New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NZ_CP009273	481481 =	1 (0.050)	7 (0.330)	7/164	1.1	87.5%	coding (265/648 nt)	acrR	multidrug efflux transporter transcriptional repressor AcrR
	?	NZ_CP009273	570047 =	NA (NA)					intergenic (+252/+146)	quuD/BW25113_RS02850	antitermination protein QuuD/IS5‑like element IS5 family transposase

GTGAGATCTGGGAACTGTCAGAATCCAATATTGGTGAACTAGAGCTTGAGTATCAGGCAAAATTCCCTGGCGATCCACTCTCAGTATTAAGAGAGATATTAATTCATGTTCTTGAATCCACGGTGACAGAAGAACGGCGTCGATTATTGATGGAGATTATATTCCACAAATGCGAA  >  NZ_CP009273/481395‑481570                                                                                       |                                                                                          gTGAGATCTGGGAACTGTCAGAATCCAATATTGGTGAACTAGAGCTTGAGTATCAGGCAAAATTCCCTGGCGATCCACTCTCAGTATTaa                                                                                        >  1:109617/1‑90 (MQ=255)  tacgggagaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccTTAag                                                                                       >  2:30534‑M1/86‑90 (MQ=255)    cgggagaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccTTAagag                                                                                     >  2:406450‑M1/84‑90 (MQ=255)     gaTCTGGGAACTGTCAGAATCCAATATTGGTGAACTAGAGCTTGAGTATCAGGCAAAATTCCCTGGCGATCCACTCTCAGTATTAAGgaa                                                                                    <  2:612785‑M2/90‑4 (MQ=255)     gaTCTGGGAACTGTCAGAATCCAATATTGGTGAACTAGAGCTTGAGTATCAGGCAAAATTCCCTGGCGATCCACTCTCAGTATTAAGgaa                                                                                    >  1:612785‑M2/1‑87 (MQ=255)                 cggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccTTAAGAGAGATATTAATTCa                                                                        >  2:372355‑M1/71‑90 (MQ=255)                  tCAGAATCCAATATTGGTGAACTAGAGCTTGAGTATCAGGCAAAATTCCCTGGCGATCCACTCTCAGTATTAAGgaaggtgcgaacaagt                                                                       >  2:321089‑M2/1‑74 (MQ=255)                  ggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccTTAAGAGAGATATTAATTCAt                                                                       <  2:67229‑M1/21‑1 (MQ=255)                     gAATCCAATATTGGTGAACTAGAGCTTGAGTATCAGGCAAAATTCCCTGGCGATCCACTCTCAGTATTAAGgaaggtgcgaacaagtccc                                                                    >  2:614274‑M2/1‑71 (MQ=255)                          cAATATTGGTGAACTAGAGCTTGAGTATCAGGCAAAATTCCCTGGCGATCCACTCTCAGTATTAAGgaaggtgcgaacaagtccctgata                                                               >  2:566677‑M2/1‑66 (MQ=255)                          cAATATTGGTGAACTAGAGCTTGAGTATCAGGCAAAATTCCCTGGCGATCCACTCTCAGTATTAAGgaaggtgcgaacaagtccctgata                                                               >  2:109617‑M2/1‑66 (MQ=255)                                 ggTGAACTAGAGCTTGAGTATCAGGCAAAATTCCCTGGCGATCCACTCTCAGTATTAAGgaaggtgcgaacaagt                                                                       >  1:112312‑M2/1‑59 (MQ=255)                                 ggTGAACTAGAGCTTGAGTATCAGGCAAAATTCCCTGGCGATCCACTCTCAGTATTAAGgaaggtgcgaacaagt                                                                       <  2:112312‑M2/75‑17 (MQ=255)                                  gTGAACTAGAGCTTGAGTATCAGGCAAAATTCCCTGGCGATCCACTCTCAGTATTAAGgaaggtgcgaacaagtccctgatatgagatca                                                       >  2:299191‑M2/1‑58 (MQ=255)                                    gAACTAGAGCTTGAGTATCAGGCAAAATTCCCTGGCGATCCACTCTCAGTATTAAGgaaggtgcgaacaagtccctgata                                                               >  2:35683‑M2/1‑56 (MQ=255)                                    gAACTAGAGCTTGAGTATCAGGCAAAATTCCCTGGCGATCCACTCTCAGTATTAAGgaaggtgcgaacaagtccctgata                                                               <  1:35683‑M2/80‑25 (MQ=255)                                        tAGAGCTTGAGTATCAGGCAAAATTCCCTGGCGATCCACTCTCAGTATTAAGgaaggtgcgaacaagtccctgatatgagatcatgtttg                                                 >  2:198489‑M2/1‑52 (MQ=255)                                         agagCTTGAGTATCAGGCAAAATTCCCTGGCGATCCACTCTCAGTATTAAGgaaggtgcgaacaagtccctgatatgagatcatgtttgt                                                <  1:36774‑M2/90‑40 (MQ=255)                                              ttGAGTATCAGGCAAAATTCCCTGGCGATCCACTCTCAGTATTAAGgaaggtgcgaacaagtccctgatatgagatcatgtttgtcatct                                           <  2:79940‑M2/90‑45 (MQ=255)                                              ttGAGTATCAGGCAAAATTCCCTGGCGATCCACTCTCAGTATTAAGgaaggtgcgaacaagtccctgatatgagatcatgtttgtcatct                                           >  2:159093‑M2/1‑46 (MQ=255)                                                    gccgagaagaatttccccgcttattcgcaccttccTTAAGAGAGATATTAAtt                                                                          >  2:223821‑M1/36‑53 (MQ=255)                                                    gccgagaagaatttccccgcttattcgcaccttccTTAAGAGAGATATTAAtt                                                                          <  1:223821‑M1/18‑1 (MQ=255)                                                      cAGGCAAAATTCCCTGGCGATCCACTCTCAGTATTAAGgaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccat                                   >  2:241025‑M2/1‑38 (MQ=255)                                                          cAAAATTCCCTGGCGATCCACTCTCAGTATTAAGgaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaa                               >  1:273018‑M2/1‑34 (MQ=255)                                                            aaaTTCCCTGGCGATCCACTCTCAGTATTAAGgaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaaca                             >  1:467892‑M2/1‑32 (MQ=255)                                                             aaTTCCCTGGCGATCCACTCTCAGTATTAAGgaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggggccatagaacag                            >  1:316053‑M2/1‑31 (MQ=255)                                                                        gATCCACTCTCAGTATTAAGgaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatg                 >  2:162580‑M2/1‑20 (MQ=255)                                                                             aCTCTCAGTATTAAGgaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatgagtca            >  1:6637‑M2/1‑15 (MQ=255)                                                                             aCTCTCAGTATTAAGgaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatgagtca            <  1:312399‑M2/90‑76 (MQ=255)                                                                               tctcAGTATTAAGgaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggt                         >  2:285014‑M2/1‑13 (MQ=255)                                                                               tctcAGTATTAAGgaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggt                         <  1:285014‑M2/75‑63 (MQ=255)                                                                                   ttccTTAAGAGAGATATTAATTCATGTTCTTGAATCCACGGTGACAGAAGAACGGCGTCGATTATTGATGGAGATTATATTCCACAAATg      <  1:582765‑M1/86‑1 (MQ=255)                                                                                       ttAAGgaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatgagtcatcaacttacc  <  1:112028‑M2/90‑86 (MQ=255)                                                                                       |                                                                                          GTGAGATCTGGGAACTGTCAGAATCCAATATTGGTGAACTAGAGCTTGAGTATCAGGCAAAATTCCCTGGCGATCCACTCTCAGTATTAAGAGAGATATTAATTCATGTTCTTGAATCCACGGTGACAGAAGAACGGCGTCGATTATTGATGGAGATTATATTCCACAAATGCGAA  >  NZ_CP009273/481395‑481570

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ 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.