New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NZ_CP009273	4532499 =	3 (0.170)	6 (0.380)	5/148	1.0	43.4%	intergenic (+49/‑433)	fimE/fimA	type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA
	?	NZ_CP009273	4532813 =	13 (0.820)					intergenic (+363/‑119)	fimE/fimA	type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA

ATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCAT  >  NZ_CP009273/4532413‑4532579                                                                                       |                                                                                 gacatgggcagtcgttctgtacactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTgg                                                                               <  2:49265‑M1/4‑1 (MQ=255)         cagtcgttctgtacactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAAc                                                                       >  2:7543‑M1/79‑90 (MQ=255)               ttctgtacactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCa                                                                 >  1:126415‑M1/73‑90 (MQ=255)                                tgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGc                                                                            <  1:498470‑M1/7‑1 (MQ=255)                                tgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGc                                                                            >  2:498470‑M1/56‑62 (MQ=255)                                                         aaGTTAAAAAAACAAATAAATACAAGACAATTGGGGc                                                                            <  1:236891/37‑1 (MQ=255)                                                         aaGTTAAAAAAACAAATAAATACAAGACAATTGGGGc                                                                            >  2:236891/1‑37 (MQ=255)                                                          gcacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAatat                      <  2:521327‑M1/61‑1 (MQ=255)                                                          gcacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAatat                      <  2:879‑M1/61‑1 (MQ=255)                                                               gttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTaaaa                 <  1:299185‑M1/66‑1 (MQ=255)                                                                           aagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAg     >  2:299185‑M1/13‑90 (MQ=255)                                                                              aCAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCAt  >  2:109852/1‑90 (MQ=255)                                                                                       |                                                                                 ATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCAT  >  NZ_CP009273/4532413‑4532579

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.