New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NZ_CP009273	4532499 =	0 (0.000)	11 (0.980)	10/148	0.2	95.7%	intergenic (+49/‑433)	fimE/fimA	type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA
	?	NZ_CP009273	4532813 =	1 (0.090)					intergenic (+363/‑119)	fimE/fimA	type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA

AAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGAACGACTGCCCAT  >  NZ_CP009273/4532747‑4532895                                                                   |                                                                                   ttttaatatttttatgcttgagaaaaaatacgtaacttatttatgatatggacagtttggccccaaATGTTTCATCTTTTGGGGGAAAAc                                                             <  2:30815‑M2/24‑1 (MQ=255)     caacaaATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACtgtg                                                         <  1:82774/90‑1 (MQ=255)       tatttttatgcttgagaaaaaatacgtaacttatttatgatatggacagtttggccccaaATGTTTCATCTTTTGGGGGAAAACTGTGCa                                                       <  2:284579‑M2/30‑1 (MQ=255)                   tgagaaaaaatacgtaacttatttatgatatggacagtttggccccaaATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTc                                           >  2:333980‑M2/49‑90 (MQ=255)                                gtaacttatttatgatatggacagtttggccccaaATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTaca                              >  1:37918‑M2/36‑90 (MQ=255)                                 taacttatttatgatatggacagtttggccccaaATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTacaa                             >  1:35‑M2/35‑90 (MQ=255)                                      tatttatgatatggacagtttggccccaaATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTacaaaacaa                        >  1:113503‑M2/30‑90 (MQ=255)                                      tatttatgatatggacagtttggccccaaATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTacaaaacaa                        <  1:34885‑M2/61‑1 (MQ=255)                                      tatttatgatatggacagtttggccccaaATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTacaaaacaa                        <  2:23385‑M2/61‑1 (MQ=255)                                        tttatgatatggacagtttggccccaaATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACAAAg                      <  1:333980‑M2/63‑1 (MQ=255)                                                 tggacagtttggccccaaATGTTTCATCTTTTGGGGGAAAACTGTGCAGAGTTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGaa             >  2:336657‑M2/19‑90 (MQ=255)                                                         ttggccccaaATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGAACGACTGcc     >  1:149532‑M2/11‑90 (MQ=255)                                                            gccccaaATGTTTCATCTTTTGGGGGAAAACTGTGc                                                        <  1:229475‑M2/29‑1 (MQ=255)                                                            gccccaaATGTTTCATCTTTTGGGGGAAAACTGTGc                                                        >  2:229475‑M2/8‑36 (MQ=255)                                                            gccccaaATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGAACGACTGCCCAt  >  2:120040‑M2/8‑90 (MQ=255)                                                            gccccaaATGTTTCATCTTTTGGGGGAAAACTGTGCAGTATTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGAACGACTGCCCAt  >  1:330874‑M2/8‑90 (MQ=255)                                                                   |                                                                                   AAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGAACGACTGCCCAT  >  NZ_CP009273/4532747‑4532895

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ 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.