| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | AP009048 | 3,982,812 | A→T | 7.2% | intergenic (‑763/+36) | gadE ← / ← hdeD | DNA‑binding transcriptional activator/acid‑resistance membrane protein |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | AP009048 | 3,982,812 | 0 | A | T | 7.2% | 153.1 / 2.8 | 55 | intergenic (‑763/+36) | gadE/hdeD | DNA‑binding transcriptional activator/acid‑resistance membrane protein |
| Reads supporting (aligned to +/- strand): ref base A (22/29); new base T (2/2); total (24/31) | |||||||||||
| 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 | |||||||||||
CAATGATAGTGCGCAATTGATCTACAACACTGCGTAGCGGAGAGAGTATTAATCGGATCATAGTCACATCAAGTGACTATGATCCGGGTGACAACCGGGGTAATTATTGCTGCTTAACGAACAAACTGGCGAAGCTG > AP009048/3982745‑3982881 | cAATGATAGTGCGCAATTGATCTACAACACTGCGTAGCGGAGAGAGTATTAATCGGATCATAGTCACATc < 1:2426533/70‑1 (MQ=255)cAATGATAGTGCGCAATTGATCTACAACACTGCGTAGCGGAGAGAGTATTAATCGGATCATAGTCACATc > 1:1310533/1‑70 (MQ=255) tGATAGTGCGCAATTGATCTACAACACTGCGTAGCGGAGAGAGTATTAATCGGATCATAGTCACATCAAGt < 1:321387/71‑1 (MQ=255) aTAGTGCGCAATTGATCTACAACACTGCGTAGCGGAGAGAGTATTAATCGGATCATAGTCACATCAAGTGa < 1:3775893/71‑1 (MQ=255) tAGTGCGCAATTGATCTACAACACTGCGTAGCGGAGAGAGTATTAATCGGATCATAGTCACATCAAGTGAc < 1:2635735/71‑1 (MQ=255) gTGCGTAATTGATCTACAACACTGCGTAGCGGAGAGAGTATTAATCGGATCATAGTCACATCAAGTGACTa < 1:2342662/71‑1 (MQ=255) gTGCGCAATTGATCTACAACACTGCGTAGCGGAGAGAGTATTAATCGGATCATAGTCACATCAAGTGACt < 1:4652625/70‑1 (MQ=255) cgcAATTGATCTACAACACTGCGTAGCGGAGAGAGTATTAATCGGATCATAGTCACAt > 1:1269010/1‑58 (MQ=255) aaTTGATCTACAACACTGCGTAGCGGAGAGAGTATTAATCGGATCATAGTCACATCAAGt > 1:2821074/1‑60 (MQ=255) aaTTGATCTACAACACTGCGTAGCGGAGAGAGTATTAATCGGATCATAGTCACATCAAGTGACTATGATcc < 1:900854/71‑1 (MQ=255) aaTTGATCTACAACACTGCGTAGCGGAGAGAGTATTAATCGGATCATAGTCACATCAAGTGACTATGATcc < 1:3765548/71‑1 (MQ=255) aaTTGATCTACAACACTGCGTAGCGGAGAGAGTATTAATCGGATCATAGTCACATCAAGTGACTATGATcc > 1:1291582/1‑71 (MQ=255) ttGATCTACAACACTGCGTAGCGGAGAGAGTATTAATCGGATCATAGTCACTTGATGTGACTATg > 1:4168814/1‑65 (MQ=37) ttGATCTACAACACTGCGTAGCGGAGAGAGTATTAATCGGATCATAGTCACATCAAg < 1:2425425/57‑1 (MQ=255) tGATCTACAACACTGCGTAGCGGAGAGAGTATTAATCGGATCATAGTCACATCAAGTGACTATGATCCggg > 1:4418086/1‑71 (MQ=255) tGATCTACAACACTGCGTAGCGGAGAGAGTATTAATCGGATCATAGTCACATCAAGTGACTATGATCCgg < 1:4714389/70‑1 (MQ=255) gATCTACAACACTGCGTAGCGGAGAGAGTATTAATCGGATCATAGTCACATCAAGTGACTATGATCCGGGt > 1:2345667/1‑71 (MQ=255) aTCTACAACACTGCGTAGCGGAGAGAGTATTAATCGGATCATAGTCACATCAAGTGACTATGATCCGGGt > 1:5272595/1‑70 (MQ=255) cTACAACACTGCGTAGCGGAGAGAGTATTAATCGGATCATAGTCACATCAAGTGACTATGATCCGGGTGa > 1:53373/1‑70 (MQ=255) tACAACACTGCGTAGCGGAGAGAGTATTAATCGGATCATAGTCACATCa < 1:4056431/49‑1 (MQ=255) tACAACACTGCGTAGCGGAGAGAGTATTAATCGGATCATAGTCACATCAAGTGACt < 1:5130193/56‑1 (MQ=255) acaacaCTGCGTAGCGGAGAGAGTATTAATCGGATCATAGTCACTTGATGTGACt < 1:3144672/55‑1 (MQ=25) acaacaCTGCGTAGCGGAGAGAGTATTAATCGGATCATAGTCACATc < 1:1149525/47‑1 (MQ=255) caacaCTGCGTAGCGGAGAGAGTATTAATCGGATCATAGTCACTTGATGTGACt > 1:4096504/1‑54 (MQ=25) caacaCTGCGTAGCGGAGAGAGTATTAATCGGATCATAGTCACATCAAGTGACTATGATCCGGGTg < 1:1622108/66‑1 (MQ=255) caacaCTGCGTAGCGGAGAGAGTATTAATCGGATCATAGTCACATCAAGTGACTATGATCCGGGTGAc < 1:295345/68‑1 (MQ=255) caacaCTGCGTAGCGGAGAGAGTATTAATCGGATCATAGTCACATCAAGTGACTATGATCCGGGTGACAAc > 1:5314032/1‑71 (MQ=255) caacaCTGCGTAGCGGAGAGAGTATTAATCGGATCATAGTCACATCAAGTGACTATGATCCGGGTGACAAc > 1:1200943/1‑71 (MQ=255) aacaCTGCGTAGCGGAGAGAGTATTAATCGGATCATAGTCACATCAAGTGACTATGATCCGGGTGACAAc < 1:3472646/70‑1 (MQ=255) acacTGCGTAGCGGAGAGAGTATTAATCGGATCATAGTCACATCAAGTGACTa > 1:520138/1‑53 (MQ=255) acacTGCGTAGCGGAGAGAGTATTAATCGGATCATAGTCACATCAAGTGACTATGATCCGGGTGACAACCg < 1:3477898/71‑1 (MQ=255) cacTGCGTAGCGGAGAGAGTATTAATCGGATCATAGTCACATCAAGTGACTATGATCCGGGTGACAACCgg > 1:1261545/1‑71 (MQ=255) cacTGCGTAGCGGAGAGAGTATTAATCGGATCATAGTCACATCAAGTGACTATGATCCGGGTGACAACCgg > 1:2452314/1‑71 (MQ=255) gTAGCGGAGAGAGTATTAATCGGATCATAGTCACTTGATGTGACt < 1:2953008/45‑1 (MQ=18) tAGCGGAGAGAGTATTAATCGGATCATAGTCACATCAAGTGACTATGATCCGGGTGACAACCGGGGTAatt < 1:1033170/71‑1 (MQ=255) gCGGAGAGAGTATTAATCGGATCATAGTCACATCAAGTGACTATGATCCGGGTGACAACCGGGGTAatta < 1:362066/70‑1 (MQ=255) gCGGAGAGAGTATTAATCGGATCATAGTCACATCAAGTGACTATGATCCGGGTGACAACCGGGGTAatta < 1:29412/70‑1 (MQ=255) gCGGAGAGAGTATTAATAGGATCATAGTCACATCAAGTGACTATGATCCGGGTGACAACCGGGGTaa > 1:1187932/1‑67 (MQ=255) cGGAGAGAGTATTAATCGGATCATAGTCACATCAAGTGACTATg < 