| 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 | 97.6% | 140.5 / ‑3.7 | 42 | pseudogene (666/687 nt) | rph | ECK3633:JW3618:b3643; ribonuclease PH |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base G (29/12); total (29/13) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 3.10e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.59e-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. | |||||||||||
AGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCATCTTGTTGGCTCTGGCCCGA‑G‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTT > W3110S.gb/3824464‑3824588 | aGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑g < 1:2542525/71‑1 (MQ=255)aGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑g < 1:4534074/71‑1 (MQ=255) ggggACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑g‑ggggaa < 1:3374437/71‑4 (MQ=255) ggggACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑g‑ggggaa < 1:1728560/71‑4 (MQ=255) ggggACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑g‑ggggaa < 1:765373/71‑4 (MQ=255) ggggACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑g‑ggggaa < 1:4070384/71‑4 (MQ=255) ggggACCGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑g‑ggggaa < 1:2743841/71‑4 (MQ=255) gggACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑g‑ggggaa < 1:2553953/70‑4 (MQ=255) gCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGgaatcgaatc > 1:928857/1‑71 (MQ=255) gCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGgaatcgaatc > 1:5599192/1‑71 (MQ=255) cACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAg < 1:460388/70‑1 (MQ=255) cACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑GTGGGAATCGAATCCATTGTAGCGACGCAg < 1:4644712/70‑1 (MQ=255) cATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAggc < 1:193377/71‑1 (MQ=255) cATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAggc < 1:2613572/71‑1 (MQ=255) cATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAggc < 1:81577/71‑1 (MQ=255) aTGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCa > 1:3291855/1‑51 (MQ=255) gAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAggcgg > 1:826736/1‑70 (MQ=255) aaGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAggcggc > 1:4065948/1‑70 (MQ=255) aaGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGgcggcg > 1:1481673/1‑71 (MQ=255) aaGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGgcggcg > 1:4750198/1‑71 (MQ=255) aaGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGgcggcg > 1:675291/1‑71 (MQ=255) aaGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGgcggcg > 1:4756516/1‑71 (MQ=255) gCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTgg < 1:3230419/71‑1 (MQ=255) gCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTgg < 1:5503657/71‑1 (MQ=255) aCTCACCTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCa > 1:2970863/1‑70 (MQ=255) aCTCACCTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCa > 1:2565575/1‑70 (MQ=255) aCTCACCTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCa > 1:3451124/1‑70 (MQ=255) cTCACCTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCaaa > 1:1117958/1‑71 (MQ=255) cTCACCTTGTTGGCGCGGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCaaa < 1:2360676/71‑1 (MQ=255) caccTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACt > 1:415185/4‑71 (MQ=255) caccTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACt > 1:2306838/4‑71 (MQ=255) caccTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACt > 1:510073/4‑71 (MQ=255) caccTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACt > 1:4828758/4‑71 (MQ=255) caccTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACt > 1:1917040/4‑71 (MQ=255) accTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACt > 1:245223/3‑70 (MQ=255) ccTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAg < 1:904777/49‑1 (MQ=255) ccTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAggc < 1:1138692/54‑1 (MQ=255) ttgttgGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGa > 1:340484/1‑49 (MQ=255) tgttgGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCg > 1:5029467/1‑41 (MQ=255) tgttgGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGa > 1:2539180/1‑42 (MQ=37) tgttgGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGa > 1:4435112/1‑42 (MQ=37) tgttgGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGa > 1:5143055/1‑42 (MQ=37) tgttgGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGa > 1:4216268/1‑42 (MQ=37) tgttgGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGa > 1:3647406/1‑42 (MQ=37) tgttgGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGa > 1:1143023/1‑42 (MQ=37) ttgGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGAttttt < 1:4564375/71‑1 (MQ=255) ttgGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGAttttt < 1:2968472/71‑1 (MQ=255) ttgGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGAtttt < 1:4257053/70‑1 (MQ=255) ggCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGAttttt > 1:4425768/1‑69 (MQ=255) ggCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGAttttt > 1:2763137/1‑69 (MQ=255) | AGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCATCTTGTTGGCTCTGGCCCGA‑G‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTT > W3110S.gb/3824464‑3824588 |
| 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: ‑ |