New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? USA300TCH1516_ALE 52495 =282 (0.770)342 (0.950)
+T
9/258 NT 53.3% intergenic (+105/‑568) USA300HOU_RS00215/USA300HOU_RS00220 hypothetical protein/hypothetical protein
?USA300TCH1516_ALE = 52988 321 (0.880)intergenic (+598/‑75) USA300HOU_RS00215/USA300HOU_RS00220 hypothetical protein/hypothetical protein

Only 100 of 755 total aligned reads displayed.

TTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCATAGAGAAAGTAAATATATAGAGTATAAGAAATCACGAAAAGGATTATCTAATGATATTTGG  >  USA300TCH1516_ALE/52848‑53128
                                                                                                                                            |                                                                                                                                            
   aaaTCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTCAGAGGCGGGGTTTGAAATCATCGTAGTAATCGCGCGAAAATcgcg                                                                                                                                           >  1:143548/1‑141 (MQ=11)
           gtagtaATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAc                                                                                                                                   >  1:1664351/1‑141 (MQ=33)
               taATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGACATCATAACTAGTATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATg                                                                                                                               >  1:2075815/1‑141 (MQ=11)
                aaTCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATAATCGTCGTAATCTCTCGAAAATCGCGTGAAATACTATgg                                                                                                                              <  1:859727/141‑1 (MQ=255)
                  tCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGtg                                                                                                                            >  1:470212/1‑140 (MQ=38)
                    gcgcgAAAATCACGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATGGTTTGAAATCATCGTAGGAATCGCGCGAAAATCacgtgaaataatcagggcaa                                                                                                                          <  2:3732318‑M2/141‑21 (MQ=255)
                          aaaTCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGGGAAATAATCAGAGGAATCGTTTGAGGTCATGGTAGTAATCGCGCGAAAAGCGCGGGAAAGACTATGGTAGAAGGttt                                                                                                                    >  1:318105/1‑141 (MQ=14)
                           aaTCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTg                                                                                                                   >  1:3355149/1‑141 (MQ=255)
                           aaTCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTg                                                                                                                   >  1:2272885/1‑141 (MQ=255)
                             tCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAg                                                                                                                 <  1:2006581/141‑1 (MQ=255)
                             acgcgTGAAATCATCAGAGGAATCGGTTGAACTAATCGTAGTAATCGCGCGAAAAGCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAg                                                                                                                 <  2:2392227/140‑1 (MQ=14)
                                  tGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAAt                                                                                                            <  1:36678/141‑1 (MQ=255)
                                           cAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGt                                                                                                   >  1:1852282/1‑141 (MQ=255)
                                               ggAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTCAGAGGAATGGTTTGAGAACATTGTAGTAATATCGTGAAAATCATGTTAAATACTATTGTAGATGCATAGAGTAAATAAATGTAgagagt                                                                                               >  2:3522997/1‑136 (MQ=9)
                                                gAATGGTTTGAAGTCATCGTAGTAATCGCGCGAAAAACGCGTGAAAGAATCAGAGGAATCGTTTGAAATTATCGTAGCAATCGCGCGAAAATGccgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgc                                                                                              >  2:3000229‑M2/1‑93 (MQ=255)
                                                      tttGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCTGAGGAACCGTTTGAAAAAATCGTAGAAATAGCGCGAAACTTACGTGAAGTAGTATGTTAGATGGATAGAGTAAGTGAATAGAGTATTGAAataaa                                                                                        >  2:2194112/1‑139 (MQ=9)
                                                           aaTCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAGTATTTATgg                                                                                   >  1:161169/1‑141 (MQ=255)
                                                           aaTCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATgg                                                                                   >  1:2943435/1‑141 (MQ=255)
                                                                 cGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTgga                                                                             <  1:3040731/141‑1 (MQ=255)
                                                                   tagtaATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTggagg                                                                           <  1:2893918/141‑1 (MQ=255)
                                                                    agtaATCGCCCGAAAATCGCGTCAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTggagga                                                                          <  1:1555441/141‑1 (MQ=255)
                                                                    agtaAGCGCGCGAAAATCAGGTGAAATAATGAGGGGGATCCTAAAAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTggagga                                                                          <  2:43687/141‑1 (MQ=25)
                                                                      taATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAAt                                                                        <  1:1632640/141‑1 (MQ=255)
                                                                       aaTCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAAtt                                                                       <  1:4261354/141‑1 (MQ=255)
                                                                        aTCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTg                                                                      <  1:2226796/141‑1 (MQ=255)
                                                                        aTCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTg                                                                      <  1:2575427/141‑1 (MQ=255)
