| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | AP009048 | 3,685,100 | A→C | 100% | pseudogene (1022/1645 nt) | ilvG ← | ECK3760:JW3740+JW3741:b4488; large subunit of acetolactate synthase II |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | AP009048 | 3,685,100 | 0 | A | C | 98.7% | 255.4 / ‑5.0 | 73 | pseudogene (1022/1645 nt) | ilvG | ECK3760:JW3740+JW3741:b4488; large subunit of acetolactate synthase II |
| Reads supporting (aligned to +/- strand): ref base A (0/1); new base C (33/39); total (33/40) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
| 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. | |||||||||||
CGATCCGACAGTTGTTTTAACAACAACGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGAATGTTCATCACGCAGCTGCGCGCAGTGTTGCTGCCAGTCATTG‑‑ATTTAACGGCTGCTGTAATGCT > AP009048/3685033‑3685165 | cGATCTGACAGTTGTTTTAACAACAACGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCAt < 1:3564706/70‑1 (MQ=255)cGATCTGACAGTTGTTTTAACAACAACGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATg > 1:2930544/1‑71 (MQ=255)cGATCTGACAGTTGTTTTAACAACAACGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATg > 1:5188574/1‑71 (MQ=255) tctgACAGTTGTTTTAACAACAACGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGtt < 1:1083127/67‑1 (MQ=255) tctgACAGTTGTTTTAACAACAACGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGtt > 1:3244739/4‑70 (MQ=255) tctgACAGTTGTTTTAACAACAACGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGtt < 1:1663358/67‑1 (MQ=255) tgACAGTTGTTTTAACAACAACGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTtcat > 1:4478509/2‑71 (MQ=255) aCAGTTGTTTTAACAACAACGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGt < 1:3005196/65‑1 (MQ=255) aCAGTTGTTTTAACAACAACGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTtcatc < 1:4824178/70‑1 (MQ=255) aCAGTTGTTTTAACAACAACGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTtca < 1:4456901/68‑1 (MQ=255) aCAGTTGTTTTAACAACAACGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTtc < 1:1742041/67‑1 (MQ=255) cAGTTGTTTTAACAACAACGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCAc < 1:3741825/71‑1 (MQ=255) aGTTGTTTTAACAACAACGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACg > 1:673425/1‑71 (MQ=255) gttgttTTAACAACAACGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGc < 1:4712479/71‑1 (MQ=255) ttttAACAACAACGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCt < 1:2439088/71‑1 (MQ=255) tttAACAACAACGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTg > 1:2093256/1‑71 (MQ=255) ttAACAACAACGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGt < 1:103848/56‑1 (MQ=255) ttAACAACAACGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTgc > 1:3025038/1‑71 (MQ=255) ttAACAACAACGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTgc > 1:3018975/1‑71 (MQ=255) aacaacaacGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTtcatca < 1:2745393/60‑1 (MQ=255) acaacaacGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTgcgcg < 1:2283083/71‑1 (MQ=255) acaacaacGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTgcgcg < 1:4563555/71‑1 (MQ=255) aacaacGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTgcgcg > 1:4663244/1‑69 (MQ=255) aacaacGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTgcg < 1:3779452/67‑1 (MQ=255) caacGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAgt < 1:147034/71‑1 (MQ=255) aacGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCAt > 1:4651101/1‑46 (MQ=255) acGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAgtgt < 1:3207033/71‑1 (MQ=255) acGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAgtgt < 1:2355092/71‑1 (MQ=255) cGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTtcatca > 1:2907474/1‑52 (MQ=255) cGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAgtgta < 1:4719824/71‑2 (MQ=255) gcgcGTAGATAGCGTCACCGGGATTGTCGTAACGCCATGCATGTTCATCACGCAGCTGCGCGCAg < 1:5012747/65‑1 (MQ=255) gcgTAGATATCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTagctg > 1:4367778/1‑71 (MQ=255) gcgTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTgcgcgc < 1:4659979/61‑1 (MQ=255) gcgTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTagctg > 1:694240/1‑71 (MQ=255) gTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTagctgc > 1:4663149/1‑70 (MQ=255) tAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTgcgcg < 1:3219331/57‑1 (MQ=255) tAGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTagctgc > 1:3723704/1‑69 (MQ=255) aGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAg > 1:1363533/1‑71 (MQ=255) aGATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAg > 1:2098383/1‑71 (MQ=255) gATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCa > 1:1935695/1‑57 (MQ=255) gATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGt > 1:3717561/1‑71 (MQ=255) gATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGt < 1:3103130/71‑1 (MQ=255) gATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGt < 1:1445725/71‑1 (MQ=255) gATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGt < 1:927534/71‑1 (MQ=255) gATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGt < 1:4553081/71‑1 (MQ=255) gATAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGt > 1:1042082/1‑71 (MQ=255) aTAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTagctgc < 1:3043912/66‑1 (MQ=39) aTAGCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGt > 1:4836522/1‑70 (MQ=255) aTAGCGGCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCTGTGTAGCTGCCAGTc < 1:4043269/71‑1 (MQ=255) tAGCGTCACCGGGATGGTCGTAACGCCAGGAATGTTCATCACGCAGCTGCGCGCAGTGTTGCTGCCAGTCa < 1:440402/71‑1 (MQ=255) gCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCATCTGCGCGCAGTGTAGCTGCCAGTCAtt < 1:4656863/71‑1 (MQ=255) gCGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCAtt < 1:2116878/71‑1 (MQ=255) cGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCATTCa > 1:95048/1‑68 (MQ=39) cGTCACCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCAtt > 1:2871414/1‑70 (MQ=255) aCCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTgcgcgc < 1:5159559/47‑1 (MQ=255) aCCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTgcgcgc < 1:1937699/47‑1 (MQ=255) aCCGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTG‑‑Atat > 1:1800685/1‑69 (MQ=255) ccGGGATGGTCGTAACGCCAGGCATTTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTG‑‑Atat > 1:1545280/1‑68 (MQ=255) cGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCAt < 1:518618/63‑1 (MQ=39) cGGGATGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTG‑‑Atatt > 1:3494401/1‑67 (MQ=255) aTGGTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAg > 1:1486134/1‑43 (MQ=255) gTCGTAACGCCAGGCATGTTCATCACGCAGCTgcgcg < 1:1159586/37‑1 (MQ=255) gTCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGgc < 1:5023601/70‑1 (MQ=255) tCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGgctg > 1:4744227/1‑71 (MQ=255) tCGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGgctg < 1:689229/71‑1 (MQ=255) cGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTg > 1:3813373/1‑56 (MQ=38) cGTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGgctgc > 1:3545106/1‑71 (MQ=255) gTAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTg > 1:4249660/1‑55 (MQ=38) tAACGCCAGGCATGTTCATCACGCAGCTGCGCGCAgt < 1:2623550/37‑1 (MQ=255) aCGCCAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTa < 1:4638299/71‑1 (MQ=255) cAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGc < 1:2156418/71‑1 (MQ=255) cAGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGc > 1:1389621/1‑71 (MQ=255) aGGCATGTTCATCACGCAGCTGCGCGCAGTGTAGCTGCCAGTCATTGATATTTAACGGCTGCTGTAATGCt > 1:2117376/1‑71 (MQ=255) | CGATCCGACAGTTGTTTTAACAACAACGGCGCGTAGATAGCGTCACCGGGATGGTCGTAACGCCAGGAATGTTCATCACGCAGCTGCGCGCAGTGTTGCTGCCAGTCATTG‑‑ATTTAACGGCTGCTGTAATGCT > AP009048/3685033‑3685165 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |