New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NZ_CP009273	2282398 =	NA (NA)	14 (0.640)	11/164	0.6	82.3%	pseudogene (3/2532 nt)	yejO	autotransporter YejO
	?	NZ_CP009273	= 3630786	3 (0.140)					intergenic (‑16/‑216)	yhiN/pitA	NAD(P)/FAD‑dependent oxidoreductase/inorganic phosphate transporter PitA

ACACCATCAACTGTCTCACCATACTCAACAGTTGATGCCAATGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCC  >  NZ_CP009273/2282339‑2282479                                                            |                                                                                  acacCATCAACTGTCTCACCATACTCAACAGTTGATGCCAATGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATtcttct                                                     >  2:479960/1‑90 (MQ=255)     cATCAACTGTCTCACCATACTCAACAGTTGATGCCAATGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGc                                                 <  2:18582/90‑1 (MQ=255)            tGTCTCACCATACTCAACAGTTGATGCCAATGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCa                                          >  1:23430/1‑90 (MQ=255)             gTCTCACCATACTCAACAGTTGATGCCAATGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAg                                         >  1:403951/1‑90 (MQ=255)             gTCTCACCATACTCAACAGTTGATGCCAATGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAg                                         >  1:651125/1‑90 (MQ=255)                      tACTCAACAGTTGATGCCAATGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGtcatttcat                                <  2:403951/90‑1 (MQ=255)                       aCTCAACAGTTGATGCCAATGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGtcatttcatt                               >  1:568021/1‑90 (MQ=255)                                      ccAATGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGc                <  2:654712/90‑1 (MQ=255)                                       cAATGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAAt                                                           >  1:570882/1‑46 (MQ=255)                                       cAATGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAAt                                                           <  2:570882/46‑1 (MQ=255)                                              aTGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATttcttc                          <  1:496070/72‑1 (MQ=255)                                              aTGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATttcttc                          >  2:496070/1‑72 (MQ=255)                                                  gTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTtctc    <  2:621253/90‑1 (MQ=39)                                                    gAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGtcatt                                    >  1:541941/1‑56 (MQ=40)                                                    gAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGtcatt                                    <  2:541941/56‑1 (MQ=40)                                                    gAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTccc  >  1:489520/1‑90 (MQ=37)                                                            |                                                                                  ACACCATCAACTGTCTCACCATACTCAACAGTTGATGCCAATGCTATGGGTGAATATAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCC  >  NZ_CP009273/2282339‑2282479

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ 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.