New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	USA300TCH1516_ALE	= 1755666	150 (0.740)	17 (0.090)	9/142	NT	11.1%	intergenic (‑63/+292)	obg/rpmA	GTPase Obg/50S ribosomal protein L27
	?	USA300TCH1516_ALE	= 1755684	140 (0.780)					intergenic (‑81/+274)	obg/rpmA	GTPase Obg/50S ribosomal protein L27

GGCTTTAAGAGATATTTTGACTTGATCGACAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTAGAGCCCCT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  USA300TCH1516_ALE/1755568‑1755666 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑agagcccctAATTATTTACAATATATAAGGGGCTCTAATATGCTATAATTATTGGGAAAATGAAAATTATATGTAAAAGAGGTGAGATATATGTTTGTC  <  USA300TCH1516_ALE/1755684‑1755595                                                                                                                                                                                               GGCTTTAAGAGATATTTTGACTTGATCGACAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTA                                                                                                    <  1:2082974/91‑1 GGCTTTAAGAGATACTTTGACTTGATCGACAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTA                                                                                                    <  2:3102993/91‑1  GCTTTAAGAGATATTTTGACTTGATCGACAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTAG                                                                                                   >  2:3629294/1‑91  GCTTTAAGAGATATTTTGACTTGATCGACAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTAG                                                                                                   >  2:2756803/1‑91  GCTTTAAGAGATATTTTGACTTGATCGACAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTAG                                                                                                   >  2:2653029/1‑91  GCTTTAAGAGATATTTTGACTTGATCGACAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTAG                                                                                                   <  1:3316100/91‑1  GCTTTAAGAGATATTTTGACTTGATCGACAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTAG                                                                                                   >  1:2944105/1‑91   CTTTAAGAGATATTTTGACTTGATCGACAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTAGA                                                                                                  <  1:3716587/91‑1   CTTTAAGAGATATTTTGACTTGATCGACAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTAGA                                                                                                  <  1:3716208/91‑1    TTTAAGAGATATTTTGACTTGATCGACAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTAGAG                                                                                                 >  1:133066/1‑91    TTTAAGAGATATTTTGACTTGATCGACAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTAGAG                                                                                                 <  2:2295573/91‑1     TTAAGAGATATTTTGACTTGATCGACAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTAGAGC                                                                                                >  1:1821553/1‑91      TAAGAGATATTTTGACTTGATCGACAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTAGAGCC                                                                                               <  1:1239250/91‑1      TAAGAGATATTTTGACTTGATCGACAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTAGAGCC                                                                                               <  1:454150/91‑1      TAAGAGATATTTTGACTAGATCGACAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTAGAGCC                                                                                               <  2:790763/91‑1       AAGAGATATTTTGACTTGATCGACAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTAGAGCCC                                                                                              >  1:2429840/1‑91       AAGAGATATTTTGACTTGATCGACAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTAGAGCCC                                                                                              >  1:2429818/1‑91       AAGAGATATTTTGACTTGATCGACAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTAGAGCCC                                                                                              >  2:1198843/1‑91        AGAGATATTTTGACTTGATCGACAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTAGAGCCCC                                                                                             >  1:2013000/1‑91        AGAGATATTTTGACTTGATCGACAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTAGAGCCCC                                                                                             <  2:2716746/91‑1         GAGATATTTTGACTTGATCGACAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTAGAGCCCCT                                                                                            <  2:3709662/91‑1         GAGATATTTTGACTTGATCGACAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTAGAGCCCCT                                                                                            <  2:2935352/91‑1         GAGATATTTTGACTTGATCGACAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTAGAGCCCCT                                                                                            <  2:2093125/91‑1         GAGATATTTTGACTTGATCGACAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTAGAGCCCCT                                                                                            >  2:2108258/1‑91         GAGATATTTTGACTTGATCGACAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTAGAGCCCCT                                                                                            <  2:2708289/91‑1                        GATCGACAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTAGAGCCCCTAATTATTTACAATAT                                                                             <  1:496212/91‑1                        GATCGACAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATAAGAGCCCCTAATTATTTACAATAT                                                                             <  1:2723390/91‑1                         ATCGACAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTAGAGCCCCTAATTATTTACAATATA                                                                            <  2:582582/91‑1                         ATCGACAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATAAGAGCCCCTAATTATTTACAATATA                                                                            <  2:2753357/91‑1                          TCGACAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTAGAGCCCCTAATTATTTACAATATAT                                                                           <  1:355035/91‑1                          TCGACAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTAGAGCCCCTAATTATTTACAATATAT                                                                           <  2:2965039/91‑1                           CGACAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTAGAGCCCCTAATTATTTACAATATATA                                                                          <  1:817815/91‑1                             ACAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTAGAGCCCCTAATTATTTACAATATATAAG                                                                        <  2:3558916/91‑1                              CAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTAGAGCCCCTAATTATTTACAATATATAAGG                                                                       <  1:2707656/91‑1                               AAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTAGAGCCCCTAATTATTTACAATATATAAGGG                                                                      <  1:1084117/91‑1                               AAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTAGAGCCCCTAATTATTTACAATATATAAGGG                                                                      <  1:3545970/91‑1                                  CATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTAGAGCCCCTAATTATTTACAATATATAAGGGGCT                                                                   <  2:1381036/91‑1                                   ATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATAAGAGCCCCTAATTATTTACAATATATAAGGGGCTC                                                                  <  1:2067046/91‑1                                    TATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATAAGAGCCCCTAATTATTTACAATATATAAGGGGCTCT                                                                 <  2:2192127/91‑1                                     ATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATAAGAGCCCCTAATTATTTACAATATATAAGGGGCTCTA                                                                <  1:1754520/91‑1                                             CCTCTTTTACATATAATTTTCATTTTCCCAATAATTTTAGCATATTAGAGCCCCTAATTATTTACAATATATAAGGGGCTCTAATATGCTA                                                        <  2:3914935/91‑1                                             CCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATAAGAGCCCCTAATTATTTACAATATATAAGGGGCTCTAATATGCTA                                                        <  2:1432677/91‑1                                                                                           AGAGCCCCTAATTATTTACAATATATAAGGGGCTCTAATATGCTATAATTATTGGGAAAATGAAAATTATATGTAAAAGAGGTGAGATATA          <  1:2741299/91‑1                                                                                            GAGCCCCTAATTATTTACAATATATAAGGGGCTCTAATATGCTATAATTATTGGGAAAATGAAAATTATATGTAAAAGAGGTGAGATATAT         <  1:2147996/91‑1                                                                                            GAGCCCCTAATTATTTACAATATATAAGGGGCTCTAATATGCTATAATTATTGGGAAAATGAAAATTATATGTAAAAGAGGTGAGATATAT         >  1:3661129/1‑91                                                                                            GAGCCCCTAATTATTTACAATATATAAGGGGCTCTAATATGCTATAATTATTGGGAAAATGAAAATTATATGTAAAAGAGGTGAGATATAT         >  2:2074926/1‑91                                                                                             AGCCCCTAATTATTTACAATATATAAGGGGCTCTAATATGCTATAATTATTGGGAAAATGAAAATTATATGTAAAAGAGGTGAGATATATG        <  2:2196141/91‑1                                                                                             