Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 3,485,146 T→C 9.3% Q274R (CAG→CGG)  PP_3091 ← membrane protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029473,485,1460TC 9.3% 110.3 / 3.2 43Q274R (CAG→CGG) PP_3091membrane protein
Reads supporting (aligned to +/- strand):  ref base T (18/21);  new base C (2/2);  total (20/23)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.13e-01

GGTGCTGTCGGCTTCGGCACCGAGGGCGATCATCTGCGCGTCGACGTGCTGGCGAATATGAGCTTGCAGCTTCTTCAGGCGCGTCTGCAGCACGGCGTGCAGGCCGTTGGTGCGGATTTCCGAAAGGCCAAAGGTCATGCCCAGCGGCTGCTGGCGTTCGTGCAGGTCGAGGCCGTCGAAAGCCTGGCTGAAGCCCGGCAACTGGTCGGTCTTGCTCAGCATCAGGTAAACCGGCGGGTTGGCATCGAGGCATTCGGCGTATTCTTCCACCCGGGCCACCAGCTGGGCAGCCAGGG  >  NC_002947/3484998‑3485293
                                                                                                                                                    |                                                                                                                                                   
ggTGCTGTCGGCTTCGGCACCGAGGGCGATCATCTGCGCGTCGACGTGCTGGCGAATATGAGCTTGCAGCTTCTTCAGGCGCGTCTGCAGCACGGCGTGCAGGCCGTTGGTGCGGATTTCCGAAAGGCCAAAGGTCATGCCCAGCGgctg                                                                                                                                                    >  2:548937/1‑150 (MQ=255)
  tGCTGTCGGCTTCGGCACCGAGGGCGATCATCTGCGCGTCGACGTGCTGGCGAATATGAGCTTGCAGCTTCTTCAGGCGCGTCTGCAGCACGGCGTGCAGGCCGTTGGTGCGGATTTCCGAAAGGCCAAAGGTCATGCCCAGCGgctgct                                                                                                                                                  <  1:797540/150‑1 (MQ=255)
      gTCGGCTTCGGCACCGAGGGCGATCATCTGCGCGTCGACGTGCTGGCGAATATGAGCTTGCAGCTTCTTCAGGCGCGTCTGCAGCACGGCGTGCAGGCCGTTGGTGCGGATTTCCGAAAGGCCAAAGGTCATGCCCAGCGGCTGCTGGCg                                                                                                                                              >  1:941438/1‑150 (MQ=255)
        tggCTTCGGCACCGAGGGCGATCATCTGCGCGTCGACGTGCTGGCGAATATGAGCTTGCAGCTTCTTCAGGCGCGTCTGCAGCACGGCGTGCAGGCCGTTGGTGCGGATTTCCGAAAGGCCAAAGGTCATGCCCAGCAGCCGCTgggcat                                                                                                                                            <  1:1162297/149‑5 (MQ=255)
           cTTCGGCACCGAGGGCGATCATCTGCGCGTCGACGTGCTGGCGAATATGAGCTTGCAGCTTCTTCAGGCGCGTCTGCAGCACGGCGTGCAGGCCGTTGGTGCGGATTTCCGAAAGGCCAAAGGTCATGCCCAGCGgctg                                                                                                                                                    <  2:450536/139‑1 (MQ=255)
           cTTCGGCACCGAGGGCGATCATCTGCGCGTCGACGTGCTGGCGAATATGAGCTTGCAGCTTCTTCAGGCGCGTCTGCAGCACGGCGTGCAGGCCGTTGGTGCGGATTTCCGAAAGGCCAAAGGTCATGCCCAGCGgctg                                                                                                                                                    >  1:450536/1‑139 (MQ=255)
               ggCACCGAGGGCGATCATCTGCGCGTCGACGTGCTGGCGAATATGAGCTTGCAGCTTCTTCAGGCGCGTCTGCAGCGCGGCGTGCAGGCAGTTGGATGGGATTTCCGAAAGGCCAAAGGTCATGCCCAGCGGCTGCTGGCGTTCGTGCAg                                                                                                                                     <  1:450611/150‑1 (MQ=255)
