New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? USA300TCH1516_ALE = 2543400115 (0.920)5 (0.040) 5/240 NT 4.3% intergenic (+194/‑373) hlgA/hlgC_2 Gamma‑hemolysin component A/Gamma‑hemolysin component C
?USA300TCH1516_ALE = 2543418 118 (1.020)intergenic (+212/‑355) hlgA/hlgC_2 Gamma‑hemolysin component A/Gamma‑hemolysin component C
Rejected: Frequency below/above cutoff threshold.

Only 100 of 136 total aligned reads displayed.

GCCTTATAACATTAAATTATTTTATCGTACATTAAATTTAATAATAACAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAGACATTCGTGCAATCGGTTACCTTAAATTGTTTACAACTGTCAAC  >  USA300TCH1516_ALE/2543278‑2543558
                                                                                                                                             |                                                                                                                                             
 ccTTATAACATTAAATTATTTTATCGTACATTAAATTTAATAATAACAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTAt                                                                                                                                              <  1:558346‑M2/141‑2 (MQ=255)
    tataACATTAAATTATTTTATCGTACATTAAATTTAATAATAACAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTAtcaa                                                                                                                                           <  1:916068‑M2/141‑5 (MQ=255)
       aaCATTAAATTATTTTATCGTACATTAAATTTAATAATAACAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTAtcaagtt                                                                                                                                        >  3:261908‑M2/1‑134 (MQ=255)
         cATTAAATTATTTTATCGTACATTAAATTTAATAATAACAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTAtcaagttaa                                                                                                                                      <  1:489385‑M2/141‑10 (MQ=255)
         cATTAAATTATTTTATCGTACATTAAATTTAATAATAACAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTAtcaagttaa                                                                                                                                      <  1:489476‑M2/141‑10 (MQ=255)
           ttAAATTATTTTATCGTACATTAAATTTAATAATAACAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTtaata                                                                                                                                    <  1:198835/141‑1 (MQ=255)
           ttAAATTATTTTATCGTACATTAAATTTAATAATAACAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTtaata                                                                                                                                    >  2:788182/1‑141 (MQ=255)
             aaaTTATTTTATCGTACATTAAATTTAATAATAACAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATaaa                                                                                                                                  <  3:272579/141‑1 (MQ=255)
                    tttATCGTACATTAAATTTAATAATAATAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACaattaa                                                                                                                           <  2:759576/141‑1 (MQ=255)
                     ttATCGTACATTAAATTTAATAATAACAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACaattaat                                                                                                                          >  2:1025451/1‑141 (MQ=255)
                      tATCGTACATTAAATTTAATAATAACAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACaattaatt                                                                                                                         <  3:342415/141‑1 (MQ=255)
                       aTCGTACATTAAATTTAATAATAACAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAAttt                                                                                                                        <  4:412632/141‑1 (MQ=255)
                       aTCGTACATTAAATTTAATAATAACAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAAttt                                                                                                                        <  2:398353/141‑1 (MQ=255)
                       aTCGTACATTAAATTTAATAATAACAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAAttt                                                                                                                        <  2:153650/141‑1 (MQ=255)
                        tCGTACATTAAATTTAATAATAACAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAAtttt                                                                                                                       >  1:734878/1‑141 (MQ=255)
                        tCGTACATTAAATTTAATAATAACAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAAtttt                                                                                                                       >  1:873251/1‑141 (MQ=255)
                          gTACATTAAATTTAATAATAACAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTa                                                                                                                     <  2:180973/141‑1 (MQ=255)
                            aCATTAAATTTAATAATAACAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGa                                                                                                                   >  1:193617/1‑141 (MQ=255)
                              aTTAAATTTAATAATAACAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATg                                                                                                                 >  1:22943/1‑141 (MQ=255)
                                 aaaTTTAATAATAACAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGAt                                                                                                              >  2:532718/1‑141 (MQ=255)
                                      taataataaCAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATtcatc                                                                                                         <  2:897168/141‑1 (MQ=255)
                                      taataataaCAACTGATTCTTATAAAAATAAAGTATAGAACCATAGTAAATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTCAAATAAATATTTTCAAGTTAATAAACAATTAATTTTTAGATGGATtcatc                                                                                                         <  2:1047716/141‑1 (MQ=255)
                                       aataataaCAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGATAATATTTATTTAAGCTTcaagttaaattgtttcatttgtattatttgtgtatcta                                                                                                          <  2:7630‑M2/141‑39 (MQ=255)
                                       aataataaCAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTAtcaagttaaattgtttcatttgtattatttgtgtatcta                                                                                                        <  1:7630‑M2/141‑40 (MQ=255)
                                        ataataaCAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑aa                                                                                                      >  4:138524/1‑141 (MQ=255)
                                        ataataaCAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAA‑TTTTAGATGTATTCATC‑aaa                                                                                                     >  1:559245/1‑141 (MQ=255)
                                           ataaCAACTTATTTTTATAAAAATAAAGTATCGAACCATAGTATATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑aaaaa                                                                                                   <  2:888609/141‑1 (MQ=255)
                                           ataaCAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑aaaaa                                                                                                   <  2:656212/141‑1 (MQ=255)
                                           ataaCAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑aaaaa                                                                                                   >  1:1034829/1‑141 (MQ=255)
                                           aaaaccacTGATTTTTATAAGAATAAAGTATCGAACAATAGTAGATACAAAAATAATACAAATACAAGAATTTACCTAGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑aaaaa                                                                                                   <  3:456176/139‑1 (MQ=255)
                                            taaCAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAAt                                                                                                  <  2:1044967/141‑1 (MQ=255)
                                             aacaacTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATA‑AAAAATc                                                                                                 <  2:682379/141‑1 (MQ=255)
                                               caacTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTT‑GATGAATCCATCTAAAAAttaa                                                                                               <  2:260961/141‑4 (MQ=255)
                                                    gATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTaaaaa                                                                                          <  3:144801/141‑1 (MQ=255)
                                                    gATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTaaaaa                                                                                          >  4:135915/1‑141 (MQ=255)
                                                     aTTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAg                                                                                         <  3:258783/141‑1 (MQ=255)
                                                     aTTTTTATAAGAATAAAGTATAGAACCAGAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAg                                                                                         <  4:229911/141‑1 (MQ=255)
                                                         ttATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGcaca                                                                                     >  3:199743/1‑141 (MQ=255)
                                                          tataAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACaa                                                                                    >  4:212642/1‑141 (MQ=255)
                                                          tataAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACaa                                                                                    <  2:203882/141‑1 (MQ=255)
                                                          tataAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACaa                                                                                    <  2:841653/141‑1 (MQ=255)
                                                              aGAATAAAGGATAGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTg                                                                                <  2:328640/141‑1 (MQ=255)
                                                                aaTAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTa                                                                              <  1:846593/141‑1 (MQ=255)
                                                                   aaaGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTAttt                                                                           <  2:831834/141‑1 (MQ=255)
                                                                        aTCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACaa                                                                      >  1:829641/1‑141 (MQ=255)
                                                                         tCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACaaa                                                                     >  2:830196/1‑141 (MQ=255)
                                                                         tCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACaaa                                                                     >  2:496328/1‑141 (MQ=255)
                                                                           aaaCCATAGTAGATACACAAATAATACAAATGAAACACTTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACATTTTGTATTTTACAAACa                                                                   <  1:889845/140‑1 (MQ=255)
                                                                            aaCCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACat                                                                  <  3:82235/141‑1 (MQ=255)
                                                                             aCCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACatt                                                                 >  2:700475/1‑141 (MQ=255)
                                                                                  agtagATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACattaatta                                                            <  1:625124/141‑1 (MQ=255)
                                                                                    tagATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGGATTTTACAAACATTAATTaaa                                                          <  1:638123/141‑1 (MQ=255)
                                                                                        taaaaaaaTAATACAAATGAAATAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGTTTCATA‑AAAAAAAATAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAaaag                                                      <  4:332428/136‑1 (MQ=255)
                                                                                        tACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTAAAA‑AAAAAAAATAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAaaag                                                      <  2:333636/141‑1 (MQ=255)
                                                                                         acacAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAaaaga                                                     <  3:166542/141‑1 (MQ=255)
                                                                                             aaaTAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGc                                                 <  4:39720/141‑1 (MQ=255)
                                                                                             aaaTAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGc                                                 <  4:382653/141‑1 (MQ=255)
                                                                                              aataatACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAATTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCa                                                >  2:655801/1‑141 (MQ=255)
                                                                                               ataataCAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCaa                                               <  2:507412/141‑1 (MQ=255)
                                                                                               ataataCAAATGAAAAAATTTAACTTGA‑AAACTTAAATAAATATTATCAATTTAATAAACAATTAATTTTTAGAAAAAAAAAAA‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCaa                                               <  2:305481/141‑1 (MQ=255)
                                                                                                    aCAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAGatcc                                          >  1:389977/1‑138 (MQ=255)
                                                                                                    aCAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAGACAt                                          >  3:127797/1‑141 (MQ=255)
                                                                                                    aCAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAGACAt                                          >  1:990032/1‑141 (MQ=255)
                                                                                                    aCAAATGAAACAATATAACTAGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAGACAt                                          <  2:278780/141‑1 (MQ=255)
                                                                                                      aaaTGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAGACATTc                                        >  2:932573/1‑141 (MQ=255)
                                                                                                      aaaTGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAGACATTc                                        >  2:958062/1‑141 (MQ=255)
                                                                                                      aaaTGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATAGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAGACATTc                                        <  4:116778/141‑1 (MQ=255)
                                                                                                          gAAACAATTTAACTTGC‑AAGATTAAATAAATATTATCATGTTAATAACCAAAAACTTTTTAGATCGAAACATC‑ACAAATCGTAAAAAGCACAATTTGTATTTTACAAACCTTAATTAAAAAAGAAAGCAAGACATTCGTGc                                    <  3:42299/141‑1 (MQ=255)
                                                                                                           aatccaTTTAAGTTGA‑AAGCTTAAATAAATATTCTCAAGTTAATAAATAATTAACTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGAACAATTTGTATTTTACAAACATTAATTAAAAATAAAAGCAAGACATTCGTGCa                                   <  3:69090/136‑1 (MQ=255)
                                                                                                           aaaCAATTTAACTTGA‑AAGCTTAAATAAATATTAtcaagttaaattgtttcatttgtattatttgtgtatctactatggttcgatactttattcttataaaaatcagttgttattattaaatttaatgtacgataaaataa                                    <  2:202186‑M2/141‑108 (MQ=255)
                                                                                                             aCAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAGACATTCGTGCAAt                                 <  1:1046585/141‑1 (MQ=255)
                                                                                                               aaTTTAACTTGA‑AGGCATAAATAAATCTTAtcacgttaaattgtttcatttgtattatttgtgtatctactatgtttcaatactttattcttataaaaataagttgttattattaaatttaatgtacgataaaataattta                                >  2:770688‑M2/1‑30 (MQ=255)
                                                                                                               aaTTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTTTTTTTTTTTATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAGACATTCGTGCAATCg                               >  2:755819/1‑141 (MQ=255)
                                                                                                               aaTTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAGACATTCGTGCAATCg                               >  1:42916/1‑141 (MQ=255)
                                                                                                               aaTTTAACTTGA‑AAGATTAAATAAATATTAACAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAGACATTCGTGCAATCg                               <  2:1028832/141‑1 (MQ=255)
                                                                                                                 tttAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAGACATTCGTGCAATCGGt                             <  2:508277/141‑1 (MQ=255)
                                                                                                                 tttAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAGACATTCGTGCAATCGGt                             >  1:394659/1‑141 (MQ=255)
                                                                                                                   tAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCGCAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAGACATTCGTGCAATCGGTTa                           <  1:949748/141‑1 (MQ=255)
                                                                                                                   tAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAGACATTCGTGCAATCGGTTa                           <  1:440035/141‑1 (MQ=255)
                                                                                                                    aagttGA‑AAGCTTAAATAAATATTCTCAAGTTAATAAATAATTAACTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGAACAATTTGTATTTTACAAACATTAATTAAAAATAAAAGCAAGACATTCGTGCAATCGGTTAc                          <  2:970031/138‑1 (MQ=255)
                                                                                                                     aCTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAGACATTCGTGCAATCGGTTAcc                         >  2:142095/1‑141 (MQ=255)
                                                                                                                     aCTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAGACATTCGTGCAATCGGTTAcc                         <  1:539444/141‑1 (MQ=255)
                                                                                                                     aCTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAGACATTCGTGCAATCGGTTAcc                         >  1:295920/1‑141 (MQ=255)
                                                                                                                      cTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAGACATTCGTGCAATCGGTTACCt                        <  1:501356/141‑1 (MQ=255)
                                                                                                                      cTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAGACATTCGTGCAATCGGTTACCt                        <  1:346704/141‑1 (MQ=255)
                                                                                                                        tGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATTGATTCATC‑AAAAAAAAAAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAGACATTCGTGCAATCGGTTACCTTa                      <  4:285684/141‑1 (MQ=255)
                                                                                                                             aGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAGACATTCGTGCAATCGGTTACCTTAAAtt                  >  2:324652/1‑141 (MQ=255)
                                                                                                                             aGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAGACATTCGTGCAATCGGTTACCTTAAAtt                  >  1:581547/1‑141 (MQ=255)
                                                                                                                             aGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAAACATTCGTGCGATCGGTTACCTTAAAtt                  >  1:39608/1‑141 (MQ=255)
                                                                                                                              gCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAGACATTCGTGCAATCGGTTACCTTAAATTg                 >  1:28556/1‑141 (MQ=255)
                                                                                                                                ttAAAAAAATATTAACAAGTTAATAAACAATTAATTTGTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAGACATTCGTGCAATCGGTTACCTTAAATTGtt               <  2:719928/141‑1 (MQ=255)
                                                                                                                                 taaataaaTATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAGACATTCGTGCAATCGGTTACCTTAAATTGttt              >  3:453369/1‑141 (MQ=255)
                                                                                                                                 taaataaaTATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAGACATTCGTGCAATCGGTTACATTAAATTGttt              >  1:111930/1‑141 (MQ=255)
                                                                                                                                   aataaataTTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAGACATTCGTGCAATCGGTTACCTTAAATTGTTTAc            <  2:424991/141‑1 (MQ=255)
                                                                                                                                    ataaataTTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAGACATTCGTGCAATCGGTTACCTTAAATTGTTTACa           >  2:1076269/1‑141 (MQ=255)
                                                                                                                                     taaataTTATCAAGTTAATAAACAATTAATTTTTATATTGATGCATC‑AAAAATCGTAAAAAGCACAATGTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAGACATTCGTGCAATCGGTTACCTTAAATTGTTTACaa          <  3:318857/141‑1 (MQ=255)
                                                                                                                                      aaataTTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAGACATTCGTGCAATCGGTTACCTTAAATTGTTTACAAc         <  2:92041/141‑1 (MQ=255)
                                                                                                                                       aataTTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAGACATTCGTGCAATCGGTTACCTTAAATTGTTTACAACt        <  4:234721/141‑1 (MQ=255)
                                                                                                                                           ttatCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTCAACAGAACAATTTGTATTTTACAATCATTAATTAAATAAGAAAGCAAGACAGTCGTGCAATCGGTTACCTTAAATTGTTTACAACTGTca    <  3:317028/141‑1 (MQ=255)
                                                                                                                                             atCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAGACATTCGTGCAATCGGTTACCTTAAATTGTTTACAACTGTcaac  >  3:126610/1‑141 (MQ=255)
                                                                                                                                             |                                                                                                                                             
GCCTTATAACATTAAATTATTTTATCGTACATTAAATTTAATAATAACAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAATAAACAATTAATTTTTAGATGGATTCATC‑AAAAATCGTAAAAAGCACAATTTGTATTTTACAAACATTAATTAAAAAAGAAAGCAAGACATTCGTGCAATCGGTTACCTTAAATTGTTTACAACTGTCAAC  >  USA300TCH1516_ALE/2543278‑2543558

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ 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.