Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 3,908,673 C→T 9.2% A193V (GCC→GTC)  PP_3450 → TPR repeat‑containing protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029473,908,6730CT 9.2% 133.5 / 3.7 52A193V (GCC→GTC) PP_3450TPR repeat‑containing protein
Reads supporting (aligned to +/- strand):  ref base C (22/25);  new base T (3/2);  total (25/27)
Fisher's exact test for biased strand distribution p-value = 6.62e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.39e-01

AACTGCAGCAACCCGAGCAGCGCCAGCAACTTTGGCAACTGGCCCGCGAAGGCGACGATGCAGCGCTGGTGCGGCGCCTGAGCAACGACCTGCAGCGCCCCTGCCTTGAAACGGTCGACTGGCTGTCACATCAAGACCCGGACCTGGCCCGGGAACAGTTCAAGGCCTGCCCCGCCAACGCCGACCCTCAGGCCTATGCCGTGCTCAAGCAGCGCCTGTATGGCGCCCCGCCGCAGCCCCCGCAGCCGCGCACCGCCGCAGAATGGGAACAACGCTATCGGCAGACCGGC  >  NC_002947/3908526‑3908815
                                                                                                                                                   |                                                                                                                                              
aaCTGCAGCAACCCGAGCAGCGCCAGCAACTTTGGCAACTGGCCCGCGAAGGCGACGATGCAGCGCTGGTGCGGCGCCTGAGCAACGACCTGCAGCGCCCCTGCCTTGAAACGGTCGACTGGCTGTCACATCAAGACCCGGACCTGGccc                                                                                                                                              <  1:68227/150‑1 (MQ=255)
   tGCAGCAACCCGAGCAGCGCCAGCAACTTTGGCAACTGGCCCGCGAAGGCGACGATGCAGCGCTGGTGCGGCGCCTGAGCAACGACCTGCAGCGCCCCTGCCTTGAAACGGTCGACTGGCTGTCACATCAAGACCCGGACCTGGCCCggg                                                                                                                                           >  2:246815/1‑150 (MQ=255)
    gcagcaACCCGAGCAGCGCCAGCAACTTTGGCAACTGGCCCGCGAAGGCGACGATGCAGCGCTGGTGCGGCGCCTGAGCAACGACCTGCAGCGCCCCTGCCTTGAAACGGTCGACTGGCTGTCACATCAAGACCCGGACCTGGCCCGGGa                                                                                                                                          <  2:204640/150‑1 (MQ=255)
       gcaACCCGAGCAGCGCCAGCAACTTTGGCAACTGGCCCGCGAAGGCGACGATGCAGCGCTGGTGCGGCGCCTGAGCAACGACCTGCAGCGCCCCTGCCTTGAAACGGTCGACTGGCTGTCACATCAAGACCCGGACCTGGCCCGGGAACa                                                                                                                                       >  1:518553/1‑150 (MQ=255)
         aaCCCGAGCAGCGCCAGCAACTTTGGCAACTGGCCCGCGAAGGCGACGATGCAGCGCTGGTGCGGCGCCTGAGCAACGACCTGCAGCGCCCCTGCCTTGAAACGGTCGACTGGCTGTCACATCAAGACCCGGACCTGGCCCGGGAACAGt                                                                                                                                     >  1:359040/1‑150 (MQ=255)
           cccGAGCAGCGCCAGCAACTTTGGCAACTGGCCCGCGAAGGCGACGATGCAGCGCTGGTGCGGCGCCTGAGCAACGACCTGCAGCGCCCCTGCCTTGAAACGGTCGACTGGCTGTCACATCAAGACCCGGACCTGGCCCGGGAACAGTTc                                                                                                                                   <  1:245874/150‑1 (MQ=255)
             cGAGCAGCGCCAGCAACTTTGGCAACTGGCCCGCGAAGGCGACGATGCAGCGCTGGTGCGGCGCCTGAGCAACGACCTGCAGCGCCCCTGCCTTGAAACGGTCGACTGGCTGTCACATCAAGACCCGGACCTGGCCCGGTAACAGTTCaa                                                                                                                                 <  2:463626/150‑1 (MQ=255)
               agcagcGCCAGCAACTTTGGCAACTGGCCCGCGAAGGCGACGATGCAGCGCTGGTGCGGCGCCTGAGCAACGACCTGCAGCGCCCCTGCCTTGAAACGGTCGACTGGCTGTCACATCAAGACCCGGACCTGGCCCGGGAACAGTTCAAgg                                                                                                                               >  1:200109/1‑150 (MQ=255)
                    cgcCAGCAACTTTGGCAACTGGCCCGCGAAGGCGACGATGCAGCGCTGGTGCGGCGCCTGAGCAACGACCTGCAGCGCCCCTGCCTTGAAACGGTCGACTGGCTGTCACATCAAGACCCGGGCCTGGCCCGGGAACAGTTCAAGGCCTGc                                                                                                                          <  1:717140/150‑1 (MQ=255)
                    cgcCAGCAACTTTGGCAACTGGCCCGCGAAGGCGACGATGCAGCGCTGGTGCGGCGCCTGAGCAACGACCTGCAGCGCCCCTGCCTTGAAACGGTCGACTGGCTGTCACATCAAGACCCGGACCTGGCCCGGGAACAGTTCAAGGCCTGc                                                                                                                          <  2:200109/150‑1 (MQ=255)
                         gCAACTTTGGCAACTGGCCCGCGAAGGCGACGATGCAGCGCTGGTGCGGCGCCTGAGCAACGACCTGCAGCGCCCCTGCCTTGAAACGGTCGACTGGCTGTCACATCAAGACCCGGACCTGGCCCGGGAACAGTTCAAGGCCTGCCCCGc                                                                                                                     <  1:460600/150‑1 (MQ=255)
                          cAACTTTGGCAACTGGCCCGCGAAGGCGACGATGCAGCGCTGGTGCGGCGCCTGAGCAACGACCTGCAGCGCCCCTGCCTTGAAACGGTCGACTGGCTGTCACATCAAGACCCGGACCTGGCCCg                                                                                                                                             <  2:501590/125‑1 (MQ=255)
                          cAACTTTGGCAACTGGCCCGCGAAGGCGACGATGCAGCGCTGGTGCGGCGCCTGAGCAACGACCTGCAGCGCCCCTGCCTTGAAACGGTCGACTGGCTGTCACATCAAGACCCGGACCTGGCCCg                                                                                                                                             >  1:501590/1‑125 (MQ=255)
                                tGGCAACTGGCCCGCGAAGGCGACGATGCAGCGCTGGTGCGGCGCCTGAGCAACGACCTGCAGCGCCCCTGCCTTGAAACGGTCGACTGGCTGTCACATCAAGACCCGGGCCAGGTCCgggtc                                                                                                                                         >  1:518094/1‑121 (MQ=255)
                                tGGCAACTGGCCCGCGAAGGCGACGATGCAGCGCTGGTGCGGCGCCTGAGCAACGACCTGCAGCGCCCCTGCCTTGAAACGGTCGACTGGCTGTCACATCAAGACCCGGGCCAGGTCCgggtc                                                                                                                                         <  2:518094/123‑3 (MQ=255)
                                    aaCTGGCCCGCGAAGGCGACGATGCAGCGCTGGTGCGGCGCCTGAGCAACGACCTGCAGCGCCCCTGCCTTGAAACGGTCGACTGGCTGTCACATCAAGACCCGGACCTGGCCCGGGAACAGTTCAAGGCCTGCCCCGCCAACGCCGAcc                                                                                                          <  1:246815/150‑1 (MQ=255)
                                                     gacgaTGCAGCGCTGGTGCGGCGCCTGAGCAACGACCTGCAGCGCCCCTGCCTTGAAACGGTCGACTGGCTGTCACATCAAGACCCGGACCTGGCCCGGGAACAGTTCAAGGCCTGGCCCTCCAACGCCGACCCTCAGGCCTATGCCGTg                                                                                         >  2:223133/1‑150 (MQ=255)
                                                              gcgcTGGTGCGGCGCCTGAGCAACGACCTGCAGCGCCCCTGCCTTGAAACGGTCGACTGGCTGTCACATCAAGACCCGGACCTGGCCCGGGAACAGTTCAAGGCCTGCCCCGCCAACGCCGAACCTCAGGCCTATGCCGTGCTCAagcag                                                                                <  2:11421/150‑1 (MQ=255)
                                                                  tGGTGCGGCGCCTGGGCAACGACCTGCAGCGCCCCTGCCTTGAAACGGTCGACTGGCTGTCACATCAAGACCCGGACCTGGCCCGGGAACAGTTCAAGGCCTGCCCCGCCACCGCCGACCCTCAGGCCTAGGCCGTGCTCAAGCAGCGcc                                                                            <  2:98671/150‑1 (MQ=255)
                                                                    gTGCGGCGCCTGAGCAACGACCTGCAGCGCCCCTGCCTTGAAATGGTCGACTGGCTGTCACATCAAGACCCGGACCTGGCCCGGGAACAGTTCAAGGCCTGCCCCGCCAACGCCGACCCTCAGGCCTATGCCGTGCTCAAGCAGCGcc                                                                            >  2:620206/1‑148 (MQ=255)
