| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | AP009048 | 3,685,143:1 | +AT | 100% | pseudogene (979/1645 nt) pseudogene (979/984 nt) |
ilvG ← ilvG ← |
ECK3760:JW3740+JW3741:b4488; large subunit of acetolactate synthase II ECK3760:JW3740:b3767; acetolactate synthase II, large subunit, N‑ter fragment |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | AP009048 | 3,685,143 | 1 | . | A | 93.8% | 131.5 / 4.5 | 48 | pseudogene (979/1645 nt) pseudogene (979/984 nt) | ilvG ilvG | ECK3760:JW3740+JW3741:b4488; large subunit of acetolactate synthase II ECK3760:JW3740:b3767; acetolactate synthase II, large subunit, N‑ter fragment |
| Reads supporting (aligned to +/- strand): ref base . (3/0); new base A (23/22); total (26/22) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 2.39e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. | |||||||||||
| * | AP009048 | 3,685,143 | 2 | . | T | 93.8% | 132.5 / 4.4 | 48 | pseudogene (979/1645 nt) pseudogene (979/984 nt) | ilvG ilvG | ECK3760:JW3740+JW3741:b4488; large subunit of acetolactate synthase II ECK3760:JW3740:b3767; acetolactate synthase II, large subunit, N‑ter fragment |
| Reads supporting (aligned to +/- strand): ref base . (3/0); new base T (23/22); total (26/22) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 2.39e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. | |||||||||||
ACCGGGATGGTCGTAACGCCAGGAATGTTCATCACGCAGCTGCGCGCAGTGTTGCTGCCAGTCATTG‑‑ATTTAACGGCTGCTGTAATGCTGGTAACAGAGCATTTAAATCACCTTGTAATGCCACATGT > AP009048/3685077‑3685204 || aCCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTG‑‑Atat > 1:1800685/1‑69 (MQ=255) ccGGGATGGTCGTAACGCCAGGCATTTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTG‑‑Atat > 1:1545280/1‑68 (MQ=255) cGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTG‑‑Atatt > 1:3494401/1‑67 (MQ=255) gTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGgc < 1:5023601/70‑1 (MQ=255) tCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGgctg < 1:689229/71‑1 (MQ=255) tCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGgctg > 1:4744227/1‑71 (MQ=255) cGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTg > 1:3813373/1‑56 (MQ=38) cGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGgctgc > 1:3545106/1‑71 (MQ=255) gTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTg > 1:4249660/1‑55 (MQ=38) aCGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTa < 1:4638299/71‑1 (MQ=255) cAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGc > 1:1389621/1‑71 (MQ=255) cAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGc < 1:2156418/71‑1 (MQ=255) aGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGCt > 1:2117376/1‑71 (MQ=255) ggcaTGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGCTg < 1:3849777/68‑1 (MQ=255) gcaTGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGCTgg > 1:2264061/3‑71 (MQ=255) gcaTGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGCTgg > 1:645535/3‑71 (MQ=255) gcaTGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGCTgg > 1:3587445/3‑71 (MQ=255) tGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGCTGGTaa < 1:19571/71‑1 (MQ=255) ttCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGCTGGTAAc < 1:4705480/70‑1 (MQ=255) tcatcaCGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGCTg > 1:100507/1‑64 (MQ=255) tcatcaCGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGCTGGTaa > 1:3696058/1‑68 (MQ=255) catcaCGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGCTGGTAACa > 1:157192/1‑69 (MQ=255) catcaCGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGCTGGTAACa > 1:4347544/1‑69 (MQ=255) catcaCGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGCTGGTAACa > 1:3252745/1‑69 (MQ=255) atcaCGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGCTGGTAACagag < 1:1152044/71‑1 (MQ=255) atcaCGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGCTGGTAACagag < 1:3077584/71‑1 (MQ=255) atcaCGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGCTGGTAACaga < 1:1409951/70‑1 (MQ=255) tcaCGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGCTGGTAACAGAGc < 1:414004/71‑1 (MQ=255) aCGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTa > 1:5043966/1‑53 (MQ=255) gCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGCTGGTAACa > 1:558433/1‑63 (MQ=255) gCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGCTGGTAACAGAGCAttt < 1:3653848/71‑1 (MQ=255) gCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGCTGGTAACAGAGCAttt < 1:1437913/71‑1 (MQ=255) gCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGCTGGTAACAGAGCAtt > 1:650774/1‑70 (MQ=255) aGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGCTGGTAACAGAGCATTTaa < 1:1399324/71‑1 (MQ=255) aGCTGCGCGCAGTGTAGCTGACAGTCATTGATATTTAACGGCTGCTGTAATGCTGGTAACAGAGCATTTaa < 1:3119657/71‑1 (MQ=255) gCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGCTGGTAACAGAGCATTTaa < 1:3723044/70‑1 (MQ=255) cTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGCTGGTAACAGAGCATTTAAAt < 1:181027/71‑1 (MQ=255) gcgcgcAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGt < 1:467718/44‑1 (MQ=25) cgcgcAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGCTGGTAACAGAGCATTTAAATc < 1:1418786/69‑1 (MQ=255) cgcgcAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGCTGGTAACAGAGCATTTAAATCAc < 1:5119457/71‑1 (MQ=255) gcAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGCTGGTAACAGAGCATTTAAATCACCtt > 1:730421/1‑71 (MQ=255) aGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGCTGGTAACAGAGCATTTAAATCACCTTg > 1:624899/1‑70 (MQ=255) gtgtAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGCTGGTAACAGAGCATTTAAATCACCTTGt > 1:4992908/1‑70 (MQ=255) gtgtAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGCTGGTAACAGAGCATTTAAATCACCTTGTa < 1:1304208/71‑1 (MQ=255) tagctgcCAGTCATTGATATTTAACGGCTGCTGTAATGCTGGTAACAGAGCATTTAAATCACCTTGTAATg > 1:97145/3‑71 (MQ=255) gctgcCAGTCATTGATATTTAACGGCTGCTGTAATGCTGGTAACAGAGCATTTAAATCACCTTGTAATGc > 1:1946457/1‑70 (MQ=255) ctgcCAGTCATTGATATTTAACGGCTGCTGTAATGCTGGTAACAGAGCATTTAAATCAc > 1:993707/1‑59 (MQ=255) gcCAGTGATTGATATTTAACGGCTGCTGTAATGCTGGTAACAGAGCATTTAAATCACCTTGTAATGCcaca > 1:662182/1‑71 (MQ=255) cAGTCATTGATATTTAACGGCTGCTGTAATGCTGGTAACAGAGCATTTAAATCACCTTGTAATGCCACAtg > 1:3185538/1‑71 (MQ=255) aGTCATTGATATTTAACGGCTGCTGTAATGCTGGTAACAGAGCATTTAAATCACCTTGTAATGCCACAtgt < 1:2140928/71‑1 (MQ=255) || ACCGGGATGGTCGTAACGCCAGGAATGTTCATCACGCAGCTGCGCGCAGTGTTGCTGCCAGTCATTG‑‑ATTTAACGGCTGCTGTAATGCTGGTAACAGAGCATTTAAATCACCTTGTAATGCCACATGT > AP009048/3685077‑3685204 |
| 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: ‑ |