Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 5,333,666 G→C 6.9% L32L (CTG→CTC)  PP_4695 → two‑component system sensor histidine kinase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029475,333,6660GC 6.9% 176.4 / 2.4 56L32L (CTG→CTC) PP_4695two‑component system sensor histidine kinase
Reads supporting (aligned to +/- strand):  ref base G (28/23);  new base C (2/2);  total (30/26)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CTGCTCTGGCTGATCCTGATCGTCGTCACCTTCATCCTGCAGAGCCAACGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTGCCTGTTACCTGGGGGTGTCTGGCG  >  NC_002947/5333519‑5333811
                                                                                                                                                   |                                                                                                                                                 
cTGCTCTGGCTGATCCTGATCGTCGTCACCTTCATCCTGCAGAGCCAACGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGa                                                                                                                                                  >  8:310901/1‑149 (MQ=255)
            atcctgatcGTCGTCACCTTCATCCTGCAGAGCCAACGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTc                                                                                                                                        <  1:86897/147‑1 (MQ=255)
            atcctgatcGTCGTCACATTCATCCTGCAGAGCCAACGAGATGCAGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGTGTACCTCATGGTGCTGTTCGGCGTGTACTGGATCATCGAACGCGGGATCAGCCCGCGCTCg                                                                                                                                       <  1:174237/148‑1 (MQ=255)
                tgatcGTCGTCACCTTCATCCTGCAGAGCCAACGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCcg                                                                                                                                             <  1:14363/138‑1 (MQ=255)
                tgatcGTCGTCACCTTCATCCTGCAGAGCCAACGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCcg                                                                                                                                             >  2:14363/1‑138 (MQ=255)
                tgatcGTCGTCACCTTCATCCTGCAGAGCCAACGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCAt                                                                                                                                  >  2:84702/1‑149 (MQ=255)
                tgatcGTCGTCACCTTCATCCTGCAGAGCCAACGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAACGCGGGATCAGCCCGCGCTCgc                                                                                                                                      <  4:68311/145‑2 (MQ=255)
                tgatcGTCGTCACCTTCATCCTGCAGAGCCAACGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAACGCGGGATCAGCCCGCGCTCgc                                                                                                                                      >  3:68311/1‑144 (MQ=255)
                  atcGTCGTCACCTTCATCCTGCAGAGCCAACGAGATGCCGATGAGGTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTc                                                                                                                                <  7:310901/149‑1 (MQ=255)
                         tcACCTTCATCCTGCAGAGCCAACGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTc                                                                                                                                        <  4:307053/134‑1 (MQ=255)
                         tcACCTTCATCCTGCAGAGCCAACGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTc                                                                                                                                        >  3:307053/1‑134 (MQ=255)
                             cTTCATCCTGCAGAGCCAACGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACt                                                                                                                      >  5:199451/1‑148 (MQ=255)
                                           gCCATCTAGATCCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGAGCCGGGTAGCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGTGCTTATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTc                                                                                                       <  6:102493/149‑1 (MQ=255)
                                           gCCAACGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGt                                                                                                        <  6:199451/148‑1 (MQ=255)
                                              aaCGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCt                                                                                                    >  7:138336/1‑149 (MQ=255)
                                               aCGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTg                                                                                                   >  2:238059/1‑149 (MQ=255)
                                                   gaTGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCg                                                                                               >  2:328677/1‑149 (MQ=255)
                                                        cGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTAc                                                                                          <  1:84702/149‑1 (MQ=255)
                                                          aTGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGc                                                                                        >  5:318523/1‑149 (MQ=255)
                                                              gCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTgg                                                                                                  >  3:11454/1‑135 (MQ=255)
                                                              gCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTgg                                                                                                  <  4:11454/135‑1 (MQ=255)
                                                                     ccTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTggg                                                                             >  1:11558/1‑149 (MQ=255)
                                                                          cccAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTc                                                                        >  6:53640/1‑149 (MQ=255)
                                                                            cAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCAATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTa                                                                      >  1:314598/1‑149 (MQ=255)
                                                                             aGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTAt                                                                     >  2:238715/1‑149 (MQ=255)
                                                                                   tCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTa                                                                      <  3:159090/142‑1 (MQ=255)
                                                                                   tCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTa                                                                      >  4:159090/1‑142 (MQ=255)
