Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 2,930,198 A→G 7.7% W1302R (TGG→CGG)  PP_2566 ← leucine‑rich repeat‑containing protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029472,930,1980AG 7.7% 144.8 / 2.7 52W1302R (TGG→CGG) PP_2566leucine‑rich repeat‑containing protein
Reads supporting (aligned to +/- strand):  ref base A (22/26);  new base G (2/2);  total (24/28)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.82e-01

GCACGGTGTCGTGGGCAGCGTCATCCAGCAGCTTCCAGACGCGCGTCCTCAGGGCCTCGCCATCACGCTGC‑GCTTCTGCCGACTGGGCAAGACGTTCGAGTACGCCCAGCAGCGCTGCGTTTTCACCTTGGTCGAACAGATCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAACGCCTTGCCACAGTGGCACGTCTTCTGCGTGTTCGAAGACGTTGACGCCGCTGCTGCCCAGGCGTGCACGTGTCTGGGCTTCCAGGGTGTTGTAGTTGAACAGCC  >  NC_002947/2930051‑2930341
                                                                                                                                                    |                                                                                                                                                
gcaCGGTGTCGTGGGCAGCGTCATCCAGCAGCTTCCAGACGCGCGTCCTCAGGGCCTCGCCATCACGCTGC‑GCTTCTGCCGACTGGGCAAGACGTTCGAGTACGCCCAGCAGCGCTGCGTTTTCACCTTGGTCGAACAGATCGCTCcac                                                                                                                                                 >  6:262366/1‑149 (MQ=255)
   cGGTGTCGTGGGCAGCGTCATCCAGCAGCTTCCAGACGCGCGTCCTCAGGGCCTCGCCATCACGCTGC‑GCTTCTGCCGACTGGGCAAGACGTACGAGTACGCCCAGCAGCGCTGCGTTTTCACCTTGGTCGAACAGATCGCTCCACAgc                                                                                                                                              >  4:279197/1‑149 (MQ=255)
     gtgtCGTGGGCAGCGTCATCCAGCAGCTTCCAGACGCGCGTCCTCAGGGCCTCGCCATCACGCTGC‑GCTTCTGCCGACTGGGCAAGACGTTCGAGTACGCCCAGCAGCGCTGCGTTTTCACCTTGGTCGAACAGATCGCTCCACAgctg                                                                                                                                            <  4:193961/149‑1 (MQ=255)
        tCGTGGGCAGCGTCATCCAGCAGCTTCCAGACGCGCGTCCTCAGGGCCTCGCCATCACGCTGC‑GCTTCTGCCGACTGGGCAAGACGTTCGAGTACGCCCAGCAGCGCTGCGTTTTCACCTTGGTCGAACAGATCGCTCCACAGCTGctc                                                                                                                                         <  3:3662/149‑1 (MQ=255)
             ggCAGCGTCATCCAGCAGCTTCCAGACGCGCGTCCTCAGGGCCTCGCCATCACGCTGC‑GCTTCTGCCGACTGGGCAAGACGTTCGAGTACGCCCAGCAGCGCTGCGTTTTCACCTTGGTCGAACAGATCGCTCCACAGCTGCTCCTC‑gg                                                                                                                                   <  5:262366/149‑1 (MQ=255)
                         cagcagCTTCCAGACGCGCGTCCTCAGGGCCTCGCCATCACGCTGC‑GCTTCTGCCGACTGGGCAAGACGTTCGAGTACGCCCAGCAGCGCTGCGTTTTCACCTTGGTCGAACAGATCGCTCCACAGCTGCTCCTC‑GGCATTGctcgcct                                                                                                                       >  2:295329/1‑149 (MQ=255)
                                ttCCAGACGCGCGTCCTCAGGGCCTCGCCATCACGCTGC‑GCTTCTGCCGACTGGGCAAGACGTTCGAGTACGCCCAGCAGCGCTGCGTTTTCACCTTGGTCGAACAGATCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACg                                                                                                                >  3:198907/1‑149 (MQ=255)
                                  ccAGACGCGCGTCCTCAGGGCCTCGCCATCACGCTGC‑GCTTCTGCCGACTGGGCAAGACGTTCGAGTACGCCCAGCAGCGCTGCGTTTTCACCTTGGTCGAACAGATCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACgg                                                                                                               >  2:299556/1‑148 (MQ=255)
                                   cAGACGCGCGTCCTCAGGGCCTCGCCATCACGCTGCGGCTTCTGCCGACTGGGCAAGACGTTCGAGTACGCCCAGCAGCGCTGCGTTTTCACCTTGGTCGAACAGATCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACgg                                                                                                               >  1:56298/1‑148 (MQ=255)
                                   cAGACGCGCGTCCTCAGGGCCTCGCCATCACGCTGC‑GCTTCTGCCGACTGGGCAAGACGTTCGAGTACGCCCAGCAGCGCTGCGTTTTCACCTTGGTCGAACAGATCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGa                                                                                                              >  2:164663/1‑148 (MQ=255)
                                   cAGACGCGCGTCCTCAGGGCCTCGCCATCACGCTGC‑GCTTCTGCCGACTGGGCAAGACGTTCGAGTACGCCCAGCAGCGCTGCGTTTTCACCTTGGTCGAACAGATCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGa                                                                                                              >  1:278293/1‑148 (MQ=255)
