| 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 | 97.7% | 133.2 / ‑4.7 | 42 | pseudogene (666/687 nt) | rph | ECK3633:JW3618:b3643; ribonuclease PH |
| Reads supporting (aligned to +/- strand): ref base . (1/0); major base G (14/26); minor base T (1/0); total (16/26) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 3.66e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.42e-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 base substitution creates a homopolymer stretch. | |||||||||||
AAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCATCTTGTTGGCTCTGGCCCGA‑GGGG‑AATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTAAGGCGACT > W3110S.gb/3824463‑3824597 | aaGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGa < 1:2856689/71‑1 (MQ=255) gCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGa > 1:869407/1‑67 (MQ=255) cAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑ggggg < 1:4417846/71‑2 (MQ=255) cAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑gggg > 1:4168668/1‑70 (MQ=255) aGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑ggggga < 1:3947732/71‑3 (MQ=255) aGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑ggggga < 1:3838589/71‑3 (MQ=255) gACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGG‑‑CTGGCCCGAGGGGg‑aatcga < 1:2021028/70‑1 (MQ=255) aGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGG‑AATCGAATCCATTg > 1:2467755/1‑71 (MQ=255) cGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGG‑AATCGAATCCATTGTa > 1:1603847/1‑70 (MQ=255) aGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGG‑AATCGAATCCATTGTAGCg < 1:3029150/71‑1 (MQ=255) tCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGa > 1:3974503/1‑41 (MQ=38) cACCCATGAAGAGCTAGTCACCTTGTTGGCGCTGGCCCGAGGGGG‑AATCGAATCCATTGTAGCGACGCAg > 1:129467/1‑70 (MQ=255) cccATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGG‑AATCGAATCCATTGTAGCGACTCAGAAg < 1:616061/71‑1 (MQ=255) aTGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGg‑aatcg < 1:1848610/45‑1 (MQ=255) aTGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGg‑aatcg < 1:3536623/45‑1 (MQ=255) aTGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGg‑aatcg < 1:3221245/45‑1 (MQ=255) aTGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑GGGGCaatcgaa > 1:3466098/1‑47 (MQ=255) aaGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGG‑AATCGAATCCATTGTAGCGACGCAGAAggcggc < 1:2969131/70‑1 (MQ=255) aaGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGG‑AATCGAATCCATTGTAGCGACGCAGAAGgcggcg < 1:68340/71‑1 (MQ=255) agagCTACTCACCTTGTTGGCGCTGGCCCGAGGGGG‑AATCGAATCCAtt < 1:952001/49‑1 (MQ=255) gagCTACTCACCTTGTTGGCGCTGGCCCGAGGGGG‑AATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCt < 1:3006448/71‑1 (MQ=255) gagCTACTCACCTTGTTGGCGCTGGCCCGAGGGGG‑AATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCt < 1:2953942/71‑1 (MQ=255) cTACTCTCCTTGTTGGCGCTGGCCCGAGGGGG‑AATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTgg > 1:2357963/1‑70 (MQ=255) cTACTCACCTTGTTGGCGCTGGCCCGATGGGG‑AATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTgg > 1:2830441/1‑70 (MQ=255) cTACTCACCTTGTTGGCGCTGGCCCGAGGGGG‑AATCGAATCCATTGTAGCGACGCa < 1:2204419/56‑1 (MQ=255) cTCACCTTGTTGGCGCTGGCCCGAGGGGG‑AATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCaaa > 1:357430/1‑71 (MQ=255) cTCACCTTGTTGGCGCTGGCCCGAGGGGG‑AATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCaa < 1:2515145/70‑1 (MQ=255) tCACCTTGTTGGCGCTGGCCCGAGGGGg‑aatcgaatc < 1:4597311/37‑1 (MQ=21) accTTGTTGGCGCTGGCCCGAGGGGG‑AATCGAATCCATTGTAGCGa > 1:1957595/3‑46 (MQ=255) ccTTGTTGGCGCTGGCCCGAGGGGG‑AATCGAATCCATTg < 1:4732197/38‑1 (MQ=25) ccTTGTTGGCGCTGGCCCGAGGGGG‑AATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGa > 1:3288559/2‑71 (MQ=255) ttgttgGCGCTGGCCCGAGGGGG‑AATCGAATCCAt < 1:4597953/35‑1 (MQ=25) ttgttgGCGCTGGCCCGAGGGGG‑AATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACt < 1:3414716/67‑1 (MQ=255) tgttgGCGCTGGCCCGAGGGGG‑AATCGAATCCATTg > 1:3753846/1‑36 (MQ=37) tgttgGCGCTGGCCCGAGGGGG‑AATCGAATCCATTg < 1:143866/36‑1 (MQ=37) tgttgGCGCTGGCCCGAGGGGG‑AATCGAATCCATTGTAGCGACGCAg < 1:391787/47‑1 (MQ=255) gttgGCGCTGGCCCGAGGGGG‑AATCGAATCCATTg > 1:2490355/1‑35 (MQ=25) gttgGCGCTGGCCCGAGGGGG‑AATCGAATCCATTg > 1:392927/1‑35 (MQ=25) gttgGCGCTGGCCCGAGGGGG‑AATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCaaa > 1:3266515/1‑63 (MQ=255) ttgGCGCTGGCCCGAGGGGG‑AATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGAttttt < 1:1687347/71‑1 (MQ=255) ggCGCTGGCCCGAGGGGG‑AATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGAtttt > 1:1921205/1‑68 (MQ=255) ggCGCTGGCCCGAGGGGG‑AATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTa < 1:1147306/70‑1 (MQ=255) gcgctGGCCCGAGGGGG‑AATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTaa < 1:1493546/67‑1 (MQ=255) gctGGCCCGAGGGGG‑AATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTAAGGc < 1:1195669/70‑1 (MQ=255) ctGGCCCGAGGGGG‑AATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTAAGGc > 1:873362/1‑70 (MQ=255) gCCCGAGGGGG‑AATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGa > 1:774983/1‑57 (MQ=255) gCCCGAGGGGG‑AATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTAAGGCGa < 1:553185/69‑1 (MQ=255) gCCCGAGGGGG‑AATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTAAGGCGACt < 1:3801411/71‑1 (MQ=255) gCCCGAGGGGG‑AATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTAAGGCGACt < 1:3000336/71‑1 (MQ=255) | AAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCATCTTGTTGGCTCTGGCCCGA‑GGGG‑AATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTAAGGCGACT > W3110S.gb/3824463‑3824597 |
| 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: ‑ |