Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,568,5040TG42.6% 73.1 / 12.1 56T6P (ACC→CCC) mdtMmultidrug efflux pump/bile salt:H(+) antiporter/Na(+):H(+) antiporter/K(+):H(+) antiporter
Reads supporting (aligned to +/- strand):  ref base T (6/25);  new base G (23/0);  total (31/25)
Fisher's exact test for biased strand distribution p-value = 4.99e-10
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

ACTGACATCGGCATTAAAATCACGTACCACATTAATGATCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTGAGAAGGGCAACGAGACTGCAAATGTACTGAATTTCATGTA  >  NC_000913/4568376‑4568637
                                                                                                                                |                                                                                                                                     
aCTGACATCGGCATTAAAATCACGTACCACATTAATGATCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTg                                                                                                                            <  1:63686/140‑1 (MQ=255)
 cTGACATCGGCATTAAAATCACGTACCACATTAATGATCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTgg                                                                                                                           <  2:536478/140‑1 (MQ=255)
      aTCGGCATTAAAATCACGTACCACATTAATGATCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATaa                                                                                                                      <  1:872371/140‑1 (MQ=255)
          gCATTAAAATCACGTACCACATTAATGATCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAATGGCATaaaaaa                                                                                                                  >  2:647036/1‑140 (MQ=255)
           cATTAAAATCACGTACCACATTAATGATCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATaacaaac                                                                                                                 <  1:1027083/140‑1 (MQ=255)
              tAAAATCACGTACCACATTAATGATCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGTGGCATAacaaacaaa                                                                                                              >  2:682498/1‑139 (MQ=255)
                   tCACGTACCACATTAATGATCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAAACTGGCATAACAAACAACTCCtt                                                                                                         >  1:567704/1‑140 (MQ=255)
                       gTACCACATTAATGATCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGTGGCATAAAAAACAACTCCTTGTcc                                                                                                     >  2:75572/1‑140 (MQ=255)
                             caTTAATGATCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAACGGGGGATAAAAAAAAAAACCCTGTCCGGGGaa                                                                                               >  2:281132/1‑140 (MQ=255)
                                   tGATCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAAAGTGGGATAACAAAAAAATCCTTGTCCGGAGAACCCCaa                                                                                         >  2:917482/1‑140 (MQ=255)
                                     aTCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACg                                                                                       >  1:207499/1‑140 (MQ=255)
                                     aTCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACg                                                                                       >  1:508257/1‑140 (MQ=255)
                                     aTCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACACCAACg                                                                                       >  1:170403/1‑140 (MQ=255)
                                     aTCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGTGGCATAACAAAAAAATCCTTGTCCGGAGAACCCCCACg                                                                                       >  2:653147/1‑140 (MQ=255)
                                     aTCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAATGGCATAAAAAAAAAAACCTTTTCCGGGGAACCCCCACg                                                                                       >  2:283279/1‑140 (MQ=255)
                                     aTCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGCCAAAAAAAAGGGCATAAAAAAAAACTTCCTTTCCCGGGAAACCCAAcc                                                                                       >  2:332933/1‑139 (MQ=255)
                                       cccAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACggg                                                                                     >  1:378964/1‑140 (MQ=255)
                                        ccAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCCTAACAAACAACTCCTTGTTCCGAGAACCCCCACgggg                                                                                    >  2:797923/1‑140 (MQ=255)
                                        ccAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACgggg                                                                                    >  1:845837/1‑140 (MQ=255)
                                        ccAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGTGGCATAAAAAAAAACTCCTTTTCCGGAGAAACCCCACcggg                                                                                    >  1:788194/1‑140 (MQ=255)
                                        ccAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGGGGGATAAAAAAAAAATCCTTGTCCGGAGAACACCaaacggg                                                                                    >  1:580155/1‑135 (MQ=255)
                                        ccAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCAGCATGGCGGGGAAAAAAACGTGGCATAACAAACAACTCCTTCTCCGGGGAACCCCCACcggg                                                                                    >  1:1124736/1‑140 (MQ=255)
                                          aGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGTAAAAAAAGCGGCATAATAAACAACTCCTTGTCCGGCGAAACCCAACggggga                                                                                  >  1:889464/1‑138 (MQ=255)
                                            gCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGaaaa                                                                                <  2:394235/140‑1 (MQ=255)
                                              tGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATTGGGAAAAACAGCGTGGCGGCATGGCGGGTGAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACg                                                                              <  2:775478/140‑1 (MQ=255)
                                              tGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAACACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCAAACGGGGAAAACg                                                                              <  1:561245/140‑1 (MQ=255)
                                              tGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACg                                                                              <  1:682498/140‑1 (MQ=255)
                                              tGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACg                                                                              <  2:271436/140‑1 (MQ=255)
                                              tGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACg                                                                              <  2:845837/140‑1 (MQ=255)
                                               ggATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACGa                                                                             <  1:557897/140‑1 (MQ=255)
                                               ggATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGTGGCATAACAAAAAACACCTTGTCCGGAGAACCCCAACGGGGGAAACGa                                                                             >  2:377899/1‑140 (MQ=255)
                                                gATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACGaa                                                                            <  1:75572/140‑1 (MQ=255)
                                                 agacagtCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACGaaa                                                                           <  1:79641/134‑1 (MQ=255)
                                                 aTCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTCAAAAAAAATGGCATTACAAAAAAAACCTTTTCCCGAGAAACCCCACAGGGcaaaaaaaa                                                                           >  2:544693/1‑135 (MQ=255)
                                                 aTCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGGAAAAGaaa                                                                           >  1:890511/1‑140 (MQ=255)
                                                 aTCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGAGGCGGCATGGCGGGAAAAAAAAAGAGGGAAAAGAAAAAACCCCCTCTCCCGAGAACCCCACCGGGGGAAAAGaaa                                                                           >  2:561245/1‑140 (MQ=255)
                                                      aTCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGTGGGATAACAAACAACTCCTTGTCCGGGGAACCCCAACGGGGGAAACGAAATTCaa                                                                      >  1:1117701/1‑140 (MQ=255)
                                                      aTCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGGAAAAGAAAATCaa                                                                      >  2:128436/1‑140 (MQ=255)
                                                      aTCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGTGGCATAAAAAAAAAATCCTTTTCCGGAGAACCCCCACGGGGGAAAAGAAAATCaa                                                                      >  2:621157/1‑140 (MQ=255)
                                                      aTCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAACTGGCATAACAAAAAACTACTTGTTCCGGGAAACCCAACGGGGAAAAAGAAATTCaa                                                                      >  1:1173542/1‑140 (MQ=255)
                                                        ccGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGGAAAAAAAATGGCATAACAAAAAACCCCTTGTCCGGGGAACCCCAACGGGGGAAACGAAAATCaaaa                                                                    >  2:863741/1‑138 (MQ=255)
                                                        ccGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGGGGCATAACAAACAACCCCTTGTCCTGAGAACCCCAACGGGGAAAAAGAAAATCAATa                                                                    >  2:856507/1‑140 (MQ=255)
                                                          gTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACGAAATTCAATAcc                                                                  <  2:207499/140‑1 (MQ=255)
                                                          gTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACGAAATTCAATAcc                                                                  <  2:508257/140‑1 (MQ=255)
                                                          gTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGTGGCATAACAAAAAACTCCTTGTCCGGGGAACCCCCACGGGGAAAAAGAAAATCAATAcc                                                                  >  1:635767/1‑140 (MQ=255)
                                                               cAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACGAAATTCAATACCGTCgg                                                             <  1:377899/140‑1 (MQ=255)
                                                                  aTACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAAAGGCATAACAAAAAAATCCTTGTCCCGGGAACCCCCAAGGGGGAAACGAAAATTAATACCGTCTGtct                                                          >  2:79641/1‑138 (MQ=255)
                                                                            aaGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGTGGCATAAAAAACAAATCCTTTTCCGGAGAAACCCAAAGGGGGAAAAGAAAATTAATACCCTCGGGAATGACGaaaag                                                >  2:922066/1‑138 (MQ=255)
                                                                               tCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAg                                             <  1:621157/140‑1 (MQ=255)
                                                                                  tACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGTGGCATAACAAAAAACTCCTTTTCCGGAGAACCCCAACGGGGGAAAAGAAAATCAATAACGTCGGGAATTACGAAAAGCAgggg                                          >  2:599582/1‑138 (MQ=255)
                                                                                             cGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGTGGCATAAAAAAAAACTCCTTGTCCGGAGAAACCCCACGGGGGAAAAGAAAATTAATAACCTCGGGAATGACGAAAGGCCGGGGAGAAAGGCAAc                               >  2:409501/1‑140 (MQ=255)
                                                                                                 aTCGGG‑AAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTGAGAAGGGCAACGAGAc                          <  1:505205/140‑1 (MQ=255)
                                                                                                            cAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTGAGAAGGGCAACGAGACTGCAAATGTa                <  1:647036/140‑1 (MQ=255)
                                                                                                             aGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTGAGAAGGGCAACGAGACTGCAAATGTAc               <  2:889464/140‑1 (MQ=255)
                                                                                                              gCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTGAGAAGGGCAACGAGACTGCAAATGTACt              <  1:917482/140‑1 (MQ=255)
                                                                                                                gTGGCGGCATGGCGGGGAAAAAAAAGTGGCATAACAAAAAACTCCTTTTCCGGAGAACCCCCACGGGGGAAACGAAATTTAATACCGTCGGGAATGACGAAAGGCAGGGGGGAAGGGGAACGAGACTGCAAATGTACTGa            >  2:813732/1‑140 (MQ=255)
                                                                                                                      gcATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTGAGAAGGGCAACGAGACTGCAAATGTACTGAATTTCa      <  2:170403/140‑1 (MQ=255)
                                                                                                                        aTGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTGAGAAGGGCAACGAGACTGCAAATGTACTGAATTTCATg    <  1:281132/140‑1 (MQ=255)
                                                                                                                          ggCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTGAGAAGGGCAACGAGACTGCAAATGTACTGAATTTCATGTa  <  1:566560/140‑1 (MQ=255)
                                                                                                                          ggCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTGAGAAGGGCAACGAGACTGCAAATGTACTGAATTTCATGTa  <  1:653147/140‑1 (MQ=255)
                                                                                                                                |                                                                                                                                     
ACTGACATCGGCATTAAAATCACGTACCACATTAATGATCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTGAGAAGGGCAACGAGACTGCAAATGTACTGAATTTCATGTA  >  NC_000913/4568376‑4568637

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