| Predicted mutation | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | NZ_CP009273 | 436,326 | C→T | A78T (GCT→ACT) | ispA ← | (2E,6E)‑farnesyl diphosphate synthase |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 436,326 | 0 | C | T | 89.3% | 73.4 / 2.1 | 28 | A78T (GCT→ACT) | ispA | (2E,6E)‑farnesyl diphosphate synthase |
| Reads supporting (aligned to +/- strand): ref base C (2/1); new base T (11/14); total (13/15) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 5.83e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.34e-01 | |||||||||||
AGAACGCCAGCGTTTGTAAAGCGTCGCCAGCGAGAATCGCGTTTGCTTCGCCAAACTTCACATGGCAGGTTGGCAAACCGCGACGCAGATCGTCATCATCCATTGCCGGTAAATCATCATGAATTAATGAGTAAGCGTGGATACACTCAACGGCGGCAGCGGGTGCGTCCAGCGTGTTTGTGCTAACGCCGAACATATGACCGGTGGCATAAACCAGGAAAGGTCGCAGGCGCTTACCACCTAATAATGCGCCATACTGCA > NZ_CP009273/436191‑436451 | agaACGCCAGCGTTTGTAAAGCGTCGCCAGCGAGAATCGCGTTTGCTTCGCCAAACTTCACATGGCAGGTTGGCAAACCGCGACGCAGATCGTCATCATCCATTGCCGGTAAATCATCATGAATTAATGAGTAAGtgtg > 2:548114/1‑139 (MQ=255) aCGCCAGCGTTTGTAAAGCGTCGCCAGCGAGAATCGCGTTTGCTTCGCCAAACTTCACATGGCAGGTTGGCAAACCGCGACGCAGATCGTCATCATCCATTGCCGGTAAATCATCATGAATTAATGAGTAAGTGTGGAt < 2:106547/139‑1 (MQ=255) cGCCAGCGTTTGTAAAGCGTCGCCAGCGAGAATCGCGTTTGCTTCGCCAAACTTCACATGGCAGGTTGGCAAACCGCGACGCAGATCGTCATCATCCATTGCCGGTAAATCATCATGAATTAATGAGTAAGTGTGGATa > 2:139332/1‑139 (MQ=255) tCGCCAGCGAGAATCGCGTTTGCTTCGCCAAACTTCACATGGCAGGTTGGCAAACCGCGACGCAGATCGTCATCATCCATTGCCGGTAAATCATCATGAATTAATGAGTAAGTGTGGATACCCTCAACGGCGGCAGCgg > 2:363369/1‑139 (MQ=255) tCGCCAGCGAGAATCGCGTTTGCTTCGCCAAACTTCACATGGCAGGTTGGCAAACCGCGACGCAGATCGTCATCATCCATTGCCGGTAAATCATCATGAATTAATGAGTAAGTGTGGATACACTCAACGGCGGCAGCgg > 2:744464/1‑139 (MQ=255) tCGCCAGCGAGAATCGCGTTTGCTTCGCCAAACTTCACATGGCAGGTTGGCAAACCGCGACGCAGATCGTCATCATCCATTGCCGGTAAATCATCATGAATTAATGAGTAAGTGTGGATACACTCAACGGCGGCAGCgg > 1:954353/1‑139 (MQ=255) cGCCAGCGAGAATCGCGTTTGCTTCGCCAAACTTCACATGGCAGGTTGGCAAACCGCGACGCAGATCGTCATCATCCATTGCCGGTAAATCATCATGAATTAATGAGTAAGTGTGGATACACTCAACGGCGGCAGCggg > 1:538519/1‑139 (MQ=255) cTTCGCCAAACTTCACATGGCAGGTTGGCAAACCGCGACGCAGATCGTCATCATCCATTGCCGGTAAATCATCATGAATTAATGAGTAAGTGTGGATACACTCAACGGCGGCAGCGGGTGCGTCCAGCGTGTTTGTGCt < 1:231387/139‑1 (MQ=255) ccAAACTTCACATGGCAGGTTGGCAAACCGCGACGCAGATCGTCATCATCCATTGCCGGTAAATCATCATGAATTAATGAGTAAGTGTGGATACACTCAACGGCGGCAGCGGGTGCGTCCAGCGTGTTTGTGCTAACGc > 2:36634/1‑139 (MQ=255) cAAACTTCACATGGCAGGTTGGCAAACCGCGACGCAGATCGTCATCATCCATTGCCGGTAAATCATCATGAATTAATGAGTAAGTGTGGATACACTCAACGGCGGCAGCGGGTGCGTCCAGCGTGTTTGTGCTAACGcc < 2:59850/139‑1 (MQ=255) aCTTCACATGGCAGGTTGGCAAACCGCGACGCAGATCGTCATCATCCATTGCCGGTAAATCATCATGAATTAATGAGTAAGTGTGGATACACTCAACGGCGGCAGCGGGTGCGTCCAGCGTGTTTGTGCTAACGCCGaa < 1:652602/139‑1 (MQ=255) cAGGTTGGCAAACCGCGACGCAGATCGTCATCATCCATTGCCGGTAAATCATCATGAATTAATGAGTAAGTGTGGATACACTCAACGGCGGCAGCGGGTGCGTCCAGCGTGTTTGTGCTAACGCCGAACATATGACCgg < 2:206191/139‑1 (MQ=255) gTTGGCAAACCGCGACGCAGATCGTCATCATCCATTGCCGGTAAATCATCATGAATTAATGAGTAAGTGTGGATACACTCAACGGCGGCAGCGGGTGCGTCCAGCGTGTTTGTGCTAACGcc < 1:1254309/122‑1 (MQ=255) gTTGGCAAACCGCGACGCAGATCGTCATCATCCATTGCCGGTAAATCATCATGAATTAATGAGTAAGTGTGGATACACTCAACGGCGGCAGCGGGTGCGTCCAGCGTGTTTGTGCTAACGcc > 2:1254309/1‑122 (MQ=255) gTTGGCAAACCGCGACGCAGATCGTCATCATCCATTGCCGGTAAATCATCATGAATTAATGAGTAAGCGTGGATACACTCAACGGCGGCAGCGGGTGCGTCCAGCGTGTTTGTGCTAACGCCGAACATATGACCGGTgg > 1:1006983/1‑139 (MQ=255) ggCAAACCGCGACGCAGATCGTCATCATCCATTGCCGGTAAATCATCATGAATTAATGAGTAAGTGTGGATACACTCAACGGCGGCAGCGGGTGCGTCCAGCGTGTTTGTGCTAACGCCGAACATATGACCGGTGGCa < 2:219642/138‑1 (MQ=255) aCGCAGATCGTCATCATCCATTGCCGGTAAATCATCATGAATTAATGAGTAAGTGTGGATACACTCAACGGCGGCAGCGGGTGCGTCCAGCGTGTTTGTGCTAACGCCGAACATATGACCGGTGGCATAAACCAGGaaa < 1:363369/139‑1 (MQ=255) aTCGTCATCATCCATTGCCGGTAAATCATCATGAATTAATGAGTAAGCGTGGATACACTCAACGGCGGCAGCGGGTGCGTCCAGCGTGTTTGTGCTAACGCCGAACATATGACCGGTGGCATAAACCAGGAAAGGTCg > 2:262967/1‑138 (MQ=255) atcCATTGCTGGTAAATCATCATGAATTAATGAGTAAGTGTGGATACACTCAACGGCGGCAGCGGGTGCGTCCAGCGTGTTTGTGCTAACGCCGAACATATGACCGGTGGCATAAACCAGGAAAGGTCGCAGGCGCTTa < 2:320022/139‑1 (MQ=255) atcCATTGCCGGTAAATCGTCATGAATTAATGAGTAAGTGTGGATACACTCAACGGCGGCAGCGGGTGCGTCCAGCGTGTTTGTGCTAACGCCGAACATATGACCGGTGGCATAAACCAGGAAAGGTCGCAGGCGCTTa < 2:935179/139‑1 (MQ=255) atcCATTGCCGGTAAATCATCATGAATTAATGAGTAAGTGTGGATACACTCAACGGCGGCAGCGGGTGCGTCCAGCGTGTTTGTGCTAACGCCGAACATATGACCGGTGGCATAAACCAGGAAAGGTCGCAGGCGCTTa < 2:1273467/139‑1 (MQ=255) tcCATTGCCGGTAAATCATCATGAATTAATGAGTAAGTGTGGATACACTCAACGGCGGCAGCGGGTGCGTCCAGCGTGTTTGTGCTAACGCCGAACATATGACCGGTGGCATAAACCAGGAAAGGTCGCAGGCGCTTac < 1:611467/139‑1 (MQ=255) ttGCCGGTAAATCATCATGAATTAATGAGTAAGTGTGGATACACTCAACGGCGGCAGCGGGGGCGTCCAGCGTGTTTGTGCTAACGCCGAACATATGACCGGTGGCATAAACCAGGAAAGGTCGCAGGCGCTTaccacc > 2:1033259/1‑139 (MQ=255) tGCCGGTAAATCATCATGAATTAATGAGTAAGTGTGGATACACTCAACGGCGGCAGCGGGTGCGTCCAGCGTGTTTGTGCTAACGCCGAACATATGACCGGTGGCATAAACCAGGAAAGGTCGCAGGCGCTTaccacc > 2:291047/1‑138 (MQ=255) tGCCGGTAAATCATCATGAATTAATGAGTAAGTGTGGATACACTCAACGGCGGCAGCGGGTGCGTCCAGCGTGTTTGTGCTAACGCCGAACATATGACCGGTGGCATAAACCAGGAAAGGTCGCAGGCGCTTaccacc > 1:901175/1‑138 (MQ=255) tGCCGGTAAATCATCATGAATTAATGAGTAAGTGTGGATACACTCAACGGCGGCAGCGGGTGCGTCCAGCGTGTTTGTGCTAACGCCGAACATATGACCGGTGGCATAAACCAGGAAAGGTCGCAGGCGCTTaccacc > 1:596330/1‑138 (MQ=255) ggTAAATCATCATGAATTAATGAGTAAGTGTGGATACACTCAACGGCGGCAGCGGGTGCGTCCAGCGTGTTTGTGCTAACGCCGAACATATGACCGGTGGCATAAACCAGGAAAGGTCGCAGGCGCTTACCACCtaata < 2:954353/139‑1 (MQ=255) atcatGAATTAATGAGTAAGCGTGGATACACTCAACGGCGGCAGCGGGTGCGTCCAGCGTGTTTGTGCTAACGCCGAACATATGACCGGTGGCATAAACCAGGAAAGGTCGCAGGCGCTTACCACCTAATAATGCGCCa < 2:1006983/139‑1 (MQ=255) aTTAATGAGTAAGTGTGGATACACTCAACGGCGGCAGCGGGTGCGTCCAGCGTGTTTGTGCTAACGCCGAACATATGACCGGTGGCATAAACCAGGAAAGGTCGCAGGCGCTTACCACCTAATAATGCGCCATACTGCa < 2:330771/139‑1 (MQ=255) | AGAACGCCAGCGTTTGTAAAGCGTCGCCAGCGAGAATCGCGTTTGCTTCGCCAAACTTCACATGGCAGGTTGGCAAACCGCGACGCAGATCGTCATCATCCATTGCCGGTAAATCATCATGAATTAATGAGTAAGCGTGGATACACTCAACGGCGGCAGCGGGTGCGTCCAGCGTGTTTGTGCTAACGCCGAACATATGACCGGTGGCATAAACCAGGAAAGGTCGCAGGCGCTTACCACCTAATAATGCGCCATACTGCA > NZ_CP009273/436191‑436451 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |