Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 438,606 C→T S524S (TCG→TCA)  dxs ← 1‑deoxy‑D‑xylulose‑5‑phosphate synthase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913438,6060CT98.1% 179.8 / ‑4.4 53S524S (TCG→TCA) dxs1‑deoxy‑D‑xylulose‑5‑phosphate synthase
Reads supporting (aligned to +/- strand):  ref base C (1/0);  new base T (28/24);  total (29/24)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.88e-01

CTGCCTGCGCCGCCCATAATGGCGTTTTCTTCTACGGTGACCAGCGCTTCATGGCTGGCGGCCATTTCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGCGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGCCAGTTTCTCGCCACGACGCTTCACAATGCCTTTGCCAATTGGTAGTTTTTCCAGCGGCGTCAGTTCCACGCCGACCGCGTT  >  NC_000913/438478‑438740
                                                                                                                                |                                                                                                                                      
ctgcctgcGCCGCCCATAATGGCGTTTTCTTCTACGGTGACCAGCGCTTCATGGCTGGCGGCCATTTCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGAc                                                                                                                             <  2:322972/140‑1 (MQ=255)
      gcgcCGCCCATAATGGCGTTTTCTTCTACGGTGACCAGCGCTTCATGGCTGGCGGCCATTTCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTcgc                                                                                                                       <  1:295082/140‑1 (MQ=255)
         ccgccCATAATGGCGTTTTCTTCTACGGTGACCAGCGCTTCATGGCTGGCGGCCATTTCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTcgccgc                                                                                                                    >  2:371712/1‑140 (MQ=255)
           gccCATAATGGCGTTTTCTTCTACGGTGACCAGCGCTTCATGGCTGGCGGCCATTTCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCtt                                                                                                                  <  1:1299801/140‑1 (MQ=255)
           gccCATAATGGCGTTTTCTTCTACGGTGACCAGCGCTTCATGGCTGGCGGCCATTTCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCtt                                                                                                                  <  1:371712/140‑1 (MQ=255)
             ccATAATGGCGTTTTCTTCTACGGTGACCAGCGCTTCATGGCTGGCGGCCATTTCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGGCTTTCGCCGCTTCt                                                                                                                <  1:230438/140‑1 (MQ=255)
             ccATAATGGCGTTTTCTTCTACGGTGACCAGCGCTTCATGGCTGGCGGCCATTTCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCt                                                                                                                >  2:738034/1‑140 (MQ=255)
                  aTGGCGTTTTCTTCTACGGTGACCAGCGCTTCATGGCTGGCGGCCATTTCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCAt                                                                                                           <  1:553347/140‑1 (MQ=255)
                     gCGTTTTCTTCTACGGTGACCAGCGCTTCATGGCTGGCGGCCATTTCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAg                                                                                                        <  2:706327/140‑1 (MQ=255)
                       gTTTTCTTCTACGGTGACCAGCGCTTCATGGCTGGCGGCCATTTCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCg                                                                                                      <  1:933462/140‑1 (MQ=255)
                       gTTTTCTTCTACGGTGACCAGCGCTTCATGGCTGGCGGCCATTTCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCg                                                                                                      >  2:933462/1‑140 (MQ=255)
                           tcttctACGGTGACCAGCGCTTCATGGCTGGCGGCCATTTCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTAcc                                                                                                  <  2:2887/140‑1 (MQ=255)
                            cttctACGGTGACCAGCGCTTCATGGCTGGCGGCCATTTCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCa                                                                                                 <  2:185203/140‑1 (MQ=255)
                            cttctACGGTGACCAGCGCTTCATGGCTGGCGGCCATTTCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCa                                                                                                 <  1:389760/140‑1 (MQ=255)
                            cttctACGGTGACCAGCGCTTCATGGCTGGCGGCCATTTCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCa                                                                                                 <  2:1137179/140‑1 (MQ=255)
                                  cGGTGACCAGCGCTTCATGGCTGGCGGCCATTTCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTa                                                                                           <  2:136855/140‑1 (MQ=255)
                                       aCCAGCGCTTCATGGCTGGCGGCCATTTCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTAcc                                                                                                  >  2:1135607/1‑128 (MQ=255)
                                       aCCAGCGCTTCATGGCTGGCGGCCATTTCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTAcc                                                                                                  <  1:1135607/128‑1 (MQ=255)
                                            cgcTTCATGGCTGGCGGCCATTTCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGCCa                                                                                 >  1:1081477/1‑140 (MQ=255)
                                            cgcTTCATGGCTGGCGGCCATTTCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGCCa                                                                                 >  1:888726/1‑140 (MQ=255)
                                               ttCATGGCTGGCGGCCATTTCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGCGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGCCAGtt                                                                              >  1:27546/1‑140 (MQ=255)
                                                 cATGGCTGGCGGCCATTTCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGCCAGTTtc                                                                            >  1:1241443/1‑140 (MQ=255)
                                                       tggcGGCCATTTCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGCCAGTTTCTCGCCa                                                                      >  2:368282/1‑140 (MQ=255)
                                                        ggcggcCATTTCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGCCAGTTTCTCGCCac                                                                     >  1:227692/1‑140 (MQ=255)
                                                         gcggcCATTTCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGcc                                                                                  <  1:925061/126‑1 (MQ=255)
                                                         gcggcCATTTCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGcc                                                                                  >  2:925061/1‑126 (MQ=255)
