Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 2,703,038 G→A 8.1% L65L (TTG→TTA)  PP_2369 → leucine‑rich repeat‑containing protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029472,703,0380GA 8.1% 140.2 / 2.4 49L65L (TTG→TTA) PP_2369leucine‑rich repeat‑containing protein
Reads supporting (aligned to +/- strand):  ref base G (22/23);  new base A (2/2);  total (24/25)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.13e-01

CCGTCAGTTGCCAGGCTGGCTCAAGCGCGCGTCTGCCCAAGAGCTGACAGAGCTGCGCGCCGCTGCTTTGCGCCAACAGCGGGCGCAGGACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTCAGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGTCAGCACCCAGACGCTTCTCT  >  NC_002947/2702891‑2703186
                                                                                                                                                   |                                                                                                                                                    
ccGTCAGTTGCCAGGCTGGCTCAAGCGCGCGTCTGCCCAAGAGCTGACAGAGCTGCGCGCCGCTGCTTTGCGCCAACAGCGGGCGCAGGACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGc                                                                                                                                                     >  6:243697/1‑149 (MQ=255)
ccGTCAGTTGCCAGGCTGGCTCAAGCGCGCGTCTGCCCAAGAGCTGACAGAGCTGCGCGCCGCTGCTTTGCGCCAACAGCGGGCGCAGGACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGc                                                                                                                                                     <  2:64139/149‑1 (MQ=255)
  gTCAGTTGCCAGGCTGGCTCAAGCGCGCGTCTGCCCAAGAGCTGACAGAGCTGCGCGCCGCTGCTTTGCGCCAACAGCGGGCGCAGGACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTACt                                                                                                                                                    >  3:293349/1‑148 (MQ=255)
             ggctggctCAAGCGCGCGTCTGCCCAAGAGCTGACAGAGCTGCGCGCCGCTGCTTTGCGCCAACAGCGGGCGCAGGACCAAGTAGACGCCTGGTTAGGGGCCATGACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGcc                                                                                                                                        <  8:260942/149‑1 (MQ=255)
                      aaGCGCGCGTCTGCCCAAGAGCTGACAGAGCTGCGCGCCGCTGCTTTGCGCCAACAGCGGGCGCAGGACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGt                                                                                                                                             <  6:69675/135‑1 (MQ=255)
                      aaGCGCGCGTCTGCCCAAGAGCTGACAGAGCTGCGCGCCGCTGCTTTGCGCCAACAGCGGGCGCAGGACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGt                                                                                                                                             >  5:69675/1‑135 (MQ=255)
                      aaGCGCGCGTCTGCCCAAGAGCTGACAGAGCTGCGCGCCGCTGCTTTGCGCCAACAGCGGGCGCAGGACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGccc                                                                                                                                <  6:107397/148‑1 (MQ=255)
                      aaGCGCGCGTCTGCCCAAGAGCTGACAGAGCTGCGCGCCGCTGCTTTGCGCCAACAGCGGGCGCAGGACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCg                                                                                                                               >  6:73811/1‑149 (MQ=255)
                                    ccAAGAGCTGACAGAGCTGCGCGCCGCTGCTTTGCGCCAACAGCGGGCGCAGGACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAgg                                                                                                                 <  6:106898/149‑1 (MQ=255)
                                    ccAAGAGCTGACAGAGCTGCGCGCCGCTGCTTTGCGCCAACAGCGGGCGCAGGACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAgg                                                                                                                 <  4:125911/149‑1 (MQ=255)
                                     cAAGAGCTGACAGAGCTGCGCGCCGCTGCTTTGCGCCAACAGCGGGCGCAGGACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGt                                                                                                                <  5:169097/149‑1 (MQ=255)
                                          gCTGACAGAGCTGCGCGCCGCTGCTTTGCGCCAACAGCGGGCGCAGGACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCTCCCGAGGCCCGTTCGATCAAGCAGGTAGAc                                                                                                            <  6:315238/148‑1 (MQ=255)
                                                agagCTGCGCGCCGCTGCTTTGCGCCAACAGCGGGCGCAGGACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGcc                                                                                                     <  5:73811/149‑1 (MQ=255)
                                                     tGCGCGCCGCTGCTTTGCGCCAACAGCGGGCGCAGGACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGgct                                                                                                <  5:18637/149‑1 (MQ=255)
                                                             gctgctTTGCGCCAACAGCGGGCGCAGGACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGctcagctcag                                                                                        >  6:71359/1‑149 (MQ=255)
                                                                 ctTTGCGCCAACAGCGGGCGCAGGACCAAGTAGCCGCCTGGTGAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTCAGGTTg                                                                                    <  4:218669/149‑1 (MQ=255)
                                                                 ctTTGCGCCAACAGCGGGCGCAGGACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTCAGGTTg                                                                                    <  4:217430/149‑1 (MQ=255)
                                                                  tttGCGCCAACAGCGGGCGCAGGACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGc                                                                                                                    <  7:191348/116‑1 (MQ=255)
                                                                  tttGCGCCAACAGCGGGCGCAGGACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGc                                                                                                                    >  8:191348/1‑116 (MQ=255)
                                                                  tttGCGCCAACAGCGGGCGCAGGACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGCCCTGCGCCAGGCTCAGCTCAGGTTgg                                                                                   >  6:45956/1‑149 (MQ=255)
                                                                  tttGCGCCAACAGCGGGCGCAGGACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTCAGGTTgg                                                                                   >  8:73052/1‑149 (MQ=255)
                                                                      cgcCAACAGCGGGCGCAGGACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTACTCAAACGTGCGCCCGAGGCCCGTTCGAACAAGCAGGTAGACCTGCGCCAGGCTCAGCTCAGGTTGGTGa                                                                                <  4:293349/148‑1 (MQ=255)
                                                                         cAACAGCGGGCGCAGGACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCTCCAGAGGCCCGTTCGATCAAGCAGGTAGACATgc                                                                                                        >  5:17340/1‑121 (MQ=255)
                                                                                      aGGACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTCAGGTTGGTGACCCTCCAGCCAAAACCg                                                               >  3:213373/1‑149 (MQ=255)
                                                                                       ggACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTCAGGTTGGTGACCCTCCAGCCAAAACCGt                                                              >  6:188808/1‑149 (MQ=255)
                                                                                              gTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTCAGGTTGGTGACCCTCCAGCCAAAACCGTCGATATc                                                       <  5:71359/149‑1 (MQ=255)
                                                                                                    gCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTCAgg                                                                                       >  4:318319/1‑111 (MQ=255)
                                                                                                    gCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTCAgg                                                                                       <  3:318319/111‑1 (MQ=255)
                                                                                                    gCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTCAGGTTGGTGa                                                                                <  2:36309/118‑1 (MQ=255)
                                                                                                    gCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTCAGGTTGGTGa                                                                                >  1:36309/1‑118 (MQ=255)
                                                                                                     ccTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTCAGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCt                                                   >  1:114983/1‑146 (MQ=255)
                                                                                                     ccTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTCAGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCt                                                   <  2:114983/146‑1 (MQ=255)
                                                                                                          ttAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTCAGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTAcc                                           <  5:243697/149‑1 (MQ=255)
                                                                                                                gCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTCAGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCAc                                     >  8:139799/1‑149 (MQ=255)
                                                                                                                       cccccTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTCAGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAaca                              <  5:188808/149‑1 (MQ=255)
                                                                                                                        ccccTTGGATGAGTTCGCCGAGTCGTTACTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTCAGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAacac                             >  2:123361/1‑149 (MQ=255)
                                                                                                                        ccccTTGGATGAGTTCGCCGAGGCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTCAGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAacac                             <  4:213373/149‑1 (MQ=255)
                                                                                                                          ccTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGTGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTCAGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCAc                                     <  5:329464/139‑1 (MQ=255)
                                                                                                                          ccTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGTGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTCAGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCAc                                     >  6:329464/1‑139 (MQ=255)
                                                                                                                              ggATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTCAGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCg                       >  6:260991/1‑149 (MQ=255)
                                                                                                                               gATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTCAGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCg                       >  2:254823/1‑148 (MQ=255)
                                                                                                                               gATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGAGCCAGGCTCAGCTCAGGTTGGTGACACTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGt                      >  6:304676/1‑149 (MQ=255)
                                                                                                                                 tGAGTTCGCCGAGTCGTTACTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTCAGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGTCa                    <  1:123361/149‑1 (MQ=255)
                                                                                                                                                gTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTCAGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGt                      >  3:184406/1‑132 (MQ=255)
                                                                                                                                                gTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTCAGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGt                      <  4:184406/132‑1 (MQ=255)
                                                                                                                                                gTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTCAGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGTCAGCACCCAGCCGCTtc     >  6:189168/1‑149 (MQ=255)
                                                                                                                                                 ttGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTCAGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGt                      >  7:101336/1‑131 (MQ=255)
                                                                                                                                                 ttGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTCAGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGt                      <  8:101336/131‑1 (MQ=255)
                                                                                                                                                 ttGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTCAGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGTCAGCACCCAGACGCTtct    >  2:179549/1‑149 (MQ=255)
                                                                                                                                                   gCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTCAGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGTCAGCACCCAGACGCTtctct  >  3:89065/1‑149 (MQ=255)
                                                                                                                                                   |                                                                                                                                                    
CCGTCAGTTGCCAGGCTGGCTCAAGCGCGCGTCTGCCCAAGAGCTGACAGAGCTGCGCGCCGCTGCTTTGCGCCAACAGCGGGCGCAGGACCAAGTAGACGCCTGGTTAGGGGCCATAACCCCCTTGGATGAGTTCGCCGAGTCGTTGCTCAAACGTGCGCCCGAGGCCCGTTCGATCAAGCAGGTAGACCTGCGCCAGGCTCAGCTCAGGTTGGTGACCCTCCAGCCAAAACCGTCGATATCGCCTGCTTTACCTAGCACGTCAACACGCATCGTCAGCACCCAGACGCTTCTCT  >  NC_002947/2702891‑2703186

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: ‑