New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NZ_CP009273	2282400 =	NA (NA)	21 (1.330)	14/166	0.2	100%	pseudogene (1/2532 nt)	yejO	autotransporter YejO
	?	NZ_CP009273	= 3626937	0 (0.000)					pseudogene (882/1607 nt)	BW25113_RS18065	YhiJ/YhiL family protein

CAGCTGGATATCTTTTTCCAGGACAACACCATCAACTGTCTCACCATACTCAACAGTTGATGCCAATGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGT  >  NZ_CP009273/2282314‑2282481                                                                                       |                                                                                  cAGCTGGATATCTTTTTCCAGGACAACACCATCAACTGTCTCACCATACTCAACAGTTGATGCCAATGCTATGGGTGAATATaaggaagg                                                                                <  1:455636/90‑1 (MQ=255)        atatCTTTTTCCAGGACAACACCATCAACTGTCTCACCATACTCAACAGTTGATGCCAATGCTATGGGTGAATATAAGGAAGGTGCGAAt                                                                         >  1:416090/1‑90 (MQ=255)                                    cTGTCTCACCATACTCAACAGTTGATGCCAATGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTc                                             <  1:189802/90‑1 (MQ=255)                                       tctcACCATACTCAACAGTTGATGCCAATGCTATGGGTGAATATaaggaa                                                                                  <  1:395004/50‑1 (MQ=255)                                       tctcACCATACTCAACAGTTGATGCCAATGCTATGGGTGAATATaaggaa                                                                                  >  2:395004/1‑50 (MQ=255)                                                          tGATGCCAATGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGtt                       >  1:196810/1‑90 (MQ=255)                                                             tGCCAATGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTc                                             >  1:265283/1‑65 (MQ=255)                                                             tGCCAATGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTc                                             <  2:265283/65‑1 (MQ=255)                                                             tGCCAATGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGa                    >  1:146700/1‑90 (MQ=255)                                                                  aTGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGa               >  1:239095/1‑90 (MQ=255)                                                                  aTGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGa               >  2:132154/1‑90 (MQ=255)                                                                  aTGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGa               <  2:146700/90‑1 (MQ=255)                                                                        tGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGAtttttt         >  1:159141/1‑90 (MQ=255)                                                                         gggTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTtc        <  1:132154/90‑1 (MQ=255)                                                                         gggTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTtc        <  2:270168/90‑1 (MQ=255)                                                                               atatAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGt  >  1:321768/1‑90 (MQ=33)                                                                                       |                                                                                  CAGCTGGATATCTTTTTCCAGGACAACACCATCAACTGTCTCACCATACTCAACAGTTGATGCCAATGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGT  >  NZ_CP009273/2282314‑2282481

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