Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 2,741,399 G→A 7.8% V1260I (GTC→ATC)  PP_2395 → leucine‑rich repeat‑containing protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029472,741,3990GA 7.8% 145.8 / 3.0 51V1260I (GTC→ATC) PP_2395leucine‑rich repeat‑containing protein
Reads supporting (aligned to +/- strand):  ref base G (24/23);  new base A (2/2);  total (26/25)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.63e-01

AGCACGCGCGTGAAGTATGGGGGGATGCCGTGGCCCCGGAGCATCGCGGCTTGATGCTTGCTGCCTGGGACTCGCTGGATTCAGGGCAGGACGCCGAGCGTTTTTTCCGGGTGCTTCGCCAGTTGTTGCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGAACTTGCTGTCGGTGGCCAATGATGAGTGGGGGTGCCAGGACGGTGCAACCTGGTGCTTGAGTAACCTTGAAC  >  NC_002947/2741253‑2741546
                                                                                                                                                  |                                                                                                                                                   
agcaCGCGCGTGAAGTATGGGGGGATGCCGTGGCCCCGGAGCATCGCGGCTTGATGCTTGCTGCCTGGGACTCGCTGGATTCAGGGCAGGACGCCGAGCGTTTTTTCCGGGTGCTTCG‑CAGTTGTTGCTGTCCGAAGACTTTCgtgtg                                                                                                                                                   >  1:71716/1‑147 (MQ=255)
                   gggggATGCCGTGGCCCCGGAGCATCGCGGCTTGATGCTTGCTGCCTGGGACTCGCTGGATTCAGGGCAGGACGCCGAGCGTTTTTTCCGGGTGCTTCGCCAGTTGTTGCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGc                                                                                                                                 >  2:169433/1‑148 (MQ=255)
                    ggggATGCCGTGGCCCCGGAGCATCGCGGCTTGATGCTTGCTGCCTGGGACTCGCTGGATTCAGGGCAGGACGCCGAGCGTTTTTTCCGGGTGCTTCGCCAGTTGTTGCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCaa                                                                                                                               >  2:204280/1‑149 (MQ=255)
                       gATGCCGTGGCCCCGGAGCCTCGCGGCTTGATGCTTGCTGCCTGGGACTCGCTGGATTCAGGGCAGGACGCCGAGCGTTTTTTCCGGGTGCTTCGCCAGTTGTTGCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCg                                                                                                                            >  5:286721/1‑149 (MQ=255)
                         tGCCGTGGCCCCGGAGCATCGCGGCTTGATGCTTGCTGCCTGGGACTCGCTGGATTCAGGGCAGGACGCCGAGCGTTTTTTCCGGGTGCTTCGCCAGTTGTTGCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCggg                                                                                                                          <  2:167531/149‑1 (MQ=255)
                            cGTGGCCCCGGAGCATCGCGGCTTGATGCTTGCTGCCTGGGACTCGCTGGATTCAGGGCAGGACGCCGAGCGTTTTTTCCGGGTGCTTCGCCAGTTGTTGCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCa                                                                                                                       >  8:216349/1‑149 (MQ=255)
                                   ccGGAGCATCGCGGCTTGATGCTTGCTGCCTGGGACTCGCTGGATTCAGGGCAGGACGCCGAGCGTTTTTTCCGGGTGCTTCGCCAGTTGTTGCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATg                                                                                                                     >  2:312986/1‑144 (MQ=255)
                                   ccGGAGCATCGCGGCTTGATGCTTGCTGCCTGGGACTCGCTGGATTCAGGGCAGGACGCCGAGCGTTTTTTCCGGGTGCTTCGCCAGTTGTTGCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATg                                                                                                                     <  1:312986/144‑1 (MQ=255)
                                           tCGCGGCTTGATGCTTGCTGCCTGGGACTCGCTGGATTCAGGGCAGGACGCCGAGCGTTTTTTCCGGGTGCTTCGCCAGTTGTTGCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAgg                                                                                                        <  4:137243/149‑1 (MQ=255)
                                                    gATGCTTGCTGCCTGGGACTCGCTGGATTCAGGGCAGGACGCCGAGCGTTTTTTCCGGGTGCTTCGCCAGTTGTTGCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGcc                                                                                                <  1:204280/148‑1 (MQ=255)
                                                             tgcCTGGGACTCGCTGGATTCAGGGCAGGACGCCGAGCGTTTTTTCCGGCTGCTTCGCCAGTTGTTGCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGc                                                                                         >  8:158141/1‑146 (MQ=255)
