Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 2,378,690 A→T 13.8% N82I (AAT→ATT)  PP_2086 → CrfX family protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029472,378,6900AT13.8% 135.7 / 8.6 55N82I (AAT→ATT) PP_2086CrfX family protein
Reads supporting (aligned to +/- strand):  ref base A (27/20);  new base T (3/5);  total (30/25)
Fisher's exact test for biased strand distribution p-value = 4.46e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GCTGAAAACCGCCAACCGCCAGGTTGGCGCGGGTGATCTGTTCAGCCTGCTTGGCCGCTGGAGCCAGGCGCTGCTGATTGCCGTGAACAATGGCTCGGCGCATGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTGCCCTTTGGACCAAGGTAGCGAACTTCATCCCCAACCTGTTCGGCGCGCTGGTCGTGGTGCTGCTCGGTT  >  NC_002947/2378547‑2378835
                                                                                                                                               |                                                                                                                                                 
gCTGAAAACCGCCAACCGCCAGGTTGGCGCGGGTGATCTGTTCAGCCTGCTTGGCCGCTGGAGCCAGGCGCTGCTGATTGCCGTGAACAATGGCTCGGCGCATGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCAATgg                                                                                                                                                >  6:24424/1‑147 (MQ=255)
 cTGAAAACCGCCAACCGCCAGGTTGGCGCGGGTGATCTGTTCAGCCTGCTTGGCCGCTGGAGCCAGGCGCTGCTGATTGCCGTGAACAATGGCTCGGCGCATGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCAATGgca                                                                                                                                              <  4:294291/148‑1 (MQ=255)
  tGAAAACCGCCAACCGCCAGGTTGGCGCGGGTGATCTGTTCAGCCTGCTTGGCCGCTGGAGCCAGGCGCTGCTGATTGCCGTGAACAATGGCTCTGCGCATGTTGCGCCTGTGCGTCGACACTCTTCCCTCAACGCTTCCAATGacac                                                                                                                                             >  8:332864/1‑147 (MQ=255)
  tGAAAACCGCAAACCGCCAGGTTGGCGCGGGTGATCTGTTCAGCCTGCTTGGCCGCTGGAGCCAGGCGCTGCTGATTGCCGTGAACAATGGCTCGGCGCATGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCATTGgcagc                                                                                                                                            >  5:349078/1‑149 (MQ=255)
     aaaCCGCCAACCGCCAGGTTGGCGCGGGTGATCTGTTCAGCCTGCTTGGCCGCTGGAGCCAGGCGCTACTGATTGCCGTGAACAATGGCTCGGCGCATGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCAATGgcagca                                                                                                                                           >  2:103006/1‑147 (MQ=255)
      aaccgccaaccgccAGGTTGGCGCGGGTGATCTGTTCAGCCTGCTTGGCCGCTGGAGCCAGGCGCTGCTGATTGCCGTGAACAATGGCTCGGCGCATGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCATTGgcagcgttg                                                                                                                                        >  2:328659/1‑145 (MQ=255)
       accgccaaccgccaGGTTGGCGCGGGTGATCTGTTCAGCCTGCTTGGCCGCTGGAGCCAGGCGCTGCTGATTGCCGTGAACAATGGCTCGGCGCATGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCATTGgcagcgttgc                                                                                                                                       <  1:328659/149‑6 (MQ=255)
       accgccaaccgccaGGTTGGCGCGGGTGATCTGTTCAGCCTGCTTGGCCGCTGGAGCCAGGCGCTGCTGATTGCCGTGAACAATGGCTCGGCGCATGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCATTGgcagcgttgc                                                                                                                                       <  7:288831/149‑6 (MQ=255)
       accgcaaaccgccaGGTTGGCGCGGGTGATCTGTTCAGCCTGCTTGGCCGCTGGAGCCAGGCGCTGCTGATTGCCGTGAACAATGGCTCGGCGCATGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCATTGgcagcgttgc                                                                                                                                       <  6:349078/149‑6 (MQ=255)
         cgccaaccgccaGGTTGGCGCGGGTGATCTGTTCAGCCTGCTTGGCCGCTGGAGCCAGGCGCTGCTGATTGCCGTGAACAATGGCTCGGCGCATGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCAATGGCAGCAAAg                                                                                                                                        >  5:46235/1‑146 (MQ=255)
         cgccaaccgccaGGTTGGCGCGGGTGATCTGTTCAGCCTGCTTGGCCGCTGGAGCCAGGCGCTGCTGATTGCCGTGAACAATGGCTCGGCGCATGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCAATGGCAGCAAAg                                                                                                                                        >  4:170868/1‑146 (MQ=255)
              accgccaGGTTGGCGCGGGTGATCTGTTCAGCCTGCTTGGCCGCTGGAGCCAGGCGCTGCTGATTGCCGTGAACAATGGCTCGGCGCATGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAg                                                                                                                                <  2:94397/149‑1 (MQ=255)
                     ggTTGGCGCGGGTGATCTGTTCAGCCTGCTTGGCCGCTGGAGCCAGGCGCTGCTGATTGCCGTGAACAATGGCTCGGCGCATGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGAtt                                                                                                                         <  5:24424/149‑1 (MQ=255)
                          gcgcGGGTGATCTGTTCAGCCTGCTTGGCCGCTGGAGCCAGGCGCTGCTGATTGCCGTGAACAATGGCTCGGCGCATGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAat                                                                                                                     <  3:170868/148‑1 (MQ=255)
                                      tGTTCAGCCTGCTTGGCCGCTGGAGCCAGGCGCTGCTGATTGCCGTGAACAATGGCTCGGCGCATGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCAAt                                                                                                                                                  >  8:7524/1‑107 (MQ=255)
