| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | AP009048 | 3,439,867 | T→C | 10.9% | intergenic (‑89/‑6) | nudC ← / → rsd | NADH pyrophosphatase/stationary phase protein, binds sigma 70 RNA polymerase subunit |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | AP009048 | 3,439,867 | 0 | T | C | 10.9% | 246.4 / 19.5 | 92 | intergenic (‑89/‑6) | nudC/rsd | NADH pyrophosphatase/stationary phase protein, binds sigma 70 RNA polymerase subunit |
| Reads supporting (aligned to +/- strand): ref base T (41/41); new base C (7/3); total (48/44) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 3.21e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.15e-01 | |||||||||||
CATCACTGGCATGTTTAACATGGTTTTTACATTTCTCACTGAGCAGTTTTTGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCAGAGGAAGTAACAAACTGGTTGATCGCTG > AP009048/3439798‑3439937 | cATCACTGGCATGTTTAACATGGTTTTTACATTTCTCACTGAGCAGTTTTTGAATACAAACTTGCGGAGTc < 1:2525000/71‑1 (MQ=255) aCTGGCATGTTTAACATGGTTTTTACATTTCTCACTGAGCAGTTTTTGAATACAAACTTGCGGAGTCAAt < 1:767467/70‑1 (MQ=255) aCTGGCATGTTTAACATGGTTTTTACATTTCTCACTGAGCAGTTTTTGAATACAAACTTGCGGAGTCAAt > 1:1790730/1‑70 (MQ=255) aCTGGCATGTTTAACATGGTTTTTACATTTCTCACTGAGCAGTTTTTGAATACAAACTTGCGGAGTCAAt > 1:290238/1‑70 (MQ=255) aCTGGCATGTTTAACATGGTTTTTACATTTCTCACTGAGCAGTTTTTGAATACAAACTTGCGGAGTCAAt < 1:1131922/70‑1 (MQ=255) cTGGCATGTTTAACATGGTTTTTACATTTCTCACTGAGCAGTTTTTGAATACAAACTTGCGGAGTCAATCa > 1:2698075/1‑71 (MQ=255) ggCATGTTTAACATGGTTTTTACATTTCTCACTGAGCAGTTTTTGAATACAAACTTGCGGAGTCAATCATg > 1:2760631/1‑71 (MQ=255) gCATGTTTAACATGGTTTTTACATTTCTCACTGAGCAGTTTTTGAATACAAACTTGCGGAGCCAATCATGc > 1:2272745/1‑71 (MQ=255) aTGTTTAACATGGTTTTTACATTTCTCACTGAGCAGTTTTTGAATACAAACTTGCGGAGTCAATCATGCtt < 1:1611815/71‑1 (MQ=255) aTGTTTAACATGGTTTTTACATTTCTCACTGAGCAGTTTTTGAATACAAACTTGCGGAGCCAATCATGCtt < 1:2055315/71‑1 (MQ=255) tGTTTAACATGGTTTTTACATTTCTCACTGAGCAGTTTTTGAATACAAACTTGCGGAGTCAATCATGCTTa < 1:4139190/71‑1 (MQ=255) tttAACATGGTTTTTACATTTCTCACTGAGCAGTTTTTGAATACAAACTTGCGGAGTCAATCATGCtt < 1:4343895/68‑1 (MQ=255) ttAACATGGTTTTTACATTTCTCACTGAGCAGTTTTTGAATACAAACTTGCGGAGTCAATCATGCTTAAc > 1:3768790/1‑70 (MQ=255) ttAACATGGTTTTTACATTTCTCACTGAGCAGTTTTTGAATACAAACTTGCGGAGCCAATCATGCTTAAc > 1:2911449/1‑70 (MQ=255) tAACATGGTTTTTACATTTCTCACTGAGCAGTTTTTGAATACAAACTTGCGGAGTCAATCATGCTTAAc > 1:4403507/1‑69 (MQ=255) aaCATGGTTTTTACATTTCTCACTGAGCAGTTTTTGAATACAAACTTGCGGAGTCAATCATGCTTAACCAg > 1:1929173/1‑71 (MQ=255) cATGGTTTTTACATTTCTCACTGAGCATTTTTTGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCt < 1:4365468/71‑1 (MQ=255) tGGTTTTTACATTTCTCACTGAGCAGTTTTTGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCg < 1:4572790/71‑1 (MQ=255) ggTTTTTACATTTCTCACTGAGCAGTTTTTGAATACAAACTTGCGGATTCAATCATg < 1:1014174/57‑1 (MQ=255) ggTTTTTACATTTCTCACTGAGCAGTTTTTGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGa > 1:1017175/1‑71 (MQ=255) ggTTTTTACATTTCTCACTGAGCAGTTTTTGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGa > 1:1011568/1‑71 (MQ=255) gTTTTTACATTTCTCACTGAGCAGTTTTTGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGa > 1:1935846/1‑70 (MQ=255) ttttACATTTCTCACTGAGCAGTTTTTGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATa > 1:2172064/1‑70 (MQ=255) aCATTTCTCACTGAGCAGTTTTTGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATAACCt > 1:4330360/1‑70 (MQ=255) aCATTTCTCACTGAGCAGTTTTTGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATAACCt < 1:1771733/70‑1 (MQ=255) cATTTCTCACTGAGCAGTTTTTGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGa > 1:3239669/1‑71 (MQ=255) ttCTCACTGAGCAGTTTTTGAATACAAACTTGCGGAGTCAATCATGCTTaa > 1:4183637/1‑51 (MQ=255) ttCTCACTGAGCAGTTTTTGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACg > 1:3776873/1‑70 (MQ=255) ttCTCACTGAGCAGTTTTTGAATACAAACTTGCGGAGCCAATCATGCTTGACCAGCTCGATAACCTGACg > 1:4460298/1‑70 (MQ=255) ttCTCACTGAGCAGTTTTTGAATACAAACTTGCGGAGCCAATCATGCTTAACCAGCTCGATAACCTGACg > 1:452824/1‑70 (MQ=255) ctcACTGAGCAGTTTTTGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGa < 1:1662333/70‑1 (MQ=255) tcACTGAGCAGTTTTTGAATACAAACTTGCGGAGTCAATc < 1:2321517/40‑1 (MQ=255) tcACTGAGCAGTTTTTGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCTc > 1:3845268/1‑55 (MQ=255) aCTGAGCAGTTTTTGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCCATAACCTGACGGAgc < 1:4247618/69‑1 (MQ=255) aGCAGTTTTTGAATACAAACTTGCTGAGTCAATCATGc > 1:2816918/1‑38 (MQ=255) aGCAGTTTTTGAATACAAACTTGCGGAGTCAATCATGc > 1:2985504/1‑38 (MQ=255) aGCAGTTTTTGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGt > 1:534065/1‑69 (MQ=255) aGCAGTTTTTGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGt > 1:4065212/1‑69 (MQ=255) aGCAGTTTTTGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGt > 1:4059752/1‑69 (MQ=255) gCAGTTTTTGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCag < 1:1458507/71‑1 (MQ=255) cAGTTTTTGAATACAAACTTGCTGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCaga < 1:4132074/71‑1 (MQ=255) cAGTTTTTGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCaga < 1:2755259/71‑1 (MQ=255) cAGTTTTTGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCa < 1:1197383/69‑1 (MQ=255) cAGTTTTTGAATACAAACTTGCGGAGCCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCaga < 1:4586835/71‑1 (MQ=255) aGTTTTTGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCagag < 1:2082864/71‑1 (MQ=255) gTTTTTGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCagag > 1:2527526/1‑70 (MQ=255) gTTTTTGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCagag > 1:3528141/1‑70 (MQ=255) gTTTTTGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCAGAgg < 1:1298867/71‑1 (MQ=255) gTTTTTGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCAGAgg < 1:3473443/71‑1 (MQ=255) gTTTTTGAATACAAACTTGCGGAGTCAATAATGCTTAACCAGCTCGATAACCTGACGGa > 1:983769/1‑59 (MQ=255) tttttGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCg < 1:417475/45‑1 (MQ=255) tttttGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCa < 1:3406011/66‑1 (MQ=255) ttttGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATAAc > 1:2495559/1‑49 (MQ=255) ttttGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATAAc > 1:3242835/1‑49 (MQ=255) ttttGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCAGAgg > 1:3257063/1‑69 (MQ=255) tttGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCt > 1:3905592/1‑41 (MQ=255) tttGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCAGAGGAAg > 1:2100061/1‑71 (MQ=255) tttGAATACAAACTTGCGGAGTCAATCATCCTTAACCAGCTCGATAACCTGACGGAGCGCGTCAGAGGaa < 1:1222438/70‑1 (MQ=255) tttGAATACAAACTTGCGGAGCCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCAGAGGAAg > 1:819699/1‑71 (MQ=255) ttGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCAGAGGAAg < 1:1486630/70‑1 (MQ=255) tGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCAGAGGAAGt > 1:3042367/1‑70 (MQ=255) tGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCAGAGGAAGt < 1:3943753/70‑1 (MQ=255) gAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCAGAGGAAGTa < 1:1584571/70‑1 (MQ=255) aaTACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATa < 1:2110344/42‑1 (MQ=255) aaTACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCAGAgg < 1:3803481/64‑1 (MQ=255) aTACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCAGAGGAAGTAAc > 1:2406545/1‑70 (MQ=255) aTACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCAGAGGAAGTAACa < 1:1362761/71‑1 (MQ=255) tACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCAGAGGAAGTAACaa < 1:2541213/71‑1 (MQ=255) tACAAACTTGCGGAGCCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCAGAGGAAGt < 1:3473090/66‑1 (MQ=255) aCAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATAACCt < 1:2654895/43‑1 (MQ=255) cAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCAGAGGa > 1:4360828/1‑61 (MQ=255) cAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCAGAGGAAGTAACaaa < 1:1916184/70‑1 (MQ=255) aaaCTTGCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAg > 1:2007508/1‑48 (MQ=255) aaaCTTGCGGAGCCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCAGAGGAAGTAACAAACt > 1:148065/1‑71 (MQ=255) aaCTTGCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCAGAGGAAGTAACAAACTg > 1:525253/1‑71 (MQ=255) aCTTGCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCa < 1:1184382/53‑1 (MQ=255) ttGCGGATTCAATCATGCTTAACCAGCTCGATAACCTGACGGAg > 1:3267003/1‑44 (MQ=255) ttGCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCAGAGGAAGTAACAAACTGGtt > 1:891501/1‑71 (MQ=255) ttGCGGAGCCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGt > 1:4553746/1‑49 (MQ=255) gCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCAGAGGAAGTAACAAACTGGTTg < 1:3183555/70‑1 (MQ=255) gCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCAGAGGAAGTAACAAACTGGTTGa > 1:1914736/1‑71 (MQ=255) gCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCAGAGGAAGTAACAAACTGGTTGa > 1:2972318/1‑71 (MQ=255) cGGAGTCAATCATGCTTAACCAGCTCGATACCCTGACGGAGCGCGTCAGAGGAAGTAACAAACTGGTTGAt < 1:3559481/71‑1 (MQ=255) cGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCAGAGGAAGTAACAAACTGGTTgc < 1:2049921/70‑2 (MQ=255) ggAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCAGAGGAAGTAACAAACTGGTTg < 1:2312892/68‑1 (MQ=255) ggAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCAGAGGAAGTAACAAACTGGTTg < 1:2307357/68‑1 (MQ=255) gAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCAGAGGAAGTAACAAACTGGTTGa < 1:1401899/68‑1 (MQ=255) gAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCAGAGGAAGTAACAAACTGGTTGATCg < 1:3033202/71‑1 (MQ=255) aGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCAGAGGAAGTAACAAACTg > 1:1894691/1‑62 (MQ=255) aGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCAGAGGAAGTAACAAACTGGTTGATCGc > 1:4181644/1‑71 (MQ=255) gTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGcgcg > 1:2683525/1‑41 (MQ=255) gTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCAGAGGAAGTAACAAACTGGTTGa < 1:4417508/66‑1 (MQ=255) tCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCAGAgg < 1:4123064/47‑1 (MQ=255) tCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCAGAGGAAGTAACAAACTGGTTGATCGCTg > 1:1360595/1‑71 (MQ=255) | CATCACTGGCATGTTTAACATGGTTTTTACATTTCTCACTGAGCAGTTTTTGAATACAAACTTGCGGAGTCAATCATGCTTAACCAGCTCGATAACCTGACGGAGCGCGTCAGAGGAAGTAACAAACTGGTTGATCGCTG > AP009048/3439798‑3439937 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |