Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,101,5140GT21.1% 144.0 / 10.2 52intergenic (+84/‑176)sodA/kdgTsuperoxide dismutase (Mn)/2‑dehydro‑3‑deoxy‑D‑gluconate:H(+) symporter
Reads supporting (aligned to +/- strand):  ref base G (6/35);  new base T (11/0);  total (17/35)
Fisher's exact test for biased strand distribution p-value = 2.05e-07
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

GAACGTGGTGAACTGGGACGAAGCAGCGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAAATGAATGTCTATCTTCGTTTCCATCAACACTGATGCTCCATTGAGGAATTA  >  NC_000913/4101379‑4101651
                                                                                                                                       |                                                                                                                                         
gAACGTGGTGAACTGGGACGAAGCAGCGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGAt                                                                                                                                       <  1:591554/140‑1 (MQ=255)
gAACGTGGTGAACTGGGACGAAGCAGCGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGGGGGTTTTTtttggt                                                                                                                                       >  2:732922/1‑138 (MQ=255)
   cGTGGTGAACTGGGACGAAGCAGCGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCaa                                                                                                                                    <  2:393624/140‑1 (MQ=255)
    gtggtgAACTGGGACGAAGCAGCGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGGGGGTTTTTTTTGTTTAAt                                                                                                                                   >  1:530924/1‑140 (MQ=255)
     tggtgAACTGGGACGAAGCAGCGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAAtt                                                                                                                                  >  1:917246/1‑140 (MQ=255)
     tggtgAACTGGGACGAAGCAGCGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGGTTTTTTTTGGTCAAtt                                                                                                                                  >  2:823584/1‑140 (MQ=255)
     tggtgAACTGGGACGAAGCAGCGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGGTTTTTTGTGATCAAtt                                                                                                                                  >  1:853065/1‑140 (MQ=255)
        tgAACTGGGACGAAGCAGCGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCa                                                                                                                               >  1:860620/1‑140 (MQ=255)
        tgAACTGGGACGAAGCAGCGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGGTTTTTTTTGATTAAtttta                                                                                                                               >  1:182533/1‑138 (MQ=255)
            cTGGGACGAAGCAGCGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAAt                                                                                                                           <  1:209669/140‑1 (MQ=255)
              gggACGAAGCAGCGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATaa                                                                                                                         <  1:496506/140‑1 (MQ=255)
               ggACGAAGCAGCGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATaaa                                                                                                                        >  1:221204/1‑140 (MQ=255)
               ggACGAAGCAGCGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATaaa                                                                                                                        >  1:582873/1‑140 (MQ=255)
               ggACGAAGCAGCGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGGGGGTTTTTTTTGATCAATTTTtaaataaa                                                                                                                        >  1:457843/1‑140 (MQ=255)
                        agcGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGAt                                                                                                               <  1:177545/140‑1 (MQ=255)
                         gcGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTTTGATCAATTTCAAAATAAAAACAATGATc                                                                                                              >  1:714254/1‑140 (MQ=255)
                          cGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGCGGGTTTTTTTTGGTATATTTTAAAATaaaaaaaaaaatac                                                                                                             >  2:177545/1‑134 (MQ=255)
                             cACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGat                                                                                                          <  1:914465/140‑1 (MQ=255)
                             cACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGat                                                                                                          <  1:275843/140‑1 (MQ=255)
                               cGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGTACCATCGCCAACGGCGGTGGTTTTTTTTTGATCAATTTCAAAATAAAAACAATGATCCGataa                                                                                                        >  1:614625/1‑140 (MQ=255)
                                     gcggcgAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGataaaaataa                                                                                                  <  2:860620/140‑1 (MQ=255)
                                       ggcgAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGGTTTTTTTTGATCAATTTTAAAATAAAAAAAAAGATCCGataaaaaaaaaa                                                                                                >  2:246688/1‑140 (MQ=255)
                                        gcgAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAAc                                                                                               <  2:579741/140‑1 (MQ=255)
                                           aaaaaaTAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGGTTTTTTTTGATCAATTTTAAAATAAAAAAAAAGATCCCataaaaataaaaaaac                                                                                            >  2:749598/1‑136 (MQ=255)
                                                      aTTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGa                                                                                 <  1:749598/140‑1 (MQ=255)
                                                       tttGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGAt                                                                                <  2:917246/140‑1 (MQ=255)
                                                             gccTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGTACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGtt                                                                          <  2:614625/140‑1 (MQ=255)
                                                                  ctgcAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGAt                                                                     <  2:720611/140‑1 (MQ=255)
                                                                  ctgcAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGGGGGTTTTTTTTGGTCAATTTCATAATAAAAAAAAAGATCCGATAAAAAAAAAACAACGCTTTCATTTATGTGGttttttt                                                                     >  2:197046/1‑137 (MQ=255)
                                                                    gcAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCa                                                                   <  1:823584/140‑1 (MQ=255)
                                                                      aaTGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACt                                                                 <  1:636673/140‑1 (MQ=255)
                                                                          aGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTa                                                             <  2:322172/140‑1 (MQ=255)
                                                                          aGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTa                                                             <  1:536698/140‑1 (MQ=255)
                                                                                ataGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGAtt                                                       <  2:63033/140‑1 (MQ=255)
                                                                                      cGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAaatga                                                 <  1:647906/140‑1 (MQ=255)
                                                                                      cGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGGTTTTTTTTGATTAATTTTAAAATAAAAAAAAAGATCCGATAAAAATAAAAAAGCGTTTCAATTTATGTGGTTTTTATCACTTTTATTTATTTaatga                                                 >  2:697276/1‑140 (MQ=255)
                                                                                      cGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGGTTTTTTTTGATCAATTTTAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGGTTTGATCACTTTTTTTTATTAaatga                                                 >  2:741768/1‑140 (MQ=255)
                                                                                      cGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGGTTTTTTTTGATCAATTTTAAAATAAAAAAAATGATCCGATAAAAATAAAAAAACGTTTCAATTTATGTGGTTTTGATCACTTTTTTTGATTAaatga                                                 >  2:341066/1‑140 (MQ=255)
                                                                                      cGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGGGGTTTTTTTTTGATCAAATTCAAAATAAAAAAAATGATCCCCTAAAAAAAAAAAAACGATTCGATTTGTGTGGGTTTTATTACTTTTTTTTTTTAaatta                                                 >  2:209161/1‑138 (MQ=255)
                                                                                        cATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGGTTTTTTTTGATCAATTTTAAAAAAAAAACAAAGATCCGATAAAAATAAAAAAGCGTTTCAATTGATGTGGGTTTTATTACTTTTATTTATTTaatgaat                                               >  2:116152/1‑140 (MQ=255)
                                                                                            tCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAAATGAATGTCt                                           <  1:732922/140‑1 (MQ=255)
                                                                                                cTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAAATGAATGTCTATCt                                       <  2:528415/140‑1 (MQ=255)
                                                                                                cTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAAATGAATGTCTATCt                                       >  1:316327/1‑140 (MQ=255)
                                                                                                   aaaaaaTGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAAATGAATGTCTATCTTCg                                    <  1:697276/140‑1 (MQ=255)
                                                                                                   aaaaaaTGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAAATGAATGTCTATCTTCg                                    <  1:197046/140‑1 (MQ=255)
                                                                                                     aaaaTGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAAATGAATGTCTATCTTCGtt                                  <  2:416670/140‑1 (MQ=255)
                                                                                                     aaaaTGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAAATGAATGTCTATCTTCGtt                                  <  1:116152/140‑1 (MQ=255)
                                                                                                        aTGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAAATGAATGTCTATCTTCGTTTcc                               <  1:113846/140‑1 (MQ=255)
                                                                                                          gAACCATCGCCAACGGCGGTGGTTTTTTTTTGATCAAATTTAAAAAAAAAAAAAAGATCCGATAAAAAAAAAAAAACGGTTTCATTTATGTGGGTTTTTTCACTTTTTTTTATTAAATGAATGTCTATCTTCGTTTTCAt                             >  2:287999/1‑140 (MQ=255)
                                                                                                          gAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAAATGAATGTCTATCTTCGTTTCCAt                             <  1:341066/140‑1 (MQ=255)
                                                                                                          gAACCATCGCCAACGGCGGTGGGTTTTTTTTGATTAATTTTAAAATAAAAAAAAAGATCCGATAAAAAAAAAAAAGCGTTTTTATTTATGTGGGTTTTATCACTTTTTTTTATTAAATGAATGTCTATTTTCGTTTTCAt                             >  2:930268/1‑140 (MQ=255)
                                                                                                             ccATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAAATGAATGTCTATCTTCGTTTCCATCaa                          <  2:221204/140‑1 (MQ=255)
                                                                                                                tCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAAATGAATGTCTATCTTCGTTTCCATCAacac                       <  2:582873/140‑1 (MQ=255)
                                                                                                                tCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAAATGAATGTCTATCTTCGTTTCCATCAacac                       <  2:316327/140‑1 (MQ=255)
                                                                                                                     aaCGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAAATGAATGTCTATCTTCGTTTCCATCAATACTGATg                  <  2:714254/140‑1 (MQ=255)
                                                                                                                     aaCGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAAATGAATGTCTATCTTCGTTTCCATCAACACTGATg                  <  2:13735/140‑1 (MQ=255)
                                                                                                                     aaCGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAAATGAATGTCTATCTTCGTTTCCATCAACACTGATg                  <  1:930268/140‑1 (MQ=255)
                                                                                                                     aaCGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAAATGAATGTCTATCTTCGTTTCCATCAACACTGATg                  <  1:741768/140‑1 (MQ=255)
                                                                                                                          cggTGGTTTTTTTTTGATCAATTTCAAAATAAAAAAAATGATCCGATAAAAAAAAAAAAGCGTTTCAATTGATGTGGGTTTGATTACTTTTATTGATTAAATGAATGTCTATCTTCGTTTCCATCAACACTGATGCTCCa             >  2:677015/1‑140 (MQ=255)
                                                                                                                          cggTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTTATGTGGTTTTTATCACTTTTATTGATTAAATGAATGTCTATCTTCGTTTCCATCAACACTGATGCTCCa             >  2:762222/1‑140 (MQ=255)
                                                                                                                                     ttGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAAATGAATGTCTATCTTCGTTTCCATCAACACTGATGCTCCATTGAGGAATTa  <  1:209161/140‑1 (MQ=255)
                                                                                                                                       |                                                                                                                                         
GAACGTGGTGAACTGGGACGAAGCAGCGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAAATGAATGTCTATCTTCGTTTCCATCAACACTGATGCTCCATTGAGGAATTA  >  NC_000913/4101379‑4101651

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: ‑