Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 1,435,069 A→C 23.2% T142T (ACA→ACC)  dapD → 2,3,4,5‑tetrahydropyridine‑2,6‑dicarboxylate N‑succinyltransferase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0007301,435,0690AC23.2% 96.8 / 8.8 57T142T (ACA→ACC) dapD2,3,4,5‑tetrahydropyridine‑2,6‑dicarboxylate N‑succinyltransferase
Reads supporting (aligned to +/- strand):  ref base A (12/30);  new base C (13/2);  total (25/32)
Fisher's exact test for biased strand distribution p-value = 1.49e-04
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

ACCAGGTGCGTTTATTAGAGAACAAGCCATTATTGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAGGATGATGTATTAATCGGTGCAAATGCAGTTATTTTAGAAGGTGTACGTGTTGGTAA  >  CP000730/1434931‑1435209
                                                                                                                                          |                                                                                                                                            
accaattacGTTTATTAGAAAACAAACCATAATTGAAGAGGGTGCTGTCGTTATTATTGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGTAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAAc                                                                                                                                            <  2:152572/133‑1 (MQ=255)
  cAGGTGGGTTTATTAGAGAACAAGCCATTATTGAAGATGGTGCTTTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTg                                                                                                                                          <  1:109114/141‑1 (MQ=255)
  cAGGTGCGTTTATTAGTGAACAAGCCATTATTGAAGATGGTGCTGGCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTg                                                                                                                                          <  1:245975/141‑1 (MQ=255)
   aGGTGCGTTTATTAGAGAACAAGCCATTATTGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTgg                                                                                                                                         <  1:632878/141‑1 (MQ=255)
       gcgcTTATTAGGGAACAAGCCATGATTGGGGGTGGTGCTGTCGTTTTGATGGGCGCAACAATTAATATTGGCGCAGGCTGTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTaaa                                                                                                                                     <  2:89534/141‑1 (MQ=255)
        cGTTTATTAGAGAACAAGCCATTATTGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTaaga                                                                                                                                    >  1:695057/1‑139 (MQ=255)
                  agaACAAGCCATTATTGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGt                                                                                                                          >  1:288358/1‑141 (MQ=255)
                  agaACAAGCCATTATTGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCAACAACTGGTAAAAATGTACATGt                                                                                                                          >  1:511358/1‑141 (MQ=255)
                     acgaGCCAGTATTGAAGGTGGTGCGGTGGTTATAATGGGCGCAACATTGAATATTGGCGCAGTCGTTGGGGAAGGTACAAGGGTTGATGTGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAgg                                                                                                                       <  2:1326/138‑1 (MQ=255)
                      cAAGCCATTATTGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAATAATGTACATGTAggg                                                                                                                      <  2:695057/141‑1 (MQ=255)
                       aaGCCAATATTGAAGATGGTGTAGGCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACGCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAgggg                                                                                                                     <  2:514339/141‑1 (MQ=255)
                        aGCCATTATTGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGc                                                                                                                    >  1:395017/1‑141 (MQ=255)
                          ccATTATTGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGGTATCATTAGTAAAAAAATACATATAAGGGATg                                                                                                                  >  2:78258/1‑141 (MQ=255)
                          ccATTATTGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTg                                                                                                                  >  1:13717/1‑141 (MQ=255)
                          ccATTATTGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGCGGTATCATTGAAAAAAAAGAACATGTAGGGGCTg                                                                                                                  >  2:680896/1‑141 (MQ=255)
                          ccATTATTGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGGCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTg                                                                                                                  >  1:664490/1‑141 (MQ=255)
                             ttaatGAAGATGGTGATGGCGTTATGATGGGCGCCACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGgcg                                                                                                               <  2:712974/141‑1 (MQ=255)
                              tatttaatttGGTTCTTTCTTTATGATGGGCCTAACAATTAATATTGGCGCAGTTGTTGGCGAAGGTAAAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTAACAATGGTTAAAATGTACATGTAGGGGCTGgcgc                                                                                                              <  1:392335/132‑1 (MQ=255)
