| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | AP009048 | 1,559,619 | A→G | 16.7% | L45S (TTA→TCA) | ddpF ← | D‑Ala‑D‑Ala transporter subunit |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | AP009048 | 1,559,619 | 0 | A | G | 16.7% | 127.3 / 19.3 | 54 | L45S (TTA→TCA) | ddpF | D‑Ala‑D‑Ala transporter subunit |
| Reads supporting (aligned to +/- strand): ref base A (23/22); new base G (6/3); total (29/25) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 4.80e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
GTTGCAGCATACCCATTAAAAGCTGTGCGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATGGCATGAACATGTTCCGTAGTTTTACC > AP009048/1559551‑1559686 | gTTGCAGCATACCCATTAAAAGCTGTGCGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTGAg < 1:3202542/71‑1 (MQ=255) tGCAGCATACCCATTAAAAGCTGTGCGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAGGt > 1:1121593/1‑71 (MQ=255) gcagcaTACCCATTAAAAGCTGTGCGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAGGt < 1:1150500/70‑1 (MQ=255) cagcaTACCCATTAAAAGCTGTGCGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAGGttt < 1:1155663/71‑1 (MQ=255) cccATTAAAAGCTGTGCGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTGAGGTTTcaccac < 1:4118062/70‑1 (MQ=255) aTTAAAAGCTGTGCGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCAcggcg > 1:4489640/1‑71 (MQ=255) aaGCTGTGCGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCt < 1:2865391/71‑1 (MQ=255) cTGTGCGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGt > 1:1190862/1‑70 (MQ=255) cTGTGCGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTa < 1:4185922/71‑1 (MQ=255) tgCGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAGGtt < 1:2814824/49‑1 (MQ=255) tgCGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAAt > 1:336067/1‑71 (MQ=255) gCGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGt > 1:251648/1‑66 (MQ=255) cGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTa < 1:1734476/42‑1 (MQ=255) cGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAg > 1:3530624/1‑44 (MQ=255) cGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAg > 1:3525427/1‑44 (MQ=255) cGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAATc > 1:3708881/1‑70 (MQ=255) cGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAATc < 1:2525942/70‑1 (MQ=255) gCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCAt > 1:3646649/1‑71 (MQ=255) cTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCAt > 1:818632/1‑70 (MQ=255) ttttGCCGCAGCCTGACTCGCCGACGATCCCTGAGGTTTCACCACGGCGGATCTGTAAATCAATACCAtt > 1:3609432/1‑70 (MQ=255) ttttGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCAtt > 1:1290786/1‑70 (MQ=255) ttttGCCGCAGCCTGACTCGCCGACGATCCCTAAGATTTCACCACGGCGGATCTGTAAAt < 1:3639784/60‑1 (MQ=255) tttGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCAcggcg > 1:2138230/1‑48 (MQ=255) tttGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTaa < 1:3131424/57‑1 (MQ=255) ttGCCGCAGCCTGACTCGCCGACGATCCCTGAGGTTTCACCACGGCGGATCTGTaaa > 1:2261784/1‑57 (MQ=255) ttGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTcac > 1:4253384/1‑40 (MQ=255) ttGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTaa > 1:3246250/1‑70 (MQ=255) ttGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTa < 1:3670494/69‑1 (MQ=255) ttGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAAt > 1:3251674/1‑71 (MQ=255) gCCGCAGCCTGACTCGCCGACGATCCCTGAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATgg > 1:3759855/1‑71 (MQ=255) gCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATGGCAt > 1:2455597/1‑71 (MQ=255) gCAGCCTGACTCGCCGACGATCCATAAGGTTTCACCACCGCGGATCTGTAAATc < 1:4496497/54‑1 (MQ=255) cAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATGGCATg < 1:2121503/71‑1 (MQ=255) aGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTa < 1:583453/48‑1 (MQ=255) aGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTa < 1:3714317/48‑1 (MQ=255) ccTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATAc < 1:4129650/55‑1 (MQ=255) cTGACTCGCCGACGATCCCTAAGGTTTCACCAcggc > 1:851966/1‑36 (MQ=255) gACTCGCCGACGATCCCTGAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATGGCATGAACATg > 1:894097/1‑71 (MQ=255) aCTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATGGCATGAACATg < 1:1864445/70‑1 (MQ=255) aCTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATGGCATGAACATGt > 1:950113/1‑71 (MQ=255) cTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCAtt < 1:4612328/54‑1 (MQ=255) tCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAATc < 1:1099224/44‑1 (MQ=255) ccGACGATCCCTGAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATGGCATGAACATGTTCCg < 1:4592418/70‑1 (MQ=255) cgacgaTCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATGGCATGAACATGTTCCGTa < 1:3175729/71‑1 (MQ=255) gacgaTCCCTGAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAAt > 1:2573520/1‑51 (MQ=255) gacgaTCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATGGCATGAACATGTTCCGTAg < 1:3852021/71‑1 (MQ=255) cgaTCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATGGCATGAACATGTTCCGTAGtt < 1:2876711/71‑1 (MQ=255) aTCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATGGCATGaa < 1:3199773/55‑1 (MQ=255) tCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATGGCATGAACAt > 1:4001565/1‑57 (MQ=255) tCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATGGCATGAACAt > 1:507630/1‑57 (MQ=255) tCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATGGCATGAACATGTTCCGTAGTTTTa > 1:4371175/1‑71 (MQ=255) ccTGAGGTTTCACCACGGCGGATCTGTAAATCAATACCa > 1:2888600/1‑39 (MQ=255) cTAAGGTTTCCCCACGGCGGATCTGTAAATCAATACCATTAATGGCATGAACATGTTCCGTAGTTTTAcc > 1:3558232/1‑70 (MQ=255) cTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATGGCATGAACATGTTCCg < 1:1014528/60‑1 (MQ=255) cTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATGGCATGAACATGTTCCGTAGTTTTAcc > 1:3865362/1‑70 (MQ=255) | GTTGCAGCATACCCATTAAAAGCTGTGCGAGGGTGCTTTTGCCGCAGCCTGACTCGCCGACGATCCCTAAGGTTTCACCACGGCGGATCTGTAAATCAATACCATTAATGGCATGAACATGTTCCGTAGTTTTACC > AP009048/1559551‑1559686 |
| 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: ‑ |