| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | W3110S.gb | 547,831:1 | +G | 100% | pseudogene (251/261 nt) pseudogene (251/1259 nt) |
ylbE → ylbE → |
ECK0512:JW0507:b4507; hypothetical protein, N‑ter fragment ECK0512:JW0508+JW0507:b4572; hypothetical protein |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | W3110S.gb | 547,831 | 1 | . | G | 98.0% | 173.8 / ‑3.8 | 51 | pseudogene (251/261 nt) pseudogene (251/1259 nt) | ylbE ylbE | ECK0512:JW0507:b4507; hypothetical protein, N‑ter fragment ECK0512:JW0508+JW0507:b4572; hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base G (34/16); total (34/17) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 3.33e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.72e-01 | |||||||||||
| Rejected as polymorphism: E-value score below prediction cutoff. | |||||||||||
| Rejected as polymorphism: Frequency below/above cutoff threshold. | |||||||||||
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. | |||||||||||
| Rejected as polymorphism: Polymorphic indel expands or contracts a homopolymer stretch. | |||||||||||
CGTGGGCGCATGTCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCA‑GGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCGGTATTACTT > W3110S.gb/547766‑547895 | cgtgGGCGCATGTCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCA‑ggggg < 1:364256/71‑2 (MQ=255)cgtgGGCGCATGTCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCA‑ggggg < 1:785637/71‑2 (MQ=255)cgtgGGCGCATGTCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCA‑gggg > 1:1115433/1‑70 (MQ=255)cgtgGGCGCATGTCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCA‑gggg > 1:4877629/1‑70 (MQ=255)cgtgGGCGCATGTCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCA‑gggg > 1:1953576/1‑70 (MQ=255) tgGGCGCATGTCTGTTCGAAGTTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCA‑ggggg < 1:4713806/69‑2 (MQ=255) ggCGCATGTCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCa < 1:4576640/62‑1 (MQ=255) ggCGCATGTCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCa < 1:2630711/62‑1 (MQ=255) ggCGCATGTCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCa < 1:3225807/62‑1 (MQ=255) ggCGCATGTCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCa < 1:3264972/62‑1 (MQ=255) ggCGCATGTCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCa < 1:3335550/62‑1 (MQ=255) ggCGCATGTCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCa < 1:2312093/62‑1 (MQ=255) ggCGCATGTCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCa < 1:2304015/62‑1 (MQ=255) ggCGCATGTCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCa < 1:1983754/62‑1 (MQ=255) gcgcATGTCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCa < 1:489940/61‑1 (MQ=255) gcgcATGTCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCAGGGGG‑AAGTg < 1:1340552/71‑1 (MQ=255) gcATGTCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCAGGGGG‑AAGTGaa > 1:1878517/1‑71 (MQ=255) gcATGTCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCAGGGGG‑AAGTGaa > 1:740414/1‑71 (MQ=255) gTCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCAGGGGG‑AAGTGAACtt > 1:1121201/1‑70 (MQ=255) gTCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCAGGGGG‑AAGTGAACtt > 1:4491733/1‑70 (MQ=255) gggCGAAATATGAAGCGCAGGCGCTGGCAATACTGGAGCA‑GGGGTAAGTGAACTTCATTCCTTGTCACCa < 1:5148793/70‑1 (MQ=255) gggCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCa < 1:2358198/70‑1 (MQ=255) cGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCAtgtg < 1:823455/71‑1 (MQ=255) cGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCAtgtg < 1:923411/71‑1 (MQ=255) aaaGATGAAGCGCAGGCGCTGGCAATACTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGaa > 1:4781397/1‑71 (MQ=255) aaaGATGAAGCGCAGGCGCTGGCAATACTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGaa > 1:2303645/1‑71 (MQ=255) aaaGATGAAGCGCAGGCGCTGGCAATACTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGaa > 1:1535404/1‑71 (MQ=255) aTGAAGCGCAGGCGCTGGCAATACTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCAtgtg < 1:2640893/65‑1 (MQ=255) tGAAGCGCAGGCGCTGGCAATACTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCAtgtg < 1:2882416/64‑1 (MQ=255) gAAGCGCAGGCGCTGGCAATACTGGAGCAGGGGG‑AAGGGAACTTCATTCCTTg < 1:2815633/53‑1 (MQ=38) aGCGCCGGCGCTGGCAATACTGGAGAAGGGGG‑AAGTGAACTTCATTCCTTGTc > 1:1713944/1‑53 (MQ=37) aGCGCAGGCGCTGGCAATACTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTc > 1:2054849/1‑53 (MQ=39) aGCGCAGGCGCTGGCAATACTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTc > 1:2466417/1‑53 (MQ=39) aGCGCAGGCGCTGGCAATACTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTc > 1:3852680/1‑53 (MQ=39) aGCGCAGGCGCTGGCAATACTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTc > 1:4086437/1‑53 (MQ=39) cAGGCGCTGGCAATACTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGcc < 1:3849696/71‑1 (MQ=255) cAGGCGCTGGCAATACTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGcc < 1:4348328/71‑1 (MQ=255) gcTGGCAATACTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATgg < 1:2939995/71‑1 (MQ=255) gcTGGCAATACTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATgg > 1:5121628/1‑71 (MQ=255) gcTGGCAATACTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATgg < 1:856327/71‑1 (MQ=255) cTGGCAATACTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATgg < 1:5187924/70‑1 (MQ=255) gCAATACTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCgg > 1:3083145/1‑71 (MQ=255) gCAATACTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCgg < 1:3259340/71‑1 (MQ=255) gCAATACTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCgg < 1:5116013/71‑1 (MQ=255) gCAATACTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCgg < 1:3303026/71‑1 (MQ=255) cAATACTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCgg > 1:602836/1‑70 (MQ=255) aTACTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCGGTAt < 1:1062820/71‑1 (MQ=255) tACTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCGGTAt > 1:599083/1‑70 (MQ=255) tACTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCGGTAt > 1:4238031/1‑70 (MQ=255) tACTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCGGTAt > 1:1676236/1‑70 (MQ=255) tACTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCGGTAt > 1:1820202/1‑70 (MQ=255) tACTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCGGTAt > 1:1442373/1‑70 (MQ=255) tACTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCGGTAt > 1:2093612/1‑70 (MQ=255) tACTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCGGTAt > 1:4477088/1‑70 (MQ=255) tACTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCGGTAt > 1:2379685/1‑70 (MQ=255) tACTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCGGTAt > 1:242241/1‑70 (MQ=255) tACTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCGGTAt > 1:2660797/1‑70 (MQ=255) aCTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGc > 1:3183817/1‑64 (MQ=255) aCTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCGGTATTa > 1:2207107/1‑71 (MQ=255) aCTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCGGTATTa > 1:3854028/1‑71 (MQ=255) aCTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCGGTATTa > 1:25352/1‑71 (MQ=255) aCTGGAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGAATCCCGt > 1:5001129/1‑51 (MQ=255) ggAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCGGTATTACtt > 1:2265482/1‑71 (MQ=255) ggAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCGGTATTACtt > 1:2557672/1‑71 (MQ=255) ggAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCGGTATTACtt > 1:399415/1‑71 (MQ=255) ggAGCAGGGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCGGTATTACtt > 1:3201803/1‑71 (MQ=255) | CGTGGGCGCATGTCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCA‑GGGG‑AAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCGGTATTACTT > W3110S.gb/547766‑547895 |
| 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: ‑ |