New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	1929987 =	30 (0.720)	3 (0.080)	3/232	NT	10.0%	intergenic (‑1070/‑98)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein
	?	CP000730	1930020 =	27 (0.720)					intergenic (‑1103/‑65)	USA300HOU_1794/USA300HOU_1796	hypothetical protein/hypothetical protein

CGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATTTTTCTTTTTGTAAAATATGCAAGGTTTTAAAGAGAAACATCAAGAACTAAAAAAGGCTCTATGTCAAATTGGACTGATGCGTTCAATATCCG  >  CP000730/1929881‑1930160                                                                                                                                            |                                                                                                                                             cGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTgg                                                                                                                                             <  1:318009/141‑1 (MQ=255)              gCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAAt                                                                                                                                >  2:46300/1‑141 (MQ=255)                 ccAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACt                                                                                                                             <  1:323896/141‑1 (MQ=255)                 ccAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACt                                                                                                                             >  1:379049/1‑141 (MQ=255)                 ccAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACt                                                                                                                             >  1:263088/1‑141 (MQ=255)                      ttcaaGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTAttt                                                                                                                        <  2:415892/137‑1 (MQ=255)                       atcaGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTAtttt                                                                                                                       <  1:252290/141‑1 (MQ=255)                         caGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCg                                                                                                                     <  1:352264/141‑1 (MQ=255)                              aaaaatttgcataaattacaaaaagaaaaattagcagtataattaagacaacgaaaataagtatttacttatacacgattcccctcactaccgcaaatggtgaggggattGGTGTATAAGTAAATACTTATTTTCGTTGTc                                                                                                                <  2:259078‑M2/31‑1 (MQ=255)                                 accttgcatattttacaaaaagaaaaattagcagtataattaagacaacgaaaataagtatttacttatacaccAATCCCCTCACTATTTGCGGTAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTa                                                                                                             <  1:177210‑M1/67‑1 (MQ=255)                                     cATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATAGCCTGACGACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATta                                                                                                         >  1:299349/1‑141 (MQ=255)                                         gCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACt                                                                                                     >  1:304642/1‑141 (MQ=255)                                            tttttttCTTATTGGCTAAGTAGACTCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCt                                                                                                  <  2:292356/141‑1 (MQ=255)                                            tttttttCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCt                                                                                                  <  2:85913/141‑1 (MQ=255)                                               ttttCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAAt                                                                                               >  1:430132/1‑141 (MQ=255)                                                tttttttttttcTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGTTTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAAtt                                                                                              >  2:152671/12‑141 (MQ=255)                                                tttCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAAtt                                                                                              >  1:319063/1‑141 (MQ=255)                                                   cTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAAttttt                                                                                           >  1:483496/1‑141 (MQ=255)                                                                      cAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATTTTTCTTTTTGTAAAATATGCaa                                                                        <  2:181180/141‑1 (MQ=255)                                                                         taagacaacgaaaataagtatttacttatacaccaatcccctcactaccgcaaatagtgaggggattGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATTTTTCTTTTTGTAAAATATGCAAGGt                                                                     <  1:177210‑M2/74‑1 (MQ=255)                                                                            gacaacgaaaataagtatttacttatacaccAATCCCCTCACCATTTGCGGTAGTGAGGGGAATCGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATTTTTCTTTTTGTAATttatgcaaattttt                                                                  <  2:259078‑M1/110‑7 (MQ=255)                                                                              aaTAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATTTTTCTTTTTGTAAAATATGCAAGGTTTTaa                                                                >  1:444383/1‑141 (MQ=255)                                                                                tAGGTGACATATAGACGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATTTTTCTTTTTGTAAAATATGCAAGGTTTTAAag                                                              <  2:299349/141‑1 (MQ=255)                                                                                     gACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATTTTTCTTTTTGTAAAATATGCAAGGTTTTAAAGAGaaa                                                         <  1:505986/141‑1 (MQ=255)                                                                                     gACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACCTATTTTCGTTGTCTTAATTATACTGCTAATTTTTCTTTTTGTAAAATATGCAAGGTTTTAAAGAGaaa                                                         >  2:352354/1‑141 (MQ=255)                                                                                       cATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATTTTTCTTTTTGTAAAATATGCAAGGTTTTAAAGAGAAACa                                                       >  2:122404/1‑141 (MQ=255)                                                                                               cGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATTTTTCTTTTTGTAAAATATGCAAGGTTTTAAAGAGAAACATCAAGAAc                                               <  2:167924/141‑1 (MQ=255)                                                                                                       tAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATTTTTCTTTTTGTAAAATATGCAAGGTTTTAAAGAGAAACATCAAGAACTAAAAAAg                                       >  2:488044/1‑141 (MQ=255)                                                                                                             TCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATTTTTCTTTTTGTAAAATATGCAAGGTTTTAAAGAGAAACATCAAGAACTAAAAAAGGCTCTa                                 <  2:9782‑M1/141‑1 (MQ=255)                                                                                                              CCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATTTTTCTTTTTGTAAAATATGCAAGGTTTTAAAGAGAAACATCAAGAACTAAAAAAGGCTCTAt                                <  1:73304‑M1/141‑1 (MQ=255)                                                                                                              CCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATTTTTCTTTTTGTAAAATATGCAAGGTTTTAAAGAGAAACATCAAGAACTAAAAAAGGCTCTAt                                <  1:78973‑M1/141‑1 (MQ=255)                                                                                                               CCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATTTTTCTTTTTGTAAAATATGCAAGGTTTTAAAGAGAAACATCAAGAACTAAAAAAGGCTCTATg                               >  2:50726‑M1/1‑141 (MQ=255)                                                                                                                CCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATTTTTCTTTTTGTAAAATATGCAAGGTTTTAAAGAGAAACATCAAGAACTAAAAAAGGCTCTATGt                              >  1:233621‑M1/1‑141 (MQ=255)                                                                                                                CCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATTTTTCTTTTTGTAAAATATGCAAGGTTTTAAAGAGAAACATCAAGAACTAAAAAAGGCTCTATGt                              >  1:285852‑M1/1‑141 (MQ=255)                                                                                                                 CTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATTTTTCTTTTTGTAAAATATGCAAGGTTTTAAAGAGAAACATCAAGAACTAAAAAAGGCTCTATGTc                             >  1:461864‑M1/1‑141 (MQ=255)                                                                                                                 CTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATTTTTCTTTTTGTAAAATATGCAAGGTTTTAAAGAGAAACATCAAGAACTAAAAAAGGCTCTATGTc                             <  2:434888‑M1/141‑1 (MQ=255)                                                                                                                  TCACTACCGCAAATAGTGAGGGTATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATTTTTCTTTTTGTAAAATATGCAAGGTTTTAAAGAGAAACATCAAGAACTAAAAAAGGCTCTATGTCa                            >  1:3985‑M1/1‑141 (MQ=255)                                                                                                                        ccGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATTTTTCTTTTTGTAAAATATGCAAGGTTTTAAAGAGAAACATCAAGAACTAAAAAAGGCTCTATGTCAAATTgg                      >  1:297029/1‑141 (MQ=255)                                                                                                                        ccGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATTTTTCTTTTTGTAAAATATGCAAGGTTTTAAAGAGAAACATCAAGAACTAAAAAAGGCTCTATGTCAAATTgg                      >  1:323914/1‑141 (MQ=255)                                                                                                                         ttgcggtagtgaggggattGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATTTTTCTTTTTGTAAAATATGCAAGGTTTTAAAGAGAAACATCAAGAACTAAAAAAGGCTCTATGTCAAATTGGa                     >  2:87093‑M2/20‑141 (MQ=255)                                                                                                                         cGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATTTTTCTTTTTGTAAAATATGCAAGGTTTTAAAGAGAAACATCAAGAACTAAAAAAGGCTCTATGTCAAATTGGa                     >  1:475723/1‑141 (MQ=255)                                                                                                                         cGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATTTTTCTTTTTGTAAAATATGCAAGGTTTTAAAGAGAAACATCAAGAACTAAAAAAGGCTCTATGTCAAATTGGa                     <  1:152671/141‑1 (MQ=255)                                                                                                                                 gtgaggggattGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATTTTTCTTTTTGTAAAATATGCAAGGTTTTAAAGAGAAACATCAAGAACTAAAAAAGGCTCTATGTCAAATTGGACTGATGCg             >  1:112953‑M2/12‑141 (MQ=255)                                                                                                                                  tgaggggattGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATTTTTCTTTTTGTAAAATATGCAAGGTTTTAAAGAGAAACATCAAGAACTAAAAAAGGCTCTATGTCAAATTGGACTGATGCGt            <  2:379049‑M2/131‑1 (MQ=255)                                                                                                                                        gattGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATTTTTCTTTTTGTAAAATATGCAAGGTTTTAAAGAGAAACAAAAAGAAAAAAAAAAGGCTCTATGTCAAATTGGACTGATGCGTTCAata      <  2:459836‑M2/137‑1 (MQ=255)                                                                                                                                            ggTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATTTTTCTTTTTGTAAAATATGCAAGGTTTTAAAGAGAAACATCAAGAACTAAAAAAGGCTCTATGTCAAATTGGACTGATGCGTTCAATATCCg  <  2:209020/141‑1 (MQ=255)                                                                                                                                            |                                                                                                                                             CGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATTTTTCTTTTTGTAAAATATGCAAGGTTTTAAAGAGAAACATCAAGAACTAAAAAAGGCTCTATGTCAAATTGGACTGATGCGTTCAATATCCG  >  CP000730/1929881‑1930160

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.