255) ccatccatGCCATGATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTg > 1:728785/1‑68 (MQ=255) tccatGCCATGATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCg < 1:3613532/68‑1 (MQ=255) ccatgccatgATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCCGCTGATTTCAACCACCTTGTCGa > 1:2596372/1‑68 (MQ=255) catgccatgATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGAt < 1:1759349/68‑1 (MQ=255) catgccatgATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGAt < 1:96721/68‑1 (MQ=255) catgccatgATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGAt < 1:99848/68‑1 (MQ=255) catgccatgATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGAt < 1:43340/68‑1 (MQ=255) catgccatgATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGAt < 1:2009529/68‑1 (MQ=255) catgccatgATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGAt < 1:323799/68‑1 (MQ=255) catgccatgATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGAt < 1:3637795/68‑1 (MQ=255) tgccatgATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCa > 1:538377/1‑68 (MQ=255) tgccatgATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCa < 1:710520/68‑1 (MQ=255) tgccatgATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCa < 1:767858/68‑1 (MQ=255) tgccatgATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCa < 1:1705724/68‑1 (MQ=255) ccatgATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAAt < 1:4704924/68‑1 (MQ=255) ccatgATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAAt > 1:3075967/1‑68 (MQ=255) gATTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAATgaga > 1:844497/1‑68 (MQ=255) aTTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAATgagct > 1:4210192/1‑66 (MQ=255) aTTCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAATGAGat > 1:1718996/1‑68 (MQ=255) ttCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAATGAGata > 1:3362996/1‑68 (MQ=255) ttCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAATGAGata > 1:4250860/1‑68 (MQ=255) tCATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAATGAGatat > 1:3386725/1‑68 (MQ=255) cATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAATGAGATATc < 1:1695924/68‑1 (MQ=255) cATGCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAATGAGATATc < 1:4519616/68‑1 (MQ=255) gCCAAGAAGCTGGAGAAGGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAATGAGATATCGCa > 1:3397496/1‑68 (MQ=255) gCCAAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAATGAGATATCGCa > 1:3513525/1‑68 (MQ=255) | TCCAATCTTGAGAAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAATGAGATATCGCA > CP009273/3729284‑3729411 |
| 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: ‑ |