| 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 | 97.6% | 136.4 / ‑3.8 | 41 | 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 (19/21); total (19/22) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.89e-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. | |||||||||||
GTGGGCGCATGTCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCA‑GG‑GGAAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCGGTATTAC > W3110S.gb/547767‑547893 | gtgGGCGCATGTCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCA‑gg‑ggg > 1:2914400/1‑69 (MQ=255)gtgGGCGCATGTCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCA‑gg‑ggg > 1:2243308/1‑69 (MQ=255) tGTCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCAGGG‑GGAAGTGAACtt < 1:1280549/71‑1 (MQ=255) tGTCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCAGGG‑GGAAGTGAACtt < 1:3471566/71‑1 (MQ=255) tGTCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCAGGG‑GGAAGTGAACtt < 1:3229083/71‑1 (MQ=255) gTCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCAGGG‑GGAAGTGAACtt > 1:507151/1‑70 (MQ=255) tCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCAGGG‑GGAAGTGa < 1:377277/65‑1 (MQ=255) tCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCAGGG‑GGAAGTGa < 1:3306493/65‑1 (MQ=255) tCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCAGGG‑GGAAGTGAACTTc < 1:4388326/70‑1 (MQ=255) tCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCAGGG‑GGAAGTGAACTTc < 1:3479978/70‑1 (MQ=255) tCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCAGGG‑GGAAGTGAACTTc < 1:2313562/70‑1 (MQ=255) cTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCAGGG‑GGAAGTGAACTTCAt > 1:1379472/1‑71 (MQ=255) ttCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCAGGG‑GGAAGTGAACTTCATTcc > 1:1003344/1‑71 (MQ=255) ttCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCAGGG‑GGAAGTGAACTTCATTcc < 1:2047774/71‑1 (MQ=255) cGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCAGGG‑GGAAGTGAACTTCATTCCtt > 1:454531/1‑71 (MQ=255) cGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCA‑g > 1:116346/1‑49 (MQ=255) cGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCA‑g > 1:736759/1‑49 (MQ=255) gAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCAGGG‑GGAAGTGAACTTCATTCCtt < 1:2065519/70‑1 (MQ=255) ttGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCAGGG‑GGAAGTGAACTTCATTCCTTGTCAc > 1:161041/1‑70 (MQ=255) ggCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCAGGG‑GGAAGTGAACTTCAt < 1:2610958/57‑1 (MQ=39) gCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCAGGG‑GGAAGTGAACTTCATTCCTTGTCACCAtgt < 1:4623670/71‑1 (MQ=255) cGAAAGATGAAGAGCAGGCGCTGGCAATACTGGAGCAGGG‑GGAAGTGAACTTCATTCCTTGTCACCAtgt > 1:3568516/1‑70 (MQ=255) aaGATGAAGCGCAGGCGCTGGCAATACTGGAGCAGGG‑GGAAGTGAACTTCATTCCTTGTCACCATGTGaa > 1:2753547/1‑70 (MQ=255) aGATGAAGCGCAGGCGCTGGCAATACTGGAGCAGGG‑GGAAGTGAACTTCATTCCTTGTCACCATGTGAATg > 1:598266/1‑71 (MQ=255) aaGCGCAGGCGCTGGCAATACTGGAGCAGGG‑GGAAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGt < 1:2205669/70‑1 (MQ=255) aGCGCAGGCGCTGGCAATACTGGAGCAGGG‑GGAAGTGAACTTCATTCCTTGTCACCATGTGAAt > 1:3953784/1‑64 (MQ=255) cAGGCGCTGGCAATACTGGAGCAGGG‑GGAAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGcc < 1:3391614/71‑1 (MQ=255) aGGCGCTGGCAATACTGGAGCA‑GGTGGAAGTGAACTTCATTCCTTGTCACCATGTTAATGCCGTCGGGcc < 1:393595/70‑1 (MQ=255) aGGCGCTGGCAATACTCGAGCAGGG‑GGAAGTGAACTTCATTCCTTGTCACCATGGGAATGCCGTCGGGCCa < 1:3870474/71‑1 (MQ=255) cgcTGGCAATACTGGAGCAGGG‑GGAAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATg > 1:3819693/1‑71 (MQ=255) aaTACTGGAGCAGGG‑GGAAGTGAACTTCATTCCtt < 1:1932607/35‑1 (MQ=37) aaTACTGGAGCAGGG‑GGAAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCGGTa > 1:680826/1‑71 (MQ=255) tACTGGAGCAGGG‑GGAAGTGAACTTCATTCCTTGt < 1:1722422/35‑1 (MQ=37) tACTGGAGCAGGG‑GGAAGTGAACTTCATTCCTTGt < 1:3303892/35‑1 (MQ=37) tACTGGAGCAGGG‑GGAAGTGAACTTCATTCCTTGt < 1:1234439/35‑1 (MQ=37) tACTGGAGCAGGG‑GGAAGTGAACTTCATTCCTTGt < 1:2135977/35‑1 (MQ=37) tACTGGAGCAGGG‑GGAAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCGGTAt > 1:1816300/1‑70 (MQ=255) tACTGGAGCAGGG‑GGAAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCGGTAt > 1:2073393/1‑70 (MQ=255) aCTGGAGCAGGG‑GGAAGTGAACTTCATTCCTTGTCAGCATGTGAATGCCGTCGGGCCAAt > 1:3288922/1‑60 (MQ=255) aCTGGAGCAGGG‑GGAAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAAt > 1:1162370/1‑60 (MQ=255) aCTGGAGCAGGG‑GGAAGTGAACTTCATTCCTTGTCACCATGTGAAAGCCGTCGGGCCAAt > 1:3185109/1‑60 (MQ=255) cTGGAGCAGGG‑GGAAGTGAACTTCATTCCTTGTCACCTTGTGAATGCCGTCGGGCCAATGGGCGGTATTAc > 1:2191936/1‑71 (MQ=255) cTGGAGCAGGG‑GGAAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCGGTa > 1:1509769/1‑67 (MQ=255) cTGGAGCAGGG‑GGAAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCGGTATTAc > 1:4367620/1‑71 (MQ=255) cTGGAGCAGGG‑GGAAGTGAACTACATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCGGTATTAc < 1:4179359/71‑1 (MQ=255) | GTGGGCGCATGTCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCA‑GG‑GGAAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCGGTATTAC > W3110S.gb/547767‑547893 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |