Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 638,614 G→T 100% T14K (ACA→AAA)  thiD ← phosphomethylpyrimidine kinase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP000730638,6140GT100.0% 174.7 / ‑6.5 55T14K (ACA→AAA) thiDphosphomethylpyrimidine kinase
Reads supporting (aligned to +/- strand):  ref base G (0/1);  new base T (34/20);  total (34/21)
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.

ATCCATTGGTAATGGTGTAACATCGTGTGACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTGTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATCATATCATTTTTAACCTAATTGAAAAATATTAAGCATTCAATATTTGATGATTGTTGAAAT  >  CP000730/638478‑638750
                                                                                                                                        |                                                                                                                                        
aTCCATTGGTAATGGTGTAACATCGTGTGACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTc                                                                                                                                      >  2:297643/1‑141 (MQ=255)
  ccATTGGTAATGGTGTAACATCGTGTGACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAg                                                                                                                                    <  1:452880/141‑1 (MQ=255)
      tGGTAATTGTGTAACATCGTGTGACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAAcc                                                                                                                                <  2:43640/141‑1 (MQ=255)
       ggTAATGGTGTAACATCGTGTGACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCg                                                                                                                               >  1:86693/1‑141 (MQ=255)
       ggTAATGGTGTAACATCGTGTGACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGAATCCCACTTCCAGCACTTTTGTCAGAACCg                                                                                                                               <  1:558027/141‑1 (MQ=255)
         tcaTGGTGTAACATCGTGTGACCATGTATCTTTATGCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGc                                                                                                                             <  2:473350/139‑1 (MQ=255)
         taactttgtAACATCGTGTGACCATGTATCTTGATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTTGAACACTTACAAAACTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGc                                                                                                                             <  1:245871/135‑1 (MQ=255)
         tAATGGTGTACCCTCGTGGGACCATCTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGc                                                                                                                             <  2:417544/141‑1 (MQ=255)
         tAATGGTGTAACATCGTGTGACCATGTATCTCCCACCCTAATAACGATGTCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGc                                                                                                                             <  1:433235/141‑1 (MQ=255)
           aTGGTGTAACATCGTGTGACCATGTATCTTTATCCATAGTAACGACGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCaa                                                                                                                           <  1:450000/141‑1 (MQ=255)
            tGGTGTAACATCGTGTGACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCact                                                                                                                          >  2:249056/1‑139 (MQ=255)
                gtAACATCGTGTGACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCCTGCCATACGTATCTAAATCTTGGAACGTTTACAAATCTCCTTGCATACCTGCCCCAGCACTTTTGTCAGAACCGGAAATtttt                                                                                                                      >  2:155244/1‑141 (MQ=255)
                  aaCATCGTGTGACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTaa                                                                                                                    >  1:531569/1‑141 (MQ=255)
                   aCATCGTGTGACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTaaa                                                                                                                   <  1:481498/141‑1 (MQ=255)
                          gtgACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAActttct                                                                                                            >  1:179282/1‑141 (MQ=255)
                           tgACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAActttctt                                                                                                           <  1:273592/141‑1 (MQ=255)
                            gACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAActttcttt                                                                                                          >  2:143008/1‑141 (MQ=255)
                            gACCAAGTATCTTTATCCATAGTAACGATGGCAGATAAAGAGACCACACCATACGTATCTACTTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAActttcttt                                                                                                          >  2:201650/1‑141 (MQ=255)
                             aCCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTa                                                                                                         >  1:430743/1‑141 (MQ=255)
                                                 gTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAGAGCCATTGGGCTTCACTcc                                                                                     >  2:42157/1‑141 (MQ=255)
                                                    aCGATGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTATTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTAc                                                                                  <  1:435529/141‑1 (MQ=255)
                                                      gATGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACat                                                                                <  1:137102/141‑1 (MQ=255)
                                                        tGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACataa                                                                              >  2:93221/1‑141 (MQ=255)
                                                        tGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACataa                                                                              >  1:492255/1‑141 (MQ=255)
                                                        tGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACataa                                                                              >  1:356070/1‑141 (MQ=255)
                                                         ggCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACataat                                                                             >  2:256425/1‑141 (MQ=255)
                                                          gCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGTATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACataata                                                                            >  1:123976/1‑141 (MQ=255)
                                                           cAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCACTGAGCTTCACTCCTACataataa                                                                           >  2:266007/1‑141 (MQ=255)
                                                              ttAGAGCGACCAGGCCAGACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTGTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAagat                                                                        <  2:188957/141‑1 (MQ=255)
                                                                aaaGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTg                                                                      >  2:552583/1‑141 (MQ=255)
                                                                       ccATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATTTTGTATtcat                                                               >  1:24118/1‑141 (MQ=255)
                                                                           gCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTAAGCTCCACTCCTACATAATAATATTGTATTAatccta                                                           >  2:355068/1‑141 (MQ=255)
                                                                             cATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCatcatatc                                                         <  1:525910/141‑1 (MQ=255)
                                                                                 cGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAATGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATCATATCAttt                                                     >  2:367083/1‑141 (MQ=255)
                                                                                 cGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATCATATCAttt                                                     >  2:229640/1‑141 (MQ=255)
                                                                                       tAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATCATATCATTTTTAAcc                                               >  2:80177/1‑141 (MQ=255)
                                                                                           tCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTACACGCCGACATAATAATATTATATTCATCATATCATTTTTAACCTAAt                                           >  1:433372/1‑141 (MQ=255)
                                                                                           tCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTCCACAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATCATATCATTTTTAACCTAAt                                           >  1:245567/1‑141 (MQ=255)
                                                                                              tGGAGCGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATCATATCATTTTTAACCTATTTGa                                        >  1:381148/1‑141 (MQ=255)
                                                                                               ggAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATCATATCATTTTTAACCTAATTGaa                                       <  1:555784/141‑1 (MQ=255)
                                                                                               ggAACGTTTTCAAATCTGCTTGCACACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATCATATCATTTTTAACCTAATTGaa                                       <  1:12162/141‑1 (MQ=255)
                                                                                               ggAACGTTTTCAAATCGGGTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATCATATCATTTTTAACCTAATTGaa                                       <  2:403491/141‑1 (MQ=255)
                                                                                                  aCGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAGACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATCATATCATTTTTAACCTAATTGaaaaa                                    >  1:442833/1‑141 (MQ=255)
                                                                                                  aCGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATCATATCATTTTTAACCTAATTGaaaaa                                    >  1:54131/1‑141 (MQ=255)
                                                                                                    gTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATCATATCATTTTTAACCTAATTGAAAAata                                  >  1:195344/1‑141 (MQ=255)
                                                                                                     ttttCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATCATATCATTTTTAACCTAATTGAAAAatat                                 >  2:349970/1‑141 (MQ=255)
                                                                                                        tCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATCATATCATTTTTAACCTAATTGAAAAATATTaa                              >  1:367887/1‑141 (MQ=255)
                                                                                                              ttGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATAATATCATTTTTAACCTAATTGAAAAATATTAAGCATTc                        <  2:165980/140‑1 (MQ=255)
                                                                                                              cTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATCATATCATTTTTAACCTAATTGAAAAATATTAAGCATTc                        <  1:228658/141‑1 (MQ=255)
                                                                                                                      ttACCTGCGCCAGCCCTTTTGTCAGAACCGCCAATTGTTAAAACTTTCTTTAAACCTATTGAGCTTCACTCCTACACAATCATAATGTATTGATCATATCATTTTTAACCTAATTGAAAAATATTCACCAGGCAAGATTtg                <  2:259958/140‑1 (MQ=255)
                                                                                                                            gcgcCAGCAATTTTGTCAGAACCGGCAATTGTTAAAGCTTTCTTTGAAGCCATTGAGCTTCACTCCTACATAATAATTTTGTATTCATCATATCATTTTTAACCTAATTGAAAAATATTAAGCATTCAATATTTGATGAtt          >  2:110653/1‑141 (MQ=255)
                                                                                                                                 aGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATCATATCATTTTTAACCTAATTGAAAAATATTAAGCATTCAATATTTGATCATTGTTGa     >  1:18816/1‑141 (MQ=255)
                                                                                                                                  gCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCAGTCAGCTTCACTCCTACATAATAATATTGTATTCATCATATCATTTTTAACCTAATTGAAAAATATTAAGCATTCAATATTTGATGATTGTTGaa    >  1:438181/1‑141 (MQ=255)
                                                                                                                                   cACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATCATATCATTTTTAACCTAATTGAAAAATATTAAGCATTCAATATTTGATGATTGTTGaaa   >  2:509193/1‑141 (MQ=255)
                                                                                                                                    aCTTTTGTCAGAACCGGCCATTGTAAGCCCTTTCGGTGCCGGCAATGACCTTCACTCCTACATAATAATATTGTATTCATCATATCATTTTTAACCTATTTGAAAAATATTAAGCATTCAATATTTGATGATTGTTGAAAt  <  1:489359/141‑1 (MQ=255)
                                                                                                                                        |                                                                                                                                        
ATCCATTGGTAATGGTGTAACATCGTGTGACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTGTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATCATATCATTTTTAACCTAATTGAAAAATATTAAGCATTCAATATTTGATGATTGTTGAAAT  >  CP000730/638478‑638750

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: