Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 2,771,777 C→T 7.4% P145L (CCG→CTG)  PP_2424 → 2'‑5' RNA ligase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029472,771,7770CT 7.4% 156.3 / 2.8 54P145L (CCG→CTG) PP_24242'‑5' RNA ligase
Reads supporting (aligned to +/- strand):  ref base C (26/24);  new base T (2/2);  total (28/26)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.88e-01

TTGGTGCTGGAGGCGCAGCAGGTACCGCCCGCCCTGTTGCAACTGGTGTACGGTTTGCAGCAGGCGTTGCTGCCGTTGGGGCTGGAAGCGGCCACGCGTGAGTATCGACCGCACCTGACGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTCGCGCAAGGGGGCTTACTGGCCATTGGCGCAGTGGCCGCTGGCGGACTGACTCGCCGGGCGAAAAACGCCTTGTCCCGGATGCGT  >  NC_002947/2771632‑2771924
                                                                                                                                                 |                                                                                                                                                   
ttGGTGCTGGAGGCGCAGCAGGTACCGCCCGCCCTGTTGCAACTGGTGTACGGTTTGCAGCAGGCGTTGCTGCCGTTGGGGCTGGAAGCGGCCACGCGTGAGTATCGACCGCACCTGACGCTGTCCAGGGATTACCGCGGGCAGCCGccc                                                                                                                                                 >  1:532523/1‑150 (MQ=255)
     gCTGGAGGCGCAGCAGGTACCGCCCGCCCTGTTGCAACTGGTGTACGGTTTGCAGCAGGCGTTGCTGCCGTTGGGGCTGGAAGCGGCCACGCGTGAGTATCGACCGCACCTGACGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAggt                                                                                                                                            <  2:905367/150‑2 (MQ=255)
       gggAGGCGCAGCAGGTACCGCCCGCCCTGTTGCAACTGGTGTACGGTTTGCAGCAGGCGTTGCTGCCGTTGGGGCTGGAAGCGGCCACGCGTGAGTATCGACCGCACCTGACGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCa                                                                                                                                          <  2:239215/149‑1 (MQ=255)
          aGGCGCAGCAGGTACCGCCCGCCCTGTTGCAACTGGTGTACGGTTTGCAGCAGGCGTTGCTGCCGTTGGGGCTGGAAGCGGCCACGCGTGAGTATCGACCGCACCTGACGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTa                                                                                                                                       <  2:133529/150‑1 (MQ=255)
                agcagGTACCGCCCGCCCTGTTGCAACTGGTGTACGGTTTGCAGCAGGCGTTGCTGCCGTTGGGGCTGGAAGCGGCCACGCGTGAGTATCGACCGCACCTGACGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAgcgcgc                                                                                                                                 >  1:1163424/1‑150 (MQ=255)
                    ggTACCGCCCGCCCTGTTGCAACTGGTGTACGGTTTGCAGCAGGCGTTGCTGCCGTTGGGGCTGGAAGCGGCCACGCGTGAGTATCGACCGCACCTGACGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGa                                                                                                                             <  2:532523/150‑1 (MQ=255)
                    ggTACCGCCCGCCCTGTTGCAACTGGTGTACGGTTTAAAGACCGCGCTGCTGAAATTGCGGCTCGAAGCGGCCTCGCGTGTTTATCTACCGCACCGGACGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGa                                                                                                                             <  2:738696/150‑1 (MQ=255)
                                       cAACTGGTGTACGGTTTGCAGCAGGCGTTGCTGCCGTTGGGGCTGGAAGCGGCCACGCGTGAGTATCGACCGCACCTGACGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGa                                                                                                          >  1:690937/1‑150 (MQ=255)
                                        aaCTGGTGTACGGTTTGCAGCAGGCGTTGCTGCCGTTGGGGCTGGAAGCGGCCACGCGTGAGTATCGACCGCACCTGACGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGac                                                                                                         >  2:183520/1‑150 (MQ=255)
                                           tGGTGTACGGTTTGCAGCAGGCGTTGCTGCCGTTGGGGCTGGAAGCGGCCACGCGTGAGTATCGACCGCACCTGACGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCa                                                                                                                                          <  2:390246/114‑1 (MQ=255)
                                           tGGTGTACGGTTTGCAGCAGGCGTTGCTGCCGTTGGGGCTGGAAGCGGCCACGCGTGAGTATCGACCGCACCTGACGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCa                                                                                                                                          >  1:390246/1‑114 (MQ=255)
                                               gtACGGTTTGCAGCAGGCGTTGCTGCCGTTGGGGCTGGAAGCGGCCACGCGTGAGTATCGACCGCACCTGACGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCAc                                                                                                  >  1:418731/1‑150 (MQ=255)
                                                tACGGTTTGCAGCAGGCGTTGCTGCCGTTGGGGCTGGAAGCGGCCACGCGTGAGTATCGACCGCACCTGACGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACg                                                                                                 <  1:658929/150‑1 (MQ=255)
                                                tACGGTTTGCAGCAGGCGTTGCTGCCGTTGGGGCTGGAAGCGGCCACGCGTGAGTATCGACCGCACCTGACGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACg                                                                                                 >  2:1144953/1‑150 (MQ=255)
                                                   ggTTTGCAGCAGGCGTTGCTGCCGTTGGGGCTGGAAGCGGCCACGCGTGAGTATCGACCGCACCTGGCGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCtt                                                                                              <  1:877877/150‑1 (MQ=255)
                                                     tttGCAGCAGGCGTTGCTGCCGTTGGGGCTGGAAGCGGCCACGCGTGAGTATCGACCGCACCTGACGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTa                                                                                            <  1:183520/150‑1 (MQ=255)
                                                        gcagcaGGCGTTGCTGCCGTTGGGGCTGGAAGCGGCCACGCGTACCTATAGACCGCACCTGACGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGa                                                                                         <  2:522524/150‑1 (MQ=255)
                                                             agGCGTTGCTGCCGTTGGGGCTGGAAGCGGCCACGCGTGAGTATCGACCGCACCTGACGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTcgc                                                                                    <  1:90984/150‑1 (MQ=255)
                                                                 gTTGCTGCCGTTGGGGCTGGAAGCGGCCACGCGTGAGTATCGACCGCACCTGACGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTCGCGCaa                                                                                >  1:606236/1‑150 (MQ=255)
                                                                      tgcCGTTGGGGCTGGAAGCGGCCACGCGTGAGTATCGACCGCACCTGACGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTAc                                                                                                                      <  1:318712/107‑1 (MQ=255)
                                                                      tgcCGTTGGGGCTGGAAGCGGCCACGCGTGAGTATCGACCGCACCTGACGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTAc                                                                                                                      >  2:318712/1‑107 (MQ=255)
                                                                          gTTGGGGCTGGAAGCGGCCACGCGTGAGTATCGACCGCACCTGACGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTCGCGCAAGGGGGCTTa                                                                       >  1:924974/1‑150 (MQ=255)
                                                                              ggggTGGAAGCGGCCACGCGTGAGTATCGACCGCACCTGACGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTCGCGCAAGGGGGCTTACTgg                                                                   <  2:9713/150‑1 (MQ=255)
                                                                              gggCTGGAAGCGGCCACGCGTGAGTATCGACCGCACCTGACGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTCGCGCAAGGGGGCTTACTgg                                                                   >  2:72622/1‑150 (MQ=255)
                                                                                    gAAGCGGCCACGCGTGAGTATCGACCGCACCTGACGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTCGCGCAAGGGGGCTTACTGGCCATTg                                                             >  2:1045690/1‑150 (MQ=255)
                                                                                    gAAGCGGCCACGCGTGAGTATCGACCGCACCTGACGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTCGCGCAAGGGGGCTTACTGGCCATTg                                                             <  2:606236/150‑1 (MQ=255)
                                                                                       gCGGCCACGCGTGAGTATCGACCGCACCTGACGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTCGCGCAAGGGGGCTTACTGGCCATTGgcg                                                          >  1:579369/1‑150 (MQ=255)
                                                                                       gCGGCCACGCGTGAGTATCGACCGCACCTGACGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTCGCGCAAGGGGGCTTACTGGCCATTGgcg                                                          >  1:219115/1‑150 (MQ=255)
                                                                                          gCCACGCGTGAGTATCGACCGCACCTGACGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGGTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTCGAGCAAGGGAGCTTACTAGCCGTGGGCTCAg                                                       >  2:29933/1‑150 (MQ=255)
                                                                                            cACGCGTGAGTATCGACCGCACCTGACGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTCGCGCAAGGGGGCTTACTGGCCATTGGCGCAGTg                                                     <  1:287458/150‑1 (MQ=255)
                                                                                               gcgTGAGTATCGACCGCACCTGACGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTCGCGCAAGGGGGCTTACTGGCCATTGGCGCAGTGGcc                                                  >  1:638859/1‑150 (MQ=255)
                                                                                                      tATCGACCGCACCTGACGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTCGCGCAAGGGGGCTTACTGGCCATTGGCGCAGTGGCCGCTGGCg                                           <  2:579369/150‑1 (MQ=255)
                                                                                                        tCGACCGCACCTGACGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTCGCGCAAGGGGGCTTACTGGCCATTGGCGCAGTGGCCGCTGGCGga                                         >  2:1117397/1‑150 (MQ=255)
                                                                                                           aCCGCACCTGACGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTCGCGCAAGGGGGCTTACTGGCCATTGGCGCAGTGGCCGCTGGCGgactg                                      >  1:903408/1‑150 (MQ=255)
                                                                                                           aCCACACCTGACGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTCGCGCAAGGGGGCTTACTGGCCATTGGCGCAGTGGCCGCTGGCGgactg                                      >  1:263814/1‑150 (MQ=255)
                                                                                                                     aCGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTCGCGCAAGGGGGCTTACTGGCCATTg                                                             <  1:765943/117‑1 (MQ=255)
                                                                                                                     aCGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTCGCGCAAGGGGGCTTACTGGCCATTg                                                             >  2:765943/1‑117 (MQ=255)
                                                                                                                         tGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACt                                                                                                      <  2:232845/72‑1 (MQ=255)
                                                                                                                         tGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACt                                                                                                      >  1:232845/1‑72 (MQ=255)
                                                                                                                           tCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTCGCGCAAGGGGGCTTACTGGCCATTGGCGCAGTGGCCGCTGGCGGACTGACTCGCCGGGCGaaaa                      >  1:540642/1‑150 (MQ=255)
                                                                                                                             cAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTCGCGCAAGGGGGCTTACTGGCCATTGGCGCAGTGGCCGCTGGCGGACTGACTCGCCGGGCGAAAAAc                    >  2:402371/1‑150 (MQ=255)
                                                                                                                              aGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTCGCGCAAGGGGGCTTACTGGCCATTGGCGCAGTGGCCGCTGGCGgactgac                                    <  1:43950/133‑1 (MQ=255)
                                                                                                                              aGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTCGCGCAAGGGGGCTTACTGGCCATTGGCGCAGTGGCCGCTGGCGgactgac                                    >  2:43950/1‑133 (MQ=255)
                                                                                                                              aGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTCGCGCAAGGGGGCTTACTGGCCATTGGCGCAGTGGCCGCTGGCGGACTGACTCGCCGGGCGAAAAACg                   >  1:774050/1‑150 (MQ=255)
                                                                                                                                 gATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTCGCGCAAgggg                                                                            >  2:100420/1‑90 (MQ=255)
                                                                                                                                 gATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTCGCGCAAgggg                                                                            <  1:100420/90‑1 (MQ=255)
                                                                                                                                 gATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTCGCGCAAGGGGGCTTACTGGCCATTGGCGCAGTGGCCGCTGGCGGACTGACTCGCCGGGCGAAAAACGCCt                <  1:72622/150‑1 (MQ=255)
                                                                                                                                    ggcctcgGGCGGCTGCCCGCGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTCGCGCAAGGGGGCTTACTGGCCATTGGCGCAGTGGCCGCTGGc                                            <  2:1188022/114‑1 (MQ=255)
                                                                                                                                    ggcctcgGGCGGCTGCCCGCGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTCGCGCAAGGGGGCTTACTGGCCATTGGCGCAGTGGCCGCTGGc                                            >  1:1188022/6‑119 (MQ=255)
                                                                                                                                     aCCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTCGCGCAAGGGGGCTTACTGGCCATTGGCGCAGTGGCCGCTGGCGGACTGACTCGCCGGGCGAAAAACGCCTTGTc            <  1:402371/150‑1 (MQ=255)
                                                                                                                                     aCCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTCGCGCAAGGGGGCTTACTGGCCATTGGCGCAGTGGCCGCTGGCGGACTGACTCGCCGGGCGAAAAACGCCTTGTc            <  1:1117397/150‑1 (MQ=255)
                                                                                                                                      cctcgGGCGGCTGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTCGCGCAAgg                                                                              <  2:547596/80‑1 (MQ=255)
                                                                                                                                      cctcgGGCGGCTGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTCGCGCAAgg                                                                              >  1:547596/4‑83 (MQ=255)
                                                                                                                                        gcgGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTCGCGCAAGGGGGCTTACTGGCCATTGGCGCAGTGGCCGCTGGCGGACTGACTCGCCGGGCGAAAAACGCCTTGTCCCg         <  2:924974/150‑1 (MQ=255)
                                                                                                                                               gccgccCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTCGCGCAAGGGGGCTTACTGGCCATTGGCGCAGTGGCCGCTGGCGGACTGACTCGCCGGGCGAAAAACGCCTTGTCCCGGATGCGt  >  2:786448/1‑150 (MQ=255)
                                                                                                                                                 |                                                                                                                                                   
TTGGTGCTGGAGGCGCAGCAGGTACCGCCCGCCCTGTTGCAACTGGTGTACGGTTTGCAGCAGGCGTTGCTGCCGTTGGGGCTGGAAGCGGCCACGCGTGAGTATCGACCGCACCTGACGCTGTCCAGGGATTACCGCGGGCAGCCGCCCGAGGCCAGTAGCGCGCCGGAGTTTTACCTCACCGCGCGACACTTCACGCTTTACGAGTCGCGCAAGGGGGCTTACTGGCCATTGGCGCAGTGGCCGCTGGCGGACTGACTCGCCGGGCGAAAAACGCCTTGTCCCGGATGCGT  >  NC_002947/2771632‑2771924

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