Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 4,687,964 A→G 7.3% I314V (ATC→GTC)  PP_4148 → ABC transporter permease

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029474,687,9640AG 7.3% 152.4 / 3.2 55I314V (ATC→GTC) PP_4148ABC transporter permease
Reads supporting (aligned to +/- strand):  ref base A (24/27);  new base G (2/2);  total (26/29)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.33e-01

CGGCCACGTGTTCCGCAACGCCATGCTGCTGGTGATCGCCGGCTTCCCCTCGGCGTTCATCGGCATCTTCTTCACAGGCTCCTTGCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGTTCATCTTCACCCTGCTAGGGCTGGTGGTGAAACTGATCGGCGACCTGACCTACACCTTGGTCGATCCGCGCATCGACTTTGCCAGCCGGGAGCACTGACATGGCCTTGTCC  >  NC_002947/4687822‑4688111
                                                                                                                                              |                                                                                                                                                   
cGGCCACGTGTTCCGCAACGCCATGCTGCTGGTGATCGCCGGCTTCCCCTCGGCGTTCATCGGCATCTTCTTCACAGGCTCCTTGCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAAc                                                                                                                                                <  2:112206/148‑1 (MQ=255)
 ggCCACGTGTTCCGCAACGCCATGCTGCTGGTGATCGCCGGCTTCCCCTCGGCGTTCATCGGCATCTTCTTCACAGGCTCCTTGCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACcg                                                                                                                                              >  6:79007/1‑149 (MQ=255)
  gCCACGTGTTCCGCCACGCCATGCTGCTGGTGATCGCCGGCTTCCCCTCGTCGTTCATCGGCATCTTCTTCACAGGCGCCTTGCTGATCGAGGTGATCTTCAGCCTCGACGGCATGGGCCTGATGAGTTTCGAAGCGTCCATCAACcgc                                                                                                                                             <  6:319402/149‑1 (MQ=39)
        tgtTCCGCAACGCCATGCTGCTGGTGATCGCCGGCTTCCCCTCGGCGTTCATCGGCATCTTCTTCACAGGCTCCTTGCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTAc                                                                                                                                       <  6:73918/149‑1 (MQ=255)
              gCAACGCCATGCTGCTGGTGATCGCCGGCTTCCCCTCGGCGTTCATCGGCATCTTCTTCACAGGCTCCTTGCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCggtg                                                                                                                                 <  5:79007/149‑1 (MQ=255)
              gCAACGCCATGCTGCTGGTGATCGCCGGCTTCCCCTCGGCGTTCATCGGCATCTTCTTCACAGGCTCCTTGCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCggtg                                                                                                                                 <  2:202097/149‑1 (MQ=255)
              gCAACGCCATGCTGCTGGTGATCGCCGGCTTCCCCTCGGCGTTCATCGGCATCTTCTTCACAGGCTCCTTGCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACACggtg                                                                                                                                 <  1:365839/149‑1 (MQ=255)
                    ccATGCTGCTGGTGATCGCCGGCTTCCCCTCGGCGTTCATCGGCATCTTCTTCACAGGCTCCTTGCTGATCGAGGTGTTCTTCAGCCTCGAGGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTc                                                                                                                           <  1:251313/149‑1 (MQ=255)
                    ccATGCTGCTGGTGATCGCCGGCTTCCCCTCGGCGTTCATCGGCATCTTCTTCACAGGCTCCTTGCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTc                                                                                                                           >  5:264246/1‑149 (MQ=255)
                     cATGCTGCTGGTGATCGCCGGCTTCCCCTCGGCGTTCATCGGCATCTTCTTCACAGGCTCCTTGCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTCg                                                                                                                          >  1:56982/1‑149 (MQ=255)
                            ctgGTGATCGCCGGCTTCCCCTCGGCGTTCATCGGCATCTTCTTCACAGGCTCCTTGCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTc                                                                                                                           >  3:263829/1‑141 (MQ=255)
                            ctgGTGATCGCCGGCTTCCCCTCGGCGTTCATCGGCATCTTCTTCACAGGCTCCTTGCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTc                                                                                                                           <  4:263829/141‑1 (MQ=255)
                            ctgGTGATCGCCGGCTTCCCCTCGGCGTTCATCGGCATCTTCTTCACAGGCTCCTTGCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTCGGCAccc                                                                                                                    <  3:90128/148‑1 (MQ=255)
                               gTGATCGCCGGCTTCCCCTCGGCGTTCATCGGCATCTTCTTCACAGGCTCCTTGCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGt                                                                                                                 <  2:56982/148‑1 (MQ=255)
                                  aTCGCCGGCTTCCCCTCGGCGTTCATCGGCATCTTCTTCACAGGCTCCTTGCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGGCTTCGGCACCCTGTTCAt                                                                                                             <  3:268653/149‑1 (MQ=255)
                                            tCCCCTCGGCGTTCATCGGCATCTTCTTCACAGGCTCCTTGCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGTTCAt                                                                                                             <  6:12719/139‑1 (MQ=255)
                                            tCCCCTCGGCGTTCATCGGCATCTTCTTCACAGGCTCCTTGCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGTTCAt                                                                                                             >  5:12719/1‑139 (MQ=255)
                                             ccccTCGGCGTTCATCGGCATCTTCTTCACAGGCTCCTTGCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGTTCATCTTCACCCTGc                                                                                                  >  5:328229/1‑149 (MQ=255)
                                              cccTCGGCGTTCATCGGCATCTTCTTCACAGGCTCCTTGCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCGTCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGTTCATCTTCACCCTGc                                                                                                  >  6:327966/1‑148 (MQ=255)
                                                      gTTCATCGGCATCTTCTTCACAGGCTCCTTGCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCGTCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGTTCATCTTCACCCTGCTAGGGCtgg                                                                                         <  5:327966/149‑1 (MQ=255)
                                                          aTCGGCATCTTCTTCACAGGCTCCTTGCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTCg                                                                                                                          <  2:45121/112‑1 (MQ=255)
                                                          aTCGGCATCTTCTTCACAGGCTCCTTGCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTCg                                                                                                                          >  1:45121/1‑112 (MQ=255)
                                                          aTCGGCATCTTCTTCACAGGCTCCTTGCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGTTCATCTTCACCCTGCTAGGGCTggtggt                                                                                     <  6:264246/149‑1 (MQ=255)
                                                              gCATCTTCTTCACAGGCTCCTTGCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGTTCATCTTCACCCTGCTAGGGCTGGTGGTGaaa                                                                                 >  5:341494/1‑149 (MQ=255)
                                                                 tcttctTCACAGGCTCCTTGCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCgg                                                                                                                                   <  8:89265/96‑1 (MQ=255)
                                                                 tcttctTCACAGGCTCCTTGCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCgg                                                                                                                                   >  7:89265/1‑96 (MQ=255)
                                                                   ttcttcACAGGCTCCTTGCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGTTCATCTTCACCCTGCTAGGGCTGGTGGTGAAACTGAt                                                                            >  4:367659/1‑149 (MQ=255)
                                                                       tcACAGGCTCCTTGCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGTTCATCTTCACCCTGCTAGGGCTGGTGGTGAAACTGATCGGc                                                                        >  4:99934/1‑149 (MQ=255)
                                                                         acaGGCTCCTTGCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGTTCATCTTCACCCTGCTAGGGCTGGTGGTGAAACTGATCGGCga                                                                      >  6:223655/1‑149 (MQ=255)
                                                                           aGGCTCCTTGCTGATCGAGGTGATCTTCTGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGTTCATCTTCACCCTGCTAGGGCTGGTGGTGAAACTGATCGGCg                                                                       >  1:229631/1‑146 (MQ=255)
                                                                           aGGCTCCTTGCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGTTCATCTTCACCCTGCTAGGGCTGGTGGTGAAACTGATCGGCgacc                                                                    <  5:223655/149‑1 (MQ=255)
                                                                           aGGCTCCTTGCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGTTCATCTTCACCCTGCTAGGGCTGGTGGTGAAACTGATCGGCg                                                                       <  2:229631/146‑1 (MQ=255)
                                                                             gCTCCTTGCTGATACACGTGAACTTCAGACTCGACGGCCTGGGCCTGATGAGTTTCGAAGCCCCCAACAACCGCGACTACCCGGTGGTCTTCTGCACCCTGTTCATATTCACCCTCCTAGAGCTGGTCCTGAAACTGATCGGCgacct                                                                   >  4:292466/1‑148 (MQ=255)
                                                                              ctgcTTGCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGTTCATCTTCACCCTGCTAGGGCTGGTGGTGAAACTGATCGGCgacctga                                                                 <  6:328229/146‑1 (MQ=255)
                                                                                 cTTGCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGTTCATCTTCACCCTGCTAGGGCTGGTGGTGAAACTGATCGGCgacctgac                                                                <  3:367659/147‑1 (MQ=255)
                                                                                  ttGCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGTTCATCTTCACCCTGCTAGGGCTGGTGGTGAAACTGATCGGCgacctg                                                                  <  5:333153/144‑1 (MQ=255)
                                                                                  ttGCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGTTCATCTTCACCCTGCTAGGGCTGGTGGTGAAACTGATCGGCgacctg                                                                  >  6:333153/1‑144 (MQ=255)
                                                                                    gCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGTTCATCTTCACCCTGCTAGGGCTGGTGGTGAAACTGATCGGCGACCTGACCTa                                                             <  6:341494/147‑1 (MQ=255)
