Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 2,734,034 G→A 7.5% R311H (CGC→CAC)  PP_2394 → leucine‑rich repeat‑containing protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029472,734,0340GA 7.5% 154.5 / 2.1 53R311H (CGC→CAC) PP_2394leucine‑rich repeat‑containing protein
Reads supporting (aligned to +/- strand):  ref base G (27/22);  new base A (2/2);  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 = 9.52e-01

TGTTCAACACCAGCAAGCGCGTGCTGGTCTATGTACCGGGTGACCCGCACGGCCCCTGGAGCGTGCGCAGCGACCTGGAAGATTATGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGACGCGATAGCCAGCGATTCTTCTCGGCCGTCAGTGAGCGCCTCGATGACGTGCCCAGCTGGGCTACCCGGGACCTCGATGAGCAGACCTTCGCCTATCGCCTGCCATTGTTCGAACACCTTGCTGACGACTGGGTC  >  NC_002947/2733890‑2734182
                                                                                                                                                |                                                                                                                                                    
tGTTCAACACCAGCAAGCGCGTGCTGGTCTATGTACCGGGTGACCCGCACGGCCCCTGGAGCGTGCGCAGCGACCTGGAAGATTATGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTc                                                                                                                                                  >  8:303369/1‑149 (MQ=255)
tGTTCAACACCAGCAAGCGCGTGCTGGTCTATGTACCGGGTGACCCGCACGGCCCCTGGAGCGTGCGCAGCGACCTGGAAGATTATGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTc                                                                                                                                                  >  3:135125/1‑149 (MQ=255)
      acacCAGCAAGCGCGTGCTGGTCTATGTACCGGGTGACCCGCACGGCCCCTGGAGCGTGCGCAGCGACCTGGAAGATTATGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTgcgc                                                                                                                                            >  5:344767/1‑149 (MQ=255)
          cAGCAAGCGCGTGCTGGTCTATGTACCGGGTGACCCGCACGGCCCCTGGAGCGTGCGCAGCGACCTGGAAGATTATGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGAc                                                                                                                                        >  5:302497/1‑149 (MQ=255)
           aGCAAGCGCGTGCTGGTCTATGTACCGGGTGACCCGCACGGCCCCTGGAGCGTGCGCAGCGACCTGGAAGATTATGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGAcg                                                                                                                                       >  6:300965/1‑149 (MQ=255)
                gcgcGTGCTGGTCTATGTACCGGGTGACCCGCACGGCCCCTGGAGCGTGCGCAGCGACCTGGAAGATTATGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGACGCGATa                                                                                                                                  <  1:145327/149‑1 (MQ=255)
                gcgcGTGCTGGTCTATGTACCGGGTGACCCGCACGGCCCCTGGAGCGTGCGCAGCGACCTGGAAGATTATGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGACGCGATa                                                                                                                                  <  2:250335/149‑1 (MQ=255)
                gcgcGTGCTGGTCTATGTACCGGGTGACCCGCACGGCCCCTGGAGCGTGCGCAGCGACCTGGAAGATTATGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGACGCGATa                                                                                                                                  <  6:344767/149‑1 (MQ=255)
                        tGGTCTATGTACCGGGTGACCCGCACGGCCCCTGGAGCGTGCGCAGCGACCTGGAAGATTATGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGACGCGATAGCCAGCGa                                                                                                                          >  6:61767/1‑149 (MQ=255)
                          ggcTATGTACCGGGTGACCCGCACGGCCCCTGGAGCGTGCGCAGCGACCTGGAAGATTATGCCCGCCGGGTGCTTGGCAAACGCCGGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGACGCGATAGCCAGCGa                                                                                                                          <  4:240500/145‑1 (MQ=255)
                          gTCTATGTACCGGGTGACCCGCACGGCCCCTGGAGCGTGCGCAGCGACCTGGAAGATTATGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGACGCGATAGCCAGCGAt                                                                                                                         >  6:248156/1‑148 (MQ=255)
                            cTATGTACCGGGTGACCCGCACGGCCCCTGGAGCGTGCGCAGCGACCTGGAAGATTATGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGACGCGATAGCCAGCGAtt                                                                                                                        >  3:103739/1‑147 (MQ=255)
                            cTATGTACCGGGTGACCCGCACGGCCCCTGGAGCGTGCGCAGCGACCTGGAAGATTATGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGACGCGATAGCCAGCGAtt                                                                                                                        <  4:103739/147‑1 (MQ=255)
                                  aCCGGGTGACCCGCACGGCCCCTGGAGCGTGCGCAGCGACCTGGAAGATTATGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGACGCGATAGCCAGCGATTCTTCTCgg                                                                                                                >  7:297409/1‑149 (MQ=255)
                                       gTGACCCGCACGGCCCCTGGAGCGTGCGCAGCGACCTGGAAGATTATGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGACGCGATAGCCAGCGATTCTTCTCGGCCGTc                                                                                                           <  5:248156/149‑1 (MQ=255)
                                        tGACCCGCACGGCCCCTGGAGCGTGCGCAGCGACCTGGAAGATTATGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGACGCGATAGCCAGCGATTCTTCTCGGCCGTCa                                                                                                          <  8:297409/149‑1 (MQ=255)
                                         gACCCGCACGGCCCCTGGAGCGTGCGCAGCGACCTGGAAGATTATGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGACGCGATAGCCAGCGATTCTTCTCGGCCGTCAg                                                                                                         >  5:327645/1‑149 (MQ=255)
                                           cccGCACGGCCCCTGGAGCGTGCGCAGCGACCTGGAAGATTATGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGACGCGATAGCCAGCGATTCTTCTCGGCCGTCAGt                                                                                                        >  6:146896/1‑148 (MQ=255)
                                            ccGCACGGCCCCTGGAGCGTGCGCAGCGACCTGGAAGATTATGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGACGCGATAGCCAGCGATTCTTCTCGGcc                                                                                                              >  3:73000/1‑141 (MQ=255)
                                            ccGCACGGCCCCTGGAGCGTGCGCAGCGACCTGGAAGATTATGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGACGCGATAGCCAGCGATTCTTCTCGGcc                                                                                                              <  4:73000/141‑1 (MQ=255)
                                            ccGCACGGCCCCTGGAGCGTGCGCAGCGACCTGGAAGATTATGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCACTTCGTGCGCCGACGCGATAGCCAGCGATTCTTCTCGGCCGTCAGt                                                                                                        >  7:233454/1‑147 (MQ=255)
                                            ccGCACGGCCCCTGGAGCGTGCGCAGCGACCTGGAAGATTATGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCACTTCGTGCGCCGACGCGATAGCCAGCGATTCTTCTCGGCCGTCAGt                                                                                                        >  5:311235/1‑147 (MQ=255)
                                                     cccTGGAGCGTGCGCAGCGACCTGGAAGATTATGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGACGCGATAGCCAGCGATTCTTCTCGGCCGTCAGTGAGCGCCTCGa                                                                                             <  7:303369/149‑1 (MQ=255)
                                                      ccTGGAGCGTGCGCAGCGACCTGGAAGATTATGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGACGCGATAGCCAGCGATTCTTCTCGGCCGTCAGTGAGCGCCTCGAt                                                                                            <  4:135125/149‑1 (MQ=255)
                                                          gAGCGTGCGCAGCGACCTGGAAGATTATGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGACGCGATAGCCAGCGATTCTTCTCGGCCGTCAGTGAGCGCCTCGATGa                                                                                          <  5:146896/147‑1 (MQ=255)
                                                              gTGCGCAGCGACCTGGAAGATTATGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGCCGCGATAGCCAg                                                                                                                             >  2:203306/1‑108 (MQ=255)