                                      tGTTCAGCCTGCTTGGCCGCTGGAGCCAGGCGCTGCTGATTGCCGTGAACAATGGCTCGGCGCATGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCAAt                                                                                                                                                  <  7:7524/107‑1 (MQ=255)
                                           aGCCTGCTTGGCCGCTGGAGCCAGGCGCTGCTGATTGCCGTGAACAATGGCTCGGCGCATGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTg                                                                                                    <  5:114761/148‑1 (MQ=255)
                                                      ccacTGGAGCCAGGCGCTGCTGATTGCCGTGAACAATGGCTCGGCGCATGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCt                                                                                        <  4:161157/146‑1 (MQ=255)
                                                         cTGGAGCCAGGCGCTGCTGATTGCCGTGAACAATGGCTCGGCGCATGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGt                                                                                     >  6:51515/1‑149 (MQ=255)
                                                             aGCCAGGCGCTGCTGATTGCCGTGCACAATGGCTCGGCGCATGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATGTCTGGACCCAGCGCATgggctcc                                                                                 >  6:301525/1‑144 (MQ=255)
                                                                 aGGCGCTGCTCATTGCCTTGAACAAGGTCTAGGGGTATGTTGCGCCGGTGCGTCGACTGTCTTCCCGAATCGCTGCCATTGCCAGCAAAGGAGATTAGGCCGATTGAATATGTTTGTCGATCTCTGGACCCAGATGCTGGTCACcgcgt                                                                             <  8:71176/149‑2 (MQ=255)
                                                                       tgctgATTGCCGTGAACAATGGCTCGGCGCATGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTg                                                                       >  3:344470/1‑149 (MQ=255)
                                                                       tgctgATTGCCGTGAACAATGGCTCGGCGCATGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTg                                                                       >  4:208812/1‑149 (MQ=255)
                                                                       tgctgATTGCCGTGAACAATGGCTCGGCGCATGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTg                                                                       >  6:273227/1‑149 (MQ=255)
                                                                         ctgATTGCCGTGAACAATGGCTCGGCGCATGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTGcc                                                                     >  3:297973/1‑149 (MQ=255)
                                                                           gATTGCCGTGAACAATGGCTCGGCGCATGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTGCCCt                                                                   >  3:23860/1‑149 (MQ=255)
                                                                            aTTGCCGTGAACAATGGCTCGGCGCATGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTGCCCtt                                                                  >  8:336781/1‑149 (MQ=255)
                                                                               gCCGTGAACAATGGCTCGGCGCATGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTGCCCTTTg                                                                <  6:46235/148‑1 (MQ=255)
                                                                               gCCGTGAACAATGGCTCGGCGCATGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTGCCCTTTg                                                                <  3:208812/148‑1 (MQ=255)
                                                                                     aaCAATGGCTCGGCGCATGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTGCCCTTTGGACCaa                                                          <  4:344470/148‑1 (MQ=255)
                                                                                          tGGCTCGGCGCATGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGa                                                                             <  1:135898/124‑1 (MQ=255)
                                                                                          tGGCTCGGCGCATGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGa                                                                             >  2:135898/1‑124 (MQ=255)
                                                                                             accGGCGCAACATGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTGCCCTTTGGACCAAGGTAGCGaa                                                 >  6:202990/3‑149 (MQ=255)
                                                                                              tCGGCGCATGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGCACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTGCCCTTCGGACCAAGGTAGCGaag                                                >  4:226777/1‑148 (MQ=255)
                                                                                                ggCGCATGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTGCCCTTTGGACCAAGGTAGCGAACtt                                              <  5:51515/149‑1 (MQ=255)
                                                                                                 gcgcATGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTGCCCTTTGGACCAAGGTAGCGAACTTc                                             <  1:103006/149‑1 (MQ=255)
                                                                                                      tGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTGCCCTTTGGACCAAGGTAGCGAACTTCATccc                                        <  5:273227/149‑1 (MQ=255)
                                                                                                        ttGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTg                                                                       <  5:171900/116‑1 (MQ=255)
