| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | AP009048 | 3,824,278 | T→C | 100% | pseudogene (413/687 nt) | rph → | ECK3633:JW3618:b3643; ribonuclease PH |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | AP009048 | 3,824,278 | 0 | T | C | 99.1% | 387.1 / ‑4.7 | 115 | pseudogene (413/687 nt) | rph | ECK3633:JW3618:b3643; ribonuclease PH |
| Reads supporting (aligned to +/- strand): ref base T (0/1); new base C (42/70); total (43/72) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.92e-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 115 total aligned reads displayed.
CTGCGACGTGCTTCAGGCTGATGGTGGCACGCGTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGTAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAATCCGATGAAAGGGATGGTAGCC > AP009048/3824210‑3824345 | cTGCGACGTGCTTCAGGCTGATGGTGGCACGCGTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAg < 1:2903170/71‑1 (MQ=255) gACGTGCTTCAGGCTGATGGTGGCACGCGTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATgc < 1:379739/71‑1 (MQ=255) cGTGCTTCAGGCTGATGGTGGCACGCGTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATgcgc < 1:2497189/71‑1 (MQ=255) tGCTTCAGGCTGATGGTGGCACGCGTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTa > 1:4387775/1‑71 (MQ=255) cTTCAGGCTGATGGTGGCACGCGTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAg < 1:2307475/61‑1 (MQ=255) cTTCAGGCTGATGGTGGCACGCGTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTAc < 1:525704/70‑1 (MQ=255) cTTCAGGCTGATGGTGGCACGCGTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACa < 1:5258771/71‑1 (MQ=255) cTTCAGGCTGATGGTGGCACGCGTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGG‑‑GATGCGCTACAGa < 1:5517403/71‑1 (MQ=255) tCAGGCTGATGGTGGCACGCGTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAGAt > 1:5764852/1‑61 (MQ=255) cAGGCTGATGGTGGCACGCGTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAg > 1:7676913/1‑69 (MQ=255) cAGGCTGATGGTGGCACGCGTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAg > 1:461480/1‑69 (MQ=255) cAGGCTGATGGTGGCACGCGTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGa < 1:1314457/70‑1 (MQ=255) cAGGCTGATGGTGGCACGCGTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGa < 1:1685815/70‑1 (MQ=255) cTGATGGTGGCACGCGTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCtg < 1:6170368/71‑1 (MQ=255) aTGGTGGCACGCGTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGTAGATGCGCTACAGAAGCtgg < 1:627971/69‑1 (MQ=255) aTGGTGGCACGCGTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCtgg < 1:1520830/69‑1 (MQ=255) tggtggCACGCGTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCtggtgg < 1:5371854/71‑1 (MQ=255) tggtggCACGCGTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCtggtgg < 1:7194056/71‑1 (MQ=255) ggtggCACGCGTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCtggtgg > 1:5500477/1‑70 (MQ=255) ggtggCACGCGTACCGCGTCGATTACGGGTGCCTGCGTGGCGCCGGCAGATGCGCTACAGAAGCtggtgg > 1:1140173/1‑70 (MQ=255) gCACGCGTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGaaaa < 1:1937486/70‑1 (MQ=255) gCACGCGTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGaaaa < 1:5922027/70‑1 (MQ=255) gCACGCGTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGaaaa < 1:1700001/70‑1 (MQ=255) gCACGCGTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAAc < 1:7302957/71‑1 (MQ=255) gCACGCGTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAAc < 1:5782816/71‑1 (MQ=255) gCACGCGTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAAc < 1:7884568/71‑1 (MQ=255) aCGCGTACCGCGTCGATTACTGGTGCCTTCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGTAAAACgg < 1:2425054/71‑1 (MQ=255) aCGCGTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACgg < 1:1549629/71‑1 (MQ=255) cgcgTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACgg > 1:7748245/1‑70 (MQ=255) cgcgTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGc < 1:6223392/71‑1 (MQ=255) cgcgTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGc < 1:7378073/71‑1 (MQ=255) cgcgTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGc < 1:7274332/71‑1 (MQ=255) gcgTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGc > 1:3687253/1‑70 (MQ=255) gTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAGAt > 1:4415370/1‑41 (MQ=255) gTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAg < 1:5505038/71‑1 (MQ=255) gTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAg > 1:6432314/1‑71 (MQ=255) tACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCtg < 1:179363/55‑1 (MQ=255) tACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTTGaaa < 1:4099679/62‑1 (MQ=255) aCCGCGTCGATTACGGGTTCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCt > 1:4168679/1‑71 (MQ=255) aCCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCt > 1:5293152/1‑71 (MQ=255) ccGCGTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTg < 1:1292001/71‑1 (MQ=255) cgcgTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGa < 1:2198717/71‑1 (MQ=255) gcgTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGa > 1:7325733/1‑70 (MQ=255) gcgTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGa > 1:2848510/1‑70 (MQ=255) cgTCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGaaa < 1:3122085/71‑1 (MQ=255) tCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTg < 1:4919026/66‑1 (MQ=255) tCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAAc > 1:6181729/1‑71 (MQ=255) tCGATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAAc > 1:1924178/1‑71 (MQ=255) gATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAAcc < 1:5274160/70‑1 (MQ=255) gATTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAAcc < 1:7031862/70‑1 (MQ=255) aTTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCtgg < 1:6534664/46‑1 (MQ=255) aTTACGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCtgg < 1:2436273/46‑1 (MQ=255) cGGGTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAAccc < 1:1177173/70‑1 (MQ=255) ggTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGAt < 1:5557385/71‑1 (MQ=255) gTGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGAt > 1:4590189/1‑70 (MQ=255) tGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCtg < 1:6203644/37‑1 (MQ=255) tGCCTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATg > 1:1080058/1‑70 (MQ=255) ccTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCaa < 1:5001909/61‑1 (MQ=255) ccTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCaa < 1:4527163/61‑1 (MQ=255) ccTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCaa < 1:4909611/61‑1 (MQ=255) ccTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGaa < 1:2116255/70‑1 (MQ=255) ccTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGaa < 1:4128279/70‑1 (MQ=255) ccTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTCGTGGAAAACGGCAAGCTGAAAACCaa < 1:2085199/61‑1 (MQ=255) cTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGaaa > 1:718242/1‑55 (MQ=255) cTGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGaaa > 1:210471/1‑55 (MQ=255) tGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCaa < 1:2644283/47‑1 (MQ=255) tGCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCaa < 1:6448284/47‑1 (MQ=255) gCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGaaaa > 1:4761077/1‑54 (MQ=255) gCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGaaaa > 1:4016814/1‑54 (MQ=255) gCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGaaaa > 1:2154752/1‑54 (MQ=255) gCGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAgg > 1:3490256/1‑70 (MQ=255) gCGTGGCGCTGGAAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAgg > 1:3934252/1‑70 (MQ=255) cGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGaaa > 1:1179421/1‑52 (MQ=255) cGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAgg < 1:6426984/69‑1 (MQ=255) cGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAgg < 1:4165145/69‑1 (MQ=255) cGTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGa > 1:5239686/1‑71 (MQ=255) gTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCg > 1:7556082/1‑60 (MQ=255) gTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAgg < 1:6789656/68‑1 (MQ=255) gTGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAgg < 1:2682429/68‑1 (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) tGGCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATg > 1:2794168/1‑71 (MQ=255) ggCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGaaa < 1:2887925/64‑1 (MQ=255) ggCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATgg > 1:989217/1‑71 (MQ=255) ggCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATgg > 1:2794583/1‑71 (MQ=255) ggCGCTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATgg > 1:7541537/1‑71 (MQ=255) gcgcTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGt < 1:5896493/71‑1 (MQ=255) cgcTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGaaa < 1:4865215/62‑1 (MQ=255) cgcTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGaaa < 1:2149409/62‑1 (MQ=255) gcTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTa < 1:3462428/70‑1 (MQ=255) gcTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTa < 1:5320133/70‑1 (MQ=255) cTGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCa < 1:4588381/49‑1 (MQ=255) tGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAAcc < 1:4688594/47‑1 (MQ=255) tGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATg > 1:3154710/1‑65 (MQ=255) tGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGcc > 1:2854874/1‑71 (MQ=255) tGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGcc > 1:2408628/1‑71 (MQ=255) tGGCAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGcc > 1:5718457/1‑71 (MQ=255) | CTGCGACGTGCTTCAGGCTGATGGTGGCACGCGTACCGCGTCGATTACGGGTGCCTGCGTGGCGCTGGTAGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAATCCGATGAAAGGGATGGTAGCC > AP009048/3824210‑3824345 |
| 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: ‑ |