New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? CP000730 = 82523253 (0.990)4 (0.080) 4/250 NT 7.1% coding (24/1056 nt) USA300HOU_0774 hypothetical membrane protein
?CP000730 = 825273 53 (1.030)coding (65/1056 nt) USA300HOU_0774 hypothetical membrane protein

AGATATATCATTCTATAAAGACAATATTAAATAAATATAACGTTAAAAACAATTAATATCGATGAAGGTGAATAAATGGTTACATTATTACTAGTTGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTAAACCTATTTCAGTTATGGGTGGTACAGTGATTCTCTTTTCATTTTTAATAGGTATTTGGATTGGTCATCCTATTGAAACA  >  CP000730/825134‑825412
                                                                                                                                           |                                                                                                                                           
aGATATATCATTCTATAAAGACAATATTAAATAAATATAACGTTAAAAACAATTAATATCGATGAAGGTGAATAAATGGTTACATTATTACTAGTTGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATt                                                                                                                                            >  2:497846‑M2/1‑140 (MQ=255)
    atatCATTCTATAAAGAGAATATTAAATAAATATAACGTTAAAAACAATTAATAGCGATGAAGGTGAATAAATGGTTACATTATTACTAGTTACAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATtgcaa                                                                                                                                        >  2:633691‑M2/1‑136 (MQ=255)
    atatCATTCTATAAAGACAATATTAAATAAATATAACGTTAAAAACAATTAATATCGATGAAGGTGAATAAATGGTTACATTATTACTAGTTGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATtgcaa                                                                                                                                        >  2:275815‑M2/1‑136 (MQ=255)
      atCATTCTATAAAGACAATATTAAATAAATATAACGTTAAAAACAATTAATATCGATGAAGGTGAATAAATGGTTACATTATTACTAGTTGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATTGCAata                                                                                                                                      >  1:146471/1‑141 (MQ=255)
         actCTATAAAGCCAATACTAAATAAATAAAACGCTAAAAACAATTAATATCGATGAATGTGAATAAATGGTTACATTATCACCAGTTGCAGTAACAATGATTGTCATTTTGACGATAACACCAATTGTTATTGCAATATCg                                                                                                                                   <  1:183822/139‑1 (MQ=255)
            cTATAAAGACAATATTAAATAAATATAACGTTAAAAACAATTAATATCGATGAAGGTGAATAAATGGTTACATTATTACTAGTTGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATtgcaaatagtaat                                                                                                                                <  1:509822‑M2/141‑14 (MQ=255)
                 aaGACAATATTAAATAAATATAACGTTAAAAACAATTAATATCGATGAAGGTGAATAAATGGTTACATTATTACTAGTTGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATTGCAATATCGAAAAGAtt                                                                                                                           >  1:362942/1‑141 (MQ=255)
                   gACAATATTAAATAAATATAACGTTAAAAACAATTAATATCGATGAAGGTGAATAAATGGTTACATTATTACTAGTTGCAGTAACAATGATTGTCAGTTTGACGATAACATCAATTGTTATTGCAATATCGAAAAGATTaa                                                                                                                         >  2:53447/1‑141 (MQ=255)
                   gACAATATTAAATAAATATAACGTTAAAAACAATTAATATCGATGAAGGTGAATAAATGGTTACATTATTACTAGTTGCAGTAACAATGATTGTCAGTTTGACGATAACAACCATTGTAATTGCAATCTAGAAACGATTaa                                                                                                                         >  2:359976/1‑141 (MQ=255)
                     cAATATTAAATAAATATAACGTTAAAAACAATTAATATCGATGAAGGTGAATAAATGGTTACATTATTACTAGTTGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATTGCAATATCGAAAAGATTAAAt                                                                                                                       <  1:288274/141‑1 (MQ=255)
                      aaTATTAAATAAATATAACGTTAAAAACAATTAATATCGATGAAGGTGAATAAATGGTTACATTATTACTAGTTGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATtgcaactagtaataatgtaacca                                                                                                                      <  1:501379‑M2/141‑24 (MQ=255)
                         atTAAATAAATATAACGTTAAAAACAATTAATATCGATGAAGGTGAATAAATGGTTACATTATTACTAGTTGCAGTAACAATGATTGTAAGTTCGACGATAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAg                                                                                                                   <  2:332043/141‑1 (MQ=255)
                         atTAAACAAATATAACGTTAAAAACAATTAATATCGATGAAGGTGAATAAATGGTTACATTATTACTAGTTGCAGTAACAATGATTGTCAGTTTGACGATAACACCAAGTGTTATTGCAATATCGAAAAGATTAAATTTAg                                                                                                                   <  1:164022/141‑1 (MQ=255)
                             aataaataTAAAGTTAAAAACAATTAATATCGATGAAGGTGAATAAATGGTTACATTATTACTAGTTGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGa                                                                                                               <  2:24598/141‑1 (MQ=255)
                             aacaactacaatggtAAACACAATTCATCTCGATGAAGCTGAATAAATCGTCACAGTATTACTAGTCTCAGTAACAATGATTGCCAGTTTGACGATAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGa                                                                                                               <  2:9971/127‑1 (MQ=255)
                                  atatAACGTTAAAAACAATTAATATCGATGAAGGTGAATAAATGGTTACATTATTACTAGTTGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAAc                                                                                                          >  2:86032/1‑141 (MQ=255)
                                  atatAACGTTAAAAACAATTAATATCGATGAAGGTGAATAAATGGTTACATTATTACTAGTTGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAAc                                                                                                          <  1:282143/141‑1 (MQ=255)
                                  atatAACGGTAAAAACAATTAATATCGATGAAGGTGAATAAATGGTTACATTATTACTAGTTGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAAc                                                                                                          <  1:282031/141‑1 (MQ=255)
                                   tataACGTTAAAAAAAATTAATATCGATGAAGGTGAATAAATGGTTACATTATTACTAGTTGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAAcc                                                                                                         >  1:356121/1‑141 (MQ=255)
                                       aCGTTAAAAACAATTAATATCGATGAAGGTGAATAAATGGTTACATTATTACTAGTTGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAAt                                                                                                     <  2:415124/141‑1 (MQ=255)
                                           tAAAAACAATTAATATCGATGAAGGTGAATAAATGGTTACATTATTACTAGTTGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAATTTTa                                                                                                 >  2:72068/1‑141 (MQ=255)
                                                        tatCGATGAAGGTGAATAAATGGTTACATTATTACTAGTTGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATTGCAATATCGAAAAGATTTATATTACTGCATTAACCAAAttttcgcgaacaatggac                                                                                    >  1:650895/1‑127 (MQ=255)
                                                            gATGAAGGTGAATAAATGGTTACATTATTACTAGTTGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTaaa                                                                                >  1:120694/1‑141 (MQ=255)
                                                            gATGAAGGTGAATAAATGGTTACATTATTACTAGTTGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTaaa                                                                                <  1:86032/141‑1 (MQ=255)
                                                                    ggAATAAATGGTTACATTATTACTAGTTGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTAAACCTATTTc                                                                        <  1:280670/140‑1 (MQ=255)
                                                                          aaTGGTTACATTATTACTAGTTGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTAAACCTATTTAAATTaa                                                                  >  1:204247/1‑140 (MQ=255)
                                                                            tGGTTACATTATTACTAGTTGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATtgcaactagtaataatgtaaccatttattcaccttcatcgatattaattgtttttaacgttatatttatttaatatt                                                                >  2:501379‑M2/1‑64 (MQ=255)
                                                                                 aCATTATTACTAGTTGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTAAACCTATTTCAGGTAGGggtggt                                                           <  2:146471/141‑1 (MQ=255)
                                                                                  cATTATTACTAGTTGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTAAACCTATTTCAGTTATGGGTGGTa                                                          >  2:352458/1‑141 (MQ=255)
                                                                                     tattaCTAGTTGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTAAACCTATTTCAGTTATGGGTGGTACAg                                                       <  2:245092/141‑1 (MQ=255)
                                                                                      attaCTAGTTGCAGTAATAATGATTGTCAGTTTGACGATAACACCAATTGTTATtgcaactagtaataatgtaaccatttattcaccttcatcgatattaattgtttttaacgttatatttatttaatattgtctttatag                                                      >  2:509822‑M2/1‑54 (MQ=255)
