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

CCAGCGCAGAACAGAACATACCCGCCGCACCAGCGCCTATAATAATGGCATCAAACCTTTCCACGTTGCGCTCCTCTTAGAAAAAACGGGCGTGAATTGTAAAGATTCCTCAGTGGTCGCACCAGCATCAATATTACTAAAAGGAAGTATTTGCCTG  >  NZ_CP009273/3630707‑3630863                                                                                |                                                                              ccAGCGCAGAACAGAACATACCCGCCGCACCAGCGCCTATAATAATGGCATCAAACCTTTCCACGTTGCGCTCCTCTTAGggaaggtgcg                                                                     <  2:268377‑M2/90‑11 (MQ=255)         gaacagaacaTACCCGCCGCACCAGCGCCTATAATAATGGCATCAAACCTTTCCACGTTGCGCTCCTCTTAGggaaggtgcgaataagcg                                                             <  2:406353‑M2/90‑19 (MQ=255)                   tACCCGCCGCACCAGCGCCTATAATAATGGCATCAAACCTTTCCACGTTGCGCTCCTCTTAGggaaggtgcgaataagcggggaaattct                                                   <  2:50881‑M2/90‑29 (MQ=255)                   tACCCGCCGCACCAGCGCCTATAATAATGGCATCAAACCTTTCCACGTTGCGCTCCTCTTAGggaaggtgcgaataagcggggaaattct                                                   <  2:408968‑M2/90‑29 (MQ=255)                     cccGCCGCACCAGCGCCTATAATAATGGCATCAAACCTTTCCACGTTGCGCTCCTCTTAGggaaggtgcgaataagcggggaaattcttc                                                 >  1:268377‑M2/1‑60 (MQ=255)                        gccgcACCAGCGCCTATAATAATGGCATCAAACCTTTCCACGTTGCGCTCCTCTTAGggaaggtgcgaataagcggggaaattcttctcg                                              <  1:54380‑M2/90‑34 (MQ=255)                                  cgcCTATAATAATGGCATCAAACCTTTCCACGTTGCGCTCCTCTTAGggaagttgcgaataagcggggaaattcttctcggctgactcag                                    <  1:315607‑M2/90‑44 (MQ=255)                                    ccTATAATAATGGCATCAAACCTTTCCACGTTGCGCTCCTCTTAGggaaggtgcgaataagcggggagattcttctcggctgactcagtc                                  >  1:442934‑M2/1‑45 (MQ=255)                                             atGGCATCAAACCTTTCCACGTTGCGCTCCTCTTAGggaaggtgcgaataagcggggaaattcttctcggctgactcagtcatttcattt                         <  1:41945‑M2/90‑55 (MQ=255)                                             atGGCATCAAACCTTTCCACGTTGCGCTCCTCTTAGggaaggtgcgaataagcgg                                                            >  2:643595‑M2/1‑36 (MQ=255)                                             atGGCATCAAACCTTTCCACGTTGCGCTCCTCTTAGggaaggtgcgaataagcgg                                                            <  1:643595‑M2/55‑20 (MQ=255)                                                  aTCAAACCTTTCCACGTTGCGCTCCTCTTAGAAAAAACGGGCGTGAAt                                                              >  2:132648/1‑48 (MQ=255)                                                  aTCAAACCTTTCCACGTTGCGCTCCTCTTAGAAAAAACGGGCGTGAAt                                                              <  1:132648/48‑1 (MQ=255)                                                                  ttGCGCTCCTCTTAGAAAAAACGGGCGTGAATTGTAAAGATTCCTCAGTGGTCGCACCAGCATCAATATTACTAAAAGGAAGTATTTGcc    <  2:46785/90‑1 (MQ=255)                                                                   tGCGCTCCTCTTAGggaaggtgcgaataagcggggaaattcttctcggctgactcagtcatttcatttcttcatgtttgagccgattttt   >  2:344319‑M2/1‑14 (MQ=255)                                                                    gcgcTCCTCTTAGggaaggtgcgaataagcggggaaattcttctcggctgactcagtcatttcatttcttcatgtttgagccgatttttt  <  2:400054‑M2/90‑78 (MQ=255)                                                                    gcgcTCCTCTTAGggaaggtgcgaataagcggggaaattcttctcggctgactcagtcatttcatttcttcatgtttgagccgatttttt  <  2:252799‑M2/90‑78 (MQ=255)                                                                                |                                                                              CCAGCGCAGAACAGAACATACCCGCCGCACCAGCGCCTATAATAATGGCATCAAACCTTTCCACGTTGCGCTCCTCTTAGAAAAAACGGGCGTGAATTGTAAAGATTCCTCAGTGGTCGCACCAGCATCAATATTACTAAAAGGAAGTATTTGCCTG  >  NZ_CP009273/3630707‑3630863

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ 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.