                                                                                      tGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGtt                                                            >  5:142566/1‑149 (MQ=255)
                                                                                         tCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTtgg                                                          <  8:138336/148‑1 (MQ=255)
                                                                                                  ggTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTAc                                                <  1:238059/149‑1 (MQ=255)
                                                                                                  ggTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTAc                                                >  2:170401/1‑149 (MQ=255)
                                                                                                  ggTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTAc                                                <  1:170401/149‑1 (MQ=255)
                                                                                                   gTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTAc                                                >  5:240799/1‑148 (MQ=255)
                                                                                                              tGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCtt                                                                         >  3:73136/1‑112 (MQ=255)
                                                                                                              tGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCtt                                                                         <  4:73136/112‑1 (MQ=255)
                                                                                                                     cGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTc                              <  1:328677/148‑1 (MQ=255)
                                                                                                                         gTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGtacggctacggc                                 >  2:335378/1‑141 (MQ=255)
                                                                                                                         gTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGtacggctacggc                                 <  1:335378/141‑1 (MQ=255)
                                                                                                                         gTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTGc                         <  6:318523/149‑1 (MQ=255)
                                                                                                                             ccTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCtt                           >  5:87153/1‑143 (MQ=255)
                                                                                                                             ccTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCtt                           <  6:87153/143‑1 (MQ=255)
                                                                                                                             ccTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTGCCTGt                     >  3:289639/1‑149 (MQ=255)
                                                                                                                              cTGGATCAGCGAGCGCTGGCTGATCCCTCGTTCTATCATTCGCCACCCACTTACCTACACCCTGTCGCTTGGCGTCTACGCCAGTGCCTGTGCATTCTATTGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTg                          <  4:165018/143‑1 (MQ=255)
                                                                                                                              cTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTg                          >  3:165018/1‑143 (MQ=255)
                                                                                                                                 gATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTGc                         >  5:48748/1‑141 (MQ=255)
                                                                                                                                 gATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTGc                         <  6:48748/141‑1 (MQ=255)
                                                                                                                                 gATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTGCCTGTTAcc                 >  7:328399/1‑149 (MQ=255)
                                                                                                                                   tgatcgaacgCGGGATCAGCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCATTGCCTGTTACCTg               >  6:151461/5‑149 (MQ=255)
                                                                                                                                     agcgagcgCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTGCCTGTTACCTggg             <  4:289639/149‑1 (MQ=255)
                                                                                                                                     agcgagcgCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTGCCTGTTACCTggg             <  6:142566/149‑1 (MQ=255)
                                                                                                                                     agcgagcgCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTGCCTGTTACCTgg              <  5:53640/148‑1 (MQ=255)
                                                                                                                                     agcgagcgCGAGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCATTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTGCCTGTTACCTggg             >  8:51713/1‑149 (MQ=255)
                                                                                                                                      gcgagcgCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTGCCTGTTACCTgggg            >  7:21099/1‑149 (MQ=255)
                                                                                                                                      gcgagcgCGGGCTGATCCCGCGTTCAATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTGCCTGTTACCTgggg            <  2:314598/149‑1 (MQ=255)
                                                                                                                                               ggCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTGCCTGTTACCTGGGGGTGTCTGgc   <  6:240799/149‑1 (MQ=255)
                                                                                                                                                gCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTGCCTGTTACCTGGGGGTGTCTGgcg  >  5:150325/1‑149 (MQ=255)
                                                                                                                                                   |                                                                                                                                                 
CTGCTCTGGCTGATCCTGATCGTCGTCACCTTCATCCTGCAGAGCCAACGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTGCCTGTTACCTGGGGGTGTCTGGCG  >  NC_002947/5333519‑5333811

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: ‑