                                                                  gggACTCGCTGGATTCAGGGCAGGACGCCGAGCGTTTTTTCCGGGTGCTTCGCCAGTTGTTGCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTg                                                                                 >  2:118415/1‑149 (MQ=255)
                                                                   ggACTCGCTGGATTCAGGGCAGGACGCCGAGCGTTTTTTCCGGGTGCTTCGCCAGTTGTTGCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGc                                                                                >  1:174969/1‑149 (MQ=255)
                                                                     aCTCGCTGGATTCAGGGCAGGACGCCGAGCGTTTTTTCCGGGTGCTTCGCCAGTTGTTGCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCgg                                                                              <  5:73825/149‑1 (MQ=255)
                                                                      gtCGCTGGATGCCGTGCAGGGGGGCGAGCGTTTTTTCGGTGTGCTTCGCCATTTGTTTGTGTCCGCAGACTTTCGTGTCAATGCGCTTGCACTGGGAAATCGGGTCATGGCGGTAGTGCAGGAGATTGCCATTACGCGAGAGGtgctgc                                                                             <  6:222565/148‑1 (MQ=255)
                                                                         gCTGGATTCAGGGCAGGACGCCGAGCGTTTTTTCCGGGTGCTTCGCCAGTTGTTGCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAg                                                                           >  2:254606/1‑148 (MQ=255)
                                                                          cTGGATTCAGGGCAGGACGCCGAGCGTTTTTTCCGGGTGCTTCGCCAGTTGTTGCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGaa                                                                         >  5:177301/1‑149 (MQ=255)
                                                                          cTGGATTCAGGGCAGGACGCCGAGCGTTTTTTCCGGGTGCTTCGCCAGTTGTTGCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGaa                                                                         <  7:216349/149‑1 (MQ=255)
                                                                                  aGGGCAGGACGCCGAGCGTTTTTTCCGGGTGCTTCGCCAGTTGTTGCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCg                                                                               >  8:281604/1‑135 (MQ=255)
                                                                                  aGGGCAGGACGCCGAGCGTTTTTTCCGGGTGCTTCGCCAGTTGTTGCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCg                                                                               <  7:281604/135‑1 (MQ=255)
                                                                                    ggCAGGACGCCGAGCGTTTTTTCCGGGTGCTTCGCCAGTTGTTGCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGAACTTGCTGTCg                                                               <  1:118415/149‑1 (MQ=255)
                                                                                        ggACGCCGAGCGTTTTTTCCGGGTGCTTCGCCAGTTGTTGCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGAACTTGCTGTCGgggg                                                           <  6:286721/149‑1 (MQ=255)
                                                                                         gACGCCGAGCGTTTTTTCCGGCTGCTTCGCCAGTTGTTGCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGCCGATGGCCATTACGCCAGAGCTGCGGCAGCACTTGATGTCGGTGGc                                                          >  4:4484/1‑149 (MQ=255)
                                                                                            gCCGAGCGTTTTTTCCGGGTGCTTCGCCAGTTGTTGCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGAACTTGCTGTCGGTGGCCaa                                                       <  7:158141/149‑1 (MQ=255)
                                                                                            gCCGAGCGTTTTTTCCGGGTGCTTCGCCAGTTGTTGCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGAACTTGCTGTCGGTGGCCaa                                                       <  6:177301/149‑1 (MQ=255)
                                                                                              cGAGCGTTTTTTCCGGGTGCTTCGCCAGTTGTTGCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGAACTTGCTGTCGGTGGCCAat                                                      >  8:192199/1‑148 (MQ=255)
                                                                                               gAGCGTTTTTTCCGGGTGCTTCGCCAGTTGTTGCTGTCCGAAGACTTTCGTATCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGAACTTGCTGTCGGTGGCCAatga                                                    >  8:39093/1‑149 (MQ=255)
                                                                                               gAGCGTTTTTTCCGGGTGCTTCGCCAGTTGTTGCTGTCCGAAGACTTTCGTATCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGAACTTGCTGTCGGTGGCCAatga                                                    >  8:43965/1‑149 (MQ=255)
                                                                                                aGCGTTTTTTCCGGGTGCTTCGCCAGTTGTTGCTGTCCGAAGACTTTCGTATCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGAACTTGCTGTCGGTGGCCAatgat                                                   <  7:39093/149‑1 (MQ=255)
                                                                                                aGCGTTTTTTCCGGGTGCTTCGCCAGTTGTTGCTGTCCGAAGACTTTCGTATCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGAACTTGCTGTCGGTGGCCAatgat                                                   <  7:43965/149‑1 (MQ=255)
                                                                                                 gCGTTTTTTCAGGGTGCTTCGCCAGTTGTTGCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGATGCGGAAGAACTTGCTGTCGGTGGCCAatgat                                                   >  4:75120/1‑148 (MQ=255)
                                                                                                           cGGGTGCTTCGCCAGTTGTTGCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGAACTTGCTGTCGGTGGCCAATGATGAGTGGGGGt                                         >  1:129936/1‑148 (MQ=255)
                                                                                                           cGGGTGCTTCGCCAGTTGTTGCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGAACTTGCTGTCGGTGGCCAATGATGAGTGGGGGt                                         <  2:129936/148‑1 (MQ=255)
                                                                                                             ggTGCTTCGCCAGTTGTTGCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGAACTTGCTGTCGGTg                                                            >  4:218250/1‑127 (MQ=255)
                                                                                                             ggTGCTTCGCCAGTTGTTGCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGAACTTGCTGTCGGTg                                                            <  3:218250/127‑1 (MQ=255)
                                                                                                                    cGCCAGTTCTTGCCGTCCGAACACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCCTGCCGGTACTGCAGGCGATCGCCATTACGCCAGAGCTGCGGCAGAACTTGCTGTCGGTGGCCAATGATGAGTGGGGGTGCGAGGACg                                <  8:185682/148‑1 (MQ=255)
                                                                                                                     gCCAGTTGTTGCTGTCAGAAGCCTGTCGTGTCAATGCGCGTGCACTGGGCACTCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGAACTTGCTGTCGGTGGCCAATGATGAGTGGGGGTGCCAGGACGGt                              <  3:4484/149‑1 (MQ=255)
                                                                                                                       cAGTTGTTGCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGAACTTGCTGTCgg                                                              <  4:122547/115‑1 (MQ=255)
                                                                                                                       cAGTTGTTGCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGAACTTGCTGTCgg                                                              >  3:122547/1‑115 (MQ=255)
                                                                                                                       cAGTTGTTGCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGAACTTGCTGTCGGTGGCCAATGATGAGTGGGGGTGCCAGGACGGTg                             >  2:147975/1‑148 (MQ=255)
                                                                                                                       cAGTTGTTGCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGAACTTGCTGTCGGTGGCCAATGATGAGTGGGGGTGCCAGGACGGTg                             >  2:143225/1‑148 (MQ=255)
                                                                                                                             ttgCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGAACTTGCTGTCGGTGGCCAATGATGAGTGGGGGTGCCAGGACGGTGCAACCTg                      <  1:254606/149‑1 (MQ=255)
                                                                                                                               gCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGAACTTGCTGTCGGTGGCCAATGATGAGTgg                                             >  3:152177/1‑124 (MQ=255)
                                                                                                                               gCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGAACTTGCTGTCGGTGGCCAATGATGAGTgg                                             <  4:152177/124‑1 (MQ=255)
                                                                                                                                cTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGAACTTGCTGTCGGTGGCCAATGATGAGTGGGGGTGCCAGGACGGTGCAACCTGGt                    <  3:75120/148‑1 (MQ=255)
                                                                                                                                     cGAAGACTTTCGTGTCAATGCGCTTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGAACTTGCTGTCGGTGGCCAATGATGAGTGGGGGTGCCAGGACGGTGCAACCTGGTGCTTGa              <  2:71716/149‑1 (MQ=255)
                                                                                                                                     cGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGAACTTGCTGTCGGTGGCCAATGATGAGTGGGGGTGCCAGGACGGTGCAACCTGGTGCtt                >  3:194083/1‑147 (MQ=255)
                                                                                                                                     cGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGAACTTGCTGTCGGTGGCCAATGATGAGTGGGGGTGCCAGGACGGTGCAACCTGGTGCtt                >  2:302630/1‑147 (MQ=255)
                                                                                                                                     cGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGAACTTGCTGTCGGTGGCCAATGATGAGTGGGGGTGCCAGGACGGTGCAACCTGGTGCTTGa              <  4:194083/149‑1 (MQ=255)
                                                                                                                                      gAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGAACTTGCTGTCGGTGGCCAATGATGAGTGGGGGTGGCAGGACGGTGCAACCTGGTGCTTGAg             <  1:169433/149‑1 (MQ=255)
                                                                                                                                      gAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCATTTACGCCAGAGCTGCGGCAGAACTTGCTGTCGGTGGCCAATGATGAGTGGGGGTGCCAGGAGGGTGCAAGCGGGTGCTGGAg             >  8:74049/1‑149 (MQ=255)
                                                                                                                                            tttCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGAACTTGCTGTCGGTGGCCAATGATGAGTGGGGGTGCCAGGACGGTGCAACCTGGTGCTTGAGTAACCt       >  5:14010/1‑149 (MQ=255)
                                                                                                                                                 tgtCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGaa                                                                         <  8:208561/78‑1 (MQ=255)
                                                                                                                                                 tgtCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGaa                                                                         >  7:208561/1‑78 (MQ=255)
                                                                                                                                                 tgtCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGAACTTGCTGTCGGTGGCCAATGATGAGTGGGGGTGCCAGGAGGGTGCACCGTGGTGGTTGAGTAAGCTtgcac  >  8:146111/1‑149 (MQ=255)
                                                                                                                                                  gtCAATGCGCGTGCACTGGGCAATCGGGTCATGGCTGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGAACTTGCTGTCGGTGGCCAatgat                                                   >  1:273625/1‑99 (MQ=255)
                                                                                                                                                  gtCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGAACTTGCTGTCGGTGGCCAatgat                                                   <  2:273625/99‑1 (MQ=255)
                                                                                                                                                  |                                                                                                                                                   
AGCACGCGCGTGAAGTATGGGGGGATGCCGTGGCCCCGGAGCATCGCGGCTTGATGCTTGCTGCCTGGGACTCGCTGGATTCAGGGCAGGACGCCGAGCGTTTTTTCCGGGTGCTTCGCCAGTTGTTGCTGTCCGAAGACTTTCGTGTCAATGCGCGTGCACTGGGCAATCGGGTCATGGCGGTACTGCAGGCGATGGCCATTACGCCAGAGCTGCGGCAGAACTTGCTGTCGGTGGCCAATGATGAGTGGGGGTGCCAGGACGGTGCAACCTGGTGCTTGAGTAACCTTGAAC  >  NC_002947/2741253‑2741546

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: ‑