                                    aGACGCGCGTCCTCAGGGCCTCGCCATCACGCTGC‑GCTTCTGCCGACTGGGCAAGACGTTCGAGTACGCCCAGCAGCGCTGCGTTTTCACCTTGGTCGAACAGATCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGaaa                                                                                                            <  5:50946/149‑1 (MQ=255)
                                     gACGCGCGTCCTCAGGGCCTCGCCATCACGCTGC‑GCTTCTGCCGACTGGGCAAGACGTTCGAGTACGCCCAGCAGCGCTGCGTTTTCACCTTGGTCGAACAGATCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGaaaa                                                                                                           >  6:131726/1‑149 (MQ=255)
                                      aCGCGCGTCCTCAGGGCCTCGCCATCACGCTGC‑GCTTCTGCCGACTGGGCAAGACGTTCGAGTACGCCCAGCAGCGCTGCGTTTTCACCTTGGTCGAACAGATCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAAc                                                                                                          >  7:284068/1‑149 (MQ=255)
                                        gcgcgTCCTCAGGGCCTCGCCATCACGCTGC‑GCTTCTGCCGACTGGGCAAGACGTTCGAGTACGCCCAGCAGCGCTGCGTTTTCACCTTGGTCGAACAGATCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAACGc                                                                                                        >  5:247852/1‑149 (MQ=255)
                                           catCCTCAGGGCCTCGCCATCACGCTGC‑GCTTCTGCCGACTGGGCAAGACGTTCGAGTACGCCCAGCAGCGCTGCGTTTTCACCTTGGTCGAACAGATCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAACGCCtt                                                                                                     <  1:295424/147‑1 (MQ=255)
                                                      ccTCGCCATCACGCTGC‑GCTTCTGCCGACTGGGCAAGACGTTCGAGTACGCCCAGCAGCGCTGCGTTTTCACCTTGGTCGAACAGATCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAACGCCTTGCCACAGTGGc                                                                                          <  1:299556/149‑1 (MQ=255)
                                                          gCCATCACGCTGC‑GCTTCTGCCGACTGGGCAAGACGTTCGAGTACGCCCAGCAGCGCTGCGTTTTCACCTTGGTCGAACAGATCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAACGCCTTGCCACAGTGGCAc                                                                                        <  3:71039/147‑1 (MQ=255)
                                                          gCCATCACGCTGC‑GCTTCTGCCGACTGGGCAAGACGTTCGAGTACGCCCAGCAGCGCTGCGTTTTCACCTTGGTCGAACAGATCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAACGCCTTGCCACAGTGGCACGt                                                                                      >  2:311251/1‑149 (MQ=255)
                                                             aTCACGCTGC‑GCTTCTGCCGACTGGGCAAGACGTTCGAGTACGCCCAGCAGCGCTGCGTTTTCACCTTGGTCGAACAGATCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAACGCCTTGCCACAGt                                                                                             <  3:215099/139‑1 (MQ=255)
                                                                 cGCTGC‑GCTTCTGCCGACTGGGCAAGACGTTCGAGTACGCCCAGCAGCGCTGCGTTTTCACCTTGGTCGAACAGATCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAACGCCTTGCCACAGTGGCACGTCTTCTGc                                                                               <  3:279197/149‑1 (MQ=255)
                                                                          ttCTGCCGACTGGGCAAGACGTTCGAGTACGCCCAGCAGCGCTGCGTTTTCACCTTGGTCGAACAGATCGCTCCACAGCTGCTCATC‑GGCATTGCTCGCCTCGCCACGGAAAACGCCTTGCAACAGTGGCACGTCTTCTGCGTGTTCg                                                                        >  3:48507/1‑148 (MQ=255)
                                                                               ccGACTGGGCAAGACGTTCGAGTACGCCCAGCAGCGCTGCGTTTTCACCTTGGTCGAACAGATCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAACGCCTTGCCACAGTGGCACg                                                                                       >  5:70018/1‑128 (MQ=255)
                                                                               ccGACTGGGCAAGACGTTCGAGTACGCCCAGCAGCGCTGCGTTTTCACCTTGGTCGAACAGATCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAACGCCTTGCCACAGTGGCACg                                                                                       <  6:70018/128‑1 (MQ=255)
                                                                               ccGACTGGGCAAGACGTTCGAGTACGCCCAGCAGCGCTGCGTTTTCACCTTGGTCGAACAGATCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAACGCCTTGCCACAGTGGCACGTCTTCTGCGTGTTCGAAGACg                                                                  <  2:278293/149‑1 (MQ=255)
                                                                                    tGGGCAAGACGTTCGAGTACGCCCAGCAGCGCTGCGTTTTCACCTTGGTCGAACAGATCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAACGCCTTGCCACAGTGGCACGTCTTCTGCGTGTTCGAAGACGTTGAc                                                             >  8:201994/1‑149 (MQ=255)