                                                                    gTGCGGCGCCTGAGCAACGACCTGCAGCGCCCCTGCCTTGAAACGGTCGACTGGCTGTCACATCAAGACCCGGACCTGGCCCGGGAACAGTTCAAGGCCTGCCCCGCCAACGCCGACCCTCAGGCCTATGCCGTGCTCAAGCAGCGcc                                                                            <  1:620206/148‑1 (MQ=255)
                                                                       cggcgCCTGAGCAACGACCTGCAGCGCCCCTGCCTTGAAACGGTCGACTGGCTGTCACATCAAGACCCGGACCTGGCCCGGGAACAGTTCAAGGCCTGCCCCGCCAACGCCGACCCTCAGGCCTATGCCGTGCTCAAGCAGCGCCTGTAt                                                                       <  1:588826/150‑1 (MQ=255)
                                                                        ggcgCCTGAGCAACGACCTGCAGCGCCCCTGCCTTGAAACGGTCGACTGGCTGTCACATCAAGACCCGGACCTGGCCCGGGAACAGTTCAAGGCCTGCCCCGCCAACGCCGACCCTCAGGCCTATGCCGTGCTCAAGCAGCGCCTGTATg                                                                      <  1:40898/150‑1 (MQ=255)
                                                                             cTGAGCAACGACCTGCAGCGCCCCTGCCTTGAAACGGTCGACTGGCTGTCACATCAAGACCCGGACCTGGCCCGGGAACAGTTCAAGGCCTGCCCCGCCAACGCCGACCCTCAGGCCTATGCCGTGCTCAAGCAGCGCCTGTATGGCGcc                                                                 <  1:394916/150‑1 (MQ=255)
                                                                              tGAGCAACGACCTGCAGCGCCCCTGCCTTGAAACGGTCGACTGGCTGTCACATCAAGACCCGGACCTGGCCCGGGAACAGTTCAAGGCCTGCCCCGCCAACGCCGACCCTCAGGCCTATGCCGTGCTCAAGCAGCGCCTGTATgg                                                                     >  1:672154/1‑145 (MQ=255)
                                                                              tGAGCAACGACCTGCAGCGCCCCTGCCTTGAAACGGTCGACTGGCTGTCACATCAAGACCCGGACCTGGCCCGGGAACAGTTCAAGGCCTGCCCCGCCAACGCCGACCCTCAGGCCTATGCCGTGCTCAAGCAGCGCCTGTATgg                                                                     <  2:672154/145‑1 (MQ=255)
                                                                                  cAACGACCTGCAGCGCCCCTGCCTTGAAACGGTCGACTGGCTGTCACATCAAGACCCGGGCCAGGTCCgggtct                                                                                                                                        <  1:666861/74‑4 (MQ=38)
                                                                                  cAACGACCTGCAGCGCCCCTGCCTTGAAACGGTCGACTGGCTGTCACATCAAGACCCGGGCCAGGTCCgggtct                                                                                                                                        >  2:666861/1‑71 (MQ=38)
                                                                                   aaCGACCTGCAGCGCCCCTGCCTTGAAACGGTCGACTGGCTGTCACATCAAGACCCGGACCTGGCCCGGGaa                                                                                                                                         <  1:168207/72‑1 (MQ=255)
                                                                                   aaCGACCTGCAGCGCCCCTGCCTTGAAACGGTCGACTGGCTGTCACATCAAGACCCGGACCTGGCCCGGGaa                                                                                                                                         >  2:168207/1‑72 (MQ=255)
                                                                                         cTGCAGCGCCCCTGCCTTGAAACGGTCGACTGGCTGTCACATCAAGACCCGGACCTGGCCCGGGAACAGTTCAAGGCCTGCCCCGCCAACGCCGACTCTCAGGCCTATGCCGTGCTCAAGCAGCGCCTGTATGGCGCCCCGCCGCAGccc                                                     <  2:311109/150‑1 (MQ=255)
                                                                                              gcgcCCCTGCCTTGAAACGGTCGACTGGCTGTCACATCAAGACCCGGACCTGGCCCGGGAACAGTTCAAGGCCTGCCCCGCCAACGCCGACCCTCAGGCCTATGCCGTGCTCAAGCAGCGCCTGTATGGCGCCCCGCCGCAGc                                                       <  2:672387/143‑1 (MQ=255)
