Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 76,969 G→A 66.0% intergenic (+1027/‑107) USA300HOU_0072 → / → USA300HOU_0075 universal stress protein/lysophospholipase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP00073076,9690GA66.0% 52.6 / 44.5 59intergenic (+1027/‑107)USA300HOU_0072/USA300HOU_0075universal stress protein/lysophospholipase
Reads supporting (aligned to +/- strand):  ref base G (7/13);  new base A (19/20);  total (26/33)
Fisher's exact test for biased strand distribution p-value = 4.09e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.30e-01

CTTCAGATCTACGGATTTTCGCCATGCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTATATAAAATTTATTGAGTC  >  CP000730/76832‑77101
                                                                                                                                          |                                                                                                                                    
ctTCAGATCTACGGATTTTCGCCATGCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGATATAAACTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAGGGt                                                                                                                                   <  1:827670/141‑1 (MQ=255)
     gATCTACGGATTTTCGCCATGCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAGGGTTAAtt                                                                                                                              <  1:542206/141‑1 (MQ=255)
     gATCTACGGATTTTCGCCATGCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAGGGTTAAtt                                                                                                                              <  1:904349/141‑1 (MQ=255)
     aaTCTACGGATTTTCGCCATGCCACTAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAAtt                                                                                                                              <  2:471338/140‑1 (MQ=255)
      aTCTACGGATTTTCGCCAGGCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAAttt                                                                                                                             <  2:469152/141‑1 (MQ=255)
        cTACGGACTTTCGCCATGCCACGAAACTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTCTATTTTTTTACTTTGCAACAGACCCCATAAAAAACATGGGCTTAAAAGGTTAATTtat                                                                                                                           <  1:640759/141‑1 (MQ=17)
          aCGGATTTTCGCCATGCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTtataa                                                                                                                         >  2:742861/1‑140 (MQ=255)
               atttCGCCATGCAAAGAAACTAGCATCATGATAGCAAGTGAAACGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTGGCAACAGAACCTATAAAAAACATGGGCTTAAAGGGTTAATTTATATAGTAt                                                                                                                    <  1:816721/140‑1 (MQ=18)
                    gCCATGCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTGATTTATATAGTATTAcgc                                                                                                               >  2:828702/1‑139 (MQ=255)
                           cccGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACAt                                                                                                        <  1:556308/139‑1 (MQ=255)
                            aCGAAATGAGCATCATGCTAGCAAGGTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTAATGCAAACAtt                                                                                                       >  2:513655/1‑141 (MQ=255)
                                aaatAGCATCATGCTAGTAAGTGAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCGATAAAAAACATGGGCTTAAAAGGTTAAATCCTTTATTGTGACTGCAAACATTGAtt                                                                                                   <  2:488417/138‑1 (MQ=17)
                                aaTTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGGACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATGTAGTATTACTGCAAACAttagtt                                                                                                   >  1:558909/1‑137 (MQ=255)
                                aaTTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGAtt                                                                                                   >  1:157314/1‑141 (MQ=255)
                                  ttAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAGTTATTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTg                                                                                                 >  1:827840/1‑141 (MQ=255)
                                  ttAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTGTTTACTTTGCAACAGAACCTAGAAAAAACATGGGCTTCAAGGGTTAATTTATATAGGAGTACTGCAAGCATTGATTTg                                                                                                 >  2:756574/1‑141 (MQ=21)
                                   tAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTgg                                                                                                >  1:813797/1‑141 (MQ=255)
                                   tAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTgg                                                                                                >  2:171552/1‑141 (MQ=255)
                                   tAGCAGCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTTCAACAGAACCTCTAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTgg                                                                                                >  2:39607/1‑141 (MQ=255)
                                    aGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTAAAAAAAACATGGGCTTAAAGGGTTAATTTATATAGTATTACTGCAACCATCGTCTTggg                                                                                               >  2:191917/1‑141 (MQ=21)
                                       atcatGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCa                                                                                            <  1:1020080/141‑1 (MQ=255)
                                       atcatGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCa                                                                                            <  1:93551/141‑1 (MQ=255)
                                        tcatGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCaa                                                                                           <  1:58383/141‑1 (MQ=255)
                                            gctggCAAGTTAACCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAAt                                                                                       <  2:763618/137‑1 (MQ=255)
                                                        aGCGAACACTGACATGATAAATTAGTCGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGTTCAAAAATTAGGGGTATTaa                                                                           <  1:641603/141‑1 (MQ=255)
                                                         gCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTaaa                                                                          <  2:813797/141‑1 (MQ=255)
                                                             acacTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGAGTTGGGTCAAAAATTAGGGGTATTaaaaaaa                                                                      >  1:24827/1‑141 (MQ=255)
                                                                   aCATGATCAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTTCTGCAAACATTGATTTGGGTCAAAAGTTAGGGGTATTAAAAAaatgaatg                                                                >  1:666015/1‑141 (MQ=255)
                                                                   aCAAGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAaatgaatg                                                                <  2:79057/141‑1 (MQ=255)
                                                                    cATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTCCTTGATTTAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAatgaatga                                                               >  1:1042657/1‑141 (MQ=38)
                                                                          aaaTTAGTGGTTAGCTATATTTTTTTACTGTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATa                                                         <  2:762346/141‑1 (MQ=255)
                                                                             ttAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAAtt                                                      >  1:878161/1‑141 (MQ=255)
                                                                                gTGGTTAGCTATATTTTTTTACTTTGCAACAGACTGGTATTATAACATGGGCTTGAAATGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTa                                                   >  1:509738/1‑141 (MQ=255)
                                                                                gTGGTTAGCTATATTTTTTTAATTTGGTTCATAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAACCATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTa                                                   >  1:513828/1‑141 (MQ=255)
                                                                                        cTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTg                                           <  1:350376/141‑1 (MQ=255)
                                                                                        cTATATTTTTTTACCTTGCAACAGAACCTATAAAAAACATGGGCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTg                                           <  1:486855/141‑1 (MQ=255)
                                                                                         tataTTTTTTTTTTTTTTTTCAAAACCTAGAAAGAACATGGGCTTAAAAGGTTAGTTTAGAGAGTATTACTGCAAACATTGATTTGGGTCGAAAATTAGGGTTATTTAAAAAATTAATTAATCAAAATTTTATAAAGATGa                                          >  2:212157/1‑141 (MQ=255)
                                                                                             tttttttACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTgg                                      >  1:674894/1‑141 (MQ=255)
                                                                                                ttttACTTTGCAACAGAACCTATAAAAAACATGGCCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGgaga                                   <  1:1461/141‑1 (MQ=255)
                                                                                                  ttACTTTGCAACAGAACCTATAAAACACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATAGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATCAATGAAAAATAAATTTATCAATCAGATTGGAGAgg                                 >  1:813859/1‑141 (MQ=255)
                                                                                                   tACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGt                                <  2:1027427/141‑1 (MQ=255)
                                                                                                   tACTTGGCAACAGCACCTATAAAAAACATGGGCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGt                                <  1:756574/141‑1 (MQ=255)
                                                                                                    acgttGCAACAGAACCTATAAAAAACATGGACTTAAAAGGATAATTTCTGGAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGtt                               <  1:294541/138‑1 (MQ=255)
                                                                                                     cTTTGCAACAGAACCTATAAAAAACATGGGGTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAACCATCTTCTTGCTAAGCTGATTGGAGAGGTTa                              <  2:752751/141‑1 (MQ=255)
                                                                                                             cAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCAt                      >  1:127423/1‑141 (MQ=255)
                                                                                                              aGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCAtt                     >  1:389933/1‑141 (MQ=255)
                                                                                                                 aCCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATtata                  <  2:523959/141‑1 (MQ=255)
                                                                                                                    tataAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTATATaa               >  1:940841/1‑141 (MQ=255)
                                                                                                                     ataAAAAACATGGGCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTATATaaa              <  1:15822/141‑1 (MQ=255)
                                                                                                                     ataAAAAACATGGGCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTATATaaa              <  2:215552/141‑1 (MQ=255)
                                                                                                                      taAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGATGATTGGAGAGGTTAAAATGCATTATATaaaa             >  2:178922/1‑141 (MQ=255)
                                                                                                                         aaaaaCAGGTGCTTAAAAGGTTAATTTATATATGATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTATATAAAAtt           <  1:517504/141‑1 (MQ=255)
                                                                                                                                 gggCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCTTTATATAAAATTTATTGAGt   <  1:641280/141‑1 (MQ=255)
                                                                                                                                 gggCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTATATAAAATTTATTGAGt   <  1:1059260/141‑1 (MQ=255)
                                                                                                                                  ggCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTATATAAAATTTATTGAGTc  <  2:526514/141‑1 (MQ=255)
                                                                                                                                  ggCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTATATAAAATTTATTGAGTc  <  2:864648/141‑1 (MQ=255)
                                                                                                                                  ggCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTATATAAAATTTATTGAGTc  >  1:198841/1‑141 (MQ=255)
                                                                                                                                  ggCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTATATAAAATTTATTGAGTc  <  2:331869/141‑1 (MQ=255)
                                                                                                                                  ggCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTGGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCACGCTGATTGGAGAGGTTAAAATGCATTATATAAAATTTATTGGGTc  >  2:995380/1‑141 (MQ=255)
                                                                                                                                          |                                                                                                                                    
CTTCAGATCTACGGATTTTCGCCATGCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTATATAAAATTTATTGAGTC  >  CP000730/76832‑77101

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: