New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NZ_CP009273	4532499 =	3 (0.140)	8 (0.410)	7/148	0.8	67.6%	intergenic (+49/‑433)	fimE/fimA	type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA
	?	NZ_CP009273	4532813 =	5 (0.250)					intergenic (+363/‑119)	fimE/fimA	type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA

CTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGT  >  NZ_CP009273/4532415‑4532587                                                                                     |                                                                                         ctcATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGG                                                                                     <  1:388442‑M1/90‑1 (MQ=255) catgggcagtcgttctgtacactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTgggg                                                                                     >  2:148170‑M1/85‑90 (MQ=255)  tcATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGC                                                                                    <  2:66933‑M1/90‑1 (MQ=255)       cagtcgttctgtacactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAAc                                                                               >  2:417410‑M1/79‑90 (MQ=255)         cGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTg                                                                             <  2:422763/90‑1 (MQ=255)              tctgtacactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTgggg                                                                                     >  1:237297‑M1/72‑77 (MQ=255)              tctgtacactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTgggg                                                                                     <  2:237297‑M1/6‑1 (MQ=255)                   acactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAAc                                                                               >  1:328453‑M1/67‑78 (MQ=255)                   acactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAAc                                                                               <  2:328453‑M1/12‑1 (MQ=255)                      ctttgttttgtaaacgagtttgactgccaacgctgcacaattttcccccaaaagatgaaacattt                                                                                         >  2:370358‑M1/64‑65 (MQ=255)                      ctttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacattt                                                                                         <  1:370358‑M1/2‑1 (MQ=255)                        ttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCa                                                                         >  1:582969‑M1/62‑79 (MQ=255)                        ttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCa                                                                         <  2:582969‑M1/18‑1 (MQ=255)                         gaagagGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAttttgactcatagaggaaagc                                                             >  1:573159‑M1/1‑69 (MQ=255)                                             aTTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAttttgactcatagaggaaagcatcgcggacaaactttttca                                         >  2:53257‑M1/1‑49 (MQ=255)                                                  taataaAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATaa                                    >  1:198212/1‑90 (MQ=255)                                                         cacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCatat                                                                      <  2:584033‑M1/21‑1 (MQ=255)                                                         cacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCatat                                                                      >  1:584033‑M1/29‑49 (MQ=255)                                                          ttAAAAAAACAAATAAATACAAGACAATTGGGGCCAttttgactcatagaggaaagcatcgcggacaaactttttcagtttatttgttgg                            >  2:515861‑M1/1‑36 (MQ=255)                                                             aaaaaaCAAATAAATACAAGACAATTGGGGCCAttttgactcatagaggaaagcatcgcggacaaactttttcagtttatttgttggctt                         <  2:573159‑M1/90‑58 (MQ=255)                                                                   cAAATAAATACAAGACAATTGGGGCCAttttgactcatagaggaaagcatcgcggac                                                    <  2:188210‑M1/57‑31 (MQ=255)                                                                   cAAATAAATACAAGACAATTGGGGCCAttttgactcatagaggaaagcatcgcggac                                                    >  1:188210‑M1/1‑27 (MQ=255)                                                                    aaataaatACAAGACAATTGGGGCCAttttgactcatagaggaaagcatcgcggacaaactttttcagtttatttgttggcttaatattc                  <  2:106948‑M1/90‑65 (MQ=255)                                                                              gaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCt        <  2:67992‑M1/83‑1 (MQ=255)                                                                                    aTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGt  >  1:601173/1‑90 (MQ=255)                                                                                     |                                                                                         CTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGT  >  NZ_CP009273/4532415‑4532587

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 33 ≤ 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.