New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? CP000730 = 241989790 (1.180)5 (0.070) 4/228 NT 5.5% intergenic (+65/‑172) USA300HOU_2284/ssaA hypothetical membrane protein/secretory antigen SsaA
?CP000730 = 2419903 93 (1.390)intergenic (+71/‑166) USA300HOU_2284/ssaA hypothetical membrane protein/secretory antigen SsaA

ATTATCTTTTGTATTCACAATTATTGCGTGTGTCAAATATTATAATGGCCAAGAATATATAATACCTTTAACAATTCGATTTATTTAAACATATTACAAATAAATATTTCCTATTAATTATCTGTTAATCTCATTGTAACTTTGACTAATTTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP000730/2419745‑2419897
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑aactttgactaattttGTAATAAAAATTAGTCAAAGTTACAATGAGATTAACAGATAATTAATAGGAAATATTTATTTGTAATATGTTTAAATAAATCGAATTGTTAAAGGTATTATATATTCTTGGCCATTATAATATTTGACACACGCAATAAT  <  CP000730/2419903‑2419764
                                                                                                                                                                                                                                                                                                      
aaTATCTTTTGTATTCACAATTATTGCGTGTGTCAAATATTATAATGGCCAAGAATATATAATACCTTTAACAATTCGATTTATTTAAACATATTACAAATAAATATTTCCTATTAATTATCTGTTAATCTCATTGTAACT                                                                                                                                                           <  2:900985/139‑1
     CTTTTGTATTCACAATTATTGCGTGTGTCAAATATTATAATGGCCAAGAATATATAATACCTTTAACAATTCGATTTATTTAAACATATTACAAATAAATATTTCCTATTAATTATCTGTTAATTTCATTGTAACTTTGAC                                                                                                                                                      >  1:307709/1‑141
      TTTTGTATTCACAATTATTGCGTGTGTCAAATATTATAATGGCCAAGAATATATAATACCTTTAACAATTCGATTTATTTAAACATATTACAAATAAATATTTCCTATTAATTATCTGTTAATCTCATTGTAACTTTGACT                                                                                                                                                     >  1:298479/1‑141
      TTTTGTATTCACAATTATTGCGTGTGTCAAATATTATAATGGCCAAGAATATATAATACCTTTAACAATTCGATTTATTTAAACATATTACAAATAAATATTTCCTATTAATTATCTGTTAATCTCATTGTAACTTTGACT                                                                                                                                                     >  2:405812/1‑141
      TTTTGTATTCACAATTATTGCGTGTGTCAAATATTATAATGGCCAAGAATATATAATACCTTTAACAATTCGATTTATTTAAACATATTACAAATAAATATTTCCTATTAATTATCTGTTAATCTAATTGTAAGTTTGAtt                                                                                                                                                     >  1:352070/1‑139
        TTGTATTCACAATTATTGCGTGTGTCAAATATTATAATGGCCAAGAATATATAATACCTTTAACAATTCGATTTATTTAAACATATTACAAATAAATATTTCCTATTAATTATCTGTTAATCTCATTGTAACTTTGACTAA                                                                                                                                                   <  1:93359/141‑1
            ATTCACAATTATTGCGTGTGTCAAATATTATAATGGCCAAGAATATATAATACCTTTAACAATTCGATTTATTTAAACATATTACAAATAAATATTTCCTATTAATTATCTGTTAATCTCATTTTAACTTTGACTAATTTT                                                                                                                                               >  2:679632/1‑141
                ACAATTATTGCGTGTGTCAAATATTATAATGGCCAAGAATATATAATACCTTTAACAATTCGATTTATTTAAACATATTACAAATAAATATTTCCTATTAATTATCTGTTAATCTCATTGTAACTTTGACTAATTTTGTAA                                                                                                                                           >  1:738320/1‑141
                ACAATTATTGCGTGTGTCAAATATTATAATGGCCAAGAATATATAATACCTTTAACAATTCGATTTATTTAAACATATTACAAATAAATATTTCCTATTAATTATCTGTTAATCTCATTGTAACTTTGACTAATTTTGTAA                                                                                                                                           >  1:797980/1‑141
                         GCGTGTGTCAAATATTATAATGGCCAAGAATATATAATACCTTTAACAATTCGATTTATTTAAACATATTACAAATAAATATTTCCTATTAATTATCTGTTAATCTCATTGAAACTTTGACTAATTTTGTAATAAAAATTA                                                                                                                                 >  2:255210/1‑141
                                                                CCTTTAACAATTCGATTTATTTAAACATATTACAAATAAATATTTCCTATTAATTATCTGTTAATCTCATTGTAACTTTGACTAATTTTTATTACAAAATTAGTCAAAGTTACAATGAGATTAACAGATAATTAATAGGAA                                                                                          >  1:736540/1‑141
                                                                                               ACAAATAAATATTTCCTATTAATTATCTGTTAATCTCATTGTAACTTTGACTAATTTTTATTACAAAATTATTCAAAATTACAATGAGATTAACAGATAATTAATAGGAAATATTTATTTGTAATATGTTTAAATAAATCG                                                           >  2:797980/1‑141
                                                                                               ACAAATAAATATTTCCTATTAATTATCTGTTAATCTCATTGTAACTTTGACTAATTTTTATTACAAAATTAGTCAAAGTTACAATGAGATTAACAGATAATTAATAGGAAATATTTATTTGTAATATGTTTAAATAAATCG                                                           >  2:738320/1‑141
                                                                                                           TTCCTATTAATTATCTGTTAATCTCATTGTAACTTTGACTAATTTTTATTACAAAATTAGTCAAAGTTACAATGAGATTAACAGATAATTAATAGGAAATATTTATTTGTACCATGTTTAAATAAATCGAATTGTTAAAGG                                               <  2:736540/141‑1
                                                                                                                                         AACTTTGACTAATTTTGTAATAAAAATTAGTCAAAGTTACAATGAGATTAACAGATAATTAATAGGAAATATTTATTTGTAATATGTTTAAATAAATCGAATTGTTAAAGGTATTATATATTCTTGGCCATTATAATATTT                 >  2:682217/1‑141
                                                                                                                                         AACTTTGACCAATTTTGTAATAAAAATTAGTCAAAGTTACAATGTGATTAACAGATAATTAATAGGAAATATTTATTTGTAATATGTTTAAATAAATCGAATTGTTAAAGGTATTATATATTCTTGGCCATTATAATATTT                 >  2:485879/1‑141
                                                                                                                                             TTGACTAATTTTGTAATAAAAATTAGTCAAAGTTACAATGAGATTAACAGATAATTAATAGGAAATATTTATTTGTAGTATGTTTAAATAAATCGAATTGTTAAATGTATTATATATTCTTGGCCATTATATTATTTGACA             >  1:509890/1‑141
                                                                                                                                              TGACTAATTTTGTAATAAAAATTAGTCAAAGTTACAATGAGATTAACAGATAATTAATAGGAAATATTTATTTGTAATATGTTTAAATAAATCGAATTGTTAAAGGTATTATATATTCTTGGCCATTATAATATTTGACAC            >  1:405812/1‑141
                                                                                                                                                  tatgTTTGTAATAAATATTAGTCAAAGTTACAATGAGATTAACATATAATTAATAGGAAATATTTATTTGTAATATGTTTAAATAAATCGAATTGTTAAAGGTATTATATATTCTTGGCCATTATAATATTTGACACACGC        <  1:255210/137‑1
                                                                                                                                                   AATTTTGTAATAAAAATTAGTCAAAGTTACAATGAGATTAACAGATAATTAATAGGAAATATTTATTTGTAATATGTTTAAATAAATCGAATTGTTAAAGGTATTATATATTCTTGGCCATTATAATATTTGACACACGCA       <  2:71408/141‑1
                                                                                                                                                        TGTAATAAAAATTAGTCAAAGTTACAATGAGATTAACAGATAATTAATAGGAAATATTTATTTGTAATATGTTTAAATAAATCGAATTGTTAAAGGTATTATATATTCTTGGCCATTATAATATTTGACACACGCAATAAT  <  1:347091/141‑1
                                                                                                                                                                                                                                                                                                      
ATTATCTTTTGTATTCACAATTATTGCGTGTGTCAAATATTATAATGGCCAAGAATATATAATACCTTTAACAATTCGATTTATTTAAACATATTACAAATAAATATTTCCTATTAATTATCTGTTAATCTCATTGTAACTTTGACTAATTTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP000730/2419745‑2419897
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑aactttgactaattttGTAATAAAAATTAGTCAAAGTTACAATGAGATTAACAGATAATTAATAGGAAATATTTATTTGTAATATGTTTAAATAAATCGAATTGTTAAAGGTATTATATATTCTTGGCCATTATAATATTTGACACACGCAATAAT  <  CP000730/2419903‑2419764

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.