New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NZ_CP009273	4532499 =	3 (0.150)	14 (0.790)	11/148	0.4	78.5%	intergenic (+49/‑433)	fimE/fimA	type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA
	?	NZ_CP009273	4532813 =	5 (0.280)					intergenic (+363/‑119)	fimE/fimA	type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA

TCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTA  >  NZ_CP009273/4532416‑4532582                                                                                    |                                                                                    atgggcagtcgttctgtacactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGc                                                                               >  2:556171‑M1/84‑90 (MQ=255)  cATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGcc                                                                              >  2:255616/1‑90 (MQ=255)      cagttgtactgtacactttgtattgtaaaagagtttgactccaaacactgcacagttttcccccaaaagatgaaacatTTGGGACCAAAc                                                                          >  2:312429‑M1/79‑90 (MQ=255)      cagtcgttctgtacactttgttttgtaaacgagtttgactgccaaccctgcacagtcttcccccaaaagatgaaacatTTGGGGCCAAAc                                                                          >  2:343190‑M1/79‑90 (MQ=255)        gtcgttctgtacactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacattt                                                                                    <  2:520554‑M1/2‑1 (MQ=255)        gtcgttctgtacactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacattt                                                                                    >  1:520554‑M1/77‑78 (MQ=255)               tgtacactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCatat                                                                 >  2:560135‑M1/70‑90 (MQ=255)                     ctttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCataaa                                                           <  2:571081‑M1/27‑1 (MQ=255)                      tttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAAc                                                                          >  2:151390‑M1/63‑74 (MQ=255)                      tttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAAc                                                                          <  1:151390‑M1/12‑1 (MQ=255)                      tttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCataaat                                                          <  2:124479‑M1/28‑1 (MQ=255)                                      gtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTAtttttt                                          <  2:514413‑M1/44‑1 (MQ=255)                                        ttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTtct                                        <  2:337684‑M1/46‑1 (MQ=255)                                           actgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCaa                                     >  1:337684‑M1/42‑90 (MQ=255)                                            aTTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGcc                                                                              >  1:462141/1‑48 (MQ=255)                                            aTTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGcc                                                                              <  2:462141/48‑1 (MQ=255)                                                      tgcacagttttcccccaaaagatgaaacatTTGGGGCCa                                                                             <  2:151319‑M1/9‑1 (MQ=255)                                                      tgcacagttttcccccaaaagatgaaacatTTGGGGCCa                                                                             >  1:151319‑M1/31‑39 (MQ=255)                                                      tgcacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAata                          <  2:48541‑M1/60‑1 (MQ=255)                                                            gttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTaaaa                    <  1:108872‑M1/66‑1 (MQ=255)                                                                      aaaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACaaaa          <  1:556517‑M1/76‑1 (MQ=255)                                                                              aaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTa  <  2:182389‑M1/84‑1 (MQ=255)                                                                                    |                                                                                    TCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTA  >  NZ_CP009273/4532416‑4532582

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 19 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ 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.