                                                                                              gcgcCCCTGCCTTGAAACGGTCGACTGGCTGTCACATCAAGACCCGGACCTGGCCCGGGAACAGTTCAAGGCCTGCCCCGCCAACGCCGACCCTCAGGCCTATGCCGTGCTCAAGCAGCGCCTGTATGGCGCCCCGCCGCAGc                                                       >  1:672387/1‑143 (MQ=255)
                                                                                                       ccTTGAAACGGTCGACTGGCTGTCACATCAAGACCCGGACCTGGCCCGGGAACAGTTCAAGGCCTGCCCCGCCAACGCCGACCCTCAGGCCTATGCCGTGCTCAAGCAGCGCCTGTATGGCGCCCCGCCGCAGCCCCCGCAGCCGCGCAc                                       >  1:707246/1‑150 (MQ=255)
                                                                                                           gAAACGGTCGACTGGCTGTCACATCAAGACCCGGACCTGGCCCGGGAACAGTTCAAGGCCTGCCCCGCCAACGCCGACCCTCAGGCCTATGCCGTGCTCAAGCAGCGCCTGTATGGCGCCCCGCCGCAGCCCCCGCAGCCGCGCAccgcc                                   >  1:622110/1‑150 (MQ=255)
                                                                                                                      cTGGCTGTCACATCAAGACCCGGACCTGGCCCGGGAACAGTTCAAGGCCTGCATATTAATTGCCCATCCTCAGGCCTATGCCGTGCTCAAGCAGCGCCTGTATGGCGCCCCGCCGCAGCCCCCGCAGCCGCGCACCGCCGCAGAATGGGa                        <  2:331557/150‑1 (MQ=255)
                                                                                                                       tGGCTGTCACATCAAGACCCGGACCTGGCCCGGGAACAGTTCAAGGCCTGCCCCGCCAACGCCGACCCTCAGGCCTATGCCGTGCTCAAGCAGCGCCTGTATGGCGCCCCGCCGCAGCCCCCGCAGCCGCGCACCGCCGCAGAATGGGaa                       <  2:555963/150‑1 (MQ=255)
                                                                                                                           tGTCACATCAAGACCCGGACCTGGCCCGGGAACAGTTCAAGGCCTGCCCCGCCAACGCCGACCCTCAGGCCTATGCCGTGCTCAAGCAGCGCCTGTATGGCGCCCCGCCGCAGCCCCCGCAGCCGCGCACCGCCGCAGAATGGGaacaac                   >  1:757417/1‑150 (MQ=255)
                                                                                                                                 aTCACGCCCCGGACCTGGCCTGGGCACAGTTCAAGGCCTGCCCCGCCAACGCCGACCCTCAGGCCTATGCCGTGCTCAAGCAGCGCCTGTATGGCGCCCCGCCGCAGTCCCCACAGCCGCGCACCGCCGCAGAATGGGAACAACGCTATc             <  2:518553/150‑1 (MQ=255)
                                                                                                                                 aTCAAGACCCGGACCTGGCCCGGGAACAGTTCAAGGCCTGCCCCGCCAACGCCGACCCTCAGGCCTATGCCGTGCTCAagc                                                                                  >  1:207433/1‑81 (MQ=255)
                                                                                                                                 aTCAAGACCCGGACCTGGCCCGGGAACAGTTCAAGGCCTGCCCCGCCAACGCCGACCCTCAGGCCTATGCCGTGCTCAagc                                                                                  <  2:207433/81‑1 (MQ=255)
                                                                                                                                    tgttcccGGGCCAGGTCCGGGAACAGTTCAAGGCCTGCCCCGCCAACGCCGACCCTCAGGCCTATGCCGTGCTCAAGCAGCGCCTGTATGGCGCCCCGCCGCAGCCCCCGCAGCCGCGCACCGCCGCAGAATGGGAACAACGCTATCGGc          >  2:322846/5‑150 (MQ=255)
                                                                                                                                        cccGGACCTGGCCCGGGAACAGTTCAAGGCCTGCCCCGCCAACGCCGACCCTCAGGCCTATGCCGTGCTCAagcagc                                                                               <  1:693635/77‑1 (MQ=255)
                                                                                                                                        cccGGACCTGGCCCGGGAACAGTTCAAGGCCTGCCCCGCCAACGCCGACCCTCAGGCCTATGCCGTGCTCAagcagc                                                                               >  2:693635/1‑77 (MQ=255)
                                                                                                                                        cccGGACCTGGCCCGGGAACAGTTCAAGGCCTGCCCCGCCAACGCCGACCCTCAGGCCTATGCCGTGCTCAAGCAGCGCCTGTATGGCGCCCCGCCGCAGACCCGGCAGCCGCGCACCGCCGCAGAATGGGAACAACGCTATGGGCGGag      >  1:388833/1‑149 (MQ=255)
                                                                                                                                         ccGGACCTGGCCCGGGAACAGTTCAAGGCCTGCCCCGCCAACGCCGACCCTCAGGCCTATGCCGTGCTCAAGCAGCGCCTGTAt                                                                       >  2:381251/1‑84 (MQ=255)
                                                                                                                                         ccGGACCTGGCCCGGGAACAGTTCAAGGCCTGCCCCGCCAACGCCGACCCTCAGGCCTATGCCGTGCTCAAGCAGCGCCTGTAt                                                                       <  1:381251/84‑1 (MQ=255)
                                                                                                                                         ccGGACCTGGCCCGGGAACAGTTCAAGGCCTGCCCCGCCAACGCCGACCCTCAGGCCTATGCCGTGCTCAAGCAGCGCCTGTATGGCGCCCCGCCGCAGCCCCCGCAGCCGCGCACCGCCGCAGAATGGGAACAACGCTATCGGCAGAcc     >  1:680747/1‑150 (MQ=255)
                                                                                                                                         ccGGACCTGGCCCGGGAACAGTTCAAGGCCTGCCCCGCCAACGCCGACCCTCAGGCCTATGCCGTGCTCAAGCAGCGCCTGTATGGCGCCCCGCCGCAGCCCCCGCAGCCGCGCACCGCCGCAGAATGGGAACAACGAGATCGGAAGagc     >  1:331920/1‑148 (MQ=255)
                                                                                                                                          cGGACCTGGCCCGGGAACAGTTCAAGGCCTGCCCCGCCAACGCCGACCCTCAGGCCTATGCCGTGCTCAAGCAGCGCCTGTATGGCGCCCCGCCGCAGCCCCCGCAGCCGCGCAGCGCCGCAGAATGGGAACAACGCTATCGGCAGACCg    >  2:458648/1‑150 (MQ=255)
                                                                                                                                            gACCTGGCCCGGGAACAGTTCAAGGCCTGCCCCGCCAACGCCGACCCTCAGGCCTATGCCGTGCTCAAGCAGCGCCTGTATGGCGCCCCGCCGCAGCCCCCGCAGCCGCGCACCGCCGCAGAATGGGAACAACGCTATCGGCAGACCGGc  >  1:488902/1‑150 (MQ=255)
                                                                                                                                                  gCCCGGGAACAGTTCAAGGCCTGCCCCGCCAACGCCGACCCTCAGGCCTATGCCGTGCTCAAGCAGCGCCTGTATGGCGCCCCGCCGCAGCCCCCGCAGCCGCGCACCGCCGCAGAATGGGAACAACg                  >  2:355091/1‑128 (MQ=255)
                                                                                                                                                  gCCCGGGAACAGTTCAAGGCCTGCCCCGCCAACGCCGACCCTCAGGCCTATGCCGTGCTCAAGCAGCGCCTGTATGGCGCCCCGCCGCAGCCCCCGCAGCCGCGCACCGCCGCAGAATGGGAACAACg                  <  1:355091/128‑1 (MQ=255)
                                                                                                                                                   |                                                                                                                                              
AACTGCAGCAACCCGAGCAGCGCCAGCAACTTTGGCAACTGGCCCGCGAAGGCGACGATGCAGCGCTGGTGCGGCGCCTGAGCAACGACCTGCAGCGCCCCTGCCTTGAAACGGTCGACTGGCTGTCACATCAAGACCCGGACCTGGCCCGGGAACAGTTCAAGGCCTGCCCCGCCAACGCCGACCCTCAGGCCTATGCCGTGCTCAAGCAGCGCCTGTATGGCGCCCCGCCGCAGCCCCCGCAGCCGCGCACCGCCGCAGAATGGGAACAACGCTATCGGCAGACCGGC  >  NC_002947/3908526‑3908815

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