| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | W3110S.gb | 3,792,107 | Δ1 bp | 100% | coding (315/1320 nt) | uhpC → | membrane protein regulates uhpT expression |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | W3110S.gb | 3,792,107 | 0 | G | . | 76.8% | 93.7 / 58.5 | 56 | coding (315/1320 nt) | uhpC | membrane protein regulates uhpT expression |
| Reads supporting (aligned to +/- strand): ref base G (4/9); new base . (10/33); total (14/42) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 7.17e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.58e-01 | |||||||||||
| Rejected as polymorphism: Polymorphic indel expands or contracts a homopolymer stretch. | |||||||||||
TGTCTCCGGCATTGTCAGCGATCGCTCAAATGCCCGTTATTTTATGGGGATAGGGCTTATCGCCACGGGCATTATCAACATTCTGTTTGGCTTCTCGACGTCGCTATGGGCGTTTGCCGTGCTCTG > W3110S.gb/3792041‑3792166 | tGTCTCCGGCATTGTCAGCGATCGCACAAATGCCCGTTATTTTATGGGGATAGGGCTTATCGCCACggg > 1:2386357/1‑69 (MQ=255) tctcCGGCATTGTCAGCGATCGCTCAAATGCCCGTTATTTTATTGGGATAGGGCTTATCGCCACggca < 1:3557115/68‑3 (MQ=255) tctcCGGCATTGTCAGCGATCGCTCAAATGCCCGTTATTTTATGGGGATAGGGCTTATCGCCACggca < 1:41235/68‑3 (MQ=255) cATTGTCAGCGATCGCTCAAATGCCCGTTATTTTATGGGGATAGGGCTTATCGCCAC‑GGCATTATCAAc < 1:834080/69‑1 (MQ=255) gTCAGCGATCGCTCAAATGCCCGTTATTTTATGGGGATAGGGCTTATCGCCAC‑GGCATTATc < 1:2659924/62‑1 (MQ=255) gTCAGCGATCGCTCAAATGCCCGTTATTTTATGGGGATAGGGCTTATCGCCAC‑GGCATTATc < 1:3065638/62‑1 (MQ=255) gTCAGCGATCGCTCAAATGCCCGTTATTTTATGGGGATAGGGCTTATCGCCAC‑GGCATTATc < 1:3077617/62‑1 (MQ=255) gTCAGCGATCGCTCAAATGCCCGTTATTTTATGGGGATAGGGCTTATCGCCAC‑GGCATTATc < 1:3114571/62‑1 (MQ=255) gTCAGCGATCGCTCAAATGCCCGTTATTTTATGGGGATAGGGCTTATCGCCAC‑GGCATTATc < 1:2236692/62‑1 (MQ=255) gTCAGCGATCGCTCAAATGCCCGTTATTTTATGGGGATAGGGCTTATCGCCAC‑GGCATTAT‑AACATTCt > 1:1166246/1‑69 (MQ=255) aGCGATCGCTCAAATGCCCGTTATTTTATGGGGATAGGGCTTATCGCCAC‑GGCATTATCAACATTCTg < 1:988514/68‑1 (MQ=255) aGCGATCGCTCAAATGCCCGTTATTTTATGGGGATAGGGCTTATCGCCAC‑GGCATTATCAACATTCTg < 1:2231336/68‑1 (MQ=255) aGCGATCGCTCAAATGCCCGTTATTTTATGGGGATAGGGCTTATCGCCAC‑GGCATTATCAACATTCTGt > 1:1051953/1‑69 (MQ=255) cGATCGCTCAAATGCCCGTTATTTTATGGGGATAGGGCTTATCGCCACGGGCATTATCAACATTCTGt < 1:2102723/68‑1 (MQ=255) cGATCGCTCAAATGCCCGTTATTTTATGGGGATAGGGCTTATCGCCACGGGCATTATCAACATTCTGt < 1:2107170/68‑1 (MQ=255) aTCGCTCAAATGCCCGTTATTTTATGGGGATAGGGCTTATCGCCAC‑GGCATTATCAACATTCTGTTTgg < 1:626791/69‑1 (MQ=255) cAAATGCCCGTTATTTTATGGGGATAGGGCTTATCGCCAC‑GGCATTATCAACATTCTGTTTGGCTtctc < 1:1515139/69‑1 (MQ=255) cAAATGCCCGTTATTTTATGGGGATAGGGCTTATAGCCAC‑GGCATTATCAACATTCTGTTTGGCTtctc < 1:1017676/69‑1 (MQ=255) aTGCCCGTTATTTTATGGGGATAGGGCTTATCGCCACGGGCATTATCAACATTCTGTTTGGCTtctc < 1:2585334/67‑1 (MQ=255) aTGCCCGTTATTTTATGGGGATAGGGCTTATCGCCACGGGCATTATCAACATTCTGTTTGGCTtctc < 1:1772886/67‑1 (MQ=255) aTGCCCGTTATTTTATGGGGATAGGGCTTATCGCCAC‑GGCATTATCAACATTCTGTTTGGCTTCTCGAc < 1:2993441/69‑1 (MQ=255) tGCCCGTTATTTTATGGGGATAGGGCTTATCGCCAC‑GGCATTATCAACATTCTGTTTGGCTTCTCGAc > 1:3588727/1‑68 (MQ=255) tGCCCGTTATTTTATGGGGATAGGGCTTATCGCCAC‑GGCATTATCAACATTCTGTTTGGCTTCTCGACg > 1:831722/1‑69 (MQ=255) tGCCCGTTATTTTATGGGGATAGGGCTTATCGCCAC‑GGCATTATCAACATTCTGTTTGGCTTCTCGACg > 1:2206964/1‑69 (MQ=255) ttATTTTATGGGGATAGGGCTTATCGCCAC‑GGCATTATCAACATTCTGTTTGGCTTCTCGACGTCGCTa < 1:1104888/69‑1 (MQ=255) ttATTTTATGGGGATAGGGCTTATCGCCAC‑GGCATTATCAACATTCTGTTTGGCTTCTCGACGTCGCTa < 1:2385935/69‑1 (MQ=255) tATTTTATGGGGATAGGGCTTATCGCCAC‑GGCATTATCa < 1:551120/39‑1 (MQ=38) tATTTTATGGGGATAGGGCTTATCGCCAC‑GGCATTATCAACATTCTGTTTGGCTtctc > 1:1651436/1‑58 (MQ=255) tATTTTATGGGGATAGGGCTTATCGCCAC‑GGCATTATCAACATTCTGTTTGGCTtctc > 1:2291213/1‑58 (MQ=255) tATTTTATGGGGATAGGGCTTATCGCCAC‑GGCATTATCAACATTCTGTTTGGCTtctc > 1:2184331/1‑58 (MQ=255) tATTTTATGGGGATAGGGCTTATCGCCAC‑GGCATTATCAACATTCTGTTTGGCTtctc < 1:2163998/58‑1 (MQ=255) tATTTTATGGGGATAGGGCTTATCGCCAC‑GGCATTATCAACATTCTGTTTGGCTtctc < 1:1753723/58‑1 (MQ=255) tATTTTATGGGGATAGGGCTTATCGCCAC‑GGCATTATCAACATTCTGTTTGGCTtct > 1:653297/1‑57 (MQ=255) tATTTTATGGGGATAGGGATTATCGCCAC‑GGCATTATCAACATTCTGTTTGGCTtctc > 1:1920837/1‑58 (MQ=255) aTTTTATGGGGATAGGGCTTATCGCCACGGGCATTATCAACATTCTGTTTGGCTTCTCGACGTCGCTAt > 1:2255316/1‑69 (MQ=255) aTTTTATGGGGATAGGGCTTATCGCCAC‑GTCATTATCaa < 1:3470354/39‑1 (MQ=37) aTTTTATGGGGATAGGGCTTATCGCCAC‑GGCATTATCaa < 1:1018050/39‑1 (MQ=38) aTTTTATGGGGATAGGGCTTATCGCCAC‑GGCATTATCaa < 1:1285571/39‑1 (MQ=38) aTTTTATGGGGATAGGGCTTATCGCCAC‑GGCATTATCAACATTCTGTTTGGCTtctc < 1:2479085/57‑1 (MQ=255) aTTTTATGGGGATAGGGCTTATCGCCAC‑GGCATTATCAACATTCTGTTTGGCTtctc < 1:723255/57‑1 (MQ=255) aTTTTATGGGGATAGGGCTTATCGCCAC‑GGCATTATCAACATTCTGTTTGGCTTCTCGACGTCGCTAt < 1:62691/68‑1 (MQ=255) gggATAGGGCTTATCGCCACGGGCATTATCAACATTCTGTTTGGCTTCTCGACGTCGCTATGGGCGttt < 1:2830031/69‑1 (MQ=255) gggATAGGGCTTATCGCCACGGGCATTATCAACATTCTGTTTGGCTTCTCGACGTCGCTATGGGCGttt < 1:2834260/69‑1 (MQ=255) gggATAGGGCTTATCGCCACGGGCATTATCAACATTCTGTTTGGCTTCTCGACGTCGCTATGGGCGttt < 1:3240770/69‑1 (MQ=255) gggATAGGGCTTATCGCCACGGGCATTATCAACATTCTGTTTGGCTTCTCGACGTCGCTATGGGCGttt < 1:35216/69‑1 (MQ=255) gggATAGGGCTTATCGCCACGGGCATTATCAACATTCTGTTTGGCTTCTCGACGTCGCTATGGGCGttt < 1:1611020/69‑1 (MQ=255) gATAGGGCTTATCGCCAC‑GGCATTATCAACATTCTGTTTGGCTTCTCGACGTCGCTATGGGCGTTTGc < 1:3431123/68‑1 (MQ=255) aTAGGGCTTATCGCCAC‑GGCATTATCAACATTCTGTTTGGCTTCTCGACGTCGCTATGGGCGTTTGCCg < 1:1426867/69‑1 (MQ=255) tAGGGCTTATCGCCACGGGCATTATCAACATTCTGTTTGGCTTCTCGACGTCGCTATGGGCGTTTGcc > 1:1124954/1‑68 (MQ=255) cTTATCGCCAC‑GGCATTATCAACATTCTGTTTGGCTTCTCGAc < 1:111723/43‑1 (MQ=38) cTTATCGCCAC‑GGCATTATCAACATTCTGTTTGGCTTCTCGAc < 1:1196412/43‑1 (MQ=38) cTTATCGCCAC‑GGCATTATCAACATTCTGTTTGGCTTCTCGAc < 1:1696262/43‑1 (MQ=38) cTTATCGCCAC‑GGCATTATCAACATTCTGTTTGGCTTCTCGAc < 1:1700786/43‑1 (MQ=38) cTTATCGCCAC‑GGCATTATCAACATTCTGTTTGGCTTCTCGAc < 1:1743633/43‑1 (MQ=38) cTTATCGCCAC‑GGCATTATCAACATTCTGTTTGGCTTCTCGAc < 1:2350423/43‑1 (MQ=38) cTTATCGCCAC‑GGCATTATCAACATTCTGTTTGGCTTCTCGAc < 1:2486826/43‑1 (MQ=38) ttATCGCCAC‑GGCATTATCAACATTCTGTTTGGCTTCTCGACGTCGCTATGGGCGTTTGCCGTGCTCTg < 1:2600699/69‑1 (MQ=255) cGCCACGGGCATTATCAACATTCTGTTTGGCTTCTCGACGTCGCTa > 1:147073/1‑46 (MQ=255) agCCACGGGCATTATCAACATTCTGTTTGGCTTCTCGACGTCGCTa > 1:2378145/2‑46 (MQ=255) | TGTCTCCGGCATTGTCAGCGATCGCTCAAATGCCCGTTATTTTATGGGGATAGGGCTTATCGCCACGGGCATTATCAACATTCTGTTTGGCTTCTCGACGTCGCTATGGGCGTTTGCCGTGCTCTG > W3110S.gb/3792041‑3792166 |
| 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: ‑ |