New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? USA300TCH1516_ALE = 1426794NA (NA)10 (0.040) 5/146 NT NA intergenic (‑525/+447) pstS/cvfB Phosphate‑binding protein PstS/Conserved virulence factor B
?USA300TCH1516_ALE 1443594 = NA (NA)intergenic (‑167/+186) USA300TCH1516_01342/brnQ_3 hypothetical protein/Branched‑chain amino acid transport system 2 carrier protein

Only 100 of 235 total aligned reads displayed.

GCTTCTGTGTTGGGGCCCCTGTCTTCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCAGAAACGAAAAAAATCTATAGTCATAGAAAAA  >  USA300TCH1516_ALE/1426721‑1426884
                                                                         |                                                                                          
gCTTCTGTGTTGGGGCCCCTGTCTTCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTg                                                                           <  1:3422881/91‑1 (MQ=31)
   tCTGTGTTGGGGCCCCTGTCTTCGAGTGGCACTGCTCCCTCAGGAGTCTTGCCATTAATACTACGTATTAACATGTAATTTTACTTTGaaa                                                                        <  2:5441665/91‑1 (MQ=255)
   tCTGTGTTGGGGCCCCTGTCTTCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGaaa                                                                        <  1:2969896/91‑1 (MQ=34)
   tCTGTGTTGGGGCCCCTGTCTTCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGaaa                                                                        <  2:5568135/91‑1 (MQ=34)
   tCTGTGTTGGGGCCCCTGTCTTCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGaaa                                                                        <  2:5519186/91‑1 (MQ=34)
   tCTGTGTTGGGGCCCCTGTCTTCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGaaa                                                                        <  1:5779112/91‑1 (MQ=34)
    cTGTGTTGGGGCCCCTGTCTTCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAAt                                                                       >  1:16159/1‑91 (MQ=34)
      gtgtTGGGGCCCCTGTCTTCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATAc                                                                     >  2:5093637/1‑91 (MQ=34)
      gtgtTGGGGCCCCTGTCATCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATAc                                                                     >  1:4446353/1‑91 (MQ=21)
       tgtTGGGGCCCCTGTCTTCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACa                                                                    >  2:4173919/1‑91 (MQ=35)
        gtTGGGGCCCCTGTCTTCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACAt                                                                   >  1:5032139/1‑91 (MQ=37)
        gtTGGGGCCCCTGTCTTCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACAt                                                                   >  2:2623153/1‑91 (MQ=37)
        gtTGGGGCCCCTGTCTTCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACAt                                                                   >  1:4561731/1‑91 (MQ=37)
          tGGGGCCCCTGTCTTCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTa                                                                 >  2:4851601/1‑91 (MQ=38)
          tGGGGCCCCTGTCTTCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTa                                                                 <  2:876071/91‑1 (MQ=39)
           ggggCCCCTGTCTTCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTaa                                                                <  1:875337/91‑1 (MQ=39)
           ggggCCCCTGTCTTCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTaa                                                                <  2:1293777/91‑1 (MQ=38)
              gCCCCTGTCTTCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGc                                                             <  2:3158504/91‑1 (MQ=255)
              gCCCCTGTCTTCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGc                                                             >  1:5340814/1‑91 (MQ=255)
              gCCCCTGTCTTCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGc                                                             >  1:3343768/1‑91 (MQ=40)
              gCCCCTGTCTTCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAAGTTTACTTTGAAATACATTAAAGc                                                             <  2:904852/91‑1 (MQ=255)
                cccTGTCTTCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTaaa                                                               >  1:2959199/1‑87 (MQ=40)
                cccTGTCTTCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTaaa                                                               <  2:2959199/87‑1 (MQ=40)
                cccTGTCTTCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGccc                                                           >  1:23456/1‑91 (MQ=255)
                cccTGTCTTCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGccc                                                           >  1:1681996/1‑91 (MQ=255)
                 ccTGTCTTCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCa                                                          >  1:5045981/1‑91 (MQ=255)
                  cTGTCTTCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCaa                                                         >  2:4585693/1‑91 (MQ=255)
                    gTCTTCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAAt                                                       <  2:1576683/91‑1 (MQ=255)
                    gTCTTCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAAt                                                       >  2:1526986/1‑91 (MQ=255)
                    gTCTTCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAAt                                                       >  1:4267053/1‑91 (MQ=255)
                     tCTTCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAAtt                                                      >  2:1028095/1‑91 (MQ=255)
                      cTTCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTa                                                     >  1:3729102/1‑91 (MQ=255)
                      cTTCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTa                                                     >  1:4693877/1‑91 (MQ=255)
                      cTTCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTa                                                     <  1:4326651/91‑1 (MQ=255)
                       ttCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTaa                                                    >  1:3534537/1‑91 (MQ=255)
                         cGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATc                                                  <  2:2907507/91‑1 (MQ=255)
                         cGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATc                                                  <  2:1853087/91‑1 (MQ=255)
                         cGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATc                                                  <  1:826968/91‑1 (MQ=255)
                          gACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCa                                                 <  2:5696730/91‑1 (MQ=255)
                           aCTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCaa                                                <  1:2676124/91‑1 (MQ=255)
                           aCTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCaa                                                <  1:2676092/91‑1 (MQ=255)
                             tGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCaaaa                                              >  2:2850301/1‑91 (MQ=255)
                              ggCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAg                                             >  1:5096894/1‑91 (MQ=255)
                              ggCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAg                                             <  2:3605981/91‑1 (MQ=255)
                              ggCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAg                                             >  1:4166936/1‑91 (MQ=255)
                                cACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCt                                           >  2:1131669/1‑91 (MQ=255)
                                cACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCt                                           >  1:3002318/1‑91 (MQ=255)
                                cACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCt                                           >  1:3800359/1‑91 (MQ=255)
                                cACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCt                                           >  1:1228835/1‑91 (MQ=255)
                                   tGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTc                                        >  1:2441935/1‑91 (MQ=255)
                                    gCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCt                                       >  2:450500/1‑91 (MQ=255)
                                    gCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCt                                       >  2:2041875/1‑91 (MQ=255)
                                     cTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTg                                      <  1:1381804/91‑1 (MQ=255)
                                     cTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTg                                      >  2:4550143/1‑91 (MQ=255)
                                      tCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGa                                     <  1:1060170/91‑1 (MQ=255)
                                      tCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGa                                     <  2:656134/91‑1 (MQ=255)
                                      tCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGa                                     <  2:2014704/91‑1 (MQ=255)
                                        ccTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCGAAATTAATCAAAAGCTTTCTGAAc                                   >  1:5546124/1‑91 (MQ=255)
                                        ccTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAGAGCTTTCTGAAc                                   >  2:3804888/1‑91 (MQ=255)
                                        ccTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAAc                                   >  2:4831686/1‑91 (MQ=255)
                                        ccTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAAc                                   >  2:703560/1‑91 (MQ=255)
                                        ccTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAAc                                   >  2:2442859/1‑91 (MQ=255)
                                        ccTCAGGAGTCTCGCCATTAACACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAAc                                   >  1:1979506/1‑91 (MQ=255)
                                          tCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCa                                 >  2:1704774/1‑91 (MQ=255)
                                          tCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCa                                 >  2:2259615/1‑91 (MQ=255)
                                            aGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCAGa                               >  1:4955712/1‑91 (MQ=255)
                                               aGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCAGAAAc                            <  1:5166207/91‑1 (MQ=255)
                                                gTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCAGAAACg                           <  1:4863319/91‑1 (MQ=255)
                                                 tctcGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCAGAAACGa                          >  2:3820247/1‑91 (MQ=255)
                                                 tctcGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCAGAAACGa                          >  1:4088417/1‑91 (MQ=255)
                                                  ctcGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCAGAAACGaa                         <  1:2917422/91‑1 (MQ=255)
                                                      ccATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCAGAAACGaaaaaa                     <  1:5799156/91‑1 (MQ=255)
                                                       cATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCAGAAACGaaaaaaa                    >  1:463270/1‑91 (MQ=255)
                                                       cATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCAGAAACGaaaaaaa                    >  2:3427420/1‑91 (MQ=255)
                                                       cATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCAGAAACGaaaaaaa                    >  2:4156329/1‑91 (MQ=255)
                                                       cATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCAGAAACGaaaaaaa                    >  2:4976423/1‑91 (MQ=255)
                                                       cATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCAGAAACGaaaaaaa                    >  2:4776604/1‑91 (MQ=255)
                                                         ttAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCAGAAACGAAAAAAATc                  <  2:3213301/91‑1 (MQ=255)
                                                         ttAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCAGAAACGAAAAAAATc                  <  1:5471625/91‑1 (MQ=255)
                                                          tAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCAGAAACGAAAAAAATCt                 >  2:5708754/1‑91 (MQ=255)
                                                          tAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCAGAAACGAAAAAAATCt                 >  1:1453397/1‑91 (MQ=255)
                                                          tAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACAAAAAAAAAAAAAAATCt                 <  2:1713024/91‑1 (MQ=25)
                                                            aTACTACGTATTAACATGTAATTTTACTTTGAACTACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCAGAAACGAAAAAAATCtat               >  1:5837595/1‑91 (MQ=255)
                                                            aTACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCAGAAACGAAAAAAATCtat               >  2:1397641/1‑91 (MQ=255)
                                                            aTACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCAGAAACGAAAAAAATCtat               >  1:1773609/1‑91 (MQ=255)
                                                            aTACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCAGAAACGAAAAAAATCtat               >  2:3542612/1‑91 (MQ=255)
                                                            aTACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCAGAAACGAAAAAAATCtat               >  2:5785271/1‑91 (MQ=255)
                                                            aTACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCAGAAACGAAAAAAATCtat               >  1:1361844/1‑91 (MQ=255)
                                                               ctacGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCAGAAACGAAAAAAATCTATAGt            >  1:121095/1‑91 (MQ=255)
                                                               ctacGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCAGAAACGAAAAAAATCTATAGt            <  1:3987341/91‑1 (MQ=255)
                                                               ctacGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCAGAAACGAAAAAAATCTATAGt            >  2:713540/1‑91 (MQ=255)
                                                               ctacGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCAGAAACGAAAAAAATCTATAGt            >  1:2901466/1‑91 (MQ=255)
                                                                gtagTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCAGAAACGAAAAAAATCTATAGTc           >  1:4265454/4‑91 (MQ=255)
                                                                 acGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCAGAAACGAAAAAAATCTATAGTCa          >  1:2554586/1‑91 (MQ=255)
                                                                    tATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCAGAAACGAAAAAAATCTATAGTCATAg       >  2:3296309/1‑91 (MQ=255)
                                                                     aTTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATTAAAAGCTTTCTGAACCAGAAACGAAAAAAATCTATAGTCATAGa      <  1:3674294/91‑1 (MQ=255)
                                                                     aTTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCAGAAACGAAAAAAATCTATAGTCATAGa      >  1:5192187/1‑91 (MQ=255)
                                                                       tAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCAGAAACGAAAAAAATCTATAGTCATAGaaa    <  2:5192187/91‑1 (MQ=255)
                                                                        aaCATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCAGAAACGAAAAAAATCTATAGTCATAGaaaa   <  2:3797452/91‑1 (MQ=255)
                                                                         aCATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCAGAAACGAAAAAAATCTATAGTCATAGaaaaa  >  1:5773331/1‑91 (MQ=255)
                                                                         |                                                                                          
GCTTCTGTGTTGGGGCCCCTGTCTTCGACTGGCACTGCTCCCTCAGGAGTCTCGCCATTAATACTACGTATTAACATGTAATTTTACTTTGAAATACATTAAAGCCCAAATTAATCAAAAGCTTTCTGAACCAGAAACGAAAAAAATCTATAGTCATAGAAAAA  >  USA300TCH1516_ALE/1426721‑1426884

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.