| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | W3110S.gb | 3,824,533:1 | +G | 100% | pseudogene (666/687 nt) | rph → | ECK3633:JW3618:b3643; ribonuclease PH |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | W3110S.gb | 3,824,533 | 1 | . | G | 94.7% | 178.0 / 1.5 | 57 | pseudogene (666/687 nt) | rph | ECK3633:JW3618:b3643; ribonuclease PH |
| Reads supporting (aligned to +/- strand): ref base . (0/3); new base G (23/31); total (23/34) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 2.65e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.83e-01 | |||||||||||
| Rejected as polymorphism: E-value score below prediction cutoff. | |||||||||||
| 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. | |||||||||||
AAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCATCTTGTTGGCTCTGGCCCG‑A‑G‑G‑GGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTAAGGCGACT > W3110S.gb/3824463‑3824597 | aaGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCG‑a < 1:842064/71‑1 (MQ=255)aaGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCG‑a < 1:3172517/71‑1 (MQ=255) aGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCG‑A‑g < 1:1550367/71‑1 (MQ=255) aGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCG‑A‑g < 1:877079/71‑1 (MQ=255) cAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCG‑A‑g‑g‑gg > 1:3408409/1‑70 (MQ=255) cAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCG‑A‑g‑g‑gg > 1:2333825/1‑70 (MQ=255) cAGGGGACGGCAGAAGGCGAACCGTTCACCCACGAAGAGTTACTCACCTTGTTGGCGCTGGCCCG‑A‑g > 1:2178739/1‑67 (MQ=255) cAGGGGACGGCAGAAGGCGAACCGTTCACCCACGAAGAGTTACTCACCTTGTTGGCGCTGGCCCG‑A‑g > 1:1758876/1‑67 (MQ=255) aGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCG‑A‑g‑g‑ggga < 1:510270/71‑3 (MQ=255) aCGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCG‑AGG‑G‑Ggaatcga < 1:3463240/71‑1 (MQ=255) aCGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCG‑AGG‑G‑Ggaatcga < 1:2082046/71‑1 (MQ=255) aCGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCG‑AGG‑G‑Ggaatcga < 1:3158464/71‑1 (MQ=255) gCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCG‑AGG‑G‑Ggaatcgaatc < 1:2005220/71‑1 (MQ=255) cAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATcc < 1:3321471/71‑1 (MQ=255) aGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTg > 1:2754826/1‑71 (MQ=255) gAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAg < 1:2643313/70‑1 (MQ=255) aGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCg < 1:3456541/71‑1 (MQ=255) aGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCg < 1:3634911/71‑1 (MQ=255) gCCGTTCACCCATGAAGAGCTACTCACATTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCGa < 1:1607274/71‑1 (MQ=255) ccGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCGAc < 1:388967/71‑1 (MQ=255) ttCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCG‑AGG‑G‑Ggaatcgaatc < 1:1171780/56‑1 (MQ=255) ttCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCG‑A‑g < 1:662987/43‑1 (MQ=38) cACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCGa > 1:1817844/1‑65 (MQ=255) cACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCGACGCAg < 1:1281680/70‑1 (MQ=255) cACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCGACGCAg < 1:398828/70‑1 (MQ=255) aCCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCGACGCAg < 1:1725043/69‑1 (MQ=255) aCCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCGACGCAGaa < 1:1908664/71‑1 (MQ=255) aCCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCGACGCAGaa < 1:2670935/71‑1 (MQ=255) aCCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCGACGCAGa < 1:1146178/70‑1 (MQ=255) aCCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCG‑A‑G‑GCGGAATCGAATCCATTGTAGCGACGCAGa < 1:3100012/70‑1 (MQ=255) ccATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCGACGCAGaa > 1:66574/1‑69 (MQ=255) cATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCG‑AGG‑G‑Ggaatcgaa > 1:3761213/1‑48 (MQ=255) aTGAAGAGCTACTCACCTTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCGACGCAGAAgggc > 1:872260/1‑69 (MQ=255) aTGAAGAGCTACTCACCTTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCGACGCAGAAggcg > 1:2043925/1‑71 (MQ=255) tGAAGAGCTACTCACCTTGTTGGCGCTGGCCCG‑A‑g‑g‑ggga < 1:1406776/40‑3 (MQ=37) aaGAGCTACTCACCTTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCGACGCAGaa > 1:896045/1‑64 (MQ=255) aaGAGCTACTCACCTTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCGACGCAGaa > 1:1317158/1‑64 (MQ=255) aaGAGCTACTCACCTTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCGACGCAGaa > 1:3399611/1‑64 (MQ=255) aaGAGCTACTCACCTTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCGACGCAGaa > 1:3490247/1‑64 (MQ=255) aaGAGCTACTCACCTTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCGACGCAGaa > 1:3548122/1‑64 (MQ=255) aaGAGCTACTCACCTTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCGACGCAGAAGgcggcg > 1:2730550/1‑71 (MQ=255) cTACTCACCTTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTgg > 1:3361413/1‑70 (MQ=255) cTCACCTTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCa < 1:682923/40‑1 (MQ=25) cTCACCTTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTg < 1:68162/43‑1 (MQ=25) cTCACCTTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTg < 1:1821237/43‑1 (MQ=25) cTCACCTTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTg < 1:78031/43‑1 (MQ=25) tCACCTTGTTGGCGCTGGCCCGAA‑G‑G‑GGAATCGAATCCATTGt < 1:1408013/43‑1 (MQ=25) accTTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCGACGCAGAAGGCGgcgc > 1:1826232/3‑61 (MQ=255) accTTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTgg > 1:989526/3‑64 (MQ=255) accTTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTgg > 1:2646424/3‑64 (MQ=255) accTTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACt > 1:2518020/3‑70 (MQ=255) accTTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACt > 1:1153426/3‑70 (MQ=255) accTTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACt > 1:3221753/3‑70 (MQ=255) cTTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGc < 1:3347901/42‑1 (MQ=37) cTTGTTGGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGc < 1:7739/42‑1 (MQ=37) ttgttgGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGAtt > 1:3632924/1‑71 (MQ=255) ttgttgGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGAtt > 1:717324/1‑71 (MQ=255) ttgttgGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGAtt > 1:1641703/1‑71 (MQ=255) ttgGCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGc < 1:84170/38‑1 (MQ=37) ggCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGAtt > 1:1526648/1‑66 (MQ=255) ggCGCTGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTa < 1:2938920/70‑1 (MQ=255) ggCGCTGGCCCG‑A‑GTG‑GGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTa < 1:3075069/70‑1 (MQ=255) gcgctGGCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTa < 1:569/66‑1 (MQ=255) gCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTAAGGCGACt < 1:450894/71‑1 (MQ=255) gCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTAAGGCGACt < 1:2070924/71‑1 (MQ=255) gCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTAAGGCGACt < 1:1908807/71‑1 (MQ=255) gCCCG‑AGG‑G‑GGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTAAGGCGACt < 1:1677434/71‑1 (MQ=255) cccG‑AGG‑G‑GGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTAAGGCGACt < 1:34546/70‑1 (MQ=255) | AAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCATCTTGTTGGCTCTGGCCCG‑A‑G‑G‑GGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTAAGGCGACT > W3110S.gb/3824463‑3824597 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |