New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? CP000730 52495 =50 (1.230)102 (2.520)
+T
3/278 5.3 65.5% intergenic (+105/‑568) USA300HOU_0043/USA300HOU_0044 hypothetical membrane protein/possible transcriptional regulator
?CP000730 = 52988 58 (1.420)intergenic (+598/‑75) USA300HOU_0043/USA300HOU_0044 hypothetical membrane protein/possible transcriptional regulator
Rejected: Coverage evenness skew score above cutoff.

GAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCATAGAGAAAGTAAATATATAGAGTATAAGAAATCACGAAAAGGATTATCTAATGATATTTG  >  CP000730/52850‑53127
                                                                                                                                          |                                                                                                                                           
gAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAACCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATcgc                                                                                                                                           <  1:880786/141‑1 (MQ=17)
gAAATCATCGTAGTAAACGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATcgc                                                                                                                                           <  1:115917/141‑1 (MQ=17)
  aaTCGTCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGt                                                                                                                                         <  1:159117/141‑1 (MQ=17)
    acatcGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCTCGCGAAAATCGCGTGa                                                                                                                                       <  1:474056/140‑1 (MQ=17)
     catcGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCAGCATTGGAATCGCGCGAAAATCGCGTGaa                                                                                                                                      <  1:221924/141‑1 (MQ=255)
     catcGGAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATTGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGACATCGTCGGTGCAAGCGCGCGAAAATCGCGTGaa                                                                                                                                      <  1:221905/141‑1 (MQ=11)
      atcGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGaaa                                                                                                                                     >  1:113032/1‑141 (MQ=32)
      atcGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGaaa                                                                                                                                     >  1:84703/1‑141 (MQ=32)
            gtaATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTAt                                                                                                                               <  1:504856/141‑1 (MQ=35)
                    gcgAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACg                                                                                                                       <  1:705846/141‑1 (MQ=255)
                     cgAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACgg                                                                                                                      >  1:112440/1‑141 (MQ=255)
                     cgAAAATCGCATGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTATGAAACCAACGAAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACgg                                                                                                                      >  1:670767/1‑141 (MQ=14)
                      gAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGt                                                                                                                     <  1:503861/141‑1 (MQ=255)
                        aaaTCGCGTGAAATAATCAGAGGAATAGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTGGTAGTCGCGCGAAAATCCCGGGAAATACTATGGGAGACGGttt                                                                                                                   >  1:919103/1‑141 (MQ=14)
                          aTCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGa                                                                                                                 >  1:192837/1‑141 (MQ=255)
                            cgcgTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGt                                                                                                               <  1:58578/141‑1 (MQ=255)
                              cgTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTaa                                                                                                             <  1:535546/141‑1 (MQ=255)
                              cgTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTaa                                                                                                             <  1:524252/141‑1 (MQ=255)
                              cgTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTaa                                                                                                             <  1:535698/141‑1 (MQ=255)
                                tGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAAt                                                                                                           <  1:134275/141‑1 (MQ=255)
                                  aaaTAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTa                                                                                                         >  1:606628/1‑141 (MQ=255)
                                    ataatCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAAt                                                                                                       <  1:700897/141‑1 (MQ=255)
                                     taatCAGAGGAATCGCTTGAAATCATCGTAGTAATCGCGCGAAAAGCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCCTGAAATACTATGGTAGACGGTTTGAGTAAATTAATg                                                                                                      <  1:238671/141‑1 (MQ=255)
                                     aaatCAGAGGAGTCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATg                                                                                                      <  1:572673/140‑1 (MQ=255)
                                      aatCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGAAAATGAATgg                                                                                                     >  1:426318/1‑141 (MQ=255)
                                      aatCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGAGTGACATACTATGGTAGACGGTTTGAGTAAATTAATgg                                                                                                     >  1:580419/1‑141 (MQ=255)
                                                   gTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAatat                                                                                        <  1:874033/141‑1 (MQ=255)
                                                              ccGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTgg                                                                             <  1:726868/140‑1 (MQ=255)
                                                                gtagtaATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTggag                                                                           >  1:510694/1‑141 (MQ=255)
                                                                  agtaATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTggagga                                                                         <  1:753067/141‑1 (MQ=255)
                                                                   gtaATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGaa                                                                        <  1:639605/141‑1 (MQ=255)
                                                                   gtaATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGaa                                                                        <  1:267182/141‑1 (MQ=255)
                                                                     aaTCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAAtt                                                                      <  1:897436/141‑1 (MQ=255)
                                                                     aaTCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACGATGGTAGACGGTTTGAGTAAATTATTGGAGTATTTTACTATTTAGGATTTGGAGGAAtt                                                                      >  1:357509/1‑141 (MQ=21)
                                                                      aTCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTg                                                                     >  1:515047/1‑141 (MQ=255)
                                                                      aTCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTg                                                                     >  1:24027/1‑141 (MQ=255)
                                                                            cgAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGc                                                               >  1:586095/1‑141 (MQ=255)
                                                                            cgAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTGTGAGTAAGTTGATGGAGTATTCTAAGAATGATGGTATGGAGAAAGTGCGTTGc                                                               >  1:122069/1‑141 (MQ=18)
                                                                             gAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCa                                                              <  1:896224/141‑1 (MQ=255)
                                                                              aaaaTCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCAt                                                             <  1:185954/141‑1 (MQ=255)
                                                                              aaaaTCGCGTAAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAACCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGTAGGAACTGCGTTGCAt                                                             <  1:460619/141‑1 (MQ=255)
                                                                               aaaTCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCATa                                                            >  1:249783/1‑141 (MQ=255)
                                                                               aaaTCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTAATGGTTTGGAGGAATTGCGTTGCATa                                                            >  1:560323/1‑141 (MQ=255)
                                                                               aaaTCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATGTATGGTTTGGAGGAATTGCGTTGGATa                                                            >  1:196892/1‑141 (MQ=255)
                                                                                 aTCACGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCACGTGACATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTTTGGGTTGGAGGAATTGCGTTGGATaga                                                          >  1:13801/1‑141 (MQ=25)
                                                                                  tCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCATagag                                                         <  1:700324/141‑1 (MQ=255)
                                                                                      gTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGGTGCATAGAGGAAg                                                     >  1:204837/1‑141 (MQ=255)
                                                                                         aaaTAATCAGAGGAATCGTTTGAAATCATCGTAGGAATCGCGCGAAGATACCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCATAGAGAAAGTaa                                                  <  1:670948/141‑1 (MQ=255)
                                                                                          aataatCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCATAGAGAAAGTaaa                                                 <  1:201089/141‑1 (MQ=255)
                                                                                          aataatCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCATAGAGAAAGTaaa                                                 <  1:868238/141‑1 (MQ=255)
                                                                                              atCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATATGGTAGACGGCTTGAGTAAATTAATGGAGTATGTTAATATTTATGGTTTGGAGGAATTGCGTTGCATAGAGAAAGTAAatata                                             >  1:728384/1‑141 (MQ=255)
                                                                                                       aTCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCATAGAGAAAGTAAATATATAGAGtata                                    <  1:902256/141‑1 (MQ=255)
                                                                                                        tCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTACTGGAGTCTATGAAAATTTATGGTTTGGAGGAATTGCGTTGCATAGAGAAAGTAAATATATAGAGTATaa                                   >  1:440722/1‑141 (MQ=38)
                                                                                                                                 gtggAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCATAGAGAAAGTAAATATATAGAGTATAAGAAATCACGAAAAGGATTATCTAAt          <  1:410276/138‑1 (MQ=255)
                                                                                                                                 cgcaAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCATAGAGAAAGTAAATATATAGAGTATAAGAAATCACGAAAAGGATTATCTAAt          <  1:641046/141‑1 (MQ=255)
                                                                                                                                       aaTCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCATAGAGAAAGTAAATATATAGAGTATAAGAAATCACGAAAAGGATTATCTAATGATAtt    >  1:890977/1‑141 (MQ=255)
                                                                                                                                       aaTCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCATAGAGAAAGTAAATATATAGAGTATAAGAAATCACGAAAAGGATTATCTAATGATAtt    >  1:46035/1‑141 (MQ=255)
                                                                                                                                         tCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCATAGAGAAAGTAAATATATAGAGTATAAGAAATCACGAAAAGGATTATCTAATGATATTTg  <  1:412741/141‑1 (MQ=255)
                                                                                                                                          |                                                                                                                                           
GAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGAAAATCGCGTGAAATACTATGGTAGACGGTTTGAGTAAATTAATGGAGTATTTTAATATTTATGGTTTGGAGGAATTGCGTTGCATAGAGAAAGTAAATATATAGAGTATAAGAAATCACGAAAAGGATTATCTAATGATATTTG  >  CP000730/52850‑53127

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ 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.