New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NZ_CP009273	= 3528874	48 (1.190)	3 (0.080)	3/150	2.8	6.0%	coding (354/1353 nt)	envZ	two‑component system sensor histidine kinase EnvZ
	?	NZ_CP009273	= 3528992	52 (1.470)					coding (236/1353 nt)	envZ	two‑component system sensor histidