New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NZ_CP009273	360104 =	NA (NA)	28 (1.010)	22/170	0.2	NA	intergenic (‑35/+251)	lacZ/BW25113_RS23320	beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein
	?	NZ_CP009273	= 360286	NA (NA)					intergenic (‑217/+69)	lacZ/BW25113_RS23320	beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein

CAGGAGAGCGTTCACCGACAAACAACAGATAAAACGAAAGGCCCAGTCTTTCGACTGAGCCTTTCGTTTTATTTGATG‑CCTGGGGAATTGGGAATTAATTCTTGAAGACGAAAGGGCCTCGTGATACGCCTATTTTTATAGGTTAATGTCATGGGAAGATCCAGCCGACCAGGCTT  >  NZ_CP009273/360198‑360373                                                                                          |                                                                                        cAGGAGAGCGTTCACCGACAAACAACAGATAAAACGAAAGGCCCAGTCTTTCGACTGAGCCTTTCGTTTTATTTGATG‑CCTGgggaattg                                                                                        <  1:318002/90‑1 (MQ=39)        gCGTTCACCGACAAACAACAGATAAAACGAAAGGCCCAGTCTTTCGACTGAGCCTTTCGTTTTATTTGATG‑CCTGGGGAATTGGGaatta                                                                                 >  1:461689/1‑90 (MQ=255)        gCGTTCACCGACAAACAACAGATAAAACGAAAGGCCCAGTCTTTCGACTGAGCCTTTCGTTTTATTTGATG‑CCTGGGGAATTGGGaatta                                                                                 >  2:41863/1‑90 (MQ=255)                           aGATAAAACGAAAGGCCCAGTCTTTCGACTGAGCCTTTCGTTTTATTTGATG‑CCTGGGGAATTGGGAATTAATTCTTGAAGACGAAAggg                                                              >  1:288187/1‑90 (MQ=255)                              tAAAACGAAAGGCCCAGTCTTTCGACTGAGCCTTTCGTTTTATTTGATG‑CCTGGGGAATTGGGAATTAATTCTTGAAGACGAAAGGGCCt                                                           <  1:307060/90‑1 (MQ=255)                               aaaaCGAAAGGCCCAGTCTTTCGACTGAGCCTTTCGTTTTATTTGATG‑CCTGGGGAATTGGGAATTAATTCTTGAAGACGAAAGGGCCTc                                                          <  2:632609/90‑1 (MQ=255)                                    gAAAGGCCCAGTCTTTCGACTGAGCCTTTCGTTTTATTTGATG‑CCTGGGGAATTGGGAATTAATTCTTGAAGACGAAAGGGCCTCGTGAt                                                     <  2:733882/90‑1 (MQ=255)                                        ggCCCAGTCTTTCGACTGAGCCTTTCGTTTTATTTGATG‑CCTGGGGAATTGGGAATTAATTCTTGAAGACGAAAGGGCCTCGTGATACGc                                                 >  2:230999/1‑90 (MQ=255)                                           ccAGTCTTTCGACTGAGCCTTTCGTTTTATTTGATG‑CCTGGGGAATTGGGAATTAATTCTTGAAGACGAAAGGGCCTCGTGATACGCCTa                                              <  2:690430/90‑1 (MQ=255)                                           ccAGTCTTTCGACTGAGCCTTTCGTTTTATTTGATG‑CCTGGGGAATTGGGAATTAATTCTTGAAGACGAAAGGGCCTCGTGATACGCCTa                                              <  2:348849/90‑1 (MQ=255)                                             aGTCTTTCGACTGAGCGTTTCATTTTATTTGATG‑CCTGGGGAATTGGGAATTAATTCTTGAAGACGAAAGGGCCTCGTGATACGCCTAtt                                            <  1:22496/90‑1 (MQ=255)                                                   aagACTGGGCCTTTCGTTTTATTTGATGCCCTGGGGAATTGGGAATTAATTCTTGAAGACGAAAGGGCCTCGTGATACGCCTATTTTtat                                       <  2:247864/88‑1 (MQ=39)                                                        tGAGCCTTTCGTTTTATTTGATG‑CCTGGGGAATTGGGAATTAATTCTTGAAGACGaaa                                                                 <  1:147654/58‑1 (MQ=255)                                                        tGAGCCTTTCGTTTTATTTGATG‑CCTGGGGAATTGGGAATTAATTCTTGAAGACGaaa                                                                 >  2:147654/1‑58 (MQ=255)                                                        tGAGCCTTTCGTTTTATTTGATG‑CCTGGGGAATTGGGAATTAATTCTTGAAGACGAAAGGGCCTCGTGATACGCCTATTTTTATAGGTTa                                 >  1:568525/1‑90 (MQ=255)                                                         gAGCCTTTCGTTTTATTTGATG‑CCTGGGGAATTGGGAATTAATTCTTGAAGACGAAAGGGCCTCGTGATACGCCTATTTTTATAGGTTaa                                <  1:198796/90‑1 (MQ=255)                                                         gAGCCTTTCGTTTTATTTGATG‑CCTGGGGAATTGGGAATTAATTCTTGAAGACGAAAGGGCCTCGTGATACGCCTATTTTTATAGGTTaa                                <  2:114101/90‑1 (MQ=255)                                                              tttCGTTTTATTTGATG‑CCTGGGGAATTGGGAATTAATTCTTGAAGACGAAAGGGCCTCGTGATACGCCTATTTTTATAGGTTAATGTCa                           <  1:788388/90‑1 (MQ=255)                                                                tCGTTTTATTTGATG‑CCTGGGGAATTGGGAATTAATTCTTGAAGACGAAAGGGCCTCGTGATACGCCTATTTTTATAGGTTAATGTCATg                         >  2:250616/1‑90 (MQ=255)                                                                                  tGGGGAATTGGGAATTAATTCTTGAAGACGAAAGGGCCTCGTGATACGCCTa                                              <  1:768669/52‑1 (MQ=255)                                                                                  tGGGGAATTGGGAATTAATTCTTGAAGACGAAAGGGCCTCGTGATACGCCTa                                              >  2:768669/1‑52 (MQ=255)                                                                                  tGGGGAATTGGGAATTAATTCTTGAAGACGAAAGGGCCTCGTGATACGCCTATTTTtat                                       >  2:250671/1‑59 (MQ=255)                                                                                  tGGGGAATTGGGAATTAATTCTTGAAGACGAAAGGGCCTCGTGATACGCCTATTTTtat                                       <  1:250671/59‑1 (MQ=255)                                                                                  tGGGGAATTGGGAATTAATTCTTGAAGACGAAAGGGCCTCGTGATACGCCTATTTTTATAGGTTAATGTCATGGGAAGATCCAGCCGAcc        >  2:686212/1‑90 (MQ=255)                                                                                        attgggaattAATTCTTGAAGACGAAAGGGCCTCGTGATACGCCTATTTTTATAGGTTAATGTCATGGGAAGATCCAGCCGACCAGGCtt  >  2:550992/1‑90 (MQ=255)                                                                                         ttgggaattAATTCTTGAAGACGAAAGGGCCTCGTGATACGCCTATTTTtat                                       >  2:657999/1‑52 (MQ=255)                                                                                         ttgggaattAATTCTTGAAGACGAAAGGGCCTCGTGATACGCCTATTTTtat                                       <  1:657999/52‑1 (MQ=255)                                                                                          |                                                                                        CAGGAGAGCGTTCACCGACAAACAACAGATAAAACGAAAGGCCCAGTCTTTCGACTGAGCCTTTCGTTTTATTTGATG‑CCTGGGGAATTGGGAATTAATTCTTGAAGACGAAAGGGCCTCGTGATACGCCTATTTTTATAGGTTAATGTCATGGGAAGATCCAGCCGACCAGGCTT  >  NZ_CP009273/360198‑360373

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ 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.