                                                                                      tGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGTTCATCTTCACCCTGCTAGGGCTGGTGGTGAAACTGATCGGCGACCTGACCTACAcc                                                         >  3:75121/1‑149 (MQ=255)
                                                                                        aTCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGTTCATCTTCACCCTGCTAGGGCTGGTGGTTAAACTGATCGGCGACCTGACCTACACCtt                                                       >  1:358759/1‑149 (MQ=255)
                                                                                           gAGGTGATCTTCAGCCTCGACGGCCTGGGCCTTAGGAGTTTCGAAGCGGCCATCAACCGGGACTACCCGGTTGTCTTCGGCACCCTGTTCATCTTCAGCCTGGTAGGGGTGGTGGTGAAACTGATCGGCGACCTGACCTACACCTTGGt                                                    <  3:292466/149‑1 (MQ=255)
                                                                                                     tCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGTTCATCTTCACCCTGCTAGGGCTGGTGGTGAAACTGATCGGCgacctg                                                                  >  6:111554/1‑125 (MQ=255)
                                                                                                             gACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGTTCATCTTCACCCTGCTAGGGCTGGTGGTGaaa                                                                                 <  5:210985/102‑1 (MQ=255)
                                                                                                             gACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGTTCATCTTCACCCTGCTAGGGCTGGTGGTGaaa                                                                                 >  6:210985/1‑102 (MQ=255)
                                                                                                               cGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGTTCATCTTCACCCTGCTAGGGCTGGTGGTGAAACTGATCGGCGACCTGACCTACACCTTGGTCGATCCGCGCATCGACTTTg                                <  3:99934/149‑1 (MQ=255)
                                                                                                                  cctgggcctgATGAGTTTCGAAGCGGCCGTCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGTTCATCTTCACCCTGCTAGGGCTGGTGGTGAAACTGATc                                                                           <  7:43310/103‑1 (MQ=255)
                                                                                                                  cctgggcctgATGAGTTTCGAAGCGGCCGTCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGTTCATCTTCACCCTGCTAGGGCTGGTGGTGAAACTGATc                                                                           >  8:43310/1‑103 (MQ=255)
                                                                                                                           gatgaGTTTCGAAGCGGCCATCAACCGCTACTACCCGGTGGTCTTCGGCACCCTGTTCATCTTCACCCTGCTAGGGCTGGTGGTGAAACTGATCGGCGACCTGACCTACACCTTGGTCGATCCGCGCATCGACTTTGCCAGCCGGGAg                     >  4:247788/1‑148 (MQ=255)
                                                                                                                           gatgaGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGTTCATCTTCACCCTGCTAGGGCTGGTGGTGAAACTGATCGGCGACCTGACCTACACCTTGGTCGATCCGCGCATCGACTTTGCCAGCCGGGa                      >  4:105312/1‑147 (MQ=255)
                                                                                                                           gatgaGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGTTCATCTTCACCCTGCTAGGGCTGGTGGTGAAACTGATCGGCGACCTGACCTACACCTTGGTCGATCCGCGCATCGACTTTGCCAGCCGGGa                      <  3:105312/147‑1 (MQ=255)
                                                                                                                           gatgaGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGTTCATCTTCACCCTGCTAGGGCTGGTGGTGAAACTGATCGGCGACCTGACCTACACCTTGGTCGAACCGCGCAACGACTTTTACAGCCGGGAg                     >  4:360007/1‑148 (MQ=255)
                                                                                                                               aGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGTTCATCTTCACCCTGCTAGGGCTGGTGGTGAAACTGATCGGCGACCTGACCTACACCTTGGTCGATCCGCGCATCGACTTTGCCAGCCGGGAGCACt                 <  3:360007/148‑1 (MQ=255)
                                                                                                                                gTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGTTCATCTTCACCCTGCTAGGGCTGGTGGTGAAACTGATCGGCGACCTGACCTACACCTTGGTCGATCCGCGCATCGACTTTGCCAGCCGGGAGCACTg                >  8:41486/1‑148 (MQ=255)
                                                                                                                                          ggCCATCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGTTCATCTTCACCCTGCTAGGGCTGGTGGTGAAACTGATCGGCGACCTGACCTACACCTTGGTCGATCCGCGCATCGACTTTGCCAGCCGGGAGCACTGACATGGCCTTg     <  7:41486/149‑1 (MQ=255)
                                                                                                                                             cATCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGTTCATCTTCACCCTGCTAGGGCTGGTGGTGAAACTGGTCGGCGACCTGACCTACACCTTGGTCGATCCGCGCATCGACTTTGCCAGCCGGGAGCACTGACATGGCCTTGTcc  >  8:180295/1‑149 (MQ=255)
                                                                                                                                              |                                                                                                                                                   
CGGCCACGTGTTCCGCAACGCCATGCTGCTGGTGATCGCCGGCTTCCCCTCGGCGTTCATCGGCATCTTCTTCACAGGCTCCTTGCTGATCGAGGTGATCTTCAGCCTCGACGGCCTGGGCCTGATGAGTTTCGAAGCGGCCATCAACCGCGACTACCCGGTGGTCTTCGGCACCCTGTTCATCTTCACCCTGCTAGGGCTGGTGGTGAAACTGATCGGCGACCTGACCTACACCTTGGTCGATCCGCGCATCGACTTTGCCAGCCGGGAGCACTGACATGGCCTTGTCC  >  NC_002947/4687822‑4688111

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