| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | W3110S.gb | 3,824,524 | T→G | 100% | pseudogene (657/687 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 | 3,824,524 | 0 | T | G | 98.0% | 165.4 / ‑3.9 | 50 | pseudogene (657/687 nt) | rph | ECK3633:JW3618:b3643; ribonuclease PH |
| Reads supporting (aligned to +/- strand): ref base T (0/0); major base G (21/28); minor base . (0/1); total (21/29) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.49e-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. | |||||||||||
ATTGAAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCATCTTGTTGGCTCTGGCCCGA‑GGGG‑AATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTA > W3110S.gb/3824459‑3824589 | atTGAAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGc > 1:2730131/1‑71 (MQ=255) ttGAAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGcc > 1:3247575/1‑71 (MQ=255) ttGAAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGcc > 1:460214/1‑71 (MQ=255) gAAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGccc > 1:820586/1‑70 (MQ=255) 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 < 1:3838589/71‑3 (MQ=255) aGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑ggggga < 1:3947732/71‑3 (MQ=255) gggACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGccc < 1:1172937/61‑1 (MQ=255) gggACGGCAAAAGACGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCg < 1:2700233/62‑1 (MQ=255) gACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGG‑‑CTGGCCCGAGGGGg‑aatcga < 1:2021028/70‑1 (MQ=255) aGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGG‑AATCGAATCCATTg > 1:2467755/1‑71 (MQ=255) ggCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCg < 1:4379975/50‑1 (MQ=255) cGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGG‑AATCGAATCCATTGTa > 1:1603847/1‑70 (MQ=255) aGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGG‑AATCGAATCCATTGTAGCg < 1:3029150/71‑1 (MQ=255) gTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGccc < 1:3403448/41‑1 (MQ=38) 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 < 1:3221245/45‑1 (MQ=255) aTGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGg‑aatcg < 1:3536623/45‑1 (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) | ATTGAAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCATCTTGTTGGCTCTGGCCCGA‑GGGG‑AATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTA > W3110S.gb/3824459‑3824589 |
| 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: ‑ |