New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NZ_CP009273	4532499 =	1 (0.060)	11 (0.730)	10/150	0.4	76.1%	intergenic (+49/‑433)	fimE/fimA	type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA
	?	NZ_CP009273	4532813 =	6 (0.400)					intergenic (+363/‑119)	fimE/fimA	type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA

TAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAAC  >  NZ_CP009273/4532411‑4532584                                                                                         |                                                                                      tcgacatgggcagtcgttctgtacactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacattt                                                                                      >  2:347953‑M1/89‑90 (MQ=255)           cagtcgttctgtacactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAAc                                                                            >  2:273165‑M1/79‑90 (MQ=255)           aaCGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCattt                                                                            <  1:404559/90‑4 (MQ=255)             gtcgttctgtacactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacattt                                                                                      <  1:290619‑M1/2‑1 (MQ=255)             gtcgttctgtacactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacattt                                                                                      >  2:290619‑M1/77‑78 (MQ=255)                  tctgtccactttgttttgtaaacgagtttggcggccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCat                                                                     >  1:422048‑M1/72‑90 (MQ=255)                         ctttgttttgtaaacgagtttgactgccaacactgcacagttttccccccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCataa                                                              >  2:322110‑M1/65‑90 (MQ=255)                                      aacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAAc                                                                            >  1:13269‑M1/52‑63 (MQ=255)                                      aacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAAc                                                                            <  2:13269‑M1/12‑1 (MQ=255)                                             ttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTtct                                          <  2:215750‑M1/46‑1 (MQ=255)                                                actgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCaa                                       >  2:90044‑M1/42‑90 (MQ=255)                                                             cacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATAtt                          <  1:212353‑M1/62‑1 (MQ=255)                                                                             aagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAg          >  2:177727‑M1/13‑90 (MQ=255)                                                                                   aaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTa    <  1:376050‑M1/84‑1 (MQ=255)                                                                                     acatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAAc  >  2:164791‑M1/5‑90 (MQ=255)                                                                                         |                                                                                      TAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAAC  >  NZ_CP009273/4532411‑4532584

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 18 ≤ 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.