Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 2,521,844 C→T 8.0% T1032M (ACG→ATG)  PP_2212 → leucine‑rich repeat‑containing protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029472,521,8440CT 8.0% 139.4 / 2.9 51T1032M (ACG→ATG) PP_2212leucine‑rich repeat‑containing protein
Reads supporting (aligned to +/- strand):  ref base C (25/20);  new base T (2/2);  total (27/24)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.45e-01

GCTTGTCGATGAGCGGTTTGAGTTTGCGCACACTGCCAGCACTACCGCCGCATATCGATTTCCATCGCATTACCCTGCTGAGCGTGAACGACACCCTGATTACTGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTACCAACAGGCATTGCCCATTTACCGAATCTTCAATCGCTTCGGTTGGCGCATAACGAGATACGCCTCGACGCCCAGGCGATCAGCGTTCTGCATGGTTTGTCCAACCT  >  NC_002947/2521700‑2521988
                                                                                                                                                |                                                                                                                                                
gcTTGTCGATGAGCGGTTTGAGTTTGCGCACACTGCCAGCACTACCGCCGCATATCGATTTCCATCGCATTACCCTGCTGAGCGTGAACGACACCCTGATTACTGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCAc                                                                                                                                              <  5:157145/149‑1 (MQ=255)
     tCGATGAGCGGTTTGAGTTTGCGCACACTGCCAGCACTACCGCCGCATATCGATTTCCATCGCATTACCCTGCTGAGCGTGAACGACACCCTGATTACTGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGa                                                                                                                                          <  5:204936/148‑1 (MQ=255)
        aTGAGCGGTTTGAGTTTGCGCACACTGCCAGCACTACCGCCGCATATCGATTTCCATCGCATTACCCTGCTGAGCGTGAACGACACCCTGATTACTGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGATGCACCTGAACCt                                                                                                                                      >  5:23415/1‑149 (MQ=255)
        aTGAGCGGTTTGAGTTTGCGCACACTGCCAGCACTACCGCCGCATATCGATTTCCATCGCATTACCCTGCTGAGCGTGAACGACACCCTGATTACTGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGATGCACCTGAACCt                                                                                                                                      >  5:28328/1‑149 (MQ=255)
                     gTTTGCGCACACTGCCAGCACTACCGCCGCATATCGATTTCCATCGCATTACCCTGCTGAGCGTGAACGACACCCTGATTACTGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAAcgcg                                                                                                                         >  6:275534/1‑149 (MQ=255)
                      tttGCGCACACTGCCAGCACTACCGCCGCATATCGATTTCCATCGCATTACCCTGCTGAGCGTGAACGACACCCTGATTACTGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGt                                                                                                                        <  8:272614/149‑1 (MQ=255)
                      tttGCGCACACTGCCAGCACTACCGCCGCATATCGATTTCCATCGCATTACCCTGCTGAGCGTGAACGACACCCTGATTACTGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGt                                                                                                                        <  5:275534/149‑1 (MQ=255)
                                   ccAGCACTACCGCCGCATATCGATTTCCATCGCATTACCCTGCTGAGCGTGAACGACACCCTGATTACTGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTAcc                                                                                                           <  4:101682/149‑1 (MQ=255)
                                   ccAGCACTACCGCCGCATATCGATTTCCATCGCATTACCCTGCTGAGCGTGAACGACACCCTGATTACTGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTAc                                                                                                            >  7:245767/1‑148 (MQ=255)
                                         cTACCGCCGCATATCGATTTCCATCGCATTACCCTGCTGAGCGTGAACGACACCCTGATTACTGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTACCAAc                                                                                                        <  6:222588/146‑1 (MQ=255)
                                         cTACCGCCGCATATCGATTTCCATCGCATTACCCTGCTGAGCGTGAACGACACCCTGATTACTGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTACCAAc                                                                                                        >  5:222588/1‑146 (MQ=255)
                                              gccgcATATCGATTTCCATCGCATTACCCTGCTGAGCGTGAACGACACCCTGATTACTGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTcaac                                                                                                                                  >  4:233028/1‑115 (MQ=255)
                                               ccgcATATCGATTTCCATCGCATTACCCTGCTGAGCGTGAACGACACCCTGATTACTGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGATGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTACCAACAGGCATTGc                                                                                               <  6:23415/149‑1 (MQ=255)
                                               ccgcATATCGATTTCCATCGCATTACCCTGCTGAGCGTGAACGACACCCTGATTACTGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGATGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTACCAACAGGCATTGc                                                                                               <  6:28328/149‑1 (MQ=255)
                                               ccgcATATCGATTTCCATCGCATTACCCTGCTGAGCGTGAACGACACCCTGATTACTGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTACCAACAGGCATTGc                                                                                               >  5:77101/1‑149 (MQ=255)
                                                  cATATCGATTTCCATCGCATTACCCTGCTGAGCGTGAACGACACCCTGATTACTGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGc                                                                                                                  >  7:321297/1‑127 (MQ=255)
                                                  cATATCGATTTCCATCGCATTACCCTGCTGAGCGTGAACGACACCCTGATTACTGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGc                                                                                                                  <  8:321297/127‑1 (MQ=255)
                                                    tatCGATTTCCATCGCATTACCCTGCTGAGCGTGAACGACACCCTGATTACTGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGc                                                                                                                  >  2:343159/1‑125 (MQ=255)
                                                    tatCGATTTCCATCGCATTACCCTGCTGAGCGTGAACGACACCCTGATTACTGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGc                                                                                                                  <  1:343159/125‑1 (MQ=255)
                                                             ccATCGCATTACCCTGCTGACCGTGAACGACACCCTGATTACTGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTACCAACAGGCATTGCCCATTTACCGAAt                                                                                  <  8:229968/148‑1 (MQ=255)
                                                               aTCGCATTACCCTGCTGAGCGTGAACGACACCCTGATTACTGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTACCAACCGGCATTGCCCATTTACCGAATCtt                                                                               >  4:140357/1‑149 (MQ=255)
                                                               aTCGCATTACCCTGCTGAGCGTGAACGACACCCTGATTACTGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTACCAACAGGCATTGCCCATTTACCGAATCt                                                                                >  6:207184/1‑148 (MQ=255)
                                                                tCGCATTACCCTGCTGAGCGTGAACGACACCCTGATTACTGGCATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTACCAACAGGCATTGCCCATTTACCGAATCtt                                                                               >  2:112532/1‑148 (MQ=255)
                                                                tCGCATTACCCTGCTGAGCGTGAACGACACCCTGATTACTGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTACCAACAGGCATTGCCCATTTACCGAATCtt                                                                               >  1:297617/1‑148 (MQ=255)
                                                                        cccTGCTGAGCGTGAACGACACCCTGATTACTGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTACCAACAGGCATTGCCCATTTACCGAATCTTCAATCGCtt                                                                      >  6:120675/1‑149 (MQ=255)
                                                                         ccTGCTGAGCGTGAACGACACCCTGATTACTGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGCGTCt                                                                                                              <  7:124422/108‑1 (MQ=255)
                                                                         ccTGCTGAGCGTGAACGACACCCTGATTACTGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGCGTCt                                                                                                              >  8:124422/1‑108 (MQ=255)
                                                                                    tGAACGACACCCTGATTACTGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTACCAACAGGCATTGCCCATTTACCGAATCTTCAATCGCTTCGGTTGGCGCa                                                           >  4:325416/1‑148 (MQ=255)
                                                                                        cGACACCCTGATTACTGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTACCAACAGGCATTGCCCATTTACCGAATCTTCAATCGCTTCGGTTGGCGCATAACg                                                      <  5:207184/149‑1 (MQ=255)
                                                                                          acacCCTGATTACTGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTACCAACAGGCATTGCCCATTTACCGAATCTTCAATCGCTTCGGTTGGCGCATAACgag                                                    <  5:120675/149‑1 (MQ=255)
                                                                                          acacCCTGATTACTGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTACCAACAGGCATTGCCCATTTACCGAATCTTCAATCGCTTCGGTTGGCGCATAACgag                                                    <  6:77101/149‑1 (MQ=255)
                                                                                                     aCTGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTACCAACAGGCATTGCCCATTTACCGAATCTTCAATCGCTTCGGTTGGCGCATAACGAGATACGCCTCGa                                         >  4:148477/1‑149 (MQ=255)
                                                                                                     aCTGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTAAACAACAACGCGTTGATGCGTCTACCAACAGGCATTGCCCATTTACCGAATCTTCAATCGATTCGGTTGGCGCATAACGAGATACGCCTCGa                                         >  5:337325/1‑149 (MQ=255)
                                                                                                      cTGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTACCAACAGGCATTGCCCATTTACCGAATCTTCAATCGCTTCGGTTGGCGCATAACGAGATACGCCTCGAc                                        >  5:319803/1‑149 (MQ=255)
                                                                                                       tGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTACCAACAGGCATTGCCCATTTACCGAATCTTCAATCGCTTCGGTTg                                                                <  4:283459/124‑1 (MQ=255)
                                                                                                         aCATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTACCAACAGGCATTGCCCATTTACCGAATCTTCAATCGCTTCGGTTGGCGCATAACGAGATACGCCTCGACGcc                                     >  3:44499/1‑149 (MQ=255)
                                                                                                         aCATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTACCAACAGGCATTGCCCATTTACCGAATCTTCAATCGCTTCGGTTGGCGCATAACGAGATACGCCTCGACGcc                                     >  3:155846/1‑149 (MQ=255)
                                                                                                         aCATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTACCAACAGGCATTGCCCATTTACCGAATCTTCAATCGCTTCGGTTGGCGCATAACGAGATACGCCTCGACGc                                      >  3:330151/1‑148 (MQ=255)
                                                                                                              ccGGCAGAGTTCCTTCGCCCGTTCACTGCCTTGAAGCACCTGAACCTGAACAACAACTCGTTGATGCGTCTACCAACAGGCATTGCCCATTTACCGAATCTTCAATCGCTTCGGTTGGCGCATAACGAGATACGCCTCGACGCCCAgg                                 <  6:337325/148‑1 (MQ=255)
                                                                                                               cGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTACCAACAGGCATTGCCCATTTACCGAATCTTCAATCGCTTCGGTTGGCGCATAACGAGATACGCCTCGACGCCCAGGc                                >  6:343651/1‑148 (MQ=255)
                                                                                                                 gCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTACCAACAGGCATTGCCCATTTACCGAATCTTCAATCGCTTc                                                                     <  3:303491/109‑1 (MQ=255)
                                                                                                                 gCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTACCAACAGGCATTGCCCATTTACCGAATCTTCAATCGCTTc                                                                     >  4:303491/1‑109 (MQ=255)
                                                                                                                   cGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTACCAACAGGCATTGCCCATTTACCGAATCTTCAATCGCTTCGGTTGGCGCATAACGAGATACGCCTCGACGCCCAGGCGATCa                           <  5:343651/149‑1 (MQ=255)
                                                                                                                          cttcGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTACCAACAGGCATTGCCCATTTACCGAATCTTCAATCGCTTCGGTTGGCGCATAACGAGATACGCCTCGACGCCCAGGCGATCAGCGTTCt                    <  2:297617/149‑1 (MQ=255)
                                                                                                                          cttcGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTACCAACAGGCATTGCCCATTTACCGAATCTTCAATCGCTTCGGTTGGCGCATAACGAGATACGCCTCGACGCCCAGGCGATCAGCGTTCt                    >  1:201572/1‑149 (MQ=255)
                                                                                                                             cGCCCGTTCACTGCCTTGAAGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTACCAACAGGCATTGCCCATTTACCGAATCTTCAATCGCTTCGGTTGGCGCATAACGAGATACGCCTCGACGCCCAGGCGATCAGCGTTCTGc                  <  8:245767/148‑1 (MQ=255)
                                                                                                                               cccGTTCACTGCCTTGACGCACCTGAACCTCAACAACACCGCGTTGATGCGTCTACCAACAGGCATTGCCCATTTACCGAATCTTCAATCGCTTCGGTTGGCGCATAACGAGATACGCCTCGACGCCCAGGCGATCAGCGTTCTGCATg               >  3:249987/1‑149 (MQ=255)
                                                                                                                               cccGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTACCAACAGGCATTGCCCATTTACCGAATCTTCAATCGCTTCGGTTGGCGCATAACGAGATACGCCTCGACGCCCAGGCGATCAGCGTTCTGCATg               >  2:6910/1‑149 (MQ=255)
                                                                                                                                ccGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTACCAACAGGCATTGCCCATTTACCGAATCTTCAATCGCTTCGGTTGGCGCATAACGAGATACGCCTCGACGCCCAGGCGATCAGCGTTCTGCATgg              <  4:155846/149‑1 (MQ=255)
                                                                                                                                          ccTTGACGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTACCAACAGGCATTGCCCATTTACCGAATCTTCAATCGCTTCGGTTGGCGCATAACGAGATACGCCTCGACGCCCAGGCGATCAGCGTTCTGCATGGTTTGTCCa      <  3:148477/147‑1 (MQ=255)
                                                                                                                                              gACGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTACCAACAGGCATTGCCCATTTACCGAATCTTCAATCGCTTCGGTTGGCGCATAACGAGATACGCGTCGACGCCCAGGCGATCAGCGTTCTGCATGGTTTGTCCAACCt  <  3:325416/147‑1 (MQ=255)
                                                                                                                                                |                                                                                                                                                
GCTTGTCGATGAGCGGTTTGAGTTTGCGCACACTGCCAGCACTACCGCCGCATATCGATTTCCATCGCATTACCCTGCTGAGCGTGAACGACACCCTGATTACTGACATTCCGGCCGACTTCCTTCGCCCGTTCACTGCCTTGACGCACCTGAACCTCAACAACAACGCGTTGATGCGTCTACCAACAGGCATTGCCCATTTACCGAATCTTCAATCGCTTCGGTTGGCGCATAACGAGATACGCCTCGACGCCCAGGCGATCAGCGTTCTGCATGGTTTGTCCAACCT  >  NC_002947/2521700‑2521988

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: ‑