New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NZ_CP009273	4532499 =	1 (0.070)	10 (0.780)	9/142	0.3	66.9%	intergenic (+49/‑433)	fimE/fimA	type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA
	?	NZ_CP009273	4532813 =	9 (0.700)					intergenic (+363/‑119)	fimE/fimA	type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA

TAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACT  >  NZ_CP009273/4532411‑4532585                                                                                         |                                                                                       tcgacatgggcagtcgttctgtacactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacattt                                                                                       >  1:109128‑M1/89‑90 (MQ=255)      atgggcagtcgttctgtacactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGc                                                                                  >  1:12876‑M1/84‑90 (MQ=255)           cagtcgctctgtacactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAAc                                                                             >  2:299522‑M1/79‑90 (MQ=255)           aaCGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAAc                                                                             <  1:404884/90‑1 (MQ=255)                   ctgtacactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCata                                                                     >  1:42657‑M1/71‑90 (MQ=255)                          ctttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCataaa                                                              <  2:407821‑M1/27‑1 (MQ=255)                               ttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGt                                                         <  2:219370‑M1/32‑1 (MQ=255)                                          agtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTAttttt                                              >  1:407821‑M1/48‑90 (MQ=255)                                               gactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCa                                         >  2:443693‑M1/43‑90 (MQ=255)                                                     caacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAAc                                                                             <  1:10894‑M1/12‑1 (MQ=255)                                                     caacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAAc                                                                             >  2:10894‑M1/37‑48 (MQ=255)                                                             cacagttttcccccaaaagatgaaacatTTGGGGc                                                                                  >  1:61686‑M1/29‑35 (MQ=255)                                                             cacagttttcccccaaaagatgaaacatTTGGGGc                                                                                  <  2:61686‑M1/7‑1 (MQ=255)                                                                      cccccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGa                  <  1:262901‑M1/71‑1 (MQ=255)                                                                                      catTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACt  <  1:410311‑M1/87‑1 (MQ=255)                                                                                         |                                                                                       TAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACT  >  NZ_CP009273/4532411‑4532585

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