                     gAGGGCGATCATCTGCGCGTCGACGTGCTGGCGAATATGAGCTTGCAGCTTCTTCAGGCGCGTCTGCAGCACGGCGTGCAGGCCGTTGGTGCGGATTTCCGAAAGGCCAAAGGTCATGCCCAGCGGCTGCTGGCGTTCGTGCAGGTCGAg                                                                                                                               <  2:364302/150‑1 (MQ=255)
                           gATCATCTGCGCGTCGACGTGCTGGCGAATATGAGCTTGCAGCTTCTTCAGGCGCGTCTGCAGCACGGCGTGCAGGCCGTTGGTGCGGATTTCCGAAAGGCCAAAGGTCATGCCCAGCGGCTGCTGGCGTTCGTGCAGGTCGAGGCCGTc                                                                                                                         <  2:341820/150‑1 (MQ=255)
                                tcTGCGCGTCGACGTGCTGGTGAATATGAGCTTGCAGCTTCTTCAGGCGCGTCTGCAGCACGGCGTGCAGGCCGTTGGTGCGGATTTCCGAAAGGCCAAAGGTCATGCCAAGCGGCTGCTGGCGGTCGGTCAGGACGAGGACGTCGaaaa                                                                                                                    >  2:498546/1‑149 (MQ=255)
                                    cgcgTCGACGTGCTGGCGAATATGAGCTTGCAGCTTCTTCAGGCGCGTCTGCAGCACGGCGTGCAGGCCGTTGGTGCGGATTTCCGAAAGGCCAAAGGTCATGCCCAGCGGCTGCTGGCGTTCGTGCAGGTCGAGGCCGTCGAAAGCCTg                                                                                                                <  1:548937/150‑1 (MQ=255)
                                     gcgTCGACGTGCTGGCGAATATGAGCTTGCAGCTTCTTCAGGCGCGTCTGCAGCACGGCGTGCAGGCCGTTGGTGCGGATTTCCGAAAGGCCAAAGGTCATGCCCAGCGGCTGCTGGCGTTCGTGCAGGTCGAGGCCGTCGAAAGCCTgg                                                                                                               <  1:690278/150‑1 (MQ=255)
                                           aCGTGCTGGCGAATATGAGCTTGCAGCTTCTTCAGGCGCGTCTGCAGCACGGCGTGCAGGCCGTTGGTGCGGATTTCCGAAAGGCCAAAGGTCATGCCCAGCGGCTGCTGGCGTTCGTGCAGGTCGAGGCCGTCGAAAGCCTGGCTGAAg                                                                                                         <  1:555921/150‑1 (MQ=255)
                                                        tatGAGCTTGCAGCTTCTTCAGGCGCGTCTGCAGCACGGCGTGCAGGCCGTTGGTGCGGATTTCCGAAAGGCCAAAGGTCATGCCCAGCGGCTGCTGGCGTTCGTGCAGGTCGAGGCCGTCGAAAGCCTGGCTGAAGCCCGGCAACTggt                                                                                            <  1:1206966/150‑1 (MQ=255)
                                                              cTTGCAGCTTCTTCAGGCGCGTCTGCAGCACGGCGTGCAGGCCGTTGGTGCGGATTTCCGAAAGGCCAAAGGTCATGCCCAGCGGCTGCTGGCGTTCGt                                                                                                                                         <  2:597124/99‑1 (MQ=255)
                                                              cTTGCAGCTTCTTCAGGCGCGTCTGCAGCACGGCGTGCAGGCCGTTGGTGCGGATTTCCGAAAGGCCAAAGGTCATGCCCAGCGGCTGCTGGCGTTCGt                                                                                                                                         >  1:597124/1‑99 (MQ=255)
                                                                      ttcttcAGGCGCGTCTGCAGCACGGCGTGCAGGCCGTTGGTGCGGATTTCCGAAAGACCAAAGGTCATGCCCAGCGGCTGCTGGCGTTCGTGCAGGTCGAGGCCGTCGAAAGCCTAGAAGTAGGCTGGCAACTGGTCGGTCTTGCTCAGc                                                                              >  2:755060/1‑150 (MQ=255)
                                                                       tcttcAGGCGCGTCTGCAGCACGGCGTGCAGTCCGTTGGTGCGGATTTCCGAAAGGCCAAAGGTCATGCCCAGCGGCTGCTGGCGTTCGTGCAGGTCGAGGCCGTCGAAAGCCTGGCTGAAGCCCGGCAACTGGTCGGTCTTGCTCAGCa                                                                             >  2:1137076/1‑150 (MQ=255)
                                                                        cttcAGGCGCGTCTGCAGCACGGCGTGCAGGCCGTTGGTGCGGATTTCCGAAAGGCCAAAGGTCATGCCCAGCGGCTGCTGGCGTTCGTGCAGGTCGAGGCCGTc                                                                                                                         <  1:220756/105‑1 (MQ=255)
                                                                        cttcAGGCGCGTCTGCAGCACGGCGTGCAGGCCGTTGGTGCGGATTTCCGAAAGGCCAAAGGTCATGCCCAGCGGCTGCTGGCGTTCGTGCAGGTCGAGGCCGTc                                                                                                                         >  2:220756/1‑105 (MQ=255)
                                                                          tcAGGCGCGTCTGCAGCACGGCGTGCAGGCCGTTGGTGCGGATTTCCGAAAGGCCAAAGGTCATGCCCAGCGGCTGCTGGCGTTCGTGCAGGTCGAGGCCGTCGAAAGCCTGGCTGAAGCCCGGCAACTGGTCGGTCTTGCTCAGCATCa                                                                          <  2:941438/150‑1 (MQ=255)
                                                                                gcgTCTGCAGCACGGCGTGCAGGCCGTTGGTGCGGATTTCCGAAAGGCCAAAGGTCATGCCCAGCGGCTGCTGGCGTTCGTGCAGGTCGAGGCCGTCGAAAGCCTGGCTGAAGCCCGGCAACTGGTCGGTCTTGCTCAGCATCAGGTaaa                                                                    >  2:1015730/1‑150 (MQ=255)
                                                                                          caCGGCGTGCAGGCCGTTGGTGCGGATTTCCGAAAGGCCAAAGGTCATGCCCAGCGGCTGCTGGCGTTCGTGCAGGTCGAGGCCGTCGAAAGCCTGGCTGAAGCCCGGCAACTGGTCGGTCTTGCTCAGCATCAGGTAAACCGGCGGGtt                                                          <  2:809583/150‑1 (MQ=255)
                                                                                           aCGGCGTGCAGGCCGTTGGTGCGGATTTCCGAAAGGCCAAAGGTCATGCCCAGCGGCTGCTGGCGTTCGTGCAGGTCGAGGCCGTCGAAAGCCTGGCTGAAGCCCGGCAACTGGTCGGTCTTGCTCAGCATCAGGTAAACCGGCGGGTTg                                                         >  2:1194513/1‑150 (MQ=255)
                                                                                                 tGCAGGCCGTTGGTGCGGATTCCCGAAAGGCCAAAGGTCATGCCCAGCGGCTGCTGGCGTTCGTGCAGGTCGAGGCCGTCGAAAGCCTGGCTGAAGcc                                                                                                       >  1:1134764/1‑98 (MQ=255)
                                                                                                 tGCAGGCCGTTGGTGCGGATTCCCGAAAGGCCAAAGGTCATGCCCAGCGGCTGCTGGCGTTCGTGCAGGTCGAGGCCGTCGAAAGCCTGGCTGAAGcc                                                                                                       <  2:1134764/98‑1 (MQ=255)
                                                                                                   cAGGCCGTTGGTGCGGATTTCCGAAAGGCCAAAGGTCATGCCCAGCGGCTGCTGGCGTTCGTGCAGGTCGAGGCCGTCGAAAGCCTGGCTGAAGCCCGGCAACTGGTCGGTCTTGCTCAGCATCAGGTAAACCGGCGGGTTGGCATCGAg                                                 <  2:487585/150‑1 (MQ=255)
                                                                                                     ggCCGTTGGTGCGGATTTCCGAAAGGCCAAAGGTCATGCCCAGCGGCTGCTGGCGTTCGTGCAGGTCGAGGCCGTCGAAAGCCTGGCTGAAGCCCGGCAACTGGTCGGTCTTGCTCAGCATCAGGTAAACCGGCGGGTTGGCATCGAGGc                                               >  1:239429/1‑150 (MQ=255)
                                                                                                         gTTGGTGCGGATTTCCGAAAGGCCAAAGGTCATGCCCAGCGGCTGCTGGCGTTCGTGCAGGTCGAGGCCGTCGAAAGCCTGGCTGAAGCCCGGCAACTGGTCGGTCTTGCTCAGCATCAGGTAAACCGGCGGGTTGGCATCGAGGCAt                                             <  2:917403/148‑1 (MQ=255)