                                                                                      ggCAAGACGTTCGAGTACGCCCAGCAGCGCTGCGTTTTCACCTTGGTCGAACAGATCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAACGCCTTGCCACAGTGGCACGTCTTCTGCGTGTTCGaa                                                                      <  5:55205/138‑1 (MQ=255)
                                                                                      ggCAAGACGTTCGAGTACGCCCAGCAGCGCTGCGTTTTCACCTTGGTCGAACAGATCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAACGCCTTGCCACAGTGGCACGTCTTCTGCGTGTTCGaa                                                                      >  6:55205/1‑138 (MQ=255)
                                                                                         aaGACGTTCGAGTACGCCCAGCAGCGCTGCGTTTTCAGCTTGGTCGAACAGATCGCTCCACTGCTGCTCCTC‑GGCATTGCTCGCCTCGCATCGGAAAACGCCTTGCCACAGTGGCACGTCTTCTGCGTGTTCGAAGAc                                                                   <  1:254153/138‑1 (MQ=255)
                                                                                         aaGACGTTCGAGTACGCCCAGCAGCGCTGCGTTTTCACCTTGGTCGAACAGATCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAACGCCTTGCCACAGTGGCACGTCTTCTGAGTGATCGAAGAc                                                                   >  2:254153/1‑138 (MQ=255)
                                                                                              gTTCGAGTACGCCCAGCAGCGCTGCGTTTTCACCTTGGTCGAACAGATCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAACGCCTTGCCACAGTGGCACGTCTTCTGCGTGTTCGAAGACGTTGACGCCGctgctg                                                   <  3:29222/149‑1 (MQ=255)
                                                                                                       cGCCCAGCAGCGCTGCGTTTTCACCTTGGTCGAACAGATCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAACGCCTTGCCACAGTGGCACGTCTTCTGCGTGTTCGAAGACGTTGACGCCGCTGCTGCCCAGGCGt                                          <  4:219286/149‑1 (MQ=255)
                                                                                                           cagcagCGCTGCGTTTTCACCTTGGTCGAACAGATCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAACGCCTTGCCACAGTGGCACGTCTTCTGCGTGTTCGAAGACGTTGACGCCGCTGCTGCCCAGGCGTGCAc                                      <  8:284068/149‑1 (MQ=255)
                                                                                                                          ttCACCTTGGTCGAACAGATCGCTCCACAGCTGCTCCTC‑GGGATTGCTCGCCTCGCCACGGAAAACGCCTTGCCACAGTGGCACGTCTTCTGCGTGTTCGAAGACGTTGACGCCGCTGCTGCCCAGGCGTGCACGTGTCTGGGCTTcc                        <  4:48507/148‑1 (MQ=255)
                                                                                                                               cTTGGTCTAACAGATCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCGAGCCCCGGAAAACGCCTTGCCACAGTGGCACGTCTTCTGCGTGTTCGAAGACGTTGACGCCGCTGCTGCCCAGGCGTGCACGTGTCTGGGCTTCCAGGgtg                  <  6:247852/149‑1 (MQ=255)
                                                                                                                               cTTGGTCGAACAGATCGCTCCACAGCTGCTCCTCTGGCATTGCTCGCCTCGCCACGGAAAACGCCTTGCCACAGTGGCACGTCTTCTGCGTGTTCGAAGACGTTGACGCCGCTGCTGCCCAGGCGTGCACGTGTCTGGGCTTCCAGGgt                   >  1:47201/1‑149 (MQ=255)
                                                                                                                               cTTGGTCGAACAGATCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAACGCCTTGCCACAGTGGCACGTCTTCTGCGTGTTCGAAGACGTTGa                                                              <  2:196935/105‑1 (MQ=255)
                                                                                                                               cTTGGTCGAACAGATCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAACGCCTTGCCACAGTGGCACGTCTTCTGCGTGTTCGAAGACGTTGa                                                              >  1:196935/1‑105 (MQ=255)
                                                                                                                               cTTGGTCGAACAGATCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAACGCCTTGCCACAGTGGCACGTCTTCTGCGTGTTCGAAGACGTTGACGCCGCTGCTGCCCAGGCGTGCACGTGTCTGGGCTTCCAGGgtg                  <  1:311251/149‑1 (MQ=255)
                                                                                                                                  ggTCGAACAGATCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAACGCCTTGCCACAGTGGCACGTCTTCTGCGTGTTCGAAGACGTTGACGCCGCTGCTGCCCAGGCGTGCACGTGTCTGGGCTTCCAGGGtgtt                <  2:47201/148‑1 (MQ=255)
                                                                                                                                    tCGAACAGATCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAACGCCTTGCCACAGTGGCACGTCTTCTGCGTGTTCGAAGACGTTGAcgcc                                                          >  8:287843/1‑104 (MQ=255)