                                                                        aTCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTg                                                                      <  1:355881/141‑1 (MQ=255)
                                                                        aTCGCGCGAAAATCGCGTGAAATAATCAGAGGAATAGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAAAACTATGGTAGACGGTTTGAGTAAATTACTGGAGTATTTTAAGATTTATGGTTTGGAGGAATTg                                                                      >  2:1046654/1‑141 (MQ=255)
                                                                        aTCGCGAGAAAATCTCGTGAAATAAGCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGCCGCTTTGATTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTg                                                                      <  2:4297256/141‑1 (MQ=21)
                                                                         tCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATAGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGATTTGGAGGAAtaaa                                                                     >  2:4163278/1‑138 (MQ=255)
                                                                          cgcgcgAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCg                                                                    <  1:2384075/141‑1 (MQ=255)
                                                                           cctgcacaatcccgtaAGATAGTGAGGGGAATCGCGTGAAATCATACTAATAATCGCGCGAAAATCacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaatcacgtgaaataatcagaggaa                                                                   >  2:3785765‑M2/8‑66 (MQ=255)
                                                                              cgAAAAGCGCGTGAAATAATCAGAGGAAGCGGTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGCCGGTTTGAGTAACTTGATGGAGTATTTTAATATTTATGGTATGGAGGAATTGCGTTgg                                                                >  1:3102481/1‑140 (MQ=25)
                                                                                 aaaTCGCGTGAAATAATCAGATGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaatcacgtgaaataatcagaggaatcgttt                                                             >  1:742707‑M2/1‑60 (MQ=255)
                                                                                   atctagggaaatcatCAGAGCATACGTTTGAAATCATAGTAGTAATCGTGCGGAAATCacgtgaaataatcagaggaatcgtttgaaatcatcggagtaatcgcgcgaaaatcacgtgaaataatcagaggaatcgtttga                                                           >  2:854283‑M2/8‑58 (MQ=255)
                                                                                   aTCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATGGTAGGATACTCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCATaga                                                           <  2:3120466/141‑1 (MQ=37)
                                                                                    tCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCATagag                                                          <  2:3213368/141‑1 (MQ=255)
                                                                                    tCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCACGAAAATCGCGTGAAATACTATGGTAGACGGTTTGACTAATTTAATTGGGTACTGTAATAGTTACGGTTTGGAGGAATTGCGTTGCATagag                                                          >  2:1558445/1‑141 (MQ=21)
                                                                                      gcgTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCATAGAGaa                                                        <  1:3415604/141‑1 (MQ=255)
                                                                                      gcgAGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaatcacgtgaaataatcagaggaatcgtttgaaat                                                        >  1:3794354‑M2/1‑55 (MQ=255)
                                                                                      aaacgaaatAATGAAAGGAATCGTTTGAAAATATCGGAGTAATCGTGCGAAAATCgcgtgaaataatgagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaagcacgtgaaataatcagaggaatcgtttgaaat                                                        >  2:3902700‑M2/5‑55 (MQ=255)
                                                                                        ttGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCATAGAGAAAg                                                      <  2:2310925/140‑1 (MQ=255)
                                                                                            aataatCAGAGGAAGCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCATAGAGAAAGTaaa                                                  <  1:1709507/141‑1 (MQ=255)
                                                                                             ataatCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaatcacgtgaaataatcagaggaatcgtttgaaatcatcgta                                                 <  2:3352122‑M2/141‑94 (MQ=255)
                                                                                              taatCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCacgtgaaataatcagaggaatcgtttgaa                                                                                                                 >  2:183148‑M2/1‑47 (MQ=255)
                                                                                              aaatcAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaatcacgtgaaataatcagaggaatcgtttgaaatcatcgtag                                                >  1:298311‑M2/2‑47 (MQ=255)
                                                                                              aaatCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCATAGAGAAAGTAAata                                                <  1:1308385/140‑1 (MQ=255)
                                                                                                 tCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCacgtgaaataatcagaggaatcgtttgaaa                                                                                                                <  1:3921168‑M2/74‑31 (MQ=255)
                                                                                                 tCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCacgtgaaataatcagaggaatcgtttgaa                                                                                                                 <  1:1212665‑M2/73‑30 (MQ=255)
                                                                                                 tCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCacgtgaaataatcagaggaat                                                                                                                         <  1:2529266‑M2/65‑22 (MQ=255)
                                                                                                 tCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCATAGAGAAAGTAAatatat                                             <  1:2796602/141‑1 (MQ=255)
                                                                                                  cAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaatcacgtgaaataatcagaggaatcgtttgaactcatcgtagtaat                                            <  1:3728568‑M2/141‑99 (MQ=255)
                                                                                                  cAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCacgtgaaataatcagaggaatcgttt                                                                                                                    <  1:2412821‑M2/69‑27 (MQ=255)
                                                                                                   agagGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCATAGAGAAAGTAAATATATag                                           >  1:1078483/1‑141 (MQ=255)
                                                                                                        aaTCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCacgtgaaataatcagaggaat                                                                                                                         >  1:934516‑M2/1‑37 (MQ=255)
                                                                                                         aTCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaatcacgt                                                                                   <  1:175932‑M2/95‑60 (MQ=255)
                                                                                                          tagttTGAAATCATCGTAGTAATCGCGCGAAAATCacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaatcacgttaaataatcatagaaatccattgaaataataatcgtaatatcgcgaa                                    <  2:1632640‑M2/139‑107 (MQ=255)
                                                                                                          tCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaatcacgtgaaataatcagaggaatcgtttga                                                           <  1:11817‑M2/118‑84 (MQ=255)
                                                                                                          tCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCacgtgaaataatcagaggaatcgtttgaaa                                                                                                                <  1:786288‑M2/65‑31 (MQ=255)
                                                                                                            gTTTGAAATCATCGTAGTAATCGCGCGAAAATCacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaatcacgtgaaatactcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaa                                  <  1:43687‑M2/141‑109 (MQ=255)
                                                                                                            gTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCATAGAGAAAGTAAATATATAGAGTATAAGa                                  <  2:1664351/141‑1 (MQ=255)
                                                                                                             tttGAAATCATCGTAGTAATCGCGCGAAAATCacgtgaaataatcagaggaatcgttt                                                                                                                    >  1:3521645‑M2/1‑32 (MQ=255)
                                                                                                             tttAAAAACATCGTAGTAATCGCGCGAAAATCacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaatcacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaat                                 >  1:4065121‑M2/1‑32 (MQ=255)
                                                                                                              ttGAAATCATCGTAGTAATCGCGCGAAAATCacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaagtcacgtgaaataataagaggaatcgttagaaatcatcgtagtaatcgcgcgaaaatc                                <  1:1966818‑M2/141‑111 (MQ=255)
                                                                                                              tcgaaAACATAGGAGAAATAGCGCGAACATCacgtgaaataatcagaggaagcgtttgaaatcatagtagaaatcgcgcgaaaatcacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaatc                                >  2:2569335‑M2/3‑31 (MQ=255)
                                                                                                                 aaaTCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCATAGAGAAAGTAAATATATAGAGTATAAGAAATCa                             <  1:4309322/141‑1 (MQ=255)
                                                                                                                 aaaGCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCATAGAGAAAGTAAATATATAGAGTATAAGAAATCa                             <  1:998682/141‑1 (MQ=255)
                                                                                                                  aaaaatcgtagTAATCGCGCGAAAATCacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaatcacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaatcacgt                            >  1:576615‑M2/5‑27 (MQ=255)
                                                                                                                   atcatcGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCATAGAGAAAGTAAATATATAGAGTATAAGAAATCACg                           <  2:2103566/141‑1 (MQ=255)
                                                                                                                     catcGTAGAAATCGCGCGAAAATCacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaatcacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaatcacgtgaa                         >  1:2333366‑M2/1‑24 (MQ=255)
                                                                                                                     cataggagtaAGCGAGAGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCATAGAGAAAGTAAATATATAGAGTATAAGAAATCACGaa                         <  2:649672/135‑1 (MQ=255)
                                                                                                                      atcGTAGTAATCGCGCGAAAATCacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaatcacg                                                                                    <  2:751215‑M2/81‑59 (MQ=255)
                                                                                                                      atcGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCATAGGGAAAGTAAATATATAGAGTATAAGAAATCACGaaa                        >  1:681071/1‑141 (MQ=255)
                                                                                                                         gtagtaATCGCGCGAAAATCacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaatcacgtgaaata                                                                             <  2:3428441‑M2/85‑66 (MQ=255)
                                                                                                                         gtagtaATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCATAGAGAAAGTAAATATATAGAGTATAAGAAATCACGAAAAgg                     <  2:2235498/141‑1 (MQ=255)
                                                                                                                          tagtaATCGCGCGAAAAACacgtaaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaatcacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaatcacgtgaaataat                    >  1:1930014‑M2/1‑19 (MQ=255)
                                                                                                                           agtaATCGCGCGAAAATCacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcg                                                                                             >  2:4049691‑M2/1‑18 (MQ=255)
                                                                                                                            gtaATCGCGCGAAAATCacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaatcacgtgaa                                                                                <  1:397829‑M2/79‑63 (MQ=255)
