| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | AP009048 | 3,824,324 | T→C | 100% | pseudogene (459/687 nt) | rph → | ECK3633:JW3618:b3643; ribonuclease PH |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | AP009048 | 3,824,324 | 0 | T | C | 97.4% | 514.2 / 1.2 | 150 | pseudogene (459/687 nt) | rph | ECK3633:JW3618:b3643; ribonuclease PH |
| Reads supporting (aligned to +/- strand): ref base T (4/0); new base C (71/75); total (75/75) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.20e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.71e-01 | |||||||||||
| 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. | |||||||||||
Only 100 of 157 total aligned reads displayed.
CGGGTGCCTGCGTGGCGCTGGTAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAATCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGAATTGTGAACGGCGAAGCGGTTTGCGATCTGG > AP009048/3824257‑3824391 | cGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAAccc < 1:1177173/70‑1 (MQ=255) gTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGGTGAAAACCAACCCGATg < 1:2218083/71‑1 (MQ=255) tGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATg > 1:1080058/1‑70 (MQ=255) gCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGa > 1:4626179/1‑70 (MQ=255) ccTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGaa < 1:4128279/70‑1 (MQ=255) ccTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGaa < 1:2116255/70‑1 (MQ=255) gCGTGGCGCTGGAAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAgg > 1:3934252/1‑70 (MQ=255) cGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAgg < 1:6426984/69‑1 (MQ=255) cGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAgg < 1:4165145/69‑1 (MQ=255) cGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGa < 1:6996063/71‑1 (MQ=255) cGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGa > 1:5239686/1‑71 (MQ=255) gTGGCGCTGGCAGATGCGCTACAGCAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCg > 1:5404963/1‑60 (MQ=255) gTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCg > 1:7556082/1‑60 (MQ=255) gTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGAt < 1:1309421/71‑1 (MQ=255) tGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAgg > 1:4012229/1‑67 (MQ=255) tGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGAt < 1:3033789/70‑1 (MQ=255) tGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATg < 1:4544927/71‑1 (MQ=255) tGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATg < 1:6316859/71‑1 (MQ=255) ggCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATgg > 1:2794583/1‑71 (MQ=255) gcgcTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGt < 1:5896493/71‑1 (MQ=255) cgcTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGaaa < 1:2149409/62‑1 (MQ=255) cgcTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGaaa < 1:4865215/62‑1 (MQ=255) gcTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTa < 1:5320133/70‑1 (MQ=255) gcTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTa < 1:3462428/70‑1 (MQ=255) tGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATg > 1:6246975/1‑65 (MQ=255) tGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGcc > 1:2854874/1‑71 (MQ=255) tGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGcc > 1:2408628/1‑71 (MQ=255) tGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGcc > 1:5718457/1‑71 (MQ=255) aGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAg > 1:2871625/1‑71 (MQ=255) aTGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGa < 1:3944539/51‑1 (MQ=255) aTGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGTGATGGTAGCCGCAGtt > 1:1197409/1‑71 (MQ=255) aTGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGAt < 1:6730234/58‑1 (MQ=255) gcgcTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGaa > 1:4307616/1‑50 (MQ=255) gcgcTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTc > 1:3698823/1‑71 (MQ=255) gcTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGa < 1:4320927/47‑1 (MQ=255) gcTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGa < 1:919136/47‑1 (MQ=255) cTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGt < 1:4713569/71‑1 (MQ=255) aCAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAg > 1:5406049/1‑47 (MQ=255) aCAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCg > 1:3517077/1‑71 (MQ=255) aGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAggg < 1:5524740/47‑1 (MQ=255) gAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGcc > 1:2644366/1‑55 (MQ=255) gAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCggta < 1:1102203/71‑3 (MQ=255) aaGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGa < 1:2704944/40‑1 (MQ=255) gCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAg < 1:1225835/50‑1 (MQ=255) gCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTAt > 1:3558915/1‑69 (MQ=255) cTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGaaa > 1:3932608/1‑39 (MQ=255) cTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATtgt < 1:4074926/71‑1 (MQ=255) tggtggAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTc < 1:5482491/58‑1 (MQ=255) gtggAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTaaa > 1:5092178/1‑71 (MQ=255) tggAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATtg < 1:1427274/66‑1 (MQ=255) ggAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTg > 1:2454315/1‑56 (MQ=255) ggAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTg > 1:619202/1‑56 (MQ=255) gAAAACGGCAAGCTGAAAACTAATCCAATGAAAGGGATGGTAGCCGCGGTCTCTGTCGGGATTGTGAAc > 1:1647026/1‑69 (MQ=255) gAAAACGGCAAGCTGAAAACTAATCCAATGAAAGGGATGGTAGCCGCGGTCTCTGTCGGGATTGTGAAc > 1:5645881/1‑69 (MQ=255) gAAAACGGCAAGCTGAAAACTAATCCAATGAAAGGGATGGTAGCCGCGGTCTCTGTCGGGATTGTGAAc > 1:5274513/1‑69 (MQ=255) gAAAACGGCAAGCTGAAAACTAATCCAATGAAAGGGATGGTAGCCGCGGTCTCTGTCGGGATTGTGAAc > 1:274589/1‑69 (MQ=255) gAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGc < 1:4785275/47‑1 (MQ=255) gAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATtgta > 1:6439135/1‑65 (MQ=255) gAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACgg < 1:5017540/71‑1 (MQ=255) gAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACgg > 1:5032618/1‑71 (MQ=255) gAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACgg > 1:3161862/1‑71 (MQ=255) gAAAACCGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACgg > 1:7692046/1‑71 (MQ=255) aaaaCGGCTAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGc < 1:2229184/46‑1 (MQ=39) aaaaCGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCg < 1:4235103/57‑1 (MQ=255) aaaaCGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACggt < 1:3385571/71‑2 (MQ=255) aaaCGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACggtg < 1:6748580/71‑3 (MQ=255) aaaCGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACggtg < 1:6904795/71‑3 (MQ=255) aaCGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGt > 1:6180947/1‑47 (MQ=255) aaCGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCg > 1:5843758/1‑55 (MQ=255) aaCGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACggtg < 1:6588912/70‑3 (MQ=255) aaCGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGa < 1:6023278/71‑1 (MQ=255) aCGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGc > 1:2970668/1‑40 (MQ=255) aCGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGc > 1:2899328/1‑40 (MQ=255) aCGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACggtg > 1:7087252/1‑67 (MQ=255) cGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTa < 1:585947/37‑1 (MQ=255) ggCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTAt < 1:204330/56‑1 (MQ=255) gCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTAt < 1:6991481/55‑1 (MQ=255) gCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGca < 1:5139121/71‑2 (MQ=255) cAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGcaa > 1:7317590/1‑69 (MQ=255) gCTGAAAACCAACACGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATtgta < 1:5557992/55‑2 (MQ=255) tGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGt > 1:6839142/1‑43 (MQ=255) tGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGt > 1:5884136/1‑43 (MQ=255) tGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACggtg > 1:2719626/1‑58 (MQ=255) tGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACggt < 1:3551120/59‑2 (MQ=255) tGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTg > 1:283204/1‑70 (MQ=255) gAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACggtg > 1:6074585/1‑57 (MQ=255) gAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACggtg > 1:456254/1‑57 (MQ=255) aaaaCCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGc < 1:7254816/69‑1 (MQ=255) aaaaCCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGa > 1:1628997/1‑71 (MQ=255) aaaaCCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGa > 1:2190134/1‑71 (MQ=255) aaaCCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCTAt < 1:497281/71‑1 (MQ=255) aaaCCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGAt < 1:1508906/71‑1 (MQ=255) aaaCCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGAt > 1:7566278/1‑71 (MQ=255) aaccaaccCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACg > 1:1849867/1‑53 (MQ=255) aaccaaccCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATc < 1:1446023/71‑1 (MQ=255) ccAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTg > 1:5948571/1‑71 (MQ=255) cAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTgg < 1:253669/71‑1 (MQ=255) cAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTgg < 1:827168/71‑1 (MQ=255) cAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTgg < 1:4420449/71‑1 (MQ=255) cAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTg > 1:341934/1‑70 (MQ=255) | CGGGTGCCTGCGTGGCGCTGGTAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAATCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGAATTGTGAACGGCGAAGCGGTTTGCGATCTGG > AP009048/3824257‑3824391 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |