| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | W3110S.gb | 3,538,437 | G→A | 43.4% | A170V (GCA→GTA) | rhaS ← | DNA‑binding transcriptional activator, L‑rhamnose‑binding |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | W3110S.gb | 3,538,437 | 0 | G | A | 43.4% | 40.2 / 111.4 | 88 | A170V (GCA→GTA) | rhaS | DNA‑binding transcriptional activator, L‑rhamnose‑binding |
| Reads supporting (aligned to +/- strand): ref base G (22/27); new base A (24/14); total (47/41) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.29e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.91e-01 | |||||||||||
GGCATCCCAATTCACCTCATCGGCAAAATGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAGTAATTGCATAAACAAGATCTC > W3110S.gb/3538370‑3538507 | ggCATCCCAATTCACCTCATCGGCAAAATGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATacgc > 1:336263/1‑71 (MQ=255) ccAATTCACCTCATCGGCAAAATGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATGCGCTGtttt > 1:26651/1‑71 (MQ=255) ccAATTCACCTCATCGGCAAAATGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATACGCTGtttt > 1:1841319/1‑71 (MQ=255) ccAATTCACCTCATCGGCAAAATGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATACGCTGtttt > 1:2351775/1‑71 (MQ=255) ccAATTCACCTCATCGGCAAAATGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATACGCTGtttt > 1:3911743/1‑71 (MQ=255) acAATTCACCTCATCGGCAAAATGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATACGCTGtttt > 1:2884220/2‑71 (MQ=255) aaTTCACCTCATCGGCAAAATGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATGCGCTGtttt > 1:1087403/1‑69 (MQ=255) aaTTCACCTCATCGGCAAAATGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATGCGCTGTTTTcc < 1:838963/71‑1 (MQ=255) aaTTCACCTCATCGGCAAAATGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATGCGCTGTTTTcc < 1:566639/71‑1 (MQ=255) aTTCACCTCATCGGCAAAATGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATGCGCTg < 1:2595310/64‑1 (MQ=255) ttCACCTCATCGGCAAAATGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATacgc > 1:283156/1‑61 (MQ=255) ttCACCTCATCGGCAAAATGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATGCGCTGtt > 1:1473396/1‑65 (MQ=255) ttCACCTCATCGGCAAAATGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATACGCTGTTTTCCAg > 1:561673/1‑71 (MQ=255) ttCACCTCATCGGCAAAATGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATACGCTGTTTTCCAg > 1:2595832/1‑71 (MQ=255) cACCTGATCGGCAAAATGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATACGCTGTTTTCCAgg > 1:3969264/1‑70 (MQ=255) cACCTCATCGGCAAAATGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATGCGCTGTTTTCCAgg < 1:298084/70‑1 (MQ=255) cACCTCATCGGCAAAATGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATGCGCTGTTTTCCAgg < 1:374112/70‑1 (MQ=255) cACCTCATCGGCAAAATGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATACGCTGTTTTCCAgg > 1:2532978/1‑70 (MQ=255) cACCTCATCGGCAAAATGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATACGCTGTTTTCCAgg > 1:1351469/1‑70 (MQ=255) cACCTCATCGGCAAAATGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATACGCTGTTTTCCAGGt > 1:3036268/1‑71 (MQ=255) tCATCGGCAAAATGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATACGCTGTTTTcc < 1:3958285/63‑1 (MQ=255) tCATCGGCAAAATGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATACGCTGTTTTCCAGGTtctc > 1:3022821/1‑71 (MQ=255) tCATCGGCAAAATGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATACGCTGTTTTCCAGGTtctc > 1:2334269/1‑71 (MQ=255) tCATCGGCAAAATGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATACGCTGTTTTCCAGGTtctc > 1:1926102/1‑71 (MQ=255) ggCAAAATGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATACGCTGTTTTCCAGGTTCTCCTGc > 1:1571543/1‑70 (MQ=255) ggCAAAATGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATACGCTGTTTTCCAGGTTCTCCTGc > 1:2081235/1‑70 (MQ=255) ggCAAAATGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATACGCTGTTTTCCAGGTTCTCCTGCa < 1:330951/71‑1 (MQ=255) ggCAAAATGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATACGCTGTTTTCCAGGTTCTCCTGCa < 1:2693776/71‑1 (MQ=255) aaaaTGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATACGCt < 1:2323396/48‑1 (MQ=255) aaaaTGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATACGCt < 1:2737406/48‑1 (MQ=255) aaaaTGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATACGCt < 1:3850816/48‑1 (MQ=255) aaaaTGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATACGCt < 1:864866/48‑1 (MQ=255) aaaaTGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATACGCTGTTTTCCAGGTTCTCCTGCAAAc > 1:2318099/1‑71 (MQ=255) aaaaTGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATACGCTGTTTTCCAGGTTCTCCTGCAAAc > 1:2844083/1‑71 (MQ=255) aaaaTGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATACGCTGTTTTCCAGGTTCTCCTGCAAAc > 1:1227183/1‑71 (MQ=255) aaaaTGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATACGCTGTTTTCCAGGTTCTACTGCAAAc > 1:3442021/1‑71 (MQ=255) aaaTGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATGCGCTGTTTTcc < 1:1842078/54‑1 (MQ=255) aaaTGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATACGCt < 1:3888109/47‑1 (MQ=255) aaTGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCAAACTg < 1:3777341/71‑1 (MQ=255) aaTGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCAAACTg < 1:3022459/71‑1 (MQ=255) aaTGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCAAACTg < 1:1321790/71‑1 (MQ=255) aaTGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCAAACTg < 1:3437203/71‑1 (MQ=255) tGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATgc < 1:1320235/41‑1 (MQ=255) tGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATGCGCTGTTTTCCAGGTtctc < 1:3392274/59‑1 (MQ=255) tGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATGCGCTGTTTTCCAGGTtctc < 1:3049303/59‑1 (MQ=255) tGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATGCGCTGTTTTCCAGGTtctc < 1:3468857/59‑1 (MQ=255) gTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCAAACTGCttt < 1:1496187/71‑1 (MQ=255) cctccAGCCAGGCCAGAAGCAAGTTGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCAAAc > 1:187764/1‑63 (MQ=255) cctccAGCCAGGCCAGAAGCAAGTTGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCAAAc > 1:3359124/1‑63 (MQ=255) cctccAGCCAGGCCAGAAGCAAGTTGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCAAAc > 1:1646108/1‑63 (MQ=255) cctccAGCCAGGCCAGAAGCAAGTTGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCAAACTGCttt < 1:890879/69‑1 (MQ=255) gccaggccagAAGCAAGTTGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACgcag > 1:1578718/1‑70 (MQ=255) gccaggccagAAGCAAGTTGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACgcag > 1:424574/1‑70 (MQ=255) gccaggccagAAGCAAGTTGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACgcag > 1:3102441/1‑70 (MQ=255) gccaggccagAAGCAAGTTGAGACGTGATACGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACgcagc < 1:2886476/71‑1 (MQ=255) cagAAGCAAGTTGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCaaa > 1:2576000/1‑49 (MQ=255) cagAAGCAAGTTGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCaaa > 1:24039/1‑49 (MQ=255) cagAAGCAAGTTGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCaaa > 1:1653770/1‑49 (MQ=255) cagAAGCAAGTTGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCaa > 1:2860938/1‑48 (MQ=255) agAAGCAAGTTGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCAAACTGc < 1:3397290/52‑1 (MQ=255) agAAGCAAGTTGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAg > 1:977042/1‑71 (MQ=255) gAAGCAAGTTGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAGt < 1:2904075/71‑1 (MQ=255) gAAGCAAGTTGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAGt < 1:3693337/71‑1 (MQ=255) gAAGCAAGTTGAGACGTGATACGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAGt < 1:831835/71‑1 (MQ=255) gAAGCAAGTTGAGACGTGATACGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAGt < 1:3501896/71‑1 (MQ=255) gAAGCAAGTTGAGACGTGATACGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAGt < 1:1990515/71‑1 (MQ=255) aaGCATGTTGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAGt < 1:2875221/70‑1 (MQ=255) aaGCAAGTTGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAGt < 1:2981360/70‑1 (MQ=255) aaGCAAGTTGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAGt < 1:1074856/70‑1 (MQ=255) aaGCAAGTTGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAGTa < 1:3793186/71‑1 (MQ=255) aGCAAGTTGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAGTaa > 1:1302018/1‑71 (MQ=255) aGCAAGTTGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAGTaa > 1:4080167/1‑71 (MQ=255) aGCAAGTTGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAGTaa > 1:1633888/1‑71 (MQ=255) gCAAGTTGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAGTAAt > 1:2128743/1‑71 (MQ=255) gCAAGTTGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAGTAAt > 1:2014511/1‑71 (MQ=255) aaGTTGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACgcagc < 1:3775881/57‑1 (MQ=255) aaGTTGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACgcagc < 1:164813/57‑1 (MQ=255) aaGTTGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAGTAATTg > 1:1249269/1‑71 (MQ=255) aaGTTGAGACGTGATACGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACGCAGCAAGTGCAGTAATTg > 1:1433674/1‑71 (MQ=255) aaGTTGAGACGTGATACGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAGTAATTg > 1:3649247/1‑71 (MQ=255) aaGTTGAGACGTGATACGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAGTAATTg > 1:904882/1‑71 (MQ=255) aaGTTGAGACGTGATACGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAGTAATTg > 1:1130790/1‑71 (MQ=255) ttGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACGCAGCAag < 1:1293837/57‑1 (MQ=255) tGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAGTAATTGCAt > 1:3133697/1‑70 (MQ=255) aCGTGATACGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAGTAATTGCATAAAc > 1:1371059/1‑70 (MQ=255) aCGTGATACGCTGTTTTCCAGGTTCTCCTGCAAACAGCTTTTACGCAGCAAGAGCAGt < 1:2884225/58‑1 (MQ=255) gTGATTCGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAGTaa > 1:3074611/1‑58 (MQ=255) gTGATGCGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAGTaa > 1:2857964/1‑58 (MQ=255) tGATACGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAGTAATTGCATAAACAAGa < 1:2691685/71‑1 (MQ=255) aTGTGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAGTAATTGCATAAACAAGAtc < 1:3830428/71‑1 (MQ=255) tGCGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAGTAATTGCATAAACAAg < 1:1335198/67‑1 (MQ=255) gcgcTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACgca > 1:414878/1‑40 (MQ=255) gcgcTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACgca > 1:2032642/1‑40 (MQ=255) gcgcTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACgca > 1:1053124/1‑40 (MQ=255) gcgcTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAGTAATTGCATAAACAAGAtctc > 1:593729/1‑71 (MQ=255) gcgcTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAGTAATTGCATAAACAAGAtctc > 1:1534870/1‑71 (MQ=255) | GGCATCCCAATTCACCTCATCGGCAAAATGGTCCTCCAGCCAGGCCAGAAGCAAGTTGAGACGTGATGCGCTGTTTTCCAGGTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAGTAATTGCATAAACAAGATCTC > W3110S.gb/3538370‑3538507 |
| 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: ‑ |