New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? USA300TCH1516_ALE 2143370 =77 (0.780)13 (0.160) 7/132 NT 16.9% intergenic (+5/+20) USA300HOU_RS10935/USA300HOU_RS10940 hypothetical protein/hypothetical protein
?USA300TCH1516_ALE 2143414 = 64 (0.790)coding (1230/1254 nt) USA300HOU_RS10940 hypothetical protein

Only 100 of 129 total aligned reads displayed.

ACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATACCACCATCATAGAACATACAATTGCTAGCCAACTTTTA  >  USA300TCH1516_ALE/2143324‑2143501
                                                                                           |                                                                                       
aCGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTa                                                                                         >  1:2509849/1‑91 (MQ=255)
aCGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTa                                                                                         >  1:2925996/1‑91 (MQ=255)
aCGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTa                                                                                         <  1:2169879/91‑1 (MQ=255)
  ggAACAAGCGAATTTTATATATCACATTTTTATTCCATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTAtt                                                                                       <  1:1551867/91‑1 (MQ=255)
    aaCAAGCGAATTTTATATATCACATTTTTATTCCATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTAtttt                                                                                     <  1:567237/91‑1 (MQ=255)
     atcatgctattcttatttgtaaagcgaaataaaaagaaaaatAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTAtttt                                                                                     >  1:1554781‑M1/43‑91 (MQ=255)
     aCAAGCGAATTTTATATATCACATTTTTATTCCATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTAttttt                                                                                    <  1:3585217/91‑1 (MQ=255)
     aCAAGCGAATTTTATATATCACATTTTTATTCCATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTAttttt                                                                                    <  1:1518823/91‑1 (MQ=255)
        aGCGAATTTTATATATCACATTTTTATTCCATAAT‑‑AAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCttt                                                                                <  1:2801073/91‑1 (MQ=255)
         gCGAATTTTATATATCACATTTTTATTCCATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCttt                                                                                <  1:3572983/91‑1 (MQ=255)
          cGAATTTTATATATCACATTTTTATTCCATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCtttt                                                                               >  1:914566/1‑91 (MQ=255)
            aaTTTTATATATCACATTTTTATTCCATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTa                                                                             <  1:2570010/91‑1 (MQ=255)
            aaTTTTATATATAACATTTTTATTCCATAAT‑‑AAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTAt                                                                            >  1:3172765/1‑91 (MQ=255)
             aTTTTATATATCACATTTTTATTCCATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTAt                                                                            <  1:3136278/91‑1 (MQ=255)
             aTTTTATATATCACATTTTTATTCCATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTAt                                                                            >  1:2188754/1‑91 (MQ=255)
             aTTTTATATATCACATTTTTATTCCATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTAt                                                                            >  1:549164/1‑91 (MQ=255)
              ttttATATATCACATTTTTATTCCATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTAtt                                                                           <  1:518048/91‑1 (MQ=255)
              ttttATATATCACATTTTTATTCCATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTAtt                                                                           <  1:2268588/91‑1 (MQ=255)
                ttATATATCACATTTTTATTCCATAATAAAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTAttt                                                                          <  1:2583096/91‑1 (MQ=255)
                ttATATATCACATTTTTATTCCATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTc                                                                         >  1:2712130/1‑91 (MQ=255)
                 tatataTCACATTTTTATTCCATAAT‑‑AAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGc                                                                       <  1:136165/91‑1 (MQ=255)
                  atatatCACATTTTTATTCCATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGc                                                                       >  1:3713362/1‑91 (MQ=255)
                   tatatCACATTTTTATTCCATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCt                                                                      >  1:2494238/1‑91 (MQ=255)
                   tatatCACATTTTTATTCCATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCt                                                                      >  1:3484832/1‑91 (MQ=255)
                   tatatCACATTTTTATTCCATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCt                                                                      >  1:2802586/1‑91 (MQ=255)
                    atatCACATTTTTATTCCATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCtt                                                                     <  1:1021486/91‑1 (MQ=255)
                    atatCACATTTTTATTCCATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCtt                                                                     >  1:843091/1‑91 (MQ=255)
                     tatCACATTTTTATTCCATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCttt                                                                    >  1:791947/1‑91 (MQ=255)
                       tCACATTTTTATTCCATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTATATTTCGCTTTAc                                                                  >  1:4142143/1‑91 (MQ=255)
                         acaTTTTTATTCCATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACaa                                                                >  1:1192346/1‑91 (MQ=255)
                         acaTTTTTATTCCATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACaa                                                                <  1:4058489/91‑1 (MQ=255)
                         acaTTTTTATTCCATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACaa                                                                >  1:684862/1‑91 (MQ=255)