                                                                                                                            gtaATCGCGCGAAAATCacgtgaaataatcagaggaatcgtttgaaa                                                                                                                <  1:3303144‑M2/47‑31 (MQ=255)
                                                                                                                            gtaATCGCGCGAAAATCacgtgaaataatcagaggaatcgtttgaaa                                                                                                                >  2:3303144‑M2/1‑17 (MQ=255)
                                                                                                                               aTCGCGCGAAAATCacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaatcacgtgaaataatcagaggaatcgtttgaaatcatcgtcgtagtcgcccgaaaatcacttgaaaaaaacagaa               <  2:54557‑M2/141‑128 (MQ=255)
                                                                                                                               aTCGCGCGAAAATCacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaatcacgtgaaataatcagaggaatcgtttgaaatcatcgt                                                  <  1:3598691‑M2/106‑93 (MQ=255)
                                                                                                                               aTCGCGCGAAAATCacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaat                                                                                        >  1:1030050‑M2/1‑14 (MQ=255)
                                                                                                                                ttattagaaaagcaagtgaaataataagagaaatagtttgaaataatagtagtaatggtgtgaaaatcacgtgaaataatcagaggaatcgtttgaaaacatcgtagtaatcgcgcgaaaatcacgtgaaataatcagagg              >  2:191456‑M2/7‑13 (MQ=255)
                                                                                                                                  gcgcgAAAATCacgtgaaataatcagaggaatcgtttgaaatcatcgtag                                                                                                       <  2:1720129‑M2/50‑40 (MQ=255)
                                                                                                                                   cgcgAAAATCacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaatcacgtgaaataatcagag                                                                      <  2:2890495‑M2/82‑73 (MQ=255)
                                                                                                                                     cgAAAATCacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaatcacgtgaaataatcagaggattcggttgaaatggtaggagtaatcgcacgaaaatctcgtgaaataatcagaggaatag         <  1:4161040‑M2/141‑134 (MQ=255)
                                                                                                                                     cgAAAATCacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaatcacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaatcacgtgaaataatcagaggaatgg         <  1:891830‑M2/141‑134 (MQ=255)
                                                                                                                                     cgAAAATCacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaatcacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaa                                    >  2:1212619‑M2/1‑8 (MQ=255)
                                                                                                                                     cgAAAATCacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaatcacgtgaaataatcagaggaatcgtttgaaa                                                         <  1:2643483‑M2/93‑86 (MQ=255)
                                                                                                                                     cgAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCATAGAGAAAGTAAATATATAGAGTATAAGAAATCACGAAAAGGATTATCTAATGa         <  1:2149702/141‑1 (MQ=255)
                                                                                                                                     agAAAATCGCGTGAAATACTATGGTAGATGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCATAGAGAAAGTAAATATATAGAGTATAAGAAATCACGAAAAGGATTATCTAATGa         <  2:2459224/140‑1 (MQ=255)
                                                                                                                                      gAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCATAGAGAAAGTAAATATATAGAGTATAAGAAATCACGAAAAGGATTATCTAATGat        >  1:2463013/1‑141 (MQ=255)
                                                                                                                                        aaaTCacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaatcac                                                                                     <  1:2828112‑M2/62‑58 (MQ=255)
                                                                                                                                        aaaTCGCGTGAAATACTATGGTAGATGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCATAGAGAAAGTAAATATATAGAGTATAAGAAATCACGAAAAGGATTATCTAATGatat      <  2:920042/141‑1 (MQ=255)
                                                                                                                                         aaTCacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaatcacgtgaaataatcagaggaatcgt                                                               >  2:1395032‑M2/1‑4 (MQ=255)
                                                                                                                                         aaTCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCATAGAGAAAGTAAATATATAGAGTATAAGAAATCACGAAAAGGATTATCTAATGATAtt     <  1:3263382/141‑1 (MQ=255)
                                                                                                                                           tCacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcga                                                                                            >  2:2717954‑M2/1‑2 (MQ=255)
                                                                                                                                            cacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaatcacgtgaaatactcagaggaatcgtttgaaaacatcgtagtaatcgcgcgaaaattacgtgaaataatcagtggaatcgtgtgaca  <  2:202911‑M2/141‑141 (MQ=255)
                                                                                                                                            cacgtgaaataatcagaggaatcgtttgaaatcatcgtagtaatcgcgcgaaaatcacgtgaaataatcagagga                                                                    <  1:1365875‑M2/75‑75 (MQ=255)
                                                                                                                                            |                                                                                                                                            
TTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCATAGAGAAAGTAAATATATAGAGTATAAGAAATCACGAAAAGGATTATCTAATGATATTTGG  >  USA300TCH1516_ALE/52848‑53128

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: 
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.