| 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 | 97.5% | 135.0 / ‑3.7 | 40 | pseudogene (666/687 nt) | rph | ECK3633:JW3618:b3643; ribonuclease PH |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base G (19/20); total (19/21) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.95e-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. | |||||||||||
CAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCATCTTGTTGGCTCTGGCCCGA‑G‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTAAGGCGACT > W3110S.gb/3824468‑3824597 | cAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑g‑ggg > 1:3721371/1‑70 (MQ=255) ggggACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑g‑ggggaa > 1:1168623/1‑68 (MQ=255) ggACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑g‑ggg > 1:3405667/1‑66 (MQ=255) aGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑g‑gggg > 1:2085607/1‑59 (MQ=255) gAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCAt < 1:879039/71‑1 (MQ=255) ggCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGt < 1:3656726/71‑1 (MQ=255) gCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCGGGCCCGA‑GTGGGAATCGAATCCATTGTAGCg < 1:1530798/70‑1 (MQ=255) ccGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCg < 1:857031/69‑1 (MQ=255) ccGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCg < 1:567631/69‑1 (MQ=255) ccGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCg < 1:1945019/69‑1 (MQ=255) ccGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGAc > 1:3987079/1‑71 (MQ=255) ttCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCa < 1:5073320/71‑1 (MQ=255) cACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGgaatcga > 1:1425469/1‑51 (MQ=255) cACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGc > 1:1024424/1‑68 (MQ=255) cACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAg < 1:344011/70‑1 (MQ=255) cACCAATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGc > 1:3730094/1‑68 (MQ=255) aTGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAggcg > 1:2811059/1‑71 (MQ=255) tGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑g‑gggga < 1:4557815/40‑3 (MQ=37) aaGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGGAATCTAATCCATTGTAGCGACGCAGAAGgcggcg < 1:4102588/71‑1 (MQ=255) aaGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGgcggcg > 1:2437565/1‑71 (MQ=255) gagCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCt < 1:1234289/71‑1 (MQ=255) agCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTg > 1:1049439/1‑71 (MQ=255) cTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAggcgg > 1:3666631/1‑64 (MQ=255) tACTCACCTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAggc < 1:3083935/61‑1 (MQ=255) tACTCACCTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGc < 1:377164/70‑1 (MQ=255) tCACCTTGTTGGCGCTGGCCCGAGG‑GGgaatcgaat > 1:2029082/1‑36 (MQ=19) accTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGaa > 1:2315271/3‑53 (MQ=255) accTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGaa > 1:549954/3‑53 (MQ=255) accTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACt > 1:2844055/3‑70 (MQ=255) accTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACt > 1:4213413/3‑70 (MQ=255) ccTTGTTGGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGa < 1:711061/70‑1 (MQ=255) ttgttgGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAg > 1:4035992/1‑40 (MQ=37) tgttgGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGc < 1:383083/61‑1 (MQ=255) tgttgGCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGAttt > 1:1547872/1‑71 (MQ=255) ggCGCTGGCCCGAGG‑GGGAATCGAATCCATTGTAGAGACGCAGAAggcg > 1:2141393/1‑49 (MQ=255) gcgctGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTaa < 1:2183869/67‑1 (MQ=255) cgctGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGAtt > 1:3956374/3‑64 (MQ=255) gctGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAggc < 1:2092001/44‑1 (MQ=255) gctGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACt < 1:1779919/58‑1 (MQ=255) gctGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGAtt > 1:3376721/2‑63 (MQ=255) ctGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTAAGGc > 1:3241580/1‑70 (MQ=255) tGGCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTaa < 1:2630245/66‑1 (MQ=255) gCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTAAGGCGACt < 1:1467001/71‑1 (MQ=255) gCCCGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTAAGGCGACt < 1:1182167/71‑1 (MQ=255) cccGAGG‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGAt < 1:4464939/57‑1 (MQ=255) | CAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCATCTTGTTGGCTCTGGCCCGA‑G‑GGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTAAGGCGACT > W3110S.gb/3824468‑3824597 |
| 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: ‑ |