Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 5,333,668 T→G 7.3% I33S (ATC→AGC)  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_0029475,333,6680TG 7.3% 165.7 / 4.7 55I33S (ATC→AGC) PP_4695two‑component system sensor histidine kinase
Reads supporting (aligned to +/- strand):  ref base T (27/24);  new base G (2/2);  total (29/26)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.31e-01

ATCCTGATCGTCGTCACCTTCATCCTGCAGAGCCAACGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTGCCTGTTACCTGGGGGTGTCTGGCG  >  NC_002947/5333531‑5333811
                                                                                                                                         |                                                                                                                                               
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                                 <  1:335378/141‑1 (MQ=255)
                                                                                                             gTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGtacggctacggc                                 >  2:335378/1‑141 (MQ=255)
                                                                                                             gTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTGc                         <  6:318523/149‑1 (MQ=255)
                                                                                                                 ccTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCtt                           <  6:87153/143‑1 (MQ=255)
                                                                                                                 ccTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCtt                           >  5:87153/1‑143 (MQ=255)
                                                                                                                 ccTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTGCCTGt                     >  3:289639/1‑149 (MQ=255)
                                                                                                                  cTGGATCAGCGAGCGCTGGCTGATCCCTCGTTCTATCATTCGCCACCCACTTACCTACACCCTGTCGCTTGGCGTCTACGCCAGTGCCTGTGCATTCTATTGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTg                          <  4:165018/143‑1 (MQ=255)
                                                                                                                  cTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTg                          >  3:165018/1‑143 (MQ=255)
                                                                                                                     gATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTGc                         <  6:48748/141‑1 (MQ=255)
                                                                                                                     gATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTGc                         >  5:48748/1‑141 (MQ=255)
                                                                                                                     gATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTGCCTGTTAcc                 >  7:328399/1‑149 (MQ=255)
                                                                                                                       tgatcgaacgCGGGATCAGCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCATTGCCTGTTACCTg               >  6:151461/5‑149 (MQ=255)
                                                                                                                         agcgagcgCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTGCCTGTTACCTggg             <  6:142566/149‑1 (MQ=255)
                                                                                                                         agcgagcgCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTGCCTGTTACCTggg             <  4:289639/149‑1 (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)
                                                                                                                                         |                                                                                                                                               
ATCCTGATCGTCGTCACCTTCATCCTGCAGAGCCAACGAGATGCCGATGAGCTTTAGCCTGACCCAGATGATCCTGATCAGCGCCGGGTACCTCATGGTGCTGTTCGGCGTGGCCTGGATCAGCGAGCGCGGGCTGATCCCGCGTTCGATCATTCGCCACCCACTTACCTACACCCTGTCGCTGGGCGTCTACGCCAGTGCCTGGGCCTTCTATGGCTCGGTTGGCCTGGCCTACCAGTACGGCTACGGCTTCCTTGCCTGTTACCTGGGGGTGTCTGGCG  >  NC_002947/5333531‑5333811

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: ‑