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
*CP000730355,4660GA100.0% 155.9 / NA 50P412S (CCA→TCA) brnQ1LIVCS family branched chain amino acid:cation symporter
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (27/23);  total (27/23)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

GAATTTCATATAAAAAAGCCTAGTAACGATGGGTCAATCATTACTAGGCAGTGAGCATTTATTAAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGGTACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGTTGAAACTATTTAGTATTTGTAAAATTGAAATAATCAATGTAATAACAGTTGCGAGTCGA  >  CP000730/355331‑355599
                                                                                                                                       |                                                                                                                                     
gAATTTCATATAAAAAAGCCTAGTAACGATGGGTCAATCATTACTAGGCAGTGAGCATTTATTAAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAAACGATAATAGCAAAGAGCATGAATGATAca                                                                                                                                   >  1:231137/1‑140 (MQ=255)
             aaaaGCCTAGTAACGATGGGCCAATCATAACTAGGCAGTGAGCATTTATTAAGTGGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAAt                                                                                                                      >  1:492420/1‑140 (MQ=255)
                  ccTAGTAACGATGGGTCAATCAATACTAGACAGTGAGCATTTATTAAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCACCTATGAAAACGATAAGAGGAAAGAGCATGAATGATACAAGCCAAGCTAAATCGata                                                                                                                 >  2:376259/1‑140 (MQ=255)
                    tAGTAACGATGGGTCAATCATTACTAGGCAGTGAGCATTTATTAAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGAAATc                                                                                                               >  2:226848/1‑140 (MQ=255)
                        aaCGATGGGTCAATCATTACTAGGCAGTGAGCATTTATTAAGTTGTCGCTTGTTTCGGACGGCGGATAAATACATCGATTATGAAACCGATAATACCAAAGAGCATGAATGATACAAGCTAAGCTAAATCGATATCTGCt                                                                                                           <  1:462599/140‑1 (MQ=255)
                           gATGGGTCAATCATTACTAGGCAGTGAGCATTTATTAAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTaaa                                                                                                        <  1:584994/140‑1 (MQ=255)
                             agggTCAATCATTACTAGGCAGTTAGCATTTATTAAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAgg                                                                                                      <  2:104250/139‑1 (MQ=255)
                              gggTCAATCATTACTAGGCAGTGAGCATTTATTAAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGt                                                                                                     >  1:595667/1‑140 (MQ=255)
                               ggTCAATCATTACTAGGCAGTGAGCATTTATTAAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTa                                                                                                    >  1:590631/1‑140 (MQ=255)
                                 tCAATCATTACTAGGCAGTGAGCATTTATTAAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAAc                                                                                                  <  1:163325/140‑1 (MQ=255)
                                        ttACTAGGCAGTGAGCATTTATTAAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATaa                                                                                           <  1:676713/140‑1 (MQ=255)
                                          aCTAGGCAGTGAGCATTTATTAAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAAc                                                                                         >  2:484371/1‑140 (MQ=255)
                                          aCTAGGCAGTGAGCATTTATTAAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAAc                                                                                         >  1:752855/1‑140 (MQ=255)
                                              ggCAGTGAGCATTTATTAAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGAtt                                                                                     <  1:619500/140‑1 (MQ=255)
                                              ggCAGTGAGCATTTATTAAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCAAAAACGAtt                                                                                     >  2:255459/1‑140 (MQ=255)
                                              ggCAGTGAGCATTTATTAAGTTGTCGCTTGTTTCGGACGACGTATAAATACATCGATTATGAAACCGATAATTGCAAGGAGAATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGAtt                                                                                     <  1:105547/140‑1 (MQ=255)
                                                   tGAGCATTTATTAAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGAAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCaaa                                                                                >  1:587435/1‑140 (MQ=255)
                                                     aGCATTTATTAAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAAt                                                                              <  2:527790/140‑1 (MQ=255)
                                                         tttATTAAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAaca                                                                          <  2:757290/140‑1 (MQ=255)
                                                           tattaAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGAGTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACAcc                                                                        <  2:657917/140‑1 (MQ=255)
                                                            attaAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCg                                                                       >  2:683924/1‑140 (MQ=255)
                                                            attaAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAAAAACACCg                                                                       >  1:266975/1‑140 (MQ=255)
                                                            attaAGTTGTCGCTTGTTTCGGACGGCGTATAAATAAATCGATTATGAAACCGATAATAGCAGAGAGCATGAATGATAAAAGCCAAGCTAAATCGATTTCTGCTAAAGGTAACATCATAAAGGATTTCAAAATAAGACCg                                                                       >  2:37021/1‑140 (MQ=255)
                                                                aGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGta                                                                   >  2:412871/1‑140 (MQ=255)
                                                                  ttGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGtaat                                                                 >  1:695857/1‑140 (MQ=255)
                                                                   tGTTGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGtaata                                                                <  2:141638/140‑1 (MQ=255)
                                                                   tGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGtaata                                                                <  2:746979/140‑1 (MQ=255)
