Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 4,289,437 C→A 8.2% L1050L (CTG→CTT)  PP_3761 ← two‑component system sensor histidine kinase/response regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029474,289,4370CA 8.2% 142.1 / 4.3 49L1050L (CTG→CTT) PP_3761two‑component system sensor histidine kinase/response regulator
Reads supporting (aligned to +/- strand):  ref base C (23/22);  new base A (2/2);  total (25/24)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.09e-01

GCGGATCAGGCGGGTGGCCTCGAAGCCGTCCATCTCCGGCATCATCACGTCCATCAGCACCAGGTCGATATCGTCGTGCTGCTCCAGGCGCTCGATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGCCCTCGAACACCTTGTCGCGGCTGCGCGCGGTCTTGAGCATGCGTTGACGTTCGTTGGACAGCTGCGATTCGACCTTGTGCAGGAACA  >  NC_002947/4289293‑4289585
                                                                                                                                                 |                                                                                                                                                    
gCGGATCAGGCGGGTGGCCTCGAAGCCGTCCATCTCCGGCATCATCACGTCCATCAGCACCAGGTCGATATCGTCGTGCTGCTCCCGGCGCTCGATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAggg                                                                                                                                                  >  2:329265/1‑149 (MQ=255)
gCGGATCAGGCGGGTGGCCTCGAAGCCGTCCATCTCCGGCATCATCACGTCCATCAGCACCAGGTCGATATCGTCGTGCTGCTCCAGGCGCTCGATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAggg                                                                                                                                                  <  7:301172/149‑1 (MQ=255)
         gCGGGTGGCCTCGAAGCCGTCCATCTCCGGCATCATCACGTCCATCAGCACCAGGTCGATATCGTCGTGCTGCTCCAGGCGCTCGATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGt                                                                                                                                           >  1:127320/1‑147 (MQ=255)
           gggTGGCCTCGAAGCCGTCCATCTCCGGCATCATCACGTCCATCAGCACCAGGTCGATATCGTCGTGCTGCTCCAGGCGCTCGATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAgg                                                                                                                                       <  4:291834/149‑1 (MQ=255)
             gTGGCCTCGAAGCCGTCCATCTCCGGCATCATCACGTCCATCAGCACCAGGTCGATATCGTCGTGCTGCTCCAGGCGCTCGATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATGTGCGCCCTTGTGCTCCAGGGCGCTGGTCAggg                                                                                                                                      <  1:219380/149‑1 (MQ=255)
                     gAAGCCGTCCATCTCCGGCATCATCACGTCCATCAGCACCAGGTCGATATCGTCGTGCTGCTCCAGGCGCTCGATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGatat                                                                                                                             >  8:132136/1‑149 (MQ=255)
                     gAAGCCGTCCATCTCCGGCATCATCACGTCCATCAGCACCAGGTCGATATCGTCGTGCTGCTACAGGCGCTCGATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTACAGGTCTCTGGGCAGGTCAAatatat                                                                                                                             >  4:315069/1‑149 (MQ=255)
                      aaGCCGTCCATCTCCGGCATCATCACGTCCATCAGCACCAGGTCGATATCGTCGTGCTGCTCCAGGCGCTCGATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATAtt                                                                                                                            <  6:280295/149‑1 (MQ=255)
                                 ctcCGGCATCATCACGTCCATCAGCACCAGGTCGATATCGTCGTGCTGCTCCAGGCGCTCGATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTGGAGCACAAGGgcg                                                                                                                                                >  6:145640/1‑118 (MQ=255)
                                 ctcCGGCATCATCACGTCCATCAGCACCAGGTCGATATCGTCGTGCTGCTCCAGGCGCTCGATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTGGAGCACAAGGgcg                                                                                                                                                <  5:145640/118‑1 (MQ=255)
                                      gCATCATCACGTCCATCAGCACCAGGTCGATATCGTCGTGCTGCTCCAGGCGCTCGATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTcc                                                                                                            <  5:12374/149‑1 (MQ=255)
                                           atcaCGTCCATCAGCACCAGGTCGATATCGTCGTGCTGCTCCAGGCGCTCGATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTccacca                                                                                                        <  7:132136/148‑1 (MQ=255)
                                           atcaCGTCCATCAGCACCAGGTCGATATCGTCGTGCTGCTCCAGGCGCTCGATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACcag                                                                                                       >  3:21216/1‑149 (MQ=255)
                                             caCGTCCATCAGCACCAGGTCGATATCGTCGTGCTGCTCCAGGCGCTCGATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACcag                                                                                                       >  5:368159/1‑147 (MQ=255)
                                                     tCAGCACCAGGTCGATATCGTCGTGCTGCTCCAGGCGCTCGATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTg                                                                                             <  2:127320/149‑1 (MQ=255)
                                                           ccAGGTCGATATCGTCGTGCTGCTCCAGGCGCTCGATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGccc                                                                                       >  6:364909/1‑149 (MQ=255)
                                                            cAGGTCGATATCGTCGTGCTGCTCCAGGCGCTCGATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGCCCt                                                                                      >  1:16776/1‑149 (MQ=255)
                                                              ggTCGATATCGTCGTGCTGCTCCAGGCGCTCGATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGcc                                                                                        <  3:332667/145‑1 (MQ=255)
                                                              ggTCGATATCGTCGTGCTGCTCCAGGCGCTCGATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGcc                                                                                        >  4:332667/1‑145 (MQ=255)
                                                              ggTCGATATCGTCGTGCTGCTCCAGGCGCTCGATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGCCCTc                                                                                     >  4:53634/1‑148 (MQ=255)
                                                               gTCGATATCGTCGTGCTGCTCCAGGCGCTCGATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGCCCTCg                                                                                    >  7:136950/1‑148 (MQ=255)
                                                                tCGATATCGTCGTGCTGCTCCAGGCGCTCGATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGCCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGCCCTCGaa                                                                                  <  2:107773/149‑1 (MQ=255)
                                                                                 ctCCAGGCGCTCGATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGCCCTCGAACACCTTGTCGCGGCTgc                                                                 >  1:25587/1‑149 (MQ=255)
                                                                                   ccAGGCGCTCGATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAGGGAGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGCCCTCGAACACCTTGTCGCGGCTgcgc                                                               >  8:96864/1‑149 (MQ=255)
                                                                                    cAGGCGCTCGATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGCCCTCGAACACCTTGTCGCGGCTgcgcg                                                              >  8:104276/1‑149 (MQ=255)
                                                                                    cAGGCGCTCGATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGCCCTCGAACACCTTGTCGCGGCTgcgcg                                                              >  6:363175/1‑149 (MQ=255)
                                                                                    cAGGCGCTCGATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGCCCTCGAACACCTTGTCGCGGCTgcgcg                                                              >  3:140734/1‑149 (MQ=255)
                                                                                       gcgcTCGATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCtt                                                                                              >  4:129579/1‑114 (MQ=255)
                                                                                       gcgcTCGATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCtt                                                                                              <  3:129579/114‑1 (MQ=255)
                                                                                       gcgcTCGATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGCCCTCGAACACCTTGTCGCGGCTGCGCGCgg                                                           <  3:53634/149‑1 (MQ=255)
                                                                                            cGATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGCCCTCGAACACCTTGTCGCGGCTGCGCGCGGTCTTg                                                      >  4:308147/1‑149 (MQ=255)
                                                                                             gATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGCCCTCGAACACCTTGTCGCGGCTGCGCGCGGTCtt                                                       <  4:21216/147‑1 (MQ=255)
                                                                                             gATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGCCCTCGAACACCTTGTCGCGGCTGCGCGCGGTCtt                                                       <  7:104276/147‑1 (MQ=255)
                                                                                             gATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGCCCTCGAACACCTTGTCGCGGCTGCGCGCGGTCtt                                                       <  4:140734/147‑1 (MQ=255)
                                                                                             gATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGCCCTCGAACACCTTGTCGCGGCTGCGCGCGGTCTTGa                                                     <  5:364909/149‑1 (MQ=255)
                                                                                              aTGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGCCCTCGAACACCTTGTCGCGGCTGCGCGCGGTCTTGAg                                                    <  8:136950/149‑1 (MQ=255)
