| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | AP009048 | 349,140 | C→T | 12.5% | intergenic (+344/‑96) | prpB → / → prpC | 2‑methylisocitrate lyase/2‑methylcitrate synthase |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | AP009048 | 349,140 | 0 | C | T | 12.5% | 132.9 / 9.5 | 48 | intergenic (+344/‑96) | prpB/prpC | 2‑methylisocitrate lyase/2‑methylcitrate synthase |
| Reads supporting (aligned to +/- strand): ref base C (19/23); new base T (4/2); total (23/25) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 4.07e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
ACGCATAGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGACAACAATCTCGACCCTA > AP009048/349080‑349209 | aCGCATAGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGtga < 1:3993243/71‑1 (MQ=31) gCATAGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCTTACGGGGtgagc > 1:71033/1‑69 (MQ=9) aGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGtgaactgaa > 1:2523963/1‑71 (MQ=34) gTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGaactgaactg < 1:4599333/71‑1 (MQ=34) gCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAg > 1:3944498/1‑71 (MQ=34) cATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAgg < 1:1352971/71‑1 (MQ=34) gACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGa < 1:4544203/71‑1 (MQ=34) cAACCGATGCCTGATGCGCCGCTGACGGGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGAt > 1:1589325/1‑70 (MQ=255) cAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATa < 1:76233/71‑1 (MQ=34) cAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATa < 1:2359312/71‑1 (MQ=34) ccGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATAAGa < 1:4238364/71‑1 (MQ=34) gATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGtga > 1:545251/1‑46 (MQ=32) tGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGCa < 1:2215149/71‑1 (MQ=34) tGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGCa > 1:3591795/1‑71 (MQ=34) gCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGtgaact > 1:3073493/1‑46 (MQ=38) ccTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGCATa < 1:3615339/71‑1 (MQ=34) ccTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGCATa < 1:1153485/71‑1 (MQ=34) tGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGc < 1:349169/66‑1 (MQ=35) tGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGCATa < 1:1011521/69‑1 (MQ=35) gATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGCATAGCg > 1:4398223/1‑71 (MQ=34) aTGCGCCGCTGACGCGACTTATCAGGCTTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGCATAGCg < 1:1691203/70‑1 (MQ=25) aTGCGCCGCTGACGCGACTTATCAGGCTTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGCATAGCGt > 1:4180688/1‑71 (MQ=21) aTGCGCCGCTGACGCGACTTATCAGGCTTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGCATAGCGt > 1:3549995/1‑71 (MQ=21) aTGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAg > 1:3268360/1‑50 (MQ=38) aTGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGCATAGCg < 1:1856628/70‑1 (MQ=35) gcgcCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGt < 1:3557227/46‑1 (MQ=38) gcgcCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGCATAGCGTCg > 1:1776299/1‑71 (MQ=34) gccgcTGACGCGACTTATCAGGCCTACGGGGtgaactg < 1:532251/38‑1 (MQ=40) gccgcTGACGCGACTTATCAGGCCTACGGGGtgaactg < 1:1047033/38‑1 (MQ=40) gccgcTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCa < 1:2023738/71‑1 (MQ=34) ccgcTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGa > 1:3148038/1‑51 (MQ=35) gcTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATcc < 1:1845842/71‑1 (MQ=34) cTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATcc > 1:2917295/1‑70 (MQ=35) gACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATCCg < 1:3843111/69‑1 (MQ=35) gACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGa > 1:4593603/1‑70 (MQ=35) aCGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGac < 1:1254062/70‑1 (MQ=35) gcgACTTATCAGGCCTACGGGGTGAACTGATCTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGacaa > 1:3410956/1‑70 (MQ=25) gACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGac < 1:2345099/66‑1 (MQ=35) gACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGAcaacaa > 1:4257139/1‑71 (MQ=38) gACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGAcaacaa > 1:2067432/1‑71 (MQ=38) cTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGACAACAAtc > 1:4483802/1‑71 (MQ=40) ttATCAGGCTTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGCATAGCg < 1:2857563/52‑1 (MQ=255) ttATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGACAACAAtct > 1:3486763/1‑71 (MQ=255) ttATCAGACCTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGACAACAAtct > 1:2505537/1‑71 (MQ=255) aTCAGGCTTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATc > 1:528617/1‑57 (MQ=255) aTCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGACAACAAtctc > 1:392334/1‑70 (MQ=255) tCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGACAACAATCTCGa < 1:734680/71‑1 (MQ=255) aGGCCTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGACAACAATCTCGAcc < 1:3152602/71‑1 (MQ=255) cTACGGGTTGAACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGACAACAATCTCGACCCTa > 1:35022/1‑70 (MQ=255) cTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGACAACAATCTCGACCCTa > 1:1261690/1‑70 (MQ=255) | ACGCATAGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGACAACAATCTCGACCCTA > AP009048/349080‑349209 |
| 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: ‑ |