                          caTTTTTATTCCATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACaaa                                                               <  1:3065910/91‑1 (MQ=255)
                          caTTTTTATTCCATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACaaa                                                               <  1:3065877/91‑1 (MQ=255)
                                 aTTCCATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAAt                                                        <  1:3780882/91‑1 (MQ=255)
                                  ttCCATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATa                                                       >  1:403630/1‑91 (MQ=255)
                                  ttCCATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATa                                                       >  1:3450251/1‑91 (MQ=255)
                                    ccATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATACGAATAGc                                                     >  1:2074571/1‑91 (MQ=255)
                                    ccATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGc                                                     >  1:3635015/1‑91 (MQ=255)
                                    ccATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGc                                                     >  1:2254153/1‑91 (MQ=255)
                                    ccATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGc                                                     >  1:2982946/1‑91 (MQ=255)
                                      ataat‑aAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCAt                                                   >  1:3952923/1‑91 (MQ=255)
                                      ataat‑aAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCAt                                                   >  1:806649/1‑91 (MQ=255)
                                       aaat‑aaAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATg                                                  <  1:2170432/90‑1 (MQ=255)
                                       aaat‑aaAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATg                                                  <  1:2170323/90‑1 (MQ=255)
                                         at‑aaAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGAt                                                <  1:2685798/91‑1 (MQ=255)
                                          aaaataaaaacgaatcacagcgacgataatccgtgtgtgattcgtttttATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGAt                                                >  1:1554781‑M2/50‑91 (MQ=255)
                                             aaaaaaaCGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGACTAGCATGATTGa                                             <  1:3182792/91‑1 (MQ=255)
                                             aaaaaaaCGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGa                                             <  1:1272306/91‑1 (MQ=255)
                                              aaaaaaCGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGaa                                            >  1:715102/1‑91 (MQ=255)
                                                AAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGaaaa                                          >  1:875695‑M1/1‑91 (MQ=255)
                                                AAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGaaaa                                          <  1:2279234‑M1/91‑1 (MQ=255)
                                                AAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGaaaa                                          <  1:3631173‑M1/91‑1 (MQ=255)
                                                 AAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACACTTAAGAATAGCATGATTGAAAAt                                         <  1:1545117‑M1/91‑1 (MQ=255)
                                                 AAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAAt                                         >  1:2276404‑M1/1‑91 (MQ=255)
                                                 AAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAAt                                         >  1:1625227‑M1/1‑91 (MQ=255)
                                                 AAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAAt                                         <  1:3751021‑M1/91‑1 (MQ=255)
                                                   ACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATac                                       >  1:1438472‑M1/1‑91 (MQ=255)
                                                    cgaatcacagcgacgataatccgtgtgtgattcgtttttATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATacc                                      >  1:1455767‑M2/40‑91 (MQ=255)
                                                    cgaatcacagcgacgataatccgtgtgtgattcgtttttATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATacc                                      >  1:2898737‑M2/40‑91 (MQ=255)
                                                    CGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATacc                                      >  1:1767904‑M1/1‑91 (MQ=255)
                                                     GAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATacca                                     <  1:3822943‑M1/91‑1 (MQ=255)
                                                      aatcacagcgacgataatccgtgtgtgattcgtttttCTTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATaccac                                    >  1:3505374‑M2/38‑91 (MQ=255)
                                                      aatcacagcgaccataatccgtgtgtgattcgtttttATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATaccac                                    >  1:3194639‑M2/38‑91 (MQ=255)
                                                       ATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATaccacc                                   >  1:584631‑M1/1‑91 (MQ=255)
                                                       ATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATaccacc                                   >  1:1400834‑M1/1‑91 (MQ=255)
                                                        TCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATAccacca                                  >  1:1384726‑M1/1‑91 (MQ=255)
                                                          acagcgacgataatccgtgtgtgattcgtttttATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATACCACcatc                                >  1:2831491‑M2/34‑91 (MQ=255)
                                                          ACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATACCACcatc                                <  1:4088449‑M1/91‑1 (MQ=255)