AGCCCCTAATTATTTACAATATATAAGGGGCTCTAATATGCTATAATTATTGGGAAAATGAAAATTATATGTAAAAGAGGTGAGATATATG        >  1:1608623/1‑91                                                                                             AGCCCCTAATTATTTACAATATATAAGGGGCTCTAATATGCTATAATTATTGGGAAAATGAAAATTATATGTAAAAGAGGTGAGATATATG        >  1:3548086/1‑91                                                                                             AGCCCCTAATTATTTACAATATATAAGGGGCTCTAATATGCTATAATTATTGGGAAAATGAAAATTATATGTAAAAGAGGTGAGATATATG        >  1:3571235/1‑91                                                                                             AGCCCCTAA‑TATTTACAATATATAAGGGGCTCTAATATGCTATAATTATTGGGAAAATGAAAATTATATGTAAAAGAGGTGAGATATATGT       <  2:711219/91‑1                                                                                              GCCCCTAATTATTTACAATATATAAGGGGCTCTAATATGCTATAATTATTGGGAAAATGAAAATTATATGTAAAAGAGGTGAGATATATGT       >  1:2714249/1‑91                                                                                               CCCCTAATTATTTACAATATATAAGGGGCTCTAATATGCTATAATTATTGGGAAAATGAAAATTATATGTAAAAGAGGTGAGATATATGTT      >  1:3807887/1‑91                                                                                                CCCTAATTATTTACAATATATAAGGGGCTCTAATATGCTATAATTATTGGGAAAATGAAAATTATATGTAAAAGAGGTGAGATATATGTct     >  2:1661130/1‑89                                                                                                CCCTAATTATTTACAATATATAAGGGGCTCTAATATGCTATAATTATTGGGAAAATGAAAATTATATGTAAAAGAGGTGAGATATATGTTT     <  1:2902883/91‑1                                                                                                CCCTAATTATTTACAATATATAAGGGGCTCTAATATGCTATAATTATTGGGAAAATGAAAATTATATGTAAAAGAGGTGAGATATATGTTT     >  2:3833669/1‑91                                                                                                CCCTAATTATTTACAATATATAAGGGGCTCTAATATGCTATAATTATTGGGAAAATGAAAATTATATGTAAAAGAGGTGAGATATATGTTT     >  2:1010752/1‑91                                                                                                CCCTAATTATTTACAATATATAAGGGGCTCTAATATGCTATAATTATTGGGAAAATGAAAATTATATGTAAAAGAGGTGAGATATATGTTT     <  1:2260905/91‑1                                                                                                CCCTAATTATTTACAATATATAAGGGGCTCTAATATGCTATAATTATTGGGAAAATGAAAATTATATGTAAAAGAGGTGAGATATATGTTT     <  2:295148/91‑1                                                                                                CCCTAATTATTTACAATATATAAGGGGCTCTAATATGCTATAATTATTGGGAAAATGAAAATTATATGTAAAAGAGGTGAGATATATGTTT     >  1:3642860/1‑91                                                                                                CCCTAATTATTTACAATATATAAGGGGCTCTAATATGCTATAATTATTGGGAAAATGAAAATTATATGTAAAAGAGGTGAGATATATGTTT     <  1:1682279/91‑1                                                                                                 CCTAATTATTTACAATATATAAGGGGCTCTAATATGCTATAATTATTGGGAAAATGAAAATTATATGTAAAAGAGGTGAGATATATGTTTG    <  1:1572621/91‑1                                                                                                 CCTAATTATTTACAATATATAAGGGGCTCTAATATGCTATAATTATTGGGAAAATGAAAATTATATGTAAAAGAGGTGAGATATATGTTTG    <  1:2795563/91‑1                                                                                                  CTAATTATTTACAATATATAAGGGGCTCTAATATGCTATAATTATTGGGAAAATGAAAATTATATGTAAAAGAGGTGAGATATATGTTTGT   <  2:3545818/91‑1                                                                                                  CTAATTATTTACAATATATAAGGGGCTCTAATATGCTATAATTATTGGGAAAATGAAAATTATATGTAAAAGAGGTGAGATATATGTTTGT   >  2:2710198/1‑91                                                                                                  CTAATTATTTACAATATATAAGGGGCTCTAATATGCTATAATTATTGGGAAAATGAAAATTATATGTAAAAGAGGTGAGATATATGTTTGT   >  1:1475724/1‑91                                                                                                  CTAATTATTTACAATATATAAGGGGCTCTAATATGCTATAATTATTGGGAAAATGAAAATTATATGTAAAAGAGGTGAGATATATGTTTGT   >  2:2710129/1‑91                                                                                                  CTAATTATTTACAATATATAAGGGGCTCTAATATGCTATAATTATTGGGAAAATGAAAATTATATGTAAAAGAGGTGAGATATATGTTTGT   >  2:1705526/1‑91                                                                                                   TAATTATTTACAATATATAAGGGGCTCTAATATGCTATAATTATTGGGAAAATGAAAATTATATGTAAAAGAGGTGAGATATATGTTTGTa  >  2:3922551/1‑90                                                                                                   TAATTATTTACAATATATAAGGGGCTCTAATATGCTATAATTATTGGGAAAATGAAAATTATATGTAAAAGAGGTGAGATATATGTTTGTC  >  2:1332500/1‑91                                                                                                                                                                                               GGCTTTAAGAGATATTTTGACTTGATCGACAAACATATATCTCACCTCTTTTACATATAATTTTCATTTTCCCAATAATTATAGCATATTAGAGCCCCT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  USA300TCH1516_ALE/1755568‑1755666 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑agagcccctAATTATTTACAATATATAAGGGGCTCTAATATGCTATAATTATTGGGAAAATGAAAATTATATGTAAAAGAGGTGAGATATATGTTTGTC  <  USA300TCH1516_ALE/1755684‑1755595

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