                                                                                                         gTTGGTGCGGATTTCCGAAAGGCCAAAGGTCATGCCCAGCGGCTGCTGGCGTTCGTGCAGGTCGAGGCCGTCGAAAGCCTGGCTGAAGCCCGGCAACTGGTCGGTCTTGCTCAGCATCAGGTAAACCGGCGGGTTGGCATCGAGGCAt                                             >  1:917403/1‑148 (MQ=255)
                                                                                                           tGGTGCGGATTTCCGAAAGGCCAAAGGTCATGCCCAGCGGCTGCTGGCGTTCGTGCAGGTCGAGGCCGTCGAAAGCCTGGCTGAAGCCCGGCAACTGGTCGGTCTTGCTCAGCATCAGGTAAACCGGCGGGTTGGCATCGAGGCATTCgg                                         <  1:250361/150‑1 (MQ=255)
                                                                                                                     ttCCGAAAGGCCAAAGGTCATGCCCAGCGGCTGCTGGCGTTCGTGCAGGTCGAGGCCGTCGAAAGCCTGGCTGAAGCCCGGCAACTGGTCGGTCTTGCTCAGCATCAGGTAAACCGGCGGGTTGGCATCGAGGCATTCGGCGTAttcttc                               >  2:490043/1‑150 (MQ=255)
                                                                                                                         gAACGGCCAAAGGTCATGCCCAGCGGCTGCTGGCGTTCGTGCAGGTCGAGGCCGTCGAAAGCCTGGGTGAAGCCCGGCAACTGGTCGGTCTTGCTCAGCATCAGGTAAACCGGCGGGTTGGCATCGAGGCATTCGGCGTATTCTTCCAcc                           >  2:323205/1‑150 (MQ=255)
                                                                                                                            aGGCCAAAGGTCATGCCCAGCGGCTGCTGGCGTTCGTGCAGGTCGAGGCCGTCGAAAGCCTGGCTGAAGCCCGGCAACTGGTCGGTCTTGCTCAGCATCAGGTAAACCGGCGGGTTGGCATCGAGGCATTCGGCGTATTCTTCCACCCgg                        <  1:1194513/150‑1 (MQ=255)
                                                                                                                            aGGCCAAAGGTCATGCCCAGCGGCTGCTGGCGTTCGTGCAGGTCGAGGCCGTCGAAAGCCTGGCTGAAGCCCGGCAACTGGTCGGTCTTGCTCAGCATCAGGTAAACCGGCGGGTTGGCATCGAGGCATTCGGCGTATTCTTCCACCCgg                        <  1:323205/150‑1 (MQ=255)
                                                                                                                               ccAAAGGTCATGCCCAGCGGCTGCTGGCGTTCGTGCAGGTCGAGGCCGTCGAAAGCCTGGCTGAAGCCCGGCAACTGGTCGGTCTTGCTc                                                                                 <  2:220509/90‑1 (MQ=255)
                                                                                                                               ccAAAGGTCATGCCCAGCGGCTGCTGGCGTTCGTGCAGGTCGAGGCCGTCGAAAGCCTGGCTGAAGCCCGGCAACTGGTCGGTCTTGCTc                                                                                 >  1:220509/1‑90 (MQ=255)
                                                                                                                               ccAAAGCTCATGCCCAGCGCCTGCTGGCGTTCGTGCAGGTCGAGGCCGTCGAACGCCGGGCTGAAGCCCGGCAACTGGTCGGTCTTGCTCAGCATCAGGTAAACCGGCGGGTTGGCATCGAGGCATTCAGCGTATTCTTCCACCCGGGcc                     >  2:617925/1‑150 (MQ=255)
                                                                                                                                cAAAGGTCATGCCCAGCGGCTGCTGGCGTTCGTGCAGGTCGAGGCCGTCGAAAGCCTGGCTGAAGCCCGGCAACTGGTCGGTCTTGCTCAGCATCAGGTAAACCGGCGGGTTGGCATCGAGGCATTCGGCGTATTCTTCCACCCGGGcca                    >  1:931895/1‑150 (MQ=255)
