Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 3,046,234 G→A 7.2% A271T (GCC→ACC)  pstA → phosphate ABC transporter permease

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029473,046,2340GA 7.2% 159.0 / 2.2 55A271T (GCC→ACC) pstAphosphate ABC transporter permease
Reads supporting (aligned to +/- strand):  ref base G (26/25);  new base A (2/2);  total (28/27)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.57e-01

GAAACCGCGCCACTGCTGTTCACCGCATTGTTCAGCAACTACTGGATCTACCACGACGGCGACATGGCGGTGATGAACCCCACAGCCTCGCTTGCGGTACTGATCTACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACATTTTGAGCCGAGTCTTCGGCAAGCCCAAGTATTGAGAAAGGGAGCATCCAACTTGAACGTATCCACTGCGCAAAGAGCCGCTCCCATGGTCAGCGAAG  >  NC_002947/3046087‑3046380
                                                                                                                                                   |                                                                                                                                                  
gAAACCGCGCCACTGCTGTTCACCGCATTGTTCAGCAACTACTGGATCTACCACGACGGCGACATGGCGGTGATGAACCCCACAGCCTCGCTTGCGGTACTGATCTACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGc                                                                                                                                                   >  7:3228/1‑149 (MQ=255)
           aCTGCTGTTCACCGCATTGTTCAGCAACTACTGGATCTACCACGACGGCGACATGGCGGTGATGAACCCCACAGCCTCGCTTGCGGTACTGATCTACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTgg                                                                                                                                               <  8:352314/142‑1 (MQ=255)
           aCTGCTGTTCACCGCATTGTTCAGCAACTACTGGATCTACCACGACGGCGACATGGCGGTGATGAACCCCACAGCCTCGCTTGCGGTACTGATCTACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCATgg                                                                                                                                               >  7:352314/1‑142 (MQ=255)
                  ttCACCGCATTGTTCAGCAACTACTGGATTTACCACGACGGCGACATGGCGGTGATGAACCCCACAGCCTCGCTTGCGGTACTGATCTACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCgctggt                                                                                                                                 >  1:220393/1‑149 (MQ=255)
                       cGCATTGTTCAGCAACTACTGGATCTACCACGACGGCGACATGGCGGTGATGAACCCCACAGCCTCGCTTGCGGTACTGATCTACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCgctggtgctgg                                                                                                                            >  1:296604/1‑149 (MQ=255)
                       cGCATTGTTCAGCAACTACTGGATCTACCACGACGGCGACATGGCGGTGATGAACCCCACAGCCTCGCTTGCGGTACTGATCTACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCgctggtgctgg                                                                                                                            <  5:17174/149‑1 (MQ=255)
                         cATTGTTCAGCAACTACTGGATCTACCACGACGGCGACATGGCGGTGATGAACCCCACAGCCTCGCTTGCGGTACTGATCTACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCgctggtgctggt                                                                                                                           >  8:298568/1‑148 (MQ=255)
                           ttGTTCAGCAACTACTGGATCTACCACGACGGCGACATGGCGGTGATGAACCCCACAGCCTCGCTTGCGGTACTGATCTACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAAt                                                                                                                        <  2:165474/149‑1 (MQ=255)
                                    aaCTACTTGATCTACCACGACGGCGACATTTCTGTGATGAAACCCACATCCTCGCTTGCGGTACTGTTCTACAACTTCTCCGGCATGCCGTTCGACAACCATCTGGAACTCGCCTGGGCGGCCTCgctggtgctg                                                                                                                             <  5:105711/135‑1 (MQ=255)
                                      ctactGGATCAACCTCGACGGCGACATGGCGGTGATGAACCCCACAGCCTCGCTTGCGGTACTGATCTACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTgg                                                                                                             <  3:20654/149‑1 (MQ=255)
                                                 aCCACGACGGCGACATGGCGGTGATGAACCCCACAGCCTCGCTTGCGGTACTGATCTACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGt                                                                                                                  >  4:333130/1‑133 (MQ=255)
                                                 aCCACGACGGCGACATGGCGGTGATGAACCCCACAGCCTCGCTTGCGGTACTGATCTACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGt                                                                                                                  <  3:333130/133‑1 (MQ=255)
                                                   cACGACGGCGACATGGCGGTGATGAACCCCACAGCCTCGCTTGCGGTACTGATCTACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACAtttt                                                                                                <  8:3228/149‑1 (MQ=255)
                                                   cACGACGGCGACATGGCGGTGATGAACCCCACAGCCTCGCTTGCGGTACTGATCTACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACAtttt                                                                                                >  2:190882/1‑149 (MQ=255)
                                                    acgacgGCGACATGGCGGTGATGAACCCCACAGCCTCGCTTGCGGTACTGATCTACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACATTTTg                                                                                               <  8:153970/149‑1 (MQ=255)
                                                         ggCGACATGGCGGTGATGAACCCCACAGCCTCGCTTGCGGTACTGATCTACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACATTTTGAGcc                                                                                           >  7:137448/1‑148 (MQ=255)
                                                          gCGACATGGCGGTGATGAACCCCACAGCCTCGCTTGCGGTACTGATCTACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACATTTTGAGCCGa                                                                                         <  2:347376/149‑1 (MQ=255)
                                                              cATGGCGGTGATGAACCCCACAGCCTCGCTTGCGGTACTGATCTAGAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACATTTTGAGCCGAGTCt                                                                                     >  1:265803/1‑149 (MQ=255)
                                                              cATGGCGGTGATGAACCCCACAGCCTCGCTTGCGGTACTGATCTACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACATTTTGAGCCGAGTCt                                                                                     >  5:384401/1‑149 (MQ=255)
                                                                  gCGGTGATGAACCCCACAGCCTCGCTTGCGGTACTGATCTACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACATTTTGAGCCGAGTCTTCg                                                                                  <  7:298568/148‑1 (MQ=255)
                                                                    ggTGATGAACCCCACAGCCTCGCTTGCGGTACTGATCTACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACATTTTGAGCCGAGTCTTCGGc                                                                                >  3:334140/1‑148 (MQ=255)
                                                                          gaACCCCACAGCCTCGCTTGCGGTACTGATCTACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACATTTTGAGCCGAGTCTTCGGCAAGccc                                                                          >  7:208686/1‑148 (MQ=255)
                                                                                cacaGCCTCGCTTGCGGTACTGATCTACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACATTTTGAGCCGAGTCTTCGGCAAGCCCAAGTAtt                                                                   <  2:220393/149‑1 (MQ=255)
                                                                                  caGCCTCGCTTGCGGTACTGATCTACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACATTTTGAGCCGAGTCTTCGGCAAGCCCAAGTATTga                                                                 <  5:8673/149‑1 (MQ=255)
                                                                                   aGCCTCGCTTGCGGTACTGATCTACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCgctggtgctg                                                                                                                             <  8:127896/88‑1 (MQ=255)
                                                                                   aGCCTCGCTTGCGGTACTGATCTACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCgctggtgctg                                                                                                                             >  7:127896/1‑88 (MQ=255)
                                                                                      cTCGCTTGCGGTACTGATCTACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACATTTTGAGCCGAGTCTTCGGCAAGCCCAAGTATTGAGaaa                                                             <  2:265803/149‑1 (MQ=255)
                                                                                       tCGCTTGCGGTACTGATCTACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCACCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTg                                                                                                              >  6:191096/1‑99 (MQ=255)
                                                                                       tCGCTTGCGGTACTGATCTACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCACCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTg                                                                                                              <  5:191096/99‑1 (MQ=255)
                                                                                         gCTTGCGGTACTGATCTACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACATTTTGAGCCGAGTCTTCGGCAAGCCCAAGTATTGAGAAAgg                                                           <  2:296604/148‑1 (MQ=255)
                                                                                          cTTGCGGTACTGATCTACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACATTTTGAGCCGAGTCTTCGGCAAGCCCAAGTATTGAGAAAGGGa                                                         <  3:372905/149‑1 (MQ=255)
                                                                                                   cTGATCTACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACATTTTGAGCCGAGTCTTCGGCAAGCCCAAGTATTGAGAAAGGGAGCATCCAAc                                                <  8:208686/149‑1 (MQ=255)
                                                                                                    tGATCTACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCACCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACATTTTGAGCCGAGTCTTCGGCAAGCCCAAGTATTGAGAAAGGGAGCATCCAACt                                               >  8:63271/1‑149 (MQ=255)
                                                                                                      aTCTACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACATTTAGAGCCGAGTCTTCGGCAAGCCCAAGTATTGAGAAAGGGAGCATCCAACtt                                              >  1:206069/1‑148 (MQ=255)
                                                                                                        cTACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTAGTCATCAACATTTTGAGCCGAGTCTTCGGCAAGCCCAAGTATTGAGAAAGGGAGCATCCAACTTGaa                                           >  8:29643/1‑149 (MQ=255)
                                                                                                         tACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACATTTTGAGCCGAGTCTTCGGCAAGCCCAAGTATTGAGAAAGGGAGCATCCAACTTGAAc                                          >  8:206059/1‑149 (MQ=255)
                                                                                                          aCAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACATTTTGAGCCGAGTCTTCGGCAAGCCCAAGTATTGAGAAAGGGAGCATCCAACTTGAACg                                         >  5:324359/1‑149 (MQ=255)