                                                                                                                                    tCGAACAGATCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAACGCCTTGCCACAGTGGCACGTCTTCTGCGTGTTCGAAGACGTTGAcgcc                                                          <  7:287843/104‑1 (MQ=255)
                                                                                                                                         cAGATCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAACGCCTTGCCACAGTGGCACGTCTTCTGCGTGTTCGAAGACGTTGACGCCGCTGCTGCCCAGGCGTGCACGTGTCTGGGCTTCCAGGGTGTTGTAGTTGa        <  1:164663/149‑1 (MQ=255)
                                                                                                                                            aTCGCTCCGCAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAACGCCTTGCCACAGTGGCACGTCTTCTGCGTGTTCGAAGACGTTGACGCCGCTGCTGCCCAg                                              <  8:292755/108‑1 (MQ=255)
                                                                                                                                            aTCGCTCCGCAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAACGCCTTGCCACAGTGGCACGTCTTCTGCGTGTTCGAAGACGTTGACGCCGCTGCTGCCCAg                                              <  8:297350/108‑1 (MQ=255)
                                                                                                                                            aTCGCTCCGCAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAACGCCTTGCCACAGTGGCACGTCTTCTGCGTGTTCGAAGACGTTGACGCCGCTGCTGCCCAg                                              >  7:297350/1‑108 (MQ=255)
                                                                                                                                            aTCGCTCCGCAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAACGCCTTGCCACAGTGGCACGTCTTCTGCGTGTTCGAAGACGTTGACGCCGCTGCTGCCCAg                                              >  7:292755/1‑108 (MQ=255)
                                                                                                                                            aTCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAACGCCTTGCCACAGTGGCACGTCTTCTGCGTGTTCGAAGACGTTGACGCCgct                                                       >  4:309337/1‑99 (MQ=255)
                                                                                                                                            aTCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAACGCCTTGCCACAGTGGCACGTCTTCTGCGTGTTCGAAGACGTTGACGCCgct                                                       <  3:309337/99‑1 (MQ=255)
                                                                                                                                            aTCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAACGCCTTGCCACAGTGGCACGTCTTCTGCGTGTTCGAAGACGTTGACGCCGCTGCTGCCCAGGCGTGCACGTGTCTGGGCTTCCAGGGTGTTGTAGTTGaa       >  7:72217/1‑147 (MQ=255)
                                                                                                                                               gCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAACGCCTTGCCACAGTGGCACGTCTTCTGCGTGTTCGaa                                                                      >  8:120400/1‑81 (MQ=255)
                                                                                                                                               gCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAACGCCTTGCCACAGTGGCACGTCTTCTGCGTGTTCGaa                                                                      <  7:120400/81‑1 (MQ=255)
                                                                                                                                               gCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCGCGCCACGGAAAACGCCTTGCCACAGTGGCACGTCTTCTGCGTGTTCGAAGACGTTGACGCCGCTGCTGCCCAGGCGTGCACGTGTCTGGGCTTCCAGGGTGTTGTAGTTGAACAGcc  <  4:198907/149‑1 (MQ=255)
                                                                                                                                                    |                                                                                                                                                
GCACGGTGTCGTGGGCAGCGTCATCCAGCAGCTTCCAGACGCGCGTCCTCAGGGCCTCGCCATCACGCTGC‑GCTTCTGCCGACTGGGCAAGACGTTCGAGTACGCCCAGCAGCGCTGCGTTTTCACCTTGGTCGAACAGATCGCTCCACAGCTGCTCCTC‑GGCATTGCTCGCCTCGCCACGGAAAACGCCTTGCCACAGTGGCACGTCTTCTGCGTGTTCGAAGACGTTGACGCCGCTGCTGCCCAGGCGTGCACGTGTCTGGGCTTCCAGGGTGTTGTAGTTGAACAGCC  >  NC_002947/2930051‑2930341

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: ‑