                                 tGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGCCGTACCATTAAAAAAAATATACAGGTCGGGGCTGGCGCCGt                                                                                                           >  2:148792/1‑141 (MQ=255)
                                      aTGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGGCGTATTAg                                                                                                      >  1:134716/1‑141 (MQ=255)
                                           ggcgacataatgatgGGCACAACAATTAAGAGTGGTGCAGTCGTTGGCGAAGGTAAAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGgt                                                                                                 <  2:650133/132‑1 (MQ=255)
                                           gCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGgt                                                                                                 <  1:790938/141‑1 (MQ=255)
                                           gCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGgt                                                                                                 <  1:639471/141‑1 (MQ=255)
                                           gCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGCCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGTTGGCGCAGTATTAGCAGgt                                                                                                 <  1:100297/141‑1 (MQ=255)
                                            cTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGCCGTATCATTAATAAAAATGTACATGTAGGGGCTGGCGCAGGATTAGCAGgtg                                                                                                >  2:611720/1‑141 (MQ=255)
                                               tCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGa                                                                                             <  1:93670/141‑1 (MQ=255)
                                                tggtATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGAt                                                                                            <  1:616449/138‑1 (MQ=255)
                                                      gatgGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACCATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAAcc                                                                                      <  1:552445/141‑1 (MQ=255)
                                                           gcccaacaaTTAATATTGGCGCAGTCGTTGGCGAAGGGACAATGATTGATATGACTGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTa                                                                                 <  1:185691/138‑1 (MQ=255)
                                                              caacaaTTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGCGGTATCATTGAAAAAAAAATACATGTAGGGGCTCGACCAGTATTAGCAAGTGTGATTGAACCCCCTAgag                                                                              >  2:692993/1‑139 (MQ=255)
                                                               caaaaTTAATAATGGCGCAGGCGTTGGCAAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGGAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGc                                                                             <  2:497608/138‑1 (MQ=255)
                                                                acaaTTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCt                                                                            <  1:374028/141‑1 (MQ=255)
                                                                   aTTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGGTACCATTAGTAAAAAAGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCa                                                                         >  2:455462/1‑141 (MQ=255)
                                                                    ttAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCAc                                                                        <  1:268710/141‑1 (MQ=255)
                                                                    ttAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCAc                                                                        <  1:732782/141‑1 (MQ=255)
                                                                      aaTATTGGCGCAGTCGTTGGCGAAGGTAGAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCg                                                                      <  2:66682/141‑1 (MQ=255)
                                                                        tatTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGt                                                                    >  1:308527/1‑141 (MQ=255)
                                                                           tGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGGCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTtat                                                                 <  1:200287/141‑1 (MQ=255)
                                                                                cAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGCCGTATCATTAATAAAAAAGTACATGTAGGGACCGGCGCAGTATCAGGAGGAGGTATTGGAACCCGTAATGCTTCACCGGTtatattag                                                            >  2:60566/1‑137 (MQ=255)
                                                                                cAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGCCGTATCATTAAAAAAAAAATACATGTAGGGGCTGGCGCAGCATTAGCAGGAGTGATTGAACGCCGTAGTGCTCCACCGGTTATGATCg                                                            >  2:722122/1‑141 (MQ=255)