                                                                                      attaCTAGTTGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTAAACCTATGTCAGTTATGGGTGGTACAGt                                                      <  1:406317/141‑1 (MQ=255)
                                                                                        taCTAGTTGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTAAACCTATTTCAGTTATGGGTGGTACAGTgt                                                    >  2:624751/1‑140 (MQ=255)
                                                                                          cTAGTTGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTAAACCTATTTCAGTTATGGGTGGTACAGTGAtt                                                  >  1:309859/1‑141 (MQ=255)
                                                                                           tAGTTGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTAAACCTATTTCAGTTATGGGTGGTACAGTGATtc                                                 <  2:488528/141‑1 (MQ=255)
                                                                                            aGTTGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATTGCAATATCGAAACGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTAAACCTATTTCAGTTATGGGGGGTACAGTGTTtct                                                >  1:508702/1‑141 (MQ=255)
                                                                                            aGTTGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTAAACCTATTTCAGTTATGGGTGGTACAGTGATtct                                                >  2:480621/1‑141 (MQ=255)
                                                                                            aGTTGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTAAACCTATTTCAGTTATGGGTGGTACAGTGATtct                                                >  2:341500/1‑141 (MQ=255)
                                                                                            aGTTGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTAAACCTATTTCAGTTATGGGTGGTACAGTGATtct                                                >  1:605812/1‑141 (MQ=255)
                                                                                              ttGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTAAACCTATTTCAGTTATGGGTGGTACAGTGATTctct                                              >  2:239274/1‑141 (MQ=255)
                                                                                               tGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTAAACCTATTTCAGTTATGGGTGGTACAGTGATTCTCtt                                             <  1:72068/141‑1 (MQ=255)
                                                                                               tGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTAAACCTATTTCAGTTATGGGTGGTACAGTGATTCTCtt                                             >  2:36415/1‑141 (MQ=255)
                                                                                                      aCAATGATTGTCAGTTTGACGATAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTAAACCTATTTCAGTTATGGGTGGTACAGTGATTCTCTTTTCAttt                                      >  1:171948/1‑141 (MQ=255)
                                                                                                      aCAATGATTGTCAGTTTGACGATAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAATGTTAGAAAAGTACACACTAAACCTATTTCAGTTATGGGTGGTACAGTGATTCTCTTTTCAttt                                      >  1:606301/1‑141 (MQ=255)
                                                                                                           gATTGTCAGTTTGACGATAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTAAACCTATTTCAGTTATGGGTGGTACAGTGATTCTCTTTTCATTTTTAAt                                 <  2:476633/141‑1 (MQ=255)
                                                                                                                   gTTTGACGATAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTAAACCTATTTCAGTTATGGGTGGTACAGTGATTCTCTTTTCATTTTTAATAGGTAttt                         <  1:549228/141‑1 (MQ=255)
                                                                                                                     ttGACTATAACACAAATTGTTATTGCAATATCTAAAATGTTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTAAACCTATTTCAGTTATGGGTGGTACAGTGATTCTCTTTTCATTTTTAATAGGTATTTgg                       <  2:187071/141‑1 (MQ=255)
                                                                                                                     ttGACGATAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTAAACCTATTTCAGTTATGGGTGGTACAGTGATTCTCTTTTCATTTTTAATAGGTATTTgg                       <  2:393204/141‑1 (MQ=255)
                                                                                                                       taCGATAACACCCATTGATATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTAAACCTATTTCAGTTATGGGTGGTACAGTGATTCTCTTTTCATTTTTAATAGGTATTTGGAt                     <  1:376028/140‑1 (MQ=255)
                                                                                                                       gACGATAAGACCATTTGTAATTGCAAAATCGAAAAGATAAAATTGAGTTGCTAAACTAAATTGTAGAAAAGTACACATGAAACCTATTTCAGTGATGGGTGGTACAGTGATTCTCTTTTCATTGTTAATAGGTATTTGAAt                     <  2:242738/141‑1 (MQ=255)
                                                                                                                       gACGATAACACCAATTGTTATTGCAATAGCGAAAAGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTAAACCTATTTCAGTTATGGGTGGTACAGTGATTCTCTTTTCATTTTTAATAGGTATTTGGAt                     <  1:375969/141‑1 (MQ=255)
                                                                                                                       aaCGATAACAACAATTGTTATTGCAATATCAAAAAGATTAAATTTAGTTTATAAACCAAATTTTAGAAAAGTACACACTAATCCTATTTCATTTATTGTTGGTACAGTGATTCTCTTTTCATTTTTAATAGGTATTTGGAt                     <  2:650895/140‑1 (MQ=255)
                                                                                                                         cGATAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTAAACCTATGTCAGTTATGGGTGGTACAGTGATTCTCTTTTCATTTTTAATAGGTATTTGGATTg                   >  2:365578/1‑141 (MQ=255)
                                                                                                                         agATAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTAAACCTATTTCAGTTATGGGTGGTACAGTGATTCTCTTTTCATTTTTAATAGGTATTTGGATTg                   <  2:379023/140‑1 (MQ=255)
                                                                                                                           aTAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTAAACCTATTTCAGTTATGGGTGGTACAGTGATTCTCTTTTCATTTTTAATAGGTATTTGGATTGGt                 <  2:361460/141‑1 (MQ=255)
                                                                                                                            tAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTAAACCTATTTCAGTTATGGGTGGTACAGTGATTCTCTTTTCATTTTTAATAGGTATTTGGATTGGTc                >  1:420612/1‑141 (MQ=255)
                                                                                                                            tAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTAAACCTATTTCAGTTATGGGTGGTACAGTGATTCTCTTTTCATTTTTAATAGGTATTTGGATTGGTc                >  1:462622/1‑141 (MQ=255)
                                                                                                                            tAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGAGCAACCAAATCTTAGAAAAGTACACACTAAACCTATTTCAGTAAGGGGTGGTACAGTTATTATCCTTTCATCTTTAATAGGCATTTggctggggc                >  1:420701/1‑134 (MQ=255)
                                                                                                                                acCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTAAACCTATTTCAGTTATGGGTGGTACAGTGATTCTCTTTTCATTTTTAATAGGTATTTGGa                      <  1:234971/131‑1 (MQ=255)
                                                                                                                                acCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTAAACCTATTTCAGTTATGGGTGGTACAGTGATTCTCTTTTCATTTTTAATAGGTATTTGGa                      >  2:234971/1‑131 (MQ=255)
                                                                                                                                      tGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTAAACCTATTTCAGTTATGGGTGGTACAGTGATTCTCTTTTCATTTTTAATAGGTATTTGGTTTGGTCATCCTATTGa      >  2:499380/1‑141 (MQ=255)
                                                                                                                                      tGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTAAACCTATTTCAGTTATGGGTGGTACAGTGATTCTCTTTTCATTTTTAATAGGTATTTGGGTTGGTCATCCTATTGa      >  2:251299/1‑141 (MQ=255)
                                                                                                                                          gttGCAATATAGAAAAGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTAAACCTATTTCAGTTATGGGTGGTACAGTGATTCTTTTTTCATTTTTTATTGGTATTTGGGTTGTTCTTCTTTTTGTAACa  >  2:209791/2‑141 (MQ=255)
                                                                                                                                           |                                                                                                                                           
AGATATATCATTCTATAAAGACAATATTAAATAAATATAACGTTAAAAACAATTAATATCGATGAAGGTGAATAAATGGTTACATTATTACTAGTTGCAGTAACAATGATTGTCAGTTTGACGATAACACCAATTGTTATTGCAATATCGAAAAGATTAAATTTAGTTGATAAACCAAATTTTAGAAAAGTACACACTAAACCTATTTCAGTTATGGGTGGTACAGTGATTCTCTTTTCATTTTTAATAGGTATTTGGATTGGTCATCCTATTGAAACA  >  CP000730/825134‑825412

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