Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 3,932,044 C→A 9.0% R478L (CGC→CTC)  PP_3466 ← ABC transporter permease/ATP‑binding protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029473,932,0440CA 9.0% 157.0 / 4.3 52R478L (CGC→CTC) PP_3466ABC transporter permease/ATP‑binding protein
Reads supporting (aligned to +/- strand):  ref base C (23/23);  new base A (3/2);  total (26/26)
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

AGCTGGTCGATGGCCGCGATCACTTCACGCTCGGTGGCCTCATCCACTGCCGAAGTGGCCTCGTCCAGCACCAGGATCGCCGGGGCCTGCAACACTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGTCCAGCCGCGCCAGGCGCACCACCCGTTCCAGTTCATCACGGCTGGCCTCGGGCACGCCATAAGCCAGGTTCTGCGCCAGGGTGCCACGGAACAACAC  >  NC_002947/3931897‑3932192
                                                                                                                                                    |                                                                                                                                                    
aGCTGGTCGATGGCCGCGATCACTTCACGCTCGGTGGCCTCATCCACTGCCGAAGTGGCCTCGTCCAGCACCAGGATCGCCGGGGCCTGCAACACTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCcgcg                                                                                                                                                     <  3:292707/149‑1 (MQ=255)
        gATGGCCGCGATCACTTCACGCTCGGTGGCCTCATCCACTGCCGAAGTGGCCTCGTCCAGCACCAGGATCGCCGGGGCCTGCAACACTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCa                                                                                                                                             <  2:2813/149‑1 (MQ=255)
          tGGCCGCGATCACTTCACGCTCGGTGGCCTCATCCACTGCCGAAGTGGCCTCGTCCAGCACCAGGATCGCCGGGGCCTGCAACACTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAg                                                                                                                                            >  6:30037/1‑148 (MQ=255)
              cgcgATCACTTCACTCTCGGTGGCCTCATCCACTGCCGAAGTGGCCTCGTCCAGCACCAGGATCGCCGGGGCCTGCAACACTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGc                                                                                                                                       <  4:302279/149‑1 (MQ=255)
                  aTCACTTCCCCCTCGGTGGCCTCATCCACTGCCGAACTGGCCTCGTCCAGCACCAGGATCGCCGGGGCCTGCAACACTGCACGAGCAATGGCGATCGCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCAt                                                                                                                                    <  1:83834/149‑1 (MQ=255)
                      cTTCACGCTCGGTGGCCTCATCCACTGCCGAAGTGGCCTCGTCCAGCACCAGGATCGCCGGGGCCTGCAACACTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAgg                                                                                                                               >  3:215732/1‑149 (MQ=255)
                         cACGCTCGGTGGCCTCATCCACTGCCGCAGTGGCCTCGTCCAGCACCAGGATCGCCGGGGCCTGCAACACTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGc                                                                                                                              <  4:1299/147‑1 (MQ=255)
                         cACGCTCGGTGGCCTCATCCACTGCCGAAGTGGCCTCGTCCAGCACCAGGATCGCCGGGGCCTGCAACACTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGcc                                                                                                                             <  5:30037/148‑1 (MQ=255)
                         cACGCTCGGTGGCCTCATCCACTGCCGAAGTGGCCTCGTCCAGCACCAGGATCGCCGGGGCCTGCAACACTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGc                                                                                                                              <  8:295141/147‑1 (MQ=255)
                            gCTCGGTGGCCTCATCCACTGCCGAAGTGGCCTCGTCCAGCACCAGTATCGCCGGGGCCTGCAACACTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGc                                                                                                                         >  1:233219/1‑149 (MQ=255)
                            gCTCGGTGGCCTCATCCACTGCCGAAGTGGCCTCGTCCAGCACCAGGATCGCCGGGGCCTGCAACACTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGGCGAGCGCGGCCAGCagttgt                                                                                                                                     <  5:176253/137‑6 (MQ=255)
                            gCTCGGTGGCCTCATCCACTGCCGAAGTGGCCTCGTCCAGCACCAGGATCGCCGGGGCCTGCAACACTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGGCGAGCGCGGCCAGCagttgt                                                                                                                                     >  6:176253/1‑132 (MQ=255)
                            gCTCGGTGGCCTCATCCACTGCCGAAGTGGCCTCGTCCAGCACCAGGATCGCCGGGGCCTGCAACACTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGc                                                                                                                              >  6:42928/1‑144 (MQ=255)
                            gCTCGGTGGCCTCATCCACTGCCGAAGTGGCCTCGTCCAGCACCAGGATCGCCGGGGCCTGCAACACTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGc                                                                                                                              <  5:42928/144‑1 (MQ=255)
                                      cTCATCCACTGCCGAAGTGGCCTCGTCCAGCACCAGGATCGCCGGGGCCTGCAACACTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGt                                                                                                               >  5:29471/1‑149 (MQ=255)
                                       tCATCCACTGCCGAAGTGGCCTCGTCCAGCACCAGGATCGCCGGGGCCTGCAACACTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCACGCCATCCAGGCCCAGCGGCAGGCTGTc                                                                                                              >  1:303532/1‑149 (MQ=255)
                                       tCATCCACTGCCGAAGTGGCCTCGTCCAGCACCAGGATCGCCGGGGCCTGCAACACTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTc                                                                                                              >  7:510/1‑149 (MQ=255)
                                         aTCCACTGCCGAAGTGGCCTCGTCCAGCACCAGGATCGCCGGGGCCTGCAACACTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTc                                                                                                              <  2:245904/147‑1 (MQ=255)
                                            cACTGCCGAAGTGGCCTCGTCCAGCACCAGGATCGCCGGGGCCTGCAACACTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCa                                                                                                         <  2:55329/149‑1 (MQ=255)
                                                 ccGAAGTGGCCTCGTCCAGCACCAGGATCGCCGGGGCCTGCAACACTGAACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCCGGCTg                                                                                                    >  7:113111/1‑149 (MQ=255)
                                                  cGAAGTGGCCTCGTCCAGCACCAGGATCGCCGGGGCCTGCAACACTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGt                                                                                                   <  5:144417/149‑1 (MQ=255)
                                                    aaGTGGCCTCGTCCAGCACCAGGATCGCCGGGGCCTGCAACACTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGTcc                                                                                                 <  8:510/149‑1 (MQ=255)
                                                    aaGTGGCCTCGTCCAGCACCAGGATCGCCGGGGCCTGCAACACTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGTc                                                                                                  >  3:65718/1‑148 (MQ=255)
                                                       tGGCCTCGTCCAGCGCCAGGATCGCCGGGGCCTGCAACACTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGCCTGTCCAGc                                                                                              >  5:43328/1‑149 (MQ=255)
                                                          ccTCGTCCAGCACCAGGATCGCCGGGGCCTGCAACACTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGTCCAGCcgc                                                                                           >  7:195465/1‑149 (MQ=255)
                                                           cTCGTCCAGCACCAGGATCGCCGGGGCCTGCAACACTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGTCCAGCcgcg                                                                                          >  7:277804/1‑149 (MQ=255)
                                                              gTCCAGCACCAGGATCGCCGGGGCCTGCAACACTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGTCCAGCCgcgc                                                                                         <  6:29471/147‑1 (MQ=255)
                                                                      ccAGGATCGCCGGGGCCTGCAACACTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGTCCAGCCGCGCCAGGCGcacc                                                                               >  5:329103/1‑149 (MQ=255)
                                                                      ccAGGATCGCCGGGGCCTGCAACACTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGTCCAGCCGCGCCAGGCGcac                                                                                >  5:329105/1‑148 (MQ=255)
                                                                       cAGGATCGCCGGGGCCTGCAACACTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGTCCAGCCGCGCCAGGCGcacca                                                                              >  5:119714/1‑149 (MQ=255)
                                                                        aGGATCGCCGGGGCCTGCAACACTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGGGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGTCCAGCCGCGCCAGGCGcaccac                                                                             <  6:43328/149‑1 (MQ=255)
                                                                        aGGATCGCCGGGGCCTGCAACACTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGTCCAGCCGCGCCAGGCGcaccac                                                                             <  3:190400/149‑1 (MQ=255)
                                                                                          aaCACTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGTc                                                                                                  >  4:292948/1‑110 (MQ=255)
                                                                                          aaCACTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGTc                                                                                                  <  3:292948/110‑1 (MQ=255)
                                                                                              cTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGTCCAGCCgcgc                                                                                         <  5:328498/115‑1 (MQ=255)
                                                                                              cTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGTCCAGCCgcgc                                                                                         >  6:328498/1‑115 (MQ=255)
                                                                                                gCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGTCCAGCCGCGCCAGGCGCACCACCCGTTCCAGTTCATCACGGCTGGc                                                     >  2:29860/1‑149 (MQ=255)
                                                                                                 cACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGTCCAGCCGCGCCAGGCGCACCACCCGTTCCAGTTCATCACGGCTGGc                                                     >  4:189907/1‑148 (MQ=255)
                                                                                                     aGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGTCCAGCCGCGCCAGGCGCACCACCCGTTCCAGTTCATCACGGCTGGCCTCgg                                                <  4:65718/149‑1 (MQ=255)
                                                                                                              gAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGTCCAGCCGCGCCAGGCGCACCACCCGTTCCAGTTCATCACGGCTGGCCTCGGGCACGCCa                                        >  2:173327/1‑148 (MQ=255)
                                                                                                              gAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGTCCAGCCGCGCCAGGCGCACCACCCGTTCCAGTTCATCACGGCTGGCCTCGGGCACGCCAt                                       <  1:173327/149‑1 (MQ=255)
                                                                                                                     ttgttTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGTCCAGCCGCGCCAGGCGCACCACCCGTTCCAGTTCATCACGGCTGGCCTCGGGCACGCCATAAGc                                   >  6:90076/1‑147 (MQ=255)
                                                                                                                     ttgttTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGTCCAGCCGCGCCAGGCGCACCACCCGTTCCAGTTCATCACGGCTGGCCTCGGGCACGCCATAAGCCa                                 <  3:189907/149‑1 (MQ=255)
                                                                                                                            tGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGTCCAGCCGCGCCAGGCGCACCACCCGTTCCAGTTCATCACGGCTGGCCTCGGGCACGCCATAAGCCAGGTTCTg                          >  5:207783/1‑149 (MQ=255)
                                                                                                                              gCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGTCCAGCCGCGCCAGGCGCACCACCCGTTCCAGTTCATCACGGCTGGCCTCGGGCACGCCATAAGCCAGGTTCTgc                         <  2:233219/148‑1 (MQ=255)
                                                                                                                              gCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGTCCAGCCGCGCCAGGCGCACCACCCGTTCCAGTTCATCACGGCTGGCCTCGGGCACGCCATAAGCCAGGTTCTg                          <  8:277804/147‑1 (MQ=255)
                                                                                                                                ccccGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGTCCAGCCGCGCCAGGCGCACCACCCGTTc                                                                       <  1:181115/100‑1 (MQ=255)
                                                                                                                                ccccGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGTCCAGCCGCGCCAGGCGCACCACCCGTTc                                                                       >  2:181115/1‑100 (MQ=255)
                                                                                                                                   cGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGTCCAGCCGCGCCAGGCGCACCACCCGTTCCAGTTCATCACGGCTGGCCTCGGGCACGCCATAAGCCAGGTTCTGCGCCAgg                   <  6:329105/149‑1 (MQ=255)
                                                                                                                                   cGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGTCCAGCCGCGCCAGGCGCACCACCCGTTCCAGTTCATCACGGCTGGCCTCGGGCACGCCATAAGCCAGGTTCTGCGCCAgg                   <  6:329103/149‑1 (MQ=255)
                                                                                                                                        gcttgctgGGCGAGCGCGGCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGTCCAGCCGCGCCAGGCGCACCACCCGTTCCAGTTCATCACGGCTGGCCTCGGGCACGCCa                                        >  2:202709/4‑123 (MQ=255)
                                                                                                                                        gcttgctgGGCGAGCGCGGCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGTCCAGCCGCGCCAGGCGCACCACCCGTTCCAGTTCATCACGGCTGGCCTCGGGCACGCCa                                        <  1:202709/120‑1 (MQ=255)
                                                                                                                                           tgctgGGCGAGCGCGGCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGTCCAGCCGCGCCAGGCGCACCACCCGTTCCAGTTCATCACGGCTGGCCTCGGGCACGCCATAAGCCAGGTTCTGCGCCAGGGTGCCACg           >  3:28733/1‑149 (MQ=255)
                                                                                                                                                   gcgcTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGTCCAGCCGCGCCAGGCGCACCACCCGTTCCAGTTCATCACGGCTGGCCTCGGGCACGCCATAAGCCAGGTTCTGCGCCAGGGTGCCACGGAacaaca   <  1:29860/149‑1 (MQ=255)
                                                                                                                                                    cgcTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGTCCAGCCGCGCCAGGCGCACCACCCGTTCCAGTTCATCACGGCTGGCCTCGGGCACGCCATAAGCCAGGTTCTGCGCCAGGGTGCCACGGAACAacac  <  7:263079/149‑1 (MQ=255)
                                                                                                                                                    |                                                                                                                                                    
AGCTGGTCGATGGCCGCGATCACTTCACGCTCGGTGGCCTCATCCACTGCCGAAGTGGCCTCGTCCAGCACCAGGATCGCCGGGGCCTGCAACACTGCACGAGCAATGGCGAT‑GCGTTGTTTCTGGCCCCCGGACAACTGCTGGCCGCGCTCGCCCAGCAAGCCATCCAGGCCCAGCGGCAGGCTGTCGACCAGGCTGTCCAGCCGCGCCAGGCGCACCACCCGTTCCAGTTCATCACGGCTGGCCTCGGGCACGCCATAAGCCAGGTTCTGCGCCAGGGTGCCACGGAACAACAC  >  NC_002947/3931897‑3932192

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: ‑