                                                                 cgcAGCGACCTGGAAGATTATGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGACGCGATAGCCAGCGAtt                                                                                                                        >  6:144220/1‑110 (MQ=255)
                                                                 cgcAGCGACCTGGAAGATTATGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGACGCGATAGCCAGCGAtt                                                                                                                        <  5:144220/110‑1 (MQ=255)
                                                                    aGCGACCTGGAAGATTATGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGACGCGATAGCCAGCGATTCTTCTCGGCCGTCAGTGAGCGCCTCGATGACGTGCCCAGCTg                                                                              <  6:302497/149‑1 (MQ=255)
                                                                        aCCTGGAAGATTATGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGACGCGATAGCCAGCGATTCTTCTCGGCCGTCAGTGAGCGCCTCGAt                                                                                            >  3:12481/1‑131 (MQ=255)
                                                                        aCCTGGAAGATTATGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGACGCGATAGCCAGCGATTCTTCTCGGCCGTCAGTGAGCGCCTCGAt                                                                                            <  4:12481/131‑1 (MQ=255)
                                                                          cTGGAAGATTATGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGa                                                                                                                                         <  1:38129/84‑1 (MQ=255)
                                                                          cTGGAAGATTATGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGa                                                                                                                                         >  2:38129/1‑84 (MQ=255)
                                                                                    aTGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCACTTCGTGCGCCGACGCGATAGCCAGCGATTCTTCTCGGCCGTCAGTGAGCGCCTCGATGACGTGCCCAGCTGGGCTACCCGGGACCt                                                               <  8:233454/148‑1 (MQ=255)
                                                                                    aTGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCACTTCGTGCGCCGACGCGATAGCCAGCGATTCTTCTCGGCCGTCAGTGAGCGCCTCGATGACGTGCCCAGCTGGGCTACCCGGGACCt                                                               <  6:311235/148‑1 (MQ=255)
                                                                                     tGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGACGCGATAGCCAGCGATTCTTCTCGGCCGTCAGTGAGCGCCTCGATGACGTGCCCAGCTGGGCTACCCGGGACCTc                                                              >  4:267657/1‑148 (MQ=255)
                                                                                       cccGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGACGCGATAGCCAGCGATTCTTCTCGGCCGTCAGTGAGCGCCTCGATGACGTGCCCAGCTGGGCTACCCGGGACCTCGAt                                                           <  3:267657/149‑1 (MQ=255)
                                                                                                  cTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGACGCGATAGCCAGCGATTCTTCTCGGCCGTCAGTGAGCGCCTCGATGACGTGCCCAGCTgg                                                                             <  4:31183/120‑1 (MQ=255)
                                                                                                  cTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGACGCGATAGCCAGCGATTCTTCTCGGCCGTCAGTGAGCGCCTCGATGACGTGCCCAGCTgg                                                                             >  3:31183/1‑120 (MQ=255)
                                                                                                     ggCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGACGCGATAGCCAGCGATTCTTCTCGGCCGTCAGTGAGCGCCTCGATGACGTGCCCAGCTGGGCTACCCGGGACCTCGATGAGCAGACCTTc                                               <  6:327645/147‑1 (MQ=255)
                                                                                                      gCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGACGCGATAGCCAGCGATTCTTCTCGGCCGTCAGTGAGCGCCTCGATGACGTGCCCAGCTGGGCTACCCGGGACCTCGATGAGCAGACCTTCGc                                             <  5:61767/148‑1 (MQ=255)
                                                                                                        aaaCGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCATCGTTCGCCGACGCGATAGCCAGCGATTCTTCTCGGCCGTCAGACAGCGCCTCGATGACGTGCCCAGCTCGGCTACCCGGGACCTCGATGCGCAGACCTTCGCCTa                                          >  7:86829/1‑149 (MQ=255)
                                                                                                         aaCGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGACGCGATAGCCAGCGATTCTTCTCGGCCGTCAGTGAGCGCCTCGATGACGTGCCCAGCTGGGCTACCCGGGACCTCGATGAGCAGACCTTCGCCTAt                                         >  5:334713/1‑149 (MQ=255)
                                                                                                                          gACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGACGCGATAGCCAGCGATTCTTCTCGGCCGTCAGTGAGCGCCTCGATGACGTGCCCAGCTGGGCTACCCGGGACCTCGATGAGCAGACCTTCGCCTATCGCCTGCCATTGt                            >  3:292207/1‑145 (MQ=255)
                                                                                                                          gACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGACGCGATAGCCAGCGATTCTTCTCGGCCGTCAGTGAGCGCCTCGATGACGTGCCCAGCTGGGCTACCCGGGACCTCGATGAGCAGACCTTCGCCTATCGCCTGCCATTGt                            <  4:292207/145‑1 (MQ=255)
                                                                                                                          gACTACCGGCGCTTCTTCAACCGCTTCGTGCGCAGACGCGATAGCCAGCGATTCTTCTCCGCCGTCAGTGAGCTCCTCGATGACGTGACCAGCTGGGCTAACCGGGACCTCGATGAGCAGACCTTCGCCTATCGCCTGCCATTGTTCg                         >  3:100349/1‑148 (MQ=255)
                                                                                                                               ccGGCGCTTCTTCAACCGCTTCGTGCGCCGACGCGATAGCCAGCGATTCTTCTCGGCCGTCAGTGAGCGCCTCGATGACGTGCCCAGCTGGGCTACCCGGGACCTCGATGAGCAGACCTTCGCCTATCGCCTGCCATTGTTCGAACAcc                   >  3:322965/1‑149 (MQ=255)
                                                                                                                                        cttcAACCGCTTCGTGCGCCGACGCGATAGCCAGCGATTCTTCTCGGCCGTCAGTGAGCGCCTCGATGACGTGCCCAGCTGGGCTACCCGGGACCTCGATGAGCAGACCTTCGCCTATCGCCTGCCATTGTTCGAACACCTTGCTgac           >  1:334621/1‑148 (MQ=255)
                                                                                                                                        cttcAACCGCTTCGTGCGCCGACGCGATAGCCAGCGATTCTTCTCGGCCGTCAGTGAGCGCCTCGATGACGTGCCCAGCTGGGCTACCCGGGACCTCGATGAGCAGACCTTCGCCTATCGCCTGCCATTGTTCGAACACCTTGCTgac           >  5:186929/1‑148 (MQ=255)
                                                                                                                                           cAACCGCTTCGTGCGCCGACGCGATAGCCAGCGATTCTTCTCGGCCGTCAGTGAGCGCCTCGATGACGTGCCCAGCTGGGCTACCCGGGACCTCGATGAGCAGACCTTCGCCTATCGCCTGCCATTGTTCGAACACCTTGCTGACGACt       >  7:292805/1‑149 (MQ=255)
                                                                                                                                            aaCCGCTTCGTGCGCCGACGCGATAGCCAGCGATTCTTCTCGGCGGTCAGTGAGCGCCTCGATGACGTGCCCAGCTGGGCTACCCTGGACCTCGATGAGCAGACCTTCGCCTATCGCCTGCCATTGTTCGAACACCTTGCTGACGACTg      <  8:86829/149‑1 (MQ=255)
                                                                                                                                             aCCGCTTCGTGCGCCGACGCGATAGCCAGCGATTCTTCTCGGCCGTCAGTGAGCGCCTCGATGACGTGCCCAGCTGGGCTACCCGGGACCTCGATGAGCAGACCTTCGCCTATCGCCTGCCATTGTT‑‑‑ACACCTTGCTGACGACTGGGTc  >  7:43995/1‑149 (MQ=255)
                                                                                                                                              ccGCTTCGTGCGCCGACGCGATAGCCAGCGATTCTTCTCGGCCGTCAGTGAGCGCCTCGATGACGTGCCCAGCTGGGCTACCCGGGACCTCGATGAGCAGACCTTCGCCTATCGCCTGCCATTGTTCGAACACCTTGCTGACGACTggg    <  4:322965/149‑1 (MQ=255)
                                                                                                                                                |                                                                                                                                                    
TGTTCAACACCAGCAAGCGCGTGCTGGTCTATGTACCGGGTGACCCGCACGGCCCCTGGAGCGTGCGCAGCGACCTGGAAGATTATGCCCGCCGGGTGCTTGGCAAACGCCTGCGCGAAGATGACTACCGGCGCTTCTTCAACCGCTTCGTGCGCCGACGCGATAGCCAGCGATTCTTCTCGGCCGTCAGTGAGCGCCTCGATGACGTGCCCAGCTGGGCTACCCGGGACCTCGATGAGCAGACCTTCGCCTATCGCCTGCCATTGTTCGAACACCTTGCTGACGACTGGGTC  >  NC_002947/2733890‑2734182

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