New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NZ_CP009273	2282398 =	NA (NA)	47 (1.690)	22/170	0.2	100%	pseudogene (3/2532 nt)	yejO	autotransporter YejO
	?	NZ_CP009273	= 3629487	0 (0.000)					intergenic (+234/+81)	yhiM/yhiN	DUF2776 domain‑containing protein/NAD(P)/FAD‑dependent oxidoreductase

ACCAGCTGGATATCTTTTTCCAGGACAACACCATCAACTGTCTCACCATACTCAACAGTTGATGCCAATGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCG  >  NZ_CP009273/2282312‑2282480                                                                                       |                                                                                   aCCAGCTGGATATCTTTTTCCAGGACAACACCATCAACTGTCTCACCATACTCAACAGTTGATGCCAATGCTATGGGTGAATATaaggaa                                                                                 <  1:112201/90‑1 (MQ=255) aCCAGCTGGATATCTTTTTCCAGGACAACACCATCAACTGTCTCACCATACTCAACAGTTGATGCCAATGCTATGGGTGAATATaaggaa                                                                                 <  1:719663/90‑1 (MQ=255)  ccAGCTGGATATCTTTTTCCAGGACAACACCATCAACTGTCTCACCATACTCAACAGTTGATGCCAATGCTATGGGTGAATATaaggaag                                                                                >  1:577371/1‑90 (MQ=255)    aGCTGGATATCTTTTTCCAGGACAACACCATCAACTGTCTCACCATACTCAACAGTTGATGCCAATGCTATGGGTGAATATAAGGAAGGt                                                                              >  1:586655/1‑90 (MQ=255)    aGCTGGATATCTTTTTCCAGGACAACACCATCAACTGTCTCACCATACTCAACAGTTGATGCCAATGCTATGGGTGAATATAAGGAAGGt                                                                              >  2:334368/1‑90 (MQ=255)            atCTTTTTCCAGGACAACACCATCAACTGTCTCACCATACTCAACAGTTGATGCCAATGCTATGGGTGAATATAAGGAAGGTGCGAATaa                                                                      <  2:586655/90‑1 (MQ=255)              cTTTTTCCAGGACAACACCATCAACTGTCTCACCATACTCAACAGTTGATGCCAATGCTATGGGTGAATATAAGGAAGGTGCGAATAAGc                                                                    <  1:252978/90‑1 (MQ=255)                      aGGACAACACCATCAACTGTCTCACCATACTCAACAGTTGATGCCAATGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAAt                                                            <  2:57734/90‑1 (MQ=255)                       ggACAACACCATCAACTGTCTCACCATACTCAACAGTTGATGCCAATGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAAtt                                                           >  2:513508/1‑90 (MQ=255)                            acacCATCAACTGTCTCACCATACTCAACAGTTGATGCCAATGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATtcttct                                                      >  1:735443/1‑90 (MQ=255)                            acacCATCAACTGTCTCACCATACTCAACAGTTGATGCCAATGCTATGGGTG‑ATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTtctc                                                     >  1:345413/1‑90 (MQ=255)                                 aTCAACTGTCTCACCATACTCAACAGTTGATGCCAATGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCt                                                 >  2:290017/1‑90 (MQ=255)                                     aCTGTCTCACCATACTCAACAGTTGATGCCAATGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACt                                             <  2:84258/90‑1 (MQ=255)                                         tctcACCATACTCAACAGTTGATGCCAATGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGt                                         >  1:312219/1‑90 (MQ=255)                                         tctcACCATACTCAACAGTTGATGCCAATGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGt                                         >  1:215816/1‑90 (MQ=255)                                                aTACTCAACAGTTGATGCCAATGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGtcatttca                                  >  1:112170/1‑90 (MQ=255)                                                       aCAGTTGATGCCAATGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATttcttc                           <  2:551343/90‑1 (MQ=255)                                                          gTTGATGCCAATGCTATGGGTGAATATAGGGAAGGGGGGATTAAGGGGGGAATTTTTTCTCGGCGGACTCAGTCATTTCATTTCTTCATg                        >  1:248193/1‑90 (MQ=18)                                                            tGATGCCAATGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGtt                      >  1:63000/1‑90 (MQ=255)                                                             gATGCCAATGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGttt                     >  1:442453/1‑90 (MQ=255)                                                                 ccAATGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGc                 <  1:269700/90‑1 (MQ=255)                                                                    aTGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGa              >  1:613766/1‑90 (MQ=255)                                                                        tATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGAtttt          >  2:780354/1‑90 (MQ=255)                                                                         aTGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGAttttt         >  1:53152/1‑90 (MQ=255)                                                                              tGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTcc    >  1:43818/1‑90 (MQ=38)                                                                               gAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTccc   >  1:474139/1‑90 (MQ=37)                                                                                aaTATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCg  >  1:779757/1‑90 (MQ=35)                                                                                       |                                                                                   ACCAGCTGGATATCTTTTTCCAGGACAACACCATCAACTGTCTCACCATACTCAACAGTTGATGCCAATGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCG  >  NZ_CP009273/2282312‑2282480

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ 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.