New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NZ_CP009273	4532499 =	2 (0.120)	8 (0.540)	8/148	0.5	57.6%	intergenic (+49/‑433)	fimE/fimA	type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA
	?	NZ_CP009273	4532813 =	10 (0.680)					intergenic (+363/‑119)	fimE/fimA	type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA

CATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTAC  >  NZ_CP009273/4532417‑4532533                                                                                   |                                   cATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGcc                             >  1:242220/1‑90 (MQ=255)     cagtcgttctgtacactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAAc                         >  1:207943‑M1/79‑90 (MQ=255)     aaCGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAAc                         <  2:242220/90‑1 (MQ=255)           ttctgtacactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCa                   >  1:458680‑M1/73‑90 (MQ=255)                         ttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGt     <  1:486909‑M1/32‑1 (MQ=255)                            tgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTAc  >  2:51465‑M1/56‑90 (MQ=255)                                                            ttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCat                  >  1:242240‑M1/24‑42 (MQ=255)                                                            ttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCat                  <  2:242240‑M1/19‑1 (MQ=255)                                                                           tgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGt     >  1:399513‑M1/9‑40 (MQ=255)                                                                           tgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGt     <  2:399513‑M1/32‑1 (MQ=255)                                                                                   |                                   CATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTAC  >  NZ_CP009273/4532417‑4532533

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 37 ≤ 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.