| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP000730 | 355,466 | G→A | 100% | P412S (CCA→TCA) | brnQ1 ← | LIVCS family branched chain amino acid:cation symporter |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP000730 | 355,466 | 0 | G | A | 95.9% | 106.7 / ‑3.4 | 39 | P412S (CCA→TCA) | brnQ1 | LIVCS family branched chain amino acid:cation symporter |
| Reads supporting (aligned to +/- strand): ref base G (2/0); new base A (21/15); total (24/15) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 5.09e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.54e-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. | |||||||||||
GAATTTCATATAAAAAAGCCTAGTAACGATGGGTCAATCATTACTAGGCAGTGAGCATTTATTAAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGGTACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGTTGAAACTATTTAGTATTTGTAAAATTGAAATAATCAATGTAATAACAGTTGCGAGTCGATAG > CP000730/355331‑355602 | gAATTTCATATAAAAAAGCCTAGTAACGATGGGTCAATCATTACTAGGCAGTGAGCATTTATTAAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGCTAATAGCAAAGAGCATGGATGATaaaa > 2:440105/1‑141 (MQ=255) tttCATATAAAAAATCCTAGTAATGATGTGTCAATCATTACTAGGCAGTGAGCATTTATTAAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATAcaagcc < 2:571644/141‑1 (MQ=255) atatAAAAAAGCCTAGTAACGATGGGTCAATCATTACTAGGCAGTGAGCATTTATTAAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATAcaagccaagc > 1:476334/1‑141 (MQ=255) atatAAAAAAGCCTAGTAACGATGGGTCAATCATTACTAGGCAGTGAGCATTTATTAAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATAcaagccaagc < 2:468765/141‑1 (MQ=255) taAAAAAGCCTAGTAACGATGGGTCAATCATTACTAGGCAGTGAGCATTTATTAAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTaa > 2:355130/1‑141 (MQ=255) aaaaaGCCTAGTAACGATGGGTCAATCATTACTAGGCAGTGAGCATTTATTAAGTTGTCGCTTGCTTCGGACGGCGTAGAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCAAAAt > 2:83414/1‑141 (MQ=255) aaGCCTAGTAACGATGGGTCAATCATTACTAGGCAGTGAGCATTTATTAAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGa < 2:354295/141‑1 (MQ=255) cTAGTAACGATGGGTCAATCATTACTAGGCAGTGAGCATTTATTAAGTTGTCGCTTGTTTCGGAAGGCGAATAAATACAACGATTATGAAACCGAGAATAGCAAAGAGCATGAATGAGACAAGCCAATCTAAATCAATATc > 2:392904/1‑141 (MQ=255) tAGTAACGATGGGTCAATCATTACTAGGCAGTGAGCATTTATTAAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCt < 2:327303/141‑1 (MQ=255) tAGTAACGATGGGTCAATCATTACTAGGCAGTGAGCATTTATTAAGTTGTCGCTTGTTTCGGACGGCGAATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGGTACAAGCCAAGCTAAATcagtatag > 2:69657/1‑134 (MQ=255) tAGTAACGATGGGTCAAGCATTACTGGGAAGTGAGCATTTATTAAGTTGTCGCTTGTTTCGGACGGCGTATAAGTACATCGATTATGAAACCGATAATAGCACCGCACCTGAACACTACAACGCAAGCTAAGTCGATAACt > 1:217161/1‑141 (MQ=255) gTAACGATGGGTCAATCATTACTAGGCAGTGAGCATTTATAAAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAACGATACAAGCCCAGCTAAATCGAAAACTGc > 2:294967/1‑141 (MQ=255) ggTCAATCATTACTAGGCAGTGAGTATTTATTAAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTaa > 2:208743/1‑141 (MQ=255) ggTCAATCATTACTAGGCAGTGAGCATTTTTTAAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTaa < 2:445756/141‑1 (MQ=255) cAATCATTACTAGGCAGTGAGCATTTATTAAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAAACGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATAGATATCTGCTAAAGGTAAcat > 2:66571/1‑141 (MQ=255) cAACCATTACTAGGCAGTAAGCATTTATTAAGTGGTCGCTTGTTTCGGACGGCGTATAAATACACCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAAcat < 1:4015/141‑1 (MQ=255) aaTCATTACTAGGCAGTGAGCATTTATTAAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAAcatc > 2:196676/1‑141 (MQ=255) aCTAGGCAGTGAGCATTTATTAAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTACAGGTAAAATCATaaaag > 2:136130/1‑139 (MQ=255) aCTAGGCAGTGAGCATTTATTAAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACg < 1:139533/141‑1 (MQ=255) gTGAGCACTTATTAAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCaaa > 1:359386/1‑141 (MQ=255) gCATTTATTAAGTTGTCGCTTGTTTCGGACGGCGTATAAATAAAACGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATAGATATCTGCTAAAGGTAACATCAAAACCGacgccaaaagaa > 1:479697/1‑130 (MQ=255) gTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGtaat < 1:208743/141‑1 (MQ=255) tCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGt > 2:50004/1‑141 (MQ=255) cGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGtt > 1:15646/1‑141 (MQ=255) ttGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGTTGaa > 2:452877/1‑141 (MQ=255) ttCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGTTGAAACTa < 1:452877/141‑1 (MQ=255) ttCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAAAGCATGAATGATACAAGCCAAGCTAAATAGATATCTGATAAAGGTAACATCATAAAAGATTTCAAAATAACCCCGTGTAATAATTTTAAACTa > 2:461815/1‑141 (MQ=255) ggACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTGAAAGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGTTGAAACTAttt > 1:131753/1‑141 (MQ=255) gACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGGTACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACAACGTGTAATAAGTTGAAACTATTTa > 1:35695/1‑141 (MQ=255) aaaCCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGTTGAAACTATTTAGTATTTGTAAAATTGAAATAATCAAt < 2:13248/141‑1 (MQ=255) aCCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGTTGAAACTATTTAGTATTTGTAAAATTGAAATAATCAATGt < 1:165432/141‑1 (MQ=255) aCCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGTTGAAACTATTTAGTATTTGTAAAATTGAAATAATCAATGt < 1:47519/141‑1 (MQ=255) taGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGTTGAAACTATTTAGTATTTGTAAAATTGAAATAATCAATGTAATAACAg > 2:193862/1‑141 (MQ=255) aaaGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTACTAAAGGTAACATGATAAACGATTTCAAAATAACACCGTGTAATAAGTTGAAACTATTTAGTATTTGTAAAATCGAAATAATCAATGTAATAACAGTTga > 2:490046/1‑140 (MQ=255) aaGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGTTGAAACTATTTAGTATTTGTAAAATTGAAATAATCAATGTAATAACAGTTGCg < 2:155639/141‑1 (MQ=255) aaGAGCATGAATGATACAAGCCAAGCTAAATCCATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGTTGAAACTATTTAGTATTTGTAAAATTGAAATAATCAATGTAATAACAGTTGCg < 1:194604/141‑1 (MQ=255) gacATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGTTGAAACCATTTAGTATTTGTAAAATTGAAATAATCAATGTAATAACAGTTGCGAGt < 1:203407/139‑1 (MQ=255) gAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGTTGAAACTATTTAGTATTTGTAAAATTGAAATAATCAATGTAATAACAGTTGCGAGCCGATa > 1:62966/1‑141 (MQ=255) aaTGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAAGACCGTGTAATAAGTTGAAACGATTTAGTATTTGTAAAATTGAAATAATCAATGTAATACTAGTTGCGAGTCGTTAg > 2:350057/1‑141 (MQ=255) | GAATTTCATATAAAAAAGCCTAGTAACGATGGGTCAATCATTACTAGGCAGTGAGCATTTATTAAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGGTACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGTTGAAACTATTTAGTATTTGTAAAATTGAAATAATCAATGTAATAACAGTTGCGAGTCGATAG > CP000730/355331‑355602 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |