Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 5,518,539 A→T 7.4% A14A (GCT→GCA)  PP_4850 ← membrane protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029475,518,5390AT 7.4% 159.0 / 3.1 54A14A (GCT→GCA) PP_4850membrane protein
Reads supporting (aligned to +/- strand):  ref base A (25/25);  new base T (2/2);  total (27/27)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.99e-01

ACCAGTTCGAACACCAGCAGACCGGCCAGCAGGCTGGGCAGCAACTTCAGGGGCAAAGCCAGCAGCAGCCCGGCCATGACGATGATCAGGCTGGCCAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTGGCGGCGCAGGCATAGGCGCAGGTCATTTCTTCTTCAGGCAATCGCTCATGAAGGCCTTGCGCTCATCCCCCTTCAGGGCTTTGGTGGTGGCGTCAGCATTGCAGGTCTTCATTTTT  >  NC_002947/5518396‑5518683
                                                                                                                                               |                                                                                                                                                
aCCAGTTCGAACACCAGCAGACCGGCCAGCAGGCTGGGCAGCAACTTCAGGGGCAAAGCCAGCAGCAGCCCGGCCATGACGATGATCAGGCTGGCCAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACAGCgg                                                                                                                                              <  2:15107/148‑1 (MQ=255)
     ttCGAACACCAGCAGACCGGCCAGCAGGCTGGGCAGCAACTTCAGGGGCAAAGCCAGCAGCAGCCCGGCCATGACGATGATCAGGCTGGCCAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGc                                                                                                                                        <  7:240133/149‑1 (MQ=255)
        gAACACCAGCAGACCGGCCAGCAGGCTGGGCAGCAACTTCAGGGGCAAAGCCAGCAGCAGCCCGGCCATGACGATGATCAGGCTGGCCAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGcag                                                                                                                                      >  8:36774/1‑146 (MQ=255)
        gAACACCAGCAGACCGGCCAGCAGGCTGGGCAGCAACTTCAGGGGCAAAGCCAGCAGCAGCCCGGCCATGACGATGATCAGGCTGGCCAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGCCg                                                                                                                                      >  3:174819/1‑148 (MQ=255)
         aaCACCAGCAGACCGGCCAGCAGGCTGGGCAGCAACTTCAGGGGCAAAGCCAGCAGCAGCCCGGCCATGACGATGATCAGGCTGGCCAGGGTGTTCTGACGGGGGGTAAAGGTCATAAAGCCTCGACGGCAGACAGCGGGAATGCCGCa                                                                                                                                    <  3:202798/149‑1 (MQ=255)
              cagcagACCGGCCAGCAGGCTGGGCAGCAACTTCAGGGGCAAAGCCAGCAGCAGCCCGGCCATGACGATGATCAGGCTGGCCAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTg                                                                                                                               >  3:33072/1‑149 (MQ=255)
                gcagACCGGCCAGCAGGCTGGGCAGCAACTTCAGGGGCAAAGCCAGCAGCAGCCCGGCCATGACGATGATCAGGCTGGCCAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGc                                                                                                                              >  1:8258/1‑148 (MQ=255)
                gcagACCGGCCAGCAGGCTGGGCAGCAACTTCAGGGGCAAAGCCAGCAGCAGCCCGGCCATGACGATGATCAGGCTGGCCAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGc                                                                                                                              >  8:136243/1‑148 (MQ=255)
                gcagACCGGCCAGCAGGCTGGGCAGCAACTTCAGGGGCAAAGCCAGCAGCAGCCCGGCCATGACGATGATCAGGCTGGCCAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGc                                                                                                                              >  6:278219/1‑148 (MQ=255)
                      cGGCCAGCAGGCTGGGCAGCAACTTCAGGGGCAAAGCCAGCAGCAGCCCGGCCATGACGATGATCAGGCTGGCCAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACTGCGGCATTCCCGCTGTCTGc                                                                                                                              >  8:282623/1‑142 (MQ=255)
                      cGGCCAGCAGGCTGGGCAGCAACTTCAGGGGCAAAGCCAGCAGCAGCCCGGCCATGACGATGATCAGGCTGGCCAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACTGCGGCATTCCCGCTGTCTGc                                                                                                                              <  7:282623/142‑1 (MQ=255)
                      cGGCCAGCAGGCTGGGCAGCAACTTCAGGGGCAAAGCCAGCAGCAGCCCGGCCATGACGATGATCAGGCTGGCCAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCtt                                                                                                                       >  4:69333/1‑149 (MQ=255)
                      cGGCCAGCAGGCTGGGCAGCAACTTCAGGGGCAAAGCCAGCAGCAGCCCGGCCATGACGATGATCAGGCTGGCCAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCtt                                                                                                                       >  4:48609/1‑149 (MQ=255)
                        gCCAGCAGGCTGGGCAGCAACTTCAGGGGCAAAGCCAGCAGCAGCCCGGCCATGACGATGATCAGGCTGGCCAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTgg                                                                                                                     >  2:203503/1‑149 (MQ=255)
                         ccAGCAGGCTGGGCAGCAACTTCAGGGGCAAAGCCAGCAGCAGCCCGGCCATGACGATGATCAGGCTGGCCAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTggc                                                                                                                    <  2:287069/149‑1 (MQ=255)
                         ccAGCAGGCTGGGCAGCAACTTCAGGGGCAAAGCCAGCAGCAGCCCGGCCATGACGATGATCAGGCTGGCCAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTggc                                                                                                                    <  2:8258/149‑1 (MQ=255)
                                     gcagcaACTTCAGGGGCAAAGCCAGCAGCAGCCCGGCCATGACGATGATCAGGCTGGCCAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTGGCGGCGCAGGCa                                                                                                          >  1:231574/1‑147 (MQ=255)
                                      cagcaACTTCAGGGGCAAAGCCAGCAGCAGCCCGGCCATGACGATGATCAGGCTGGCCAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTGGCGGCGCAGGCATAg                                                                                                       <  1:203503/149‑1 (MQ=255)
                                      cagcaACTTCAGGGGCAAAGCCAGCAGCAGCCCGGCCATGACGATGATCAGGCTGGCCAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTGGCGGCGCAGGCATAg                                                                                                       <  4:174819/149‑1 (MQ=255)
                                       agcaACTTCAGGGGCAAAGCCAGCAGCAGCCCGGCCATGACGATGATCAGGCTGGCCAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTGGCGGCGCAGGCATAgg                                                                                                      <  3:48609/149‑1 (MQ=255)
                                                          ccAGCAGCAGCCCGGCCATGACGATGATCAGGCTGGCCAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTGGCGGCGCAGGCATAGGCGCAGGTCATttcttctt                                                                                    >  7:183578/1‑148 (MQ=255)
                                                           cagcagcagCCCGGCCATGACGATGATCAGGCTGGCCAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTGGCGGCGCAGGCATAGGCGCAGGTCATTTCTTCTTCa                                                                                  <  3:69333/149‑1 (MQ=255)
                                                           cagcagcagCCCGGCCATGACGATGATCAGGCTGGCCAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTGGCGGCGCAGGCATAGGCGCAGGTCATTTCTTCTTCa                                                                                  <  5:88078/149‑1 (MQ=255)
                                                            agcagcagcCCGGCCATGACGATGATCAGGCTGGCCAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTGGCGGCGCAGGCATAGGCGCAGGTCATTTCTTCTTCAg                                                                                 <  2:231574/149‑1 (MQ=255)
                                                            agcagcagcCCGGCCATGACGATGATCAGGCTGGCCAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTGGCGGCGCAGGCATAGGCGCAGGTCATTTCTTCTTCAg                                                                                 >  5:219515/1‑149 (MQ=255)
                                                                gcatgccGGCCATGACGATGATCAGGCTGGCCAGTGTGATCTGACGGGGGGTAAAGTTCATACAGCCTCGTCGGCAGACAGCGGGAATGCCGCAGTCTGcc                                                                                                                             <  4:38901/96‑1 (MQ=255)
                                                                gcagcCCGGCCATGACGATGATCAGGCTGGCCAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGcc                                                                                                                             >  3:38901/1‑101 (MQ=255)