                                                                                                            aaCTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACATTTTGAGCCGa                                                                                         <  3:287706/99‑1 (MQ=255)
                                                                                                            aaCTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACATTTTGAGCCGa                                                                                         >  4:287706/1‑99 (MQ=255)
                                                                                                            aaCTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACATTTTGAGCCGAGTCTTCGGCAAGCCCAAGTATTGAGAAAGGGAGCATCCAACTTGAACGTa                                       >  1:193117/1‑149 (MQ=255)
                                                                                                              cTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTAGTCATCAACATTTTGAGCCGAGTCTTCGGCAAGCCCAAGTATTGAGAAAGGGAGCATCCAACTTGAACGTATc                                     <  7:29643/149‑1 (MQ=255)
                                                                                                                      gCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACATTTTGAGCCGAGTCTTCg                                                                                  >  6:220714/1‑96 (MQ=255)
                                                                                                                      gCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACATTTTGAGCCGAGTCTTCg                                                                                  <  5:220714/96‑1 (MQ=255)
                                                                                                                              ttCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACATTTTGAGCCGAGTCTTCGGCAAGCCCAAGTATTGAGAAAGGGAGCATCCAACTTGAACGTATCCACTGCGCAAAGAGcc                     <  7:206059/149‑1 (MQ=255)
                                                                                                                                 gACAACCAGCTGGAACTCACCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACATTTTGAGCCGAGTCTTCGGCAAGCCCAAGTATTGAGAAAGGGAGCATCCAACTTGAACGTATCCACTGCGCAAAGAGCCGc                   <  7:63271/148‑1 (MQ=255)
                                                                                                                                      ccAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACATTTTGAGCCGAGTCTTCGGCAAGCCCAAGTATTGAGAAAGGGAGCATCCAACTTGAACGTATCCACTGCGCaaa                          <  4:131076/136‑1 (MQ=255)
                                                                                                                                      ccAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACATTTTGAGCCGAGTCTTCGGCAAGCCCAAGTATTGAGAAAGGGAGCATCCAACTTGAACGTATCCACTGCGCaaa                          >  3:131076/1‑136 (MQ=255)
                                                                                                                                      ccAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACATTTTGAGCCGAGTCTTCGGCAAGCCCAAGTATTGAGAAAGGGAGCATCCAACTTGAACGTATCCACTGCGCAAAGAGCCGCTCCCAt             >  8:151165/1‑149 (MQ=255)
                                                                                                                                       cAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGGTGGTCATCAACATTTTGAGCCGAGTCTTCGGCAAGCCCAAGTATTGAGAAAGGGAGCATCCAACTTGAACGTATCCACTGCGCAAAGAGCCGCTCCCATg            >  6:371697/1‑149 (MQ=255)
                                                                                                                                       cAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACATTTTGAGCCGAGTCTTCGGCAAGCCCAAGTATTGAGAAAGGGAGCATCCAACTTGAACGTATCCACTGCGCAAAGAGCCGCTCCCATg            <  6:324359/149‑1 (MQ=255)
                                                                                                                                        aGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACATTTTGAGCCGAGTCTTCGGCAAGCCCAAGTATTGAGAAAGGGAGCATc                                                    <  3:51986/108‑1 (MQ=255)
                                                                                                                                        aGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACATTTTGAGCCGAGTCTTCGGCAAGCCCAAGTATTGAGAAAGGGAGCATc                                                    >  4:51986/1‑108 (MQ=255)
                                                                                                                                           tGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACATTTTGAGCCGAGTCTTCGGCAAGCCCAAGTATTGAGAAAGGGAGCATCCAACTTGAACGTATCCACTGCGCAAAGAGCCGCTCCCATGGt          >  4:48056/1‑147 (MQ=255)
                                                                                                                                             gAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTTCTGGTCATCAACATTTTGAGCCGAGTCTTCGGCAAGCCCAAGTATTGAGAAAGGGAGCATCCAACTTGAACGTATCCACTGCGCAAAGAGCCGCTCCCATGGTCAg       <  2:193117/148‑1 (MQ=255)
                                                                                                                                                 tCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACATTTTGAGCCGAGTCTTCGGCAAGCCCAAGTATTGAGAAAGGGAGCATCCAACTTGAACGTATCCACTGCGCAAAGAGCCGCTCCCATGGTCAGCGAAg  >  6:314746/1‑149 (MQ=255)
                                                                                                                                                   |                                                                                                                                                  
GAAACCGCGCCACTGCTGTTCACCGCATTGTTCAGCAACTACTGGATCTACCACGACGGCGACATGGCGGTGATGAACCCCACAGCCTCGCTTGCGGTACTGATCTACAACTTCTCCGGCATGCCGTTCGACAACCAGCTGGAACTCGCCTGGGCGGCCTCGCTGGTGCTGGTAATGATCGTGCTGGTCATCAACATTTTGAGCCGAGTCTTCGGCAAGCCCAAGTATTGAGAAAGGGAGCATCCAACTTGAACGTATCCACTGCGCAAAGAGCCGCTCCCATGGTCAGCGAAG  >  NC_002947/3046087‑3046380

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