                                                                                                   ttCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGCCCTCGAACACCTTGTCGCGGCTGCGCGCGGTCTTGAGCATGc                                               >  5:100099/1‑149 (MQ=255)
                                                                                                         cccGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGCCCTCGAACACCTTGTCGCGGCTGCGCGCGGTCTTGAGCATGCGTTGAc                                         <  1:19762/149‑1 (MQ=255)
                                                                                                         cccGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGCCCTCGAACACCTTGTCGCGGCTGCGCGCGGGCTTGAGCATGCGTTGAc                                         >  4:75771/1‑149 (MQ=255)
                                                                                                                         tCGACAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGCCCTCGAACACCTTGTCGCGGCTGCGCGCGGTCTTGAGCATGCGTTGACGTTCGTTGGACAGCt                          <  5:228787/148‑1 (MQ=255)
                                                                                                                             cAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGCCCTCGAACACCTTGTCGCGGCTGCGCGCGGTCTTGAGCATGCGTTGACGTTCGTTGGACAGCTGCGAt                     >  1:140052/1‑149 (MQ=255)
                                                                                                                              aaTG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGCCCTCGAACACCTTGTCGCGGCTGCGCGCGGTCTTGAGCATGCGTTGACGTTCGTTGGACAGCTGCGAtt                    >  2:222075/1‑149 (MQ=255)
                                                                                                                               aTG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGCCCTCGAACACCTTGTCGCGGCTGCGCGCGGTCTTGAGCATGCGTTGACGTTCGTTGGACAGCTGCGATTc                   <  5:213788/149‑1 (MQ=255)
                                                                                                                                   gcgcCCTGGAGCACAAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGCCCTCGAACACCTTGTCGCGGCTGCGCGCGGTCTTGAg                                                    <  2:321240/113‑1 (MQ=255)
                                                                                                                                   gcgcCCTGGAGCACAAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGCCCTCGAACACCTTGTCGCGGCTGCGCGCGGTCTTGAg                                                    >  1:321240/1‑113 (MQ=255)
                                                                                                                                     gcCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGCCCTCGAACACCTTGTCGCGGCTGCGCGCGGTCTTGAGCATGCGCTGAc                                         <  3:45946/122‑1 (MQ=255)
                                                                                                                                     gcCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGCCCTCGAACACCTTGTCGCGGCTGCGCGCGGTCTTGAGCATGCGCTGAc                                         >  4:45946/1‑122 (MQ=255)
                                                                                                                                           gtgCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGCCCTCGAACACCTTGTCGCGGCTGCGCGCGGTCTTGAGCATGCGTTGACGTTCGTTGGACAGCTGCGATTCGACCTtgtg          <  2:25587/147‑1 (MQ=255)
                                                                                                                                            tgCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGCCCTCGAACACCTTGTCGCGGCTGCGCGCGGTCTTGAGCATGCGTTGACGTTCGTTGGACAGCTGCGATTCGACCTTGTGCAg       <  6:100099/149‑1 (MQ=255)
                                                                                                                                                ccAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAACACCTTGCGGCCCTCGAACACCTTGTCGCGGCTGCGCGCGGTCTTGAGCATGCGTTGACGTTCGTTGGACAGCTGCGATTCGACCTTGTGCAGGaa    >  1:131647/1‑148 (MQ=255)
                                                                                                                                                 cAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGCCCTCGAACACCTTGTCGCGGCTGCGCGCGGTCTTGAGCATGCGTTGACGTTCGTTGGACAGCTGCGATTCGACCTTGTGCAGGaa    >  6:312699/1‑147 (MQ=255)
                                                                                                                                                 cAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGCCCTCGAACACCTTGTCGCGGCTGCGCGCGGTCTTGAGCATGCGTTGACGTTCGTTGGACAGCTGCGATTCGACCTTGTGCAGGAACa  <  5:312699/149‑1 (MQ=255)
                                                                                                                                                 |                                                                                                                                                    
GCGGATCAGGCGGGTGGCCTCGAAGCCGTCCATCTCCGGCATCATCACGTCCATCAGCACCAGGTCGATATCGTCGTGCTGCTCCAGGCGCTCGATGGCTTCGCGCCCGTTGCGGCCGATTTCGACAATG‑GCGCCCTTGTGCTCCAGGGCGCTGGTCAGGGCAAAGATATTACGCACATCGTCGTCCACCAGCAGCACCTTGCGGCCCTCGAACACCTTGTCGCGGCTGCGCGCGGTCTTGAGCATGCGTTGACGTTCGTTGGACAGCTGCGATTCGACCTTGTGCAGGAACA  >  NC_002947/4289293‑4289585

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: ‑