                                                                        cTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGCATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGATg                                                           >  2:509120/1‑140 (MQ=255)
                                                                               cGGATGGCGTATGAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATACACGATTTCAAAATAACACCGTGTAATAAATTGAAACTAt                                                    >  1:537261/1‑140 (MQ=255)
                                                                                    ggCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAATATAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGTTGAAACTATTTaat                                               >  1:104162/1‑138 (MQ=255)
                                                                                       gTAGAAATACATTGATTATGAAACCGAAAATAGCAAAGCGCATGAATGATACAACCCAAGCTAAAACGATATCTGCTAAAGTTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGTTGAAACTATTTAGTAtt                                            <  2:26919/140‑1 (MQ=255)
                                                                                                   cGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGTTGAAACTATTTAGTATTTGTAAAATTGaa                                >  1:546884/1‑140 (MQ=255)
                                                                                                   cGATTATGAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGTTGAAACTATTTAGTATTTGTAAAATTGaa                                <  1:671906/140‑1 (MQ=255)
                                                                                                       tATGAAACCGATAATAGCAAAGGGCATGAATGATACAAGCAAAGATAAATCGATATCTGCTAAAGGTGCTTCCATAAACAATCTCCAAATTACACCGTGTAATAAGTTGAAACTATTTAGTATTTGTAAAATTGAaataa                            <  1:750847/140‑1 (MQ=255)
                                                                                                       tATGAAACCGATAATAGCAAAGAGCATGAATTATACAAGGCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGTTGAAACTATTTAGTATTTGTAAAATTGAaataa                            <  2:387314/140‑1 (MQ=255)
                                                                                                       tATGAAACCGAAAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGTTGAAACTATTTAGTATTTGTAAAATTGAaataa                            <  1:126594/140‑1 (MQ=255)
                                                                                                          gAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGTTGAAACTATTTAGTATTTGTAAAATTGAaataataa                         >  1:389704/1‑138 (MQ=255)
                                                                                                          gAAACCGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAATTAAAACTAATTAGTATTTGTAAAATTGAAATAATCa                         >  1:50960/1‑140 (MQ=255)
                                                                                                              ccGATAATAGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAGGTTGAAACTATTTAGTATTTGTAAAATTGAAATAATCAATGt                     >  1:443734/1‑140 (MQ=255)
                                                                                                               cGATAATAGCAAAGAGCATGAAGGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGTTGAAACTATTTAGTATTTGTAAAATTGAAATAATCAATGta                    <  2:385315/140‑1 (MQ=255)
                                                                                                                 ataataGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGTTGAAACTATTTAGTATTTGTAAAATTGAAATAATCAATGtaat                  >  1:69068/1‑140 (MQ=255)
                                                                                                                   aataGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGGGTACTAAGTTGAGACTATTTAGTATATGTAAAATTGAAAAAATAAATAtaaaaa                >  2:465343/1‑140 (MQ=255)
                                                                                                                     taGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGTTGAAACTATTTAGTATTTGTAAAATTGAAATAATCAATGTAATAACa              <  1:671523/140‑1 (MQ=255)
                                                                                                                     taGCAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGTTGAAACTATTTAGTATTTGTAAAATTGAAATAATCAATGTAATAACa              <  1:299740/140‑1 (MQ=255)
                                                                                                                       gCAAAGAGCATGAATGAGACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGTTTAAACTATTTAGTATTTGTAAAATTGAAATAATCAATGTAATAACAGt            <  2:492420/140‑1 (MQ=255)
                                                                                                                        cAAAGAGCATGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGTTGAAACTATTTAGTATTTGTAAAATTGAAATAATCAATGTAATAACAGtt           <  1:47697/140‑1 (MQ=255)
                                                                                                                            gagCATGAATGATACAAGCCAAGCTAAATCGTTATCTGTTAAAGGTAACATCATATACGATTTCAAAATAACACCGTGTAATAAGTTGAAACTATTTAGTATTTGTAAAATTGAAATAATCAATGTAATAACAGTTGCGa       <  1:255459/140‑1 (MQ=255)
                                                                                                                                atgaatgaTACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGTTGAAACTATTTAGTATTTGTAAAATTGAAATAATCAATGTAATAACAGTTGCGAGTCg   >  2:105512/1‑140 (MQ=255)
                                                                                                                                atgaatgaTACAAGCCAACCTCGCTCTTTATGTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGTTGAAACTATTTAGTATTTGTAAAATTGAAATAATCAATGTAATAACAGTTGCGAGTCg   >  1:755198/1‑140 (MQ=255)
                                                                                                                                 tGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGTTGAAACTATTTAGTATTTGTAAAATTGAAATAATCAATGTAATAACAGTTGCGGGCCGa  >  2:4856/1‑140 (MQ=255)
                                                                                                                                 tGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGTTGAAACTATTTAGTATTTGTAAAATTGAAATAATCAATGTAATAACAGTTGCGAGTCGa  >  2:4937/1‑140 (MQ=255)
                                                                                                                                 tGAATGATACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGTTGAAACTATTTAGTATTTGTAAAATTGAAATAATCAATGTAATAACAGTTGCGAGTCGa  >  1:469071/1‑140 (MQ=255)
                                                                                                                                       |                                                                                                                                     
GAATTTCATATAAAAAAGCCTAGTAACGATGGGTCAATCATTACTAGGCAGTGAGCATTTATTAAGTTGTCGCTTGTTTCGGACGGCGTATAAATACATCGATTATGAAACCGATAATAGCAAAGAGCATGAATGGTACAAGCCAAGCTAAATCGATATCTGCTAAAGGTAACATCATAAACGATTTCAAAATAACACCGTGTAATAAGTTGAAACTATTTAGTATTTGTAAAATTGAAATAATCAATGTAATAACAGTTGCGAGTCGA  >  CP000730/355331‑355599

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: ‑