Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 5,490,780 G→C 9.8% S17R (AGC→AGG)  PP_5714 ← hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029475,490,7800GC 9.8% 150.4 / 7.0 51S17R (AGC→AGG) PP_5714hypothetical protein
Reads supporting (aligned to +/- strand):  ref base G (24/22);  new base C (3/2);  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 = 9.06e-01

GCAAGGTTACGCCAGTAGTTCCTGAACCAGTCCGGCTCCAGGCCTTCGTTGAAGTCCCCCCAGGCAACTTGCTGGGCAAACGCATTGGCCAACAGGATGTCGTCACGGGCTTCGCGACTAACACCTGGCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAACTCACTCATTTTCGACTCCTGAGGTAGTGGCAAGTTTGACCTGGCTGCGGTACTGCAATTGCTTGACCTTGATAGCGTCATGCAAGCCCGGACTTATCGAACTGA  >  NC_002947/5490637‑5490926
                                                                                                                                               |                                                                                                                                                  
gCAAGGTTACGCCAGTAGTTCCTGAACCAGTCCGGCTCCAGGCCTTCGTTGAAGTCCCCCCAGGCAACTTGCTGGGCAAACGCATTGGCCACCACGGAGACGGCCCCTGCTAGTGCTCCAACACGTGGCAAGAATTTCAGCAGGctgctg                                                                                                                                              >  2:374136/1‑150 (MQ=255)
gCAAGGTTACGCCAGTAGTTCCTGAACCAGTCCGGCTCCAGGCCTTCGTTGAAGTCCCCCCAGGCAACTTGCTGGGCAAACGCATTGGCCAACAGGATGTCGTCACGGGCTTCGCGACTAACACCTGGCAAGAATGACAGCAGGctgctg                                                                                                                                              >  1:1155464/1‑150 (MQ=255)
  aaGGTTACGCCAGTAGTTCCTGAACCAGTCCGGCTCCAGGCCTTCGTTGAAGTCCCCCCAGGCAACTTGCTGGGCAAACGCATTGGCCAACAGGATGTCGTCACGGGCTTCGCGACTAACACCTGGCAAGAATGACAGCAGGCTGCtgtg                                                                                                                                            >  1:1370224/1‑150 (MQ=255)
    ggTTACGCCAGTAGTTCCTGAACCAGTCCGGCTCCAGGCTTTCGTTGAAGTCCCCCCAGGCAACTTGCTGGGCAAACGCATTGGCCAACAGGATGTCGTCACGGGCTTCGCGACTAACACCTGGCAAGAATGACAGCAGGCTGCTGTGGa                                                                                                                                          <  1:372601/150‑1 (MQ=255)
                    ccTGAACCAGTCCGGCTCCAGGCCTTCGTTGAAGTCCCCCCAGGCAACTTGCTGGGCAAACGCATTGGCCAACAGGATGTCGTCACGGGCTTCGCGACTAACACCTGGCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGCCACTggc                                                                                                                          <  1:717381/150‑1 (MQ=255)
                      tGAACCAGTCCGGCTCCAGGCCTTCGTTGAAGTCCCCCCAGGCAACTTGCTGGGCAAACGCATTGGCCAACAGGATGTCGTCACGGGCTTCGCGACTAACACCTGGCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGCCACTggcgg                                                                                                                        >  2:143600/1‑150 (MQ=255)
                                cGGCTCCAGGCCTTCGTTGAAGTCCCCCCAGGCAACTTGCTGGGCAAACGCATTGGCCAACAGGATGTCGTCACGGGCTTCGCGACTAACACCTGGCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCttgatt                                                                                                              <  1:877373/150‑1 (MQ=255)
                                   cTCCAGGCCTTCGTTGAAGTCCCCCCAGGCAACTTGCTGGGCAAACGCATTGGCCAACAGGATGTCGTCACGGGCTTCGCGACTAACACCTGGCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGCCACTGGCCTCACCTTGATTGaa                                                                                                           <  2:1155464/150‑1 (MQ=255)
                                    tCCAGGCCTTCGTTGAAGTCCCCCCAGGCAACTTGCTGGGCAAACGCATTGGCCAACAGGATGTCGTCACGGGCTTCGCGACTAACACCTGGCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCttgatt                                                                                                              >  1:839556/1‑146 (MQ=255)
                                    tCCAGGCCTTCGTTGAAGTCCCCCCAGGCAACTTGCTGGGCAAACGCATTGGCCAACAGGATGTCGTCACGGGCTTCGCGACTAACACCTGGCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCttgatt                                                                                                              <  2:839556/146‑1 (MQ=255)
                                    tCCAGGCCTTCGTTGAAGTCCCCCCAGGCAACTTGCTGGGCAAACGCATTGGCCAACAGGATGTCGTCACGGGCTTCGCGACTAACACCTGGCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAac                                                                                                          <  2:1329228/150‑1 (MQ=255)