                                                                                                        ttGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTg                                                                       >  6:171900/1‑116 (MQ=255)
                                                                                                            gcCGGTGCGTCGACACTCTTCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTGCCCTTTGGACCAAGGTAGCGAACTTCATCCCCAACCt                                  >  6:133034/1‑149 (MQ=255)
                                                                                                              cGGTGCGTCGACACTCTTCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTGcc                                                                     >  8:175836/1‑112 (MQ=255)
                                                                                                              cGGTGCGTCGACACTCTTCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTGcc                                                                     <  7:175836/112‑1 (MQ=255)
                                                                                                                      cGACACTCTTCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTGCCCTTTGGACCAAGGTAGCGAACTTCATCCCCAACCTGTTCGgcgcg                        >  5:136000/1‑149 (MQ=255)
                                                                                                                       gACACTCTTCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTGCCCTTTGGACCAAGGTAGCGAACTTCATCCCCAACCTGTTCGgcgcgc                       <  7:140933/149‑1 (MQ=255)
                                                                                                                         cacTCTTCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTGCCCTTTGGACCAACGTAGCGAACTTCATACCCAACCTGTTCGGCGCGCTg                     >  4:220436/1‑149 (MQ=255)
                                                                                                                          acTCTTCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTGCCCTTTGGACCAAGGTAGCGAACTTCATCCCCAACCTGTTCGGCGCGCTgg                    >  1:330931/1‑149 (MQ=255)
                                                                                                                              ttCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTGCCCTTTGGACCAAGGTAGCGAACTTCATCCCCAACCTGTTCGgcgcg                        >  2:222829/1‑141 (MQ=255)
                                                                                                                              ttCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTGCCCTTTGGACCAAGGTAGCGAACTTCATCCCCAACCTGTTCGgcgcg                        <  1:222829/141‑1 (MQ=255)
                                                                                                                                cccGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTGCCCTTTGGACCAAGGTAGCGAACTTCATCCCCAACCTGTTCGGCGCGCTGGTCgtgg              >  8:44606/1‑149 (MQ=255)
                                                                                                                                  cGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTGCCCTTTGGACCAAGGTAGCGAACTTCATCCCCAACCTGTTCGGCGCGCTGGTCgtggtg            >  7:321879/1‑149 (MQ=255)
                                                                                                                                     tttgCTGCCATTGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTGCCCTTTGGACCAAg                                                         >  3:61731/4‑101 (MQ=255)
                                                                                                                                     tttgCTGCCATTGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTGCCCTTTGGACCAAg                                                         <  4:61731/98‑1 (MQ=255)
                                                                                                                                     aaCGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTGCCCTTTGGACCAAGGTAGCGAACTTCATCCCCAACCTGTTCGGCGCGCTGGTCgtg               >  2:193392/1‑143 (MQ=255)
                                                                                                                                     aaCGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTGCCCTTTGGACCAAGGTAGCGAACTTCATCCCCAACCTGTTCGGCGCGCTGGTCgtg               <  1:193392/143‑1 (MQ=255)
                                                                                                                                         cTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTGCCCTTTGGACCAAGGTAGCGAACTTCATCCCCAACCTGTTCGGCGCGCTGGTCGTGGTGCTGCTCg     <  5:202990/149‑1 (MQ=255)
                                                                                                                                              aaTGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTGCCCTTTGGACCAAGGTAGCGAACTTCATCCCCAACCTGTTCGGCGCGCTGGTCGTGGTGCTGCTCGGtt  <  7:217560/147‑1 (MQ=255)
                                                                                                                                              aaTGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTGCCCTTTGGACCAAGGTAGCGAACTTCATCCCCAACCTGTTCGGCGCGCTGGTCGTGGTGCTGCTCGGtt  >  8:217560/1‑147 (MQ=255)
                                                                                                                                               |                                                                                                                                                 
GCTGAAAACCGCCAACCGCCAGGTTGGCGCGGGTGATCTGTTCAGCCTGCTTGGCCGCTGGAGCCAGGCGCTGCTGATTGCCGTGAACAATGGCTCGGCGCATGTTGCGCCGGTGCGTCGACACTCTTCCCGCAACGCTGCCAATGGCAGCAAAGCAGATAAGGCCGATTGAATATGGAACTCGATCTCTGGACCCAGAGCCTGGTCACCGCGATGACTGCCCTTTGGACCAAGGTAGCGAACTTCATCCCCAACCTGTTCGGCGCGCTGGTCGTGGTGCTGCTCGGTT  >  NC_002947/2378547‑2378835

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