                                                         gcggcCATTTCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGCCAGTTTCTCGCCacg                                                                    >  2:721684/1‑140 (MQ=255)
                                                         gcggcCATTTCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGCCAGTTTCTCGCCacg                                                                    >  1:1502377/1‑140 (MQ=255)
                                                         gcggcCATTTCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGCCAGTTTCTCGCCacg                                                                    >  1:665302/1‑140 (MQ=255)
                                                          cggcCATTTCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGCCAGTTTCTCGCCacga                                                                   <  1:861496/140‑1 (MQ=255)
                                                                tttCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGCCAGttt                                                                             <  2:1268256/124‑1 (MQ=255)
                                                                tttCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGCCAGttt                                                                             >  1:1268256/1‑124 (MQ=255)
                                                                tttCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGCCAGTTTCTCGCCACGACGCTTc                                                             >  1:699534/1‑140 (MQ=255)
                                                                  tCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGCCAGTTTCTCGCCACGACGCTTcac                                                           <  1:721684/140‑1 (MQ=255)
                                                                   ccAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGCCAGTTTCTCGCCACGACGCTTcaca                                                          <  2:1211896/140‑1 (MQ=255)
                                                                     aGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGCCAGTTTCTCGCCACGACGCTTCACAAt                                                        >  1:899440/1‑140 (MQ=255)
                                                                     aGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGCCAGTTTCTCGCCACGACGCTTCACAAt                                                        <  2:665302/140‑1 (MQ=255)
                                                                          tAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGCCAGTTTCTCGCCACGACGCTTCACAATGCCtt                                                   <  2:1502377/140‑1 (MQ=255)
                                                                           aaCGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGCCAGTTTCTCGCCACGACGCTTCACAATGCCttt                                                  >  2:608211/1‑140 (MQ=255)
                                                                                   atcaAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGCCAGTTTCTCGCCACGACGCTTCACAATGCCTTTGCCAATTg                                          >  2:257460/1‑140 (MQ=255)
                                                                                            tttCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGCCAGTTTCTCGCCACGACGCTTCACAATGCCTTTGCCAATTGGTAGttttt                                 >  2:971044/1‑140 (MQ=255)
                                                                                              tCACAAAACGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGCCAGTTTCTCGCCACGACGCTTCACAATGCCTTTGCCAATTGGTAGTTTTTcc                               >  1:510790/1‑140 (MQ=255)
                                                                                                      cGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGCCAGTTTCTCGCCACGACGCTTCACAATGCCTTTGCCAATTGGTAGTTTTTCCAGCGGCGt                       <  2:510790/140‑1 (MQ=255)
                                                                                                      cGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGCCAGTTTCTCGCCACGACGCTTCACAATGCCTTTGCCAATTGGTAGTTTTTCCAGCGGCGt                       >  2:1071779/1‑140 (MQ=255)
                                                                                                      cGCATATCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGCCAGTTTCTCGCCACGACGCTTCACAATGCCTTTGCCAATTGGTAGTTTTTCCAGCGGCGt                       <  2:953138/140‑1 (MQ=255)
                                                                                                         atatCGACCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGCCAGTTTCTCGCCACGACGCTTCACAATGCCTTTGCCAATTGGTAGTTTTTCCAGCGGCGTCAg                    >  2:183760/1‑140 (MQ=255)
                                                                                                               aCCAGCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGCCAGTTTCTCGCCACGACGCTTCACAATGCCTTTGCCAATTGGTAGTTTTTCCAGCGGCGTCAGTTCCAc              >  1:747953/1‑140 (MQ=255)
                                                                                                                   gCGTGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGCCAGTTTCTCGCCACGACGCTTCACAATGCCTTTGCCAATTGGTAGTTTTTCCAGCGGCGTCAGTTCCACGCCg          >  2:845281/1‑140 (MQ=255)
                                                                                                                      tGGCGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGCCAGTTTCTCGCCACGACGCTTCACAATGCCTTTGCCAATTGGTAGTTTTTCCAGCGGCGTCAGTTCCACGCCGAcc       >  1:1450619/1‑140 (MQ=255)
                                                                                                                         cGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGCCAGTTTCTCGCCACGACGCTTCACAATGCCTTTGCCAATTGGTAGTTTTTCCAGCGGCGTCAGTTCCACGCCGACcgcg    >  2:1019011/1‑140 (MQ=255)
                                                                                                                         cGTTCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGCCAGTTTCTCGCCACGACGCTTCACAATGCCTTTGCCAATTGGTAGTTTTTCCAGCGGCGTCAGTTCCACGCCGACcgcg    >  1:1186243/1‑140 (MQ=255)
                                                                                                                           ttCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGCCAGTTTCTCGCCACGACGCTTCACAATGCCTTTGCCAATTGGTAGTTTTTCCAGCGGCGTCAGTTCCACGCCGACCGCGtt  <  2:1047680/140‑1 (MQ=255)
                                                                                                                           ttCAGTGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGCCAGTTTCTCGCCACGACGCTTCACAATGCCTTTGCCAATTGGTAGTTTTTCCAGCGGCGTCAGTTCCACGCCGACCGCGtt  >  1:818315/1‑140 (MQ=255)
                                                                                                                                |                                                                                                                                      
CTGCCTGCGCCGCCCATAATGGCGTTTTCTTCTACGGTGACCAGCGCTTCATGGCTGGCGGCCATTTCCAGAATTAACGCTTCATCAAGCGGTTTCACAAAACGCATATCGACCAGCGTGGCGTTCAGCGATTCGGCGACTTTCGCCGCTTCTGGCATCAGCGTACCAAAGTTAAGGATCGCCAGTTTCTCGCCACGACGCTTCACAATGCCTTTGCCAATTGGTAGTTTTTCCAGCGGCGTCAGTTCCACGCCGACCGCGTT  >  NC_000913/438478‑438740

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