                                           cTTCGTTGAAGTCCCCCCAGGCAACTTGCTGGGCAAACGCATTGGCCAACAGGATGTCGTCACGGGCTTCGCGACTAACACCTGGCAAGAATGACAGCAGGCTGCTGTGGACGa                                                                                                                                       <  2:950835/114‑1 (MQ=255)
                                           cTTCGTTGAAGTCCCCCCAGGCAACTTGCTGGGCAAACGCATTGGCCAACAGGATGTCGTCACGGGCTTCGCGACTAACACCTGGCAAGAATGACAGCAGGCTGCTGTGGACGa                                                                                                                                       >  1:950835/1‑114 (MQ=255)
                                            ttCGTTGAAGTCCCCCCAGGCAACTTGCTGGGCAAACGCATTGGCCAACAGGATGTCGTCACGGGCTTCGCGACTAACACCTGGCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAACTCACTCAt                                                                                                  >  2:784081/1‑150 (MQ=255)
                                                    aGTCCCCCCAGGCAACTTGCTGGGCAAACGCATTGGCCAACAGGATGTCGTCACGGGCTTCGCGACTAACACCTGGCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAactcac                                                                                                      <  2:486241/138‑1 (MQ=255)
                                                    aGTCCCCCCAGGCAACTTGCTGGGCAAACGCATTGGCCAACAGGATGTCGTCACGGGCTTCGCGACTAACACCTGGCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAactcac                                                                                                      >  1:486241/1‑138 (MQ=255)
                                                     gTCCCCCCAGGCAACTTGCTGGGCAAACGCATTGGCCAACAGGATGTCGTCACGGGCTTCGCGACTAACACCTGGCAAGAATGACAGCAGCCTGCtgtcat                                                                                                                                          >  2:1124241/1‑98 (MQ=255)
                                                     gTCCCCCCAGGCAACTTGCTGGGCAAACGCATTGGCCAACAGGATGTCGTCACGGGCTTCGCGACTAACACCTGGCAAGAATGACAGCAGCCTGCtgtcat                                                                                                                                          <  1:1124241/101‑4 (MQ=255)
                                                      tCCCCCCAGGCAACTTGCTGGGCAAACGCATTGGCCAACAGGATGTCGTCACGGGCTTCGCGACTAACACCTGGCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAACTCACTCATTTTCGACTcc                                                                                        >  1:164861/1‑150 (MQ=255)
                                                      tCCCCCCAGCCAACTTGCTGGGCAAACGCATTGGCCAACAGGATGTCGTCACGGGCTTCGCGACTAACACCTGGCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAACTCACTCATTTTCGACTcc                                                                                        >  2:1063588/1‑150 (MQ=255)
                                                         ccccAGGCAACTTGCTGGGCAAACGCATTGGCCAACAGGATGTCGTCACGGGCTTCGCGACTAACACCTGGCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAACTCACTCATTTTCGACTCCTGa                                                                                     >  2:997508/1‑150 (MQ=255)
                                                               gCAACTTGCTGGGCAAACGCATTGGCCAACAGGATGTCGTCACGGGCTTCGCGACTAACACCTGGCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAACTCACTCATTTTCGACTCCTGAGGTAGt                                                                               <  1:143600/150‑1 (MQ=255)
                                                                cAACTTGCTGGGCAAACGCATTGGCCAACAGGATGTCGTCACGGGCTTCGCGACTAACACCTGGCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAACTCACTCATTTTCGACTCCTGAGGTAGTg                                                                              <  2:1311861/150‑1 (MQ=255)
                                                                    ttGCTGGGCAAACGCATTGGCCAACAGGATGTCGTCACGGGCTTCGCGACTAACACCTGGCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAACTCACTCATTTTCGACTCCTGAGGTAGTGGCaa                                                                          <  2:466653/150‑1 (MQ=255)
                                                                      gCTGGGCAAACGCATTGGCCAACAGGATGTCGTCACGGATGCCTAGACTAACACCTGGCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAACTCACTCATTTTCGACTCCTGAGGTAGTGGCAAGt                                                                        <  1:374136/150‑1 (MQ=255)
                                                                                  cATTGGCCAACAGGATGTCGTCACGGGCTTCGCGACTAACACCTGGCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGcc                                                                                                                                >  1:1037977/1‑82 (MQ=255)