                                                            agcgacgataatccgtgtgtgattcgtttttATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATACCACcatcat                              >  1:93452‑M2/32‑91 (MQ=255)
                                                            ACACGGATTATCGTCGCTGTGATTCGTTTTTATCTTTGTTTTTATTGCGCTTTACAAATCAGAATAGCATGATTGAAAATACCACcatcat                              <  1:3309176‑M1/91‑1 (MQ=255)
                                                              cgacgataatccgtgtgtgattcgtttttATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATACCACCATCATAg                            >  1:1208770‑M2/30‑91 (MQ=255)
                                                              acGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATACCACCATCATAg                            >  1:583349/1‑91 (MQ=255)
                                                              acGGATTATCGTCGCTGTGAGTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCTTGATTGAAAATACCACCCTCATAg                            >  1:1678634/1‑91 (MQ=255)
                                                               cGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATACCACCATCATAGa                           <  1:3671098/91‑1 (MQ=255)
                                                               cGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATACCACCATCATAGa                           <  1:2532024/91‑1 (MQ=255)
                                                               cGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATACCACCATCATAGa                           >  1:319523/1‑91 (MQ=255)
                                                               cGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATACCACCATCATAGa                           >  1:4014806/1‑91 (MQ=255)
                                                                 gATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATACCACCATCATAGAAc                         <  1:3034077/91‑1 (MQ=255)
                                                                 gATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATACCACCATCATAGAAc                         <  1:1630837/91‑1 (MQ=255)
                                                                   ttATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATACCACCATCATAGAACAt                       >  1:1588218/1‑91 (MQ=255)
                                                                   ttATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATACCACCATCATAGAACAt                       <  1:598928/91‑1 (MQ=255)
                                                                     aatccgtgtgtgattcgtttttATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATACCACCATCATAGAACATAc                     >  1:650927‑M2/23‑91 (MQ=255)
                                                                     aatccgtgtgtgattcgttttgATCTTTCTTATTATTTCGCTTTACAACTAAGAATTGCATGATTGAAAATACCACCATCATAGAAcatcc                     >  1:650579‑M2/23‑89 (MQ=255)
                                                                      tcgtcgCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTATAAATAAGAATAGCATGATTGAAAATACCACCATCATAGAACATACa                    <  1:3311885/91‑1 (MQ=255)
                                                                         tcgCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATACCACCATCATNGAANATACAAtt                 >  1:891903/1‑91 (MQ=255)
                                                                         tcgCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATACCACCATCATAGAACATACAAtt                 <  1:2344097/91‑1 (MQ=255)
                                                                              gtgattcgtttttATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATACCACCATCATAGAACATACAATTGCTAg            >  1:780552‑M2/14‑91 (MQ=255)
                                                                              gtgattcgtttttATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATACCACCATCATAGAACATACAATTGCTAg            >  1:780179‑M2/14‑91 (MQ=255)
                                                                               tgattcgtttttATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATACCACCATCATAGAACATACAATTGCTAGc           <  1:2501252‑M2/79‑1 (MQ=255)
                                                                               tgattcgtttttATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATACCACCATCATAGAACATACAATTGCTAGc           <  1:2500953‑M2/79‑1 (MQ=255)
                                                                               tgattcgtttttATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATACCACCATCATAGAACATACAATTGCTAGc           <  1:2499332‑M2/79‑1 (MQ=255)
                                                                               tgattcgtttttATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATACCACCATCATAGAACATACAATTGCTAGc           <  1:455192‑M2/79‑1 (MQ=255)
                                                                                 attcgtttttATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATACCACCATCATAGAACATACAATTGCTAGCCa         >  1:501166‑M2/11‑91 (MQ=255)
                                                                                 attcgtttttATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATACCACCATCATAGAACATACAATTGCTAGCCa         <  1:4101312‑M2/81‑1 (MQ=255)
                                                                                 attcgtttttATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATACCACCATCATAGAACATACAATTGCTAGCCa         <  1:3900452‑M2/81‑1 (MQ=255)
                                                                                   tcgtttttATTTTTCTTTTTATTTCACTTTACAAATAAGAATAGCATGATTGAAAATACCACCATCATAGAACATACAATTGCTAGCCAAc       <  1:3866674‑M2/83‑1 (MQ=255)
                                                                                      tttttATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATACCACCATCATAGAACATACAATTGCTAGCCAACttt    <  1:3839559‑M2/86‑1 (MQ=255)
                                                                                      tttttATTTCTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATACCACCATCATAGAACATACAATTGCTAGCCAACttt    <  1:3974566‑M2/86‑1 (MQ=255)
                                                                                       ttttATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATACCACCATCATAGAACATACAATTGCTAGCCAACtttt   <  1:1747802‑M2/87‑1 (MQ=255)
                                                                                           |                                                                                       
ACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAAT‑AAAAAAAACGAATCACACACGGATTATCGTCGCTGTGATTCGTTTTTATTTTTCTTTTTATTTCGCTTTACAAATAAGAATAGCATGATTGAAAATACCACCATCATAGAACATACAATTGCTAGCCAACTTTTA  >  USA300TCH1516_ALE/2143324‑2143501

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ 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.