                                                                                  gTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAg                                                          >  1:740867/1‑141 (MQ=255)
                                                                                            aaGGTACAATGATTGATATGTATGCTACTCTCGGTGGTCGCCGTCTCATTAAAAAAAAAGTACCTGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTAAACCCCCTCGTGCTTCACCGGTTATAAACGAGGATGATGttt                                                >  2:443221/1‑139 (MQ=255)
                                                                                            aaGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGCCGTATCATTAAAAAAAAAGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATAGAGGATGATGTAt                                                >  2:177339/1‑141 (MQ=255)
                                                                                            aaGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGCCGTATAATTAAAAAAAAAATACATGTAGGGGGTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCGAGGGCTGCACCGATTATAATCCAGGATGAAGtct                                                >  2:34730/1‑139 (MQ=255)
                                                                                            aaGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGCCGTACCATTAAAAAAAAAATACAGGTAGGGCCTGGCGCCGTATTAGCAAGAATGAATGAACCCCCTACTACGTCACCGGCTCTACCCGAggcccaggcat                                                >  2:216063/1‑132 (MQ=255)
                                                                                                    aTGATTGATATGAATGCTACTCTCGGTGGTCGCGGTATCATTGAAAAAAAAATACAAGTAGGGGTTGCCGCAGTATAAGAAGATATGATTGAACACCCTACTGCCTCACCGGTTATAATAGAGGATGCGGTATTactgagg                                        >  2:11744/1‑135 (MQ=255)
                                                                                                    aTGATTGATATGAATGCTACTCTCGGTGGGCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAGGATGATGTATTAATCGGt                                        <  1:151264/141‑1 (MQ=255)
                                                                                                    aTGATTGATATGAATGCTACTCGCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAGGATGATGTATTAATCGGt                                        <  1:357716/141‑1 (MQ=255)
                                                                                                      gtttgatATGAATGTGACTCTCGGTGGTCGTGCTACAAGTGGTAAAAATGTACATGGAGGGGATGGCGCATTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCAGTTATAATCGAGGATGATGTATTAATCGGTGc                                      <  2:86252/139‑1 (MQ=255)
                                                                                                      gattgatATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCAGTTATAATCGAGGATGATGTATTAATCGGTGc                                      <  1:118890/141‑1 (MQ=255)
                                                                                                       attgatATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAGGATGATGTATTAATCGGTGCa                                     <  1:256760/141‑1 (MQ=255)
                                                                                                       attataatcaacgCTACGCGCGGTGGTCGCGCTATCACTGGTAACAATGTACATGTAGGGGCTGGCGAAGTATTAGAAGGTGTGATTTAACCCCCTAGTGCTTCACCGGTTATAATCGAGGGTGATGTATTAATCGGTGCa                                     <  2:43854/129‑1 (MQ=255)
                                                                                                                   gCTACTCTCGGTGGTCGCCGTATCATTAAAAAAAAAATACAGGTAGGGGCTGGCGCAGTATTAGCGGGAGAAATTGAACCCCCTAGGGCTTCACCGGGTATAATCGAGGATGATGGATTAATCGGTGCGCATGcggaaatt                         >  2:629109/1‑134 (MQ=255)
                                                                                                                        tctcGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAGGATGATGTATTAATCGGTGCAAATGCAGTAATTTTAGa                    >  1:656149/1‑141 (MQ=255)
                                                                                                                             gtggtCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAGGATGATGTATTAATCGGTGCAAATGCAGTTATTTTAGAAGgtg               <  1:511735/141‑1 (MQ=255)
                                                                                                                               gggcgtcttACAACGGGTAATAATGTACCTGGAGGGGCTGGTGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAGGATGATGTATTAATCGGGGCAAATGCAGTTATTTTAGAAGGTGTa             <  1:667535/133‑1 (MQ=255)
                                                                                                                                 tCGTGCTACAACTGGTAAAAATGTACATGTCGGGGTTACATCTTAACTCGCAGGACAGGTTGAACCCCCTAGTGCTTCACCGGTTATAATCGAGGATGATGTATTAATCGGTGCAAATGCAGTTATTTTAGAAGGTGTGCg           >  1:389754/1‑141 (MQ=255)
                                                                                                                                          aaCTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAGGATGATGTATTAATCGGTGCAAATGCAGTTATTTTAGAAGGTGTACGTGTTGGTaa  >  2:306763/1‑141 (MQ=255)
                                                                                                                                          |                                                                                                                                            
ACCAGGTGCGTTTATTAGAGAACAAGCCATTATTGAAGATGGTGCTGTCGTTATGATGGGCGCAACAATTAATATTGGCGCAGTCGTTGGCGAAGGTACAATGATTGATATGAATGCTACTCTCGGTGGTCGTGCTACAACTGGTAAAAATGTACATGTAGGGGCTGGCGCAGTATTAGCAGGTGTGATTGAACCCCCTAGTGCTTCACCGGTTATAATCGAGGATGATGTATTAATCGGTGCAAATGCAGTTATTTTAGAAGGTGTACGTGTTGGTAA  >  CP000730/1434931‑1435209

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