                                                                                  cATTGGCCAACAGGATGTCGTCACGGGCTTCGCGACTAACACCTGGCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGcc                                                                                                                                <  2:1037977/82‑1 (MQ=255)
                                                                                         cAACAGGATGTCGTCACGGGCTTCGCGACTAACACCTGGCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAACTCACTCATTTTCGACTCCTGAGGTAGTGGCAAGTTTGACCTGGCTGCGGTACt                                                     >  1:189650/1‑150 (MQ=255)
                                                                                          aaCAGGATGTCGTCACGGGCTTCGCGACTAACACCTGGCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAACTCACTCATTTTCGACTCCTGAGGTAGTGGCaa                                                                          >  2:1233298/1‑128 (MQ=255)
                                                                                          aaCAGGATGTCGTCACGGGCTTCGCGACTAACACCTGGCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAACTCACTCATTTTCGACTCCTGAGGTAGTGGCaa                                                                          <  1:1233298/128‑1 (MQ=255)
                                                                                           aCAGGATGTCGTCACGGGCTTCGCGACTAACACCTGGCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGaa                                                                                                           >  1:432344/1‑94 (MQ=255)
                                                                                           aCAGGATGTCGTCACGGGCTTCGCGACTAACACCTGGCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGaa                                                                                                           <  2:432344/94‑1 (MQ=255)
                                                                                                      tcACGGGCTTCGCGACTAACACCTGGCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAACTCACTCATTTTCGACTCCTGAGGTAGTGGCAAGTTTGACCTGGCTGCGGTACTGCAATTGCTTGAc                                        >  2:1237140/1‑150 (MQ=255)
                                                                                                      tcACGGGCTTCGCGACTAACACCTGGCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAACTCACTCATTTTCGACTCCTGAGGTAGTGGCAAGTTTGACCTGGCTGCGGTACTGCAATTGCTTGAc                                        <  1:1063588/150‑1 (MQ=255)
                                                                                                            gCTTCGCGACTAACAACTGGCAAGAATGGCTGGTGGTCGGGGGGGACGAGTTTGCCACTGGCGGCACCTTGATTGAACTCGCTCACTTTCGACTCCTGAGGTAGTGGCAAGCTTGACCTGGCTGCGGTACTGCAATTGCTTGACCTTGAt                                  <  2:824642/150‑1 (MQ=255)
                                                                                                                        acacCTGGCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAACTCACTCATTTTCGACTCCTGAGGTAGTGGCAAGTTTGACCTGTCTGCGGTACTGCAATTGCTTGACCTTGATAGCGTCATGCaa                      >  2:489459/1‑150 (MQ=255)
                                                                                                                          acCTGGCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAACTCACTCATTTTCGACTCCTGAGGTAGTGGCAAGTTTGACCTGGCTGCGGTACTGCAATTGCTTGACCTTGATAGCGTCATGCAAGc                    >  2:702051/1‑150 (MQ=255)
                                                                                                                            cTGGCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAACTCACTCATTTTCGACTCCTGAGGTAGTGGCAAGTTTGACCTGGCTGCGGTACTGCAATTGCTTGCCCTGGATAGCGTCATGCAAGccc                  >  1:73924/1‑150 (MQ=255)
                                                                                                                             tGGCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAACTCACTCATTTTCGACTCCTGAGGTAGTGGCAAGTTTGAc                                                                   <  2:1171894/100‑1 (MQ=255)
                                                                                                                             tGGCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAACTCACTCATTTTCGACTCCTGAGGTAGTGGCAAGTTTGAc                                                                   >  1:1171894/1‑100 (MQ=255)
                                                                                                                               gCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAACTCACTCATTTTCGACTCCTGAGGTAGTGGCAAGTTTGACCTGGCTGCgg                                                         <  2:394968/108‑1 (MQ=255)
                                                                                                                               gCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAACTCACTCATTTTCGACTCCTGAGGTAGTGGCAAGTTTGACCTGGCTGCgg                                                         >  1:394968/1‑108 (MQ=255)
                                                                                                                               gCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAACTCACTCATTTTCGACTCCTGAGGTAGTGGCAAGTTTGACCTGGCTGCGGTACTGCAATTGCTTGACCTTGATAGCGTCATGCAAGCCCGGa               <  2:189650/150‑1 (MQ=255)
                                                                                                                                    aaTGACAGCAGGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAACTCACTCATTTTCGACTCCTGAGGTAGTGGCAAGTTTGACCTGGCTGCGGTACTGCAATTGCTTGACCTTGATAGCGTCATGCAAGCCCGGACTTAt          >  2:482105/1‑150 (MQ=255)
                                                                                                                                     tccaCAGCAGCCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAACTCACTCATTTTCGACTCCTGAGGTAGTGGCAAGTTTGACCTGGCTGCGGTACTGCAATTGCTTGACCTTGATAGCGTCAt                          <  2:794209/130‑1 (MQ=255)
                                                                                                                                     tccaCAGCAGCCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAACTCACTCATTTTCGACTCCTGAGGTAGTGGCAAGTTTGACCTGGCTGCGGTACTGCAATTGCTTGACCTTGATAGCGTCAt                          >  1:794209/4‑133 (MQ=255)
                                                                                                                                     tccaCAGCAGCCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAACTCACTCATTTTCGACTCCTGAGGTAGTGGCAAGTTTGACCTGGCTGCGGTACTGCAATTGCTTGACCTTGATAGCGTCATGCAAGCCCGGACTTATc         >  2:715095/4‑150 (MQ=255)
                                                                                                                                      tGACAGCAGGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAACTCACTCATTTTCGACTCCTGAGGTAGTGGCAAGTTTGACCTGGCTGCGGTACTGCAATTGCTTGACCTTGATAGCGTCATGCAAGCCCGGACTTATCg        >  2:708165/1‑150 (MQ=255)
                                                                                                                                         cagcagGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAACTCACTCATTTTCGACTCCTGAGGTAGTGGCAAGTTTGACCTGGCTGCGGTACTGCAATTGCTTGACCTTGATAGCGTCATGCAAGCCCGGACTTATCGAAc     <  1:1237140/150‑1 (MQ=255)
                                                                                                                                          agcagGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAACTCACTCATTTTCGACTCCTGAGGTAGTGGCAAGTTTGACCTGGCTGCGGTACTGCAATTGCTTGACCTTGATAGCGTCATGCAAGCCCGGACTTATCGAACt    >  1:443339/1‑150 (MQ=255)
                                                                                                                                            cagGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAACTCACTCATTTTCGACTCCTGAGGTAGTGGCAAGTTTGACCTGGCTGCGGTACTGCAATTGCTTGACCTTGATAGCGTCATGCAAGCCCGGACTTATCGAACTGa  <  2:73924/150‑1 (MQ=255)
                                                                                                                                               gctgctGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAACTCACTCATTTTCGACTCCTGAGGTAGTGGCAAGTTTGACCTGGCTGCGGTACTGCAATTGCTTGACCTTGATAGCGTCATGCAAGCCCGGACTTATc         <  1:1251538/140‑1 (MQ=255)
                                                                                                                                               gctgctGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAACTCACTCATTTTCGACTCCTGAGGTAGTGGCAAGTTTGACCTGGCTGCGGTACTGCAATTGCTTGACCTTGATAGCGTCATGCAAGCCCGGACTTATc         >  2:1251538/1‑140 (MQ=255)
                                                                                                                                               |                                                                                                                                                  
GCAAGGTTACGCCAGTAGTTCCTGAACCAGTCCGGCTCCAGGCCTTCGTTGAAGTCCCCCCAGGCAACTTGCTGGGCAAACGCATTGGCCAACAGGATGTCGTCACGGGCTTCGCGACTAACACCTGGCAAGAATGACAGCAGGCTGCTGTGGACGAGTTTGCCACTGGCGGCACCTTGATTGAACTCACTCATTTTCGACTCCTGAGGTAGTGGCAAGTTTGACCTGGCTGCGGTACTGCAATTGCTTGACCTTGATAGCGTCATGCAAGCCCGGACTTATCGAACTGA  >  NC_002947/5490637‑5490926

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