                                                                                                                                      tCATGCCCAGCGGCTGCTGGCGTTCGTGCAGGTCGAGGCCGTCGAAAGCCTGGCTGAAGCCCGGCAACTGGTCGGTCTTGCTCAGCATCAGGTAAACCGGCGGGTTGGCATCGAGGCATTCGGCGTATTCTTCCACCCGGGCCACCAGCt              >  1:972659/1‑150 (MQ=255)
                                                                                                                                      tCAGGCCGAGCGGCTGCTGGCGTTCGTGCAGTTCGAGGCTGTCGAAAGCCTGGCTGAAGCCCGGCAACTGGTCGGTCTTGCTCAGCATCAGGTAAACCGGCGGGTTGGCATCGAGGCATTCGGCGTATTCTTCCACCCGGGCCACCAGCt              <  2:399917/150‑1 (MQ=255)
                                                                                                                                       gaacgccAGCAGCCGCTGGCGTTCGTGCAGGTCGAGGCCGTCGAAAGCCTGGCTGAAGCCCGGCAACTGGTCGGTCTTGCTCAGCATCAGGTAAACCGGCGGGTTGGCATCGAGGCATTCGGCGTATTCTTCCACCCGGGCCACCAGCTg             >  2:341952/6‑150 (MQ=255)
                                                                                                                                         acgccAGCAGCCGCTGGCGTTCGTGCAGGTCGAGGCCGTCGAAAGCCTGGCTGAAGCCCGGCAACTGGTCGGTCTTGCTCAGCATCAGGTAAACCGGCGGGTTGGCATCGAGGCATTCGGCGTATTCTTCCACCCGGGc                      >  1:1132729/4‑139 (MQ=255)
                                                                                                                                         acgccAGCAGCCGCTGGCGTTCGTGCAGGTCGAGGCCGTCGAAAGCCTGGCTGAAGCCCGGCAACTGGTCGGTCTTGCTCAGCATCAGGTAAACCGGCGGGTTGGCATCGAGGCATTCGGCGTATTCTTCCACCCGGGc                      <  2:1132729/136‑1 (MQ=255)
                                                                                                                                             cAGCTGCTGCTCGCGTTCGTGCAGGTCGAGGCCGGCGAAAGCCTGGCTGAAGCCCGGCAACTGGTCGGTCTTGCTCAGCATCAGGTAAACCGGCGGGTTGGCATCGAGGCATTCGGCGTATTCTTCCACCCGGGCCACCAGCTGGGCAGc       <  2:239429/150‑1 (MQ=255)
                                                                                                                                             cAGCGGCTGCTGGCGTTCGTGCAGGTCGAGGCCGTCGAAAGCCTGGCTGAAGCCCGGCAACTGGTCGGTCTTGCTCAGCATCAGGTAAACCGGCGGGTTGGCATCGAGGCATTCGGCGTATTCTTCCACCCGGGCCACCAGCTGGGCAGc       >  1:727982/1‑150 (MQ=255)
                                                                                                                                              aGCGGCTGCTGGCGTTCGTGCAGGTCGAGGCCGTCGAAAGCCTGGCTGAAGCCCGGCAACTGGTCGGTCTTGCTCAGCATCAGGTAAACCGGCGGGTTGGCATCGAGGCATTCGGCGTATTCTTCCACCCGGGCCACCAGCTGGGCAGcc      <  1:490043/150‑1 (MQ=255)
                                                                                                                                                  gctgctGGCGTTCGTGCAGGTCGAGGCCGTCGAAAGCCTGGCTGAAGCCCGGCAACTGGTCGGTCTTGCTCAGCATCAGGTAAACCGGCGGGTTGGCATCGAGGCATTCGGCGTATTCTTCCACCCGGGCCACCAGCTGGGCAGCCAggg  <  2:727982/150‑1 (MQ=255)
                                                                                                                                                    |                                                                                                                                                   
GGTGCTGTCGGCTTCGGCACCGAGGGCGATCATCTGCGCGTCGACGTGCTGGCGAATATGAGCTTGCAGCTTCTTCAGGCGCGTCTGCAGCACGGCGTGCAGGCCGTTGGTGCGGATTTCCGAAAGGCCAAAGGTCATGCCCAGCGGCTGCTGGCGTTCGTGCAGGTCGAGGCCGTCGAAAGCCTGGCTGAAGCCCGGCAACTGGTCGGTCTTGCTCAGCATCAGGTAAACCGGCGGGTTGGCATCGAGGCATTCGGCGTATTCTTCCACCCGGGCCACCAGCTGGGCAGCCAGGG  >  NC_002947/3484998‑3485293

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