                                                                   gcCCGGCCATGACGATGATCAGGCTGGCCAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTGGCGgcgc                                                                                                               <  1:123741/112‑1 (MQ=255)
                                                                   gcCCGGCCATGACGATGATCAGGCTGGCCAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTGGCGgcgc                                                                                                               >  2:123741/1‑112 (MQ=255)
                                                                    cccGGCCATGACGATGATCAGGCTGGCCAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTGGCGGCGCAGGCATAGGCGCAGGTCATTTCTTCTTCAgg                                                                                <  5:200135/142‑1 (MQ=255)
                                                                    cccGGCCATGACGATGATCAGGCTGGCCAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTGGCGGCGCAGGCATAGGCGCAGGTCATTTCTTCTTCAgg                                                                                >  6:200135/1‑142 (MQ=255)
                                                                      cGGCCATGACGATGATCAGGCTGGCCAGGGTGATCTGACGGCTGGTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTGGCGGCGCAGGCATAGGCGCAGGTCATTTCTTCTTCAGGCAATCGCTc                                                                       <  5:278219/149‑1 (MQ=255)
                                                                                 atgatCAGGCTGGCCAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTGGCGGCGCAGGCATAGGCGCAGGTCATTTCTTCTTCAGGCAATCGCTCATGAAGGCCtt                                                            <  8:183578/149‑1 (MQ=255)
                                                                                  tgatCAGGCTGGCCAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTGGCGGCGCAGGCATAGGCGCAGGTCATTTCTTCTTCAGGCAATCGCTCATGAAGGCCTTg                                                           >  6:102706/1‑149 (MQ=255)
                                                                                    atCAGGCTGGCCAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTGGCGGCGCAGGCATAGGCGCAGGTCATTTCTTCTTCAGGCAATCGCTCATGAAGGCCTTgcg                                                         <  5:102706/149‑1 (MQ=255)
                                                                                     tCAGGCTGGCCAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTGGCGGCGCAGGCATAGGCGCAGGTCATTTCTTCTTCAGGCAATCGCTCATGAAGGCCTTgcgc                                                        <  7:136243/149‑1 (MQ=255)
                                                                                               cAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCCACGGCAGACAGCGGGAATGCCGCAGTCTCCCAGCCTTGGCGGCGCAGGCATAGGCGCAGGTAATTTCTTCTTCAGGCAATCGCTCATGAAGGCCTTGCGCTCATCCCCCt                                              >  6:310674/1‑149 (MQ=255)
                                                                                                          gACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTGGCGGCGCAGGCATAGGCGCAGGTCATTTCTTCTTCAGGCAATCGCTCATGAAGGCCTTGCGCTCATCCCCCTTCAGGGCTTtg                                   >  2:233649/1‑149 (MQ=255)
                                                                                                           actggggggAAAGGGCATACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTGGCGGCGCAGGCATAGGCGCAGGTCATTTCTTCTTCAGGCAATCGCTCATGAAGGCCTTGCGCTCATCCCCCTTCAGGGCtt                                     <  8:220045/143‑1 (MQ=255)
                                                                                                           aCGGGGGGTAAAGGTCATACAGGCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTGGCGGCGCAGGCATAGGCGCAGGTCATTTCTTCTTCAGGCAATCGCTCATGATGGCCTTGCGCTCATCCCCCTTCAGGGCTTtg                                   <  1:316441/148‑1 (MQ=255)
                                                                                                           aCGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTGGCGGCGCAGGCATAGGCGCAGGTCATTTCTTCTTCAGGCAATCGCTCATGAAGGCCTTgc                                                          >  6:301185/1‑125 (MQ=255)
                                                                                                             ggggggTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTGGCGGCGCAGGCATAGGCGCAGGTCATTTCTTCTTCAGGCAATCGCTCATGAAGGCCTTGCGCTCATCCCCCTTCAGGGCTTtggtg                                >  3:246829/1‑149 (MQ=255)
                                                                                                                     aaGGTCATACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTGGCGGCGCAGGCATAGGCGCAGGTCATTTCTTCTTCAGGCAATCGCTCATGAAGGCCTTGCGCTCATCCCCCTTCAGGGCTTTGGTGGTGGCGt                         <  4:33072/148‑1 (MQ=255)
                                                                                                                           aTACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTGGCGGCGCAGGCATAGGCGCAGGTCATttc                                                                                         <  4:294919/78‑1 (MQ=255)
                                                                                                                           aTACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTGGCGGCGCAGGCATAGGCGCAGGTCATttc                                                                                         >  3:294919/1‑78 (MQ=255)
                                                                                                                             aCAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTGGCGGCGCAGGCATAGGCGCAGGTCATTTCTTCTTCAGGCAATCGCTCATGAAGGCCTTGCGCTCATCCCCCTTCAGGGCTTTGGTGGTGGCGTCAGCATTg                 >  3:191846/1‑148 (MQ=255)
                                                                                                                              cAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTGGCGGCGCAGGCATAGGCGCAGGTCATTTCTTCTTCAGGCAATCGCTCATGAAGGCCTTGCGCTCATCCCCCTTCAGGGCTTTGGTGGTGGCGTCAGCATTg                 >  7:132633/1‑147 (MQ=255)
                                                                                                                                 ccTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTGGCGGCGCAGGCATAGGCGCAGGTCATTTCTTCTTCAGGCAATCGCTCATGAAGGCCTTGCGCTCATCCCCCTTCAGGGCTTTGGTGGTGGCGTCAGCATTGCAGGt            <  6:219515/149‑1 (MQ=255)
                                                                                                                                   tCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTGGCGGCGCAGGCATAGGCGCAGGTCATTTCTTCTTCAGGCAATCGCTCATGAAGGCCTTGCGCTCATCCCCCTTCAGGGCTTTGGTGGTGGCGTCAGCATTGCAGGTCt          >  8:22214/1‑149 (MQ=255)
                                                                                                                                     gACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTGGCGGCGCAGGCATAGGCGCAGGTCATTTCTTCTTCAGGCAATCGCTCATGAAGGCCTTGCGCTCATCCCCCTTCAGGGCTTTGGTGGTGGCGTCAGCATTGCAGGTCtt         <  7:36774/148‑1 (MQ=255)
                                                                                                                                          cAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTGGCGGCGCAGGCATAGGCGCAGGTCATTTCTTCTTCAGGCAATCGCTCATGAAGGCCTTGCGCTCATCCCCCTTCAGGGCTTTGGTGGTGGCGTCAGCATTGCAGGTCTTCAtttt   <  4:191846/149‑1 (MQ=255)
                                                                                                                                           aGACTGCGGCATTCCCGCTGTCTGCCAGCCTTGGCGGCGCAGGCATAGGCGCAGGTCATTTCTTCTTCAGGCAATCGCTCATGAAGGCCTTGCGCTCATCCCCCTTCAGGGCTTTGGTGGTGGc                           >  4:164053/1‑124 (MQ=255)
                                                                                                                                           aGACTGCGGCATTCCCGCTGTCTGCCAGCCTTGGCGGCGCAGGCATAGGCGCAGGTCATTTCTTCTTCAGGCAATCGCTCATGAAGGCCTTGCGCTCATCCCCCTTCAGGGCTTTGGTGGTGGc                           <  3:164053/124‑1 (MQ=255)
                                                                                                                                           aGACAGCGGGAATGCAGCAGTCTGCCAGCCTTGGCGGCGCAGGCATAGGAGAAGGTCATTTCTTCTTCAGGAAATCGCTCATGAAGGCCATGCGCTCATCCCCCTTCAGGGCTTTGGTGGTGGCGTCAGCATTGCATGTCTTCattatt  >  4:150423/1‑149 (MQ=255)
                                                                                                                                               |                                                                                                                                                
ACCAGTTCGAACACCAGCAGACCGGCCAGCAGGCTGGGCAGCAACTTCAGGGGCAAAGCCAGCAGCAGCCCGGCCATGACGATGATCAGGCTGGCCAGGGTGATCTGACGGGGGGTAAAGGTCATACAGCCTCGACGGCAGACAGCGGGAATGCCGCAGTCTGCCAGCCTTGGCGGCGCAGGCATAGGCGCAGGTCATTTCTTCTTCAGGCAATCGCTCATGAAGGCCTTGCGCTCATCCCCCTTCAGGGCTTTGGTGGTGGCGTCAGCATTGCAGGTCTTCATTTTT  >  NC_002947/5518396‑5518683

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