Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 1,132,165 C→T 8.0% A52T (GCA→ACA)  PP_0992 ← hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029471,132,1650CT 8.0% 135.2 / 3.1 50A52T (GCA→ACA) PP_0992hypothetical protein
Reads supporting (aligned to +/- strand):  ref base C (24/22);  new base T (2/2);  total (26/24)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.24e-01

GACCAGGCCAGGTGCTCTGATACCAGTACCGGTTCGATCTGATCGCACAGTGCGCGCAGACGCTGCAGATGGTCCTGATCGGGGGCCGCGTCAGCCGCAAGCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTCCGGGTGAACTTCAAACCAGAGCCCTTCGAGATTGCACGCCAGCGCCTGGTCGTAGTGCTCGGCCTTCAGGCTGACTCCGGCGCCCATTCGTGCGTCTGT  >  NC_002947/1132023‑1132312
                                                                                                                                              |                                                                                                                                                   
gACCAGGCCAGGTGCTCTGATACCAGTACCGGTTCGATCTGATCGCACAGTGCGCGCAGACGCTGCAGATGGTCCTGATCGGGGGCCGCGTCAGCCGCAAGCGACAGTACCATCCGAAGCAATGAGACCGGGTGCCGCTCTGCGATTCgg                                                                                                                                              >  2:89166/1‑150 (MQ=255)
  ccaggccaggTGCTGTGATACCAGTACCGGTTCGATCTGATCGCACAGTGCGCGCAGACGCTGCAGATGGTCCTGATCGGGGGCCGCGTCAGCCGCAAGCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGATCTGCGATTCGGtt                                                                                                                                            >  1:266692/1‑150 (MQ=255)
      gccaggTGCTCTGATACCAGTACCGGTTCGATCTGATCGCACAGTGCGCGCAGACGCTGCAGATGGTCCTGATCGGGGGCCGCGTCAGCCGCAAGCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGCGATTCGGTTGAGc                                                                                                                                        >  1:743680/1‑150 (MQ=255)
             gCTCTGATACCAGTACCGGTTCGATCTGATCGCACAGTGCGCGCAGACGCTGCAGATGGTCCTGATCGGGGGCCGCGTCAGCCGCAAGCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGTGATTCGGTTCAGCCAGGCaa                                                                                                                                 >  2:942528/1‑150 (MQ=255)
              ctctGATACCAGTACCGGTTCGATCTGATCGCACAGTGCGCGCAGACGCTGCAGATGGTCCTGATCGGGGGCCGCGTCAGCCGCAAGCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGCGATTCGGTTCAGCCAGGCAAg                                                                                                                                <  1:685123/150‑1 (MQ=255)
                         gTACCGGTTCGATCTGATCGCACAGTGCGCGCAGACGCTGCAGAAGATTCTGATCGGGGGCCGCGTCAGCCGCAAGCGAAAGTGCCACACCATGCAATGAGACCGGGCGCCGCTCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCAc                                                                                                                     <  1:965994/150‑1 (MQ=255)
                          tACCGGTTCGATCTGATCGCACAGTGCGCGCAGACGCTGCAGATGGTCCTGATCGGGGGCCGCGTCAGCCGCAAGCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGATCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCAcc                                                                                                                    <  2:266692/150‑1 (MQ=255)
                               gTTCGATCTGATCGCACAGTGCGCGCAGACGCTGCAGATGGTCCTGATCGGGGGCCGCGTCAGCCGCAAGCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGCGCTTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCa                                                                                                               >  2:901772/1‑150 (MQ=255)
                                   gATCTGATCGCACAGTGCGCGCAGACGCTGCAGATGGTCCTGATCGGGGGCCGCGTCAGCCGCAAGCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTa                                                                                                           <  2:51739/150‑1 (MQ=255)
                                   gATCTGATCGCACAGTGCGCGCAGACGCTGCAGATGGTCCTGATCGGGGGCCGCGTCAGCCGCAAGCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGCGATTAGATGCAGCCAGGCAAGGCGAGGGCCACCGACCATGTa                                                                                                           <  1:89166/150‑1 (MQ=255)
                                       tGATCGCACAGTGCGCGCAGACGCTGCAGATGGTCCTGATCGGGGGCCGCGTCAGCCGCAAGCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTa                                                                                                           <  2:1023047/146‑1 (MQ=255)
                                       tGATCGCACAGTGCGCGCAGACGCTGCAGATGGTCCTGATCGGGGGCCGCGTCAGCCGCAAGCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTa                                                                                                           >  1:1023047/1‑146 (MQ=255)
                                          tCGCACAGTGCGCGCAGACGCTGCAGATGGTCCTGATCGGGGGCCGCGTCAGCCGCAAGCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTcc                                                                                                    >  1:218963/1‑150 (MQ=255)
                                            gCACAGTGCGCGCAGACGCTGCAGATGGTCCTGATCGGGGGCCGCGTCAGCCGCAAGCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGTGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTGCTCCgg                                                                                                  <  1:942528/150‑1 (MQ=255)
                                            gCACAGTGCGCGCAGACGCTGCAGATGGTCCTGATCGGGGGCCGCGTCAGCCGCAAGCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCAc                                                                                                                     >  2:693234/1‑131 (MQ=255)
                                            gCACAGTGCGCGCAGACGCTGCAGATGGTCCTGATCGGGGGCCGCGTCAGCCGCAAGCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCAc                                                                                                                     <  1:693234/131‑1 (MQ=255)
                                            gCACAGTGCGCGCAGACGCTGCAGATGGTCCTGATCGGGGGCCGCGTCAGCCGCAAGCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTCCgg                                                                                                  >  1:604806/1‑150 (MQ=255)
                                             cacaGTGCGCGCAGACGCTGCAGATGGTCCTGATCGGGGGCCGCGTCAGCCGCAAGCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTCCggg                                                                                                 >  1:273262/1‑150 (MQ=255)
                                              acaGTGCGCGCAGACGCTGCAGATGGTCCTGATCGGGGGCCGCGTCAGCCGCAAGCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTCCGGGt                                                                                                >  2:468058/1‑150 (MQ=255)
                                                         aGACGCTGCAGATGGTCCTGATCGGGGGCCGCGTCAGCCGCAAGCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTCCGGGTGAACTTCAAAc                                                                                     <  1:702015/150‑1 (MQ=255)
                                                               tGCAGATGGTCCTGATCGGGGGCCGCGTCAGCCGCAAGCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTCCGGGTGAACTTCaaa                                                                                      <  1:970432/143‑1 (MQ=255)
                                                               tGCAGATGGTCCTGATCGGGGGCCGCGTCAGCCGCAAGCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTCCGGGTGAACTTCaaa                                                                                      >  2:970432/1‑143 (MQ=255)
                                                                          cTGATCGGGGGCCGCGTCAGCCGCAAGCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTCCGGGTGAACTTCAAACCAGAGCCCTTCGAGAtt                                                                    >  2:117587/1‑150 (MQ=255)
                                                                          cTGATCGGGGGCCGCGTCAGCCGCAAGCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTCCGGGTGAACTTCAAACCAGAGCCCTTCGAGAtt                                                                    <  2:218963/150‑1 (MQ=255)
                                                                             aTCGGGGGCCGCGTCAGCCGCAAGCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTCCGGGTGAACTTCAAACCAGAGCCCTTCGAGATTGCa                                                                 >  1:427867/1‑150 (MQ=255)
                                                                                   ggCCGCGTCAGCCGCAAGCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGCGATTAGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTCCGGGTGAACTTCAAACCAGAGCCCTTCGAGATTGCACGCCAg                                                           >  1:80711/1‑150 (MQ=255)
                                                                                         gTCAGCCGCAAGCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGTGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTCCGGGTGAACTTCAAACCAGAGCCCTTCGAGATTg                                                                   >  1:1032293/1‑136 (MQ=255)
                                                                                         gTCAGCCGCAAGCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGTGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTCCGGGTGAACTTCAAACCAGAGCCCTTCGAGATTg                                                                   <  2:1032293/136‑1 (MQ=255)
                                                                                         gTCAGCCGCAAGCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTCCGGGTGAACTTCAAACCAGAGCCCTTCGAGATTGCACGCCAGCGCCTg                                                     <  2:273262/150‑1 (MQ=255)
                                                                                            aGCCGCAAGCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTCCGGGTGAACTTCAAACCAGAGCCCTTCGAGATTGCACGCCAGCGCCTGGTc                                                  <  2:427867/150‑1 (MQ=255)
                                                                                             gCCGCAAGCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTCCGGGTGAACTTCAAACCAGAGCCCTTCGAGATTGCACGCCAGCGCCTGGTCg                                                 <  1:963461/150‑1 (MQ=255)
                                                                                               cGCAAGCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTCCGGGTGAACTTCAAACCAGAGCCCTTCGAGATTGCACGCCAGTGCCTGGTCGTa                                               >  1:201467/1‑150 (MQ=255)
                                                                                               cGCAAGCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTCCGGGTGAACTTCAAACCAGAGCCCTTCGAGATTGCACGCCAGCGCCTGGTCGTa                                               <  1:593022/150‑1 (MQ=255)
                                                                                                gCAAGCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCCCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTCCGGGTGAACTTCAAACCAGAGCCCTTCGAGATTGCACGCCAGCGCCTGGTCGTAg                                              <  1:8389/150‑1 (MQ=255)
                                                                                                   aGCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTCCGGGTGAACTTCAAACCAGAGCCCTTCGAGATTGCACGCCAGCGCCTGGTCGTAGTGc                                           >  1:269327/1‑150 (MQ=255)
                                                                                                    gCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTCCGGGTGAACTTCAAACCAGAGCCCTTCGAGATTGCACGCCAGCGCCTGGTCGTAGTGCt                                          >  1:229696/1‑150 (MQ=255)
                                                                                                      gAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTCCGGGTGAACTTCAAACCAGAGCCCTTCGAGATTGCACGCCAGCGCCTGGTCGTAGTGCTCg                                        >  1:374841/1‑150 (MQ=255)
                                                                                                      gAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTCCGGGTGAACTTCAAACCAGAGCCCTTCGAGATTGCACGCCAGCGCCTGGTCGTAGTGCTCg                                        >  1:1055927/1‑150 (MQ=255)
                                                                                                         aGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTCCGGGTGAACTTCAAACCAGAGCCCTTCGAGATTGCACGCCAGCGCCTGGTCGTAGTGCTCNGcc                                     <  2:695457/150‑1 (MQ=255)
                                                                                                          gTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTCCGGGTGAACTTCAAACCAGAGCCCTTCgaga                                                                      <  2:281368/116‑1 (MQ=255)
                                                                                                          gTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTCCGGGTGAACTTCAAACCAGAGCCCTTCgaga                                                                      >  1:281368/1‑116 (MQ=255)
                                                                                                                cacCATGCAATGAGACCGGGTGCCGCTCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTCCGGGTGAACTTCAAACCAGAGCCCTTCGAGATTGCACGCCAGCGCCTGGTCGTAGTGCTCGGCCTTCAGGc                              <  1:468058/150‑1 (MQ=255)
                                                                                                                    ttGCAATGAGACCGGGTGCCGCTCTGCTATTCGGGTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTCCGGGTGAACTTCAAACCAGAGCCCTTCGAGATTGCACGCCAGCGCCTGGTCGTAGTGCTCGGCCTTCAGGCTGAc                          <  1:325842/149‑1 (MQ=255)
                                                                                                                      gCAATGAGACCGGGTGCCGCTCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTCCGGGTGAACTTCAAACCAGAGCCCTTCGAGATTGCACGCCAGCGCCTGGt                                                   <  1:957979/123‑1 (MQ=255)
                                                                                                                      gCAATGAGACCGGGTGCCGCTCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTCCGGGTGAACTTCAAACCAGAGCCCTTCGAGATTGCACGCCAGCGCCTGGt                                                   >  2:957979/1‑123 (MQ=255)
                                                                                                                          tGAGACCGGGTGCCGCTGCGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGCCCATGTAGTTCTCCGGGTGAACTTCAAACCAGAGCCCTTCGAGATTGCACGCCAGCGCCTCGTTTTAGTGGTCGGGCTTCCGGCTGACTCCGgc                    <  2:42585/150‑1 (MQ=255)
                                                                                                                             gaCCGGGTGCCGCTCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTCCGGGTGAACTTCAAACCAGAGCCCTTCGAGATTGCACGCCAGCGCCTGGTCGTAGTGCTCGGCCTTCAGGCTGACTCCGGCGcc                 >  2:432631/1‑150 (MQ=255)
                                                                                                                                   gTGCCGCTCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTCCGGGTGAACTTCAAACCAGAGCCCTTCGAGATTGCACGCCAGCGCCTGGTCGTAGTGCTCGGCCTTCAGGCTGACTCCGGCGCCCATTCg           <  2:414128/150‑1 (MQ=255)
                                                                                                                                          tctGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTCCGGGTGAACTTCAAACCAGAGCCCTTCGAGATTGCACGCCAGCGCCTGGTCGTAGTGCTCGGCCTTCAGGCTGACTCCGGCGCCCATTCGTGCGTCt    >  1:749545/1‑150 (MQ=255)
                                                                                                                                            tGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTCCGGGTGAACTTCAAACCAGAGCCCTTCGAGATTGCACGCCAGCGCCTGGTCGTAGTGCTCGGCCTTCAGGCTGACTCCGGCGCCCATTCGTGCGTCtgt  >  1:628038/1‑150 (MQ=255)
                                                                                                                                              |                                                                                                                                                   
GACCAGGCCAGGTGCTCTGATACCAGTACCGGTTCGATCTGATCGCACAGTGCGCGCAGACGCTGCAGATGGTCCTGATCGGGGGCCGCGTCAGCCGCAAGCGAAAGTGCCACACCATGCAATGAGACCGGGTGCCGCTCTGCGATTCGGTTCAGCCAGGCAAGGCGAGGGCCACCGACCATGTAGTTCTCCGGGTGAACTTCAAACCAGAGCCCTTCGAGATTGCACGCCAGCGCCTGGTCGTAGTGCTCGGCCTTCAGGCTGACTCCGGCGCCCATTCGTGCGTCTGT  >  NC_002947/1132023‑1132312

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: ‑