1:4764817/44‑1 (MQ=255) cGGAGAGAGTATTAATCGGATCATAGTCACATCAAGTGACTATGATCCGGGTGACAACCGGGGTAattatt < 1:2907352/71‑1 (MQ=255) gagagTATTAATCGGATCATAGTCACATCAAGTGACTATGATCCGGGTGACAACCggg > 1:3676437/1‑58 (MQ=255) gagagTATTAATCGGATCATAGTCACATCAAGTGACTATGATCCGGGTGACAACCGGGGTAATTATtgctg > 1:1363028/1‑71 (MQ=255) gTATTAATCGGATCATAGTCACATCAAGTGACTATGATCCGGGTGACAACCGGGGTAATTATTGCTGCTTa < 1:1035095/71‑1 (MQ=255) tATTAATCGGATCATAGTCACATCAAGTGACTATGATCCGGGTGACaa > 1:3606690/1‑48 (MQ=255) tCGGATCATAGTCACATCAAGTGACTATGATCCGGGTGACAACCGGGGTAATTATTGCTGCTTAACGAAc > 1:2303733/1‑70 (MQ=255) cGGATCATAGTCACATCAAGTGACTATGATCCGGGTGACAACCGGGGTAATTATTGCTGCTTAACGaa < 1:807912/68‑1 (MQ=255) gATCATAGTCACATCAAGTGACTATGATCCGGGTGACAACCGGGGTAATTATTGCTGCTTAACGAACAAAc < 1:2917406/71‑1 (MQ=255) cATAGTCACATCAAGTGACTATGATCCGGGTGACAACCGGGGTAATTATTGCTGCTTAACGAACAAACTgg > 1:2062430/1‑71 (MQ=255) aTAGTCACATCAAGTGACTATGATCCGGGTGACAACCGGGGTAATTATTGCTGCTTAACGAACAAACTGGc > 1:3895263/1‑71 (MQ=255) aGTCACATCAAGTGACTATGATCCGGGTGACAACCGGGGTAATTATTGCTGCTTAACTAACAAACTGGCg > 1:3317987/1‑70 (MQ=255) aGTCACATCAAGTGACTATGATCCGGGTGACAACCGGGGTAATTATTGCTGCTTAACGAACAAACTgg > 1:2711813/1‑68 (MQ=255) gTCACATCAAGTGACTATGATCCGGGTGACAACCGGGGTAATTATTGCTGCTTAACGAACAAACTGGCGa < 1:5096878/70‑1 (MQ=255) tCACATCAAGTGACTATGATCCGGGTGACAACCGGGGTAattat < 1:3913836/44‑1 (MQ=255) tCACATCAAGTGACTATGATCCGGGTGACAACCGGGGTAATTATtgc < 1:4675342/47‑1 (MQ=255) tCACATCAAGTGACTATGATCCGGGTGACAACCGGGGTAATTATTGCTGCTTAACGAACAAACt < 1:277497/64‑1 (MQ=255) acaTCAAGTGACTATGATCCGGGTGACAACCGGGGTAatta > 1:4628273/1‑41 (MQ=255) acaTCAAGTGACTATGATCCGGGTGACAACCGGGGTAATTATTGCTGCTTAACGAACAAACTGGCGAAGc < 1:4272730/70‑1 (MQ=255) acaTCAAGTGACTATGATCCGGGTGACAACCGGGGTAATTATTGCTGCTTAACGAACAAACTGGCGAAGCt < 1:4002751/71‑1 (MQ=255) caTCAAGTGACTATGATCCGGGTGACAACCGGGGTAATTATTGCTGCTTAACGAACAAACTGGCGAAGCTg < 1:1269719/71‑1 (MQ=255) aTCAAGTGACTATGATCCGGGTGACAACCGGGGTAATTATTGCTGCTTAACGAACAAACTGGCGAAGCTg > 1:1824853/1‑70 (MQ=255) | CAATGATAGTGCGCAATTGATCTACAACACTGCGTAGCGGAGAGAGTATTAATCGGATCATAGTCACATCAAGTGACTATGATCCGGGTGACAACCGGGGTAATTATTGCTGCTTAACGAACAAACTGGCGAAGCTG > AP009048/3982745‑3982881 |
| 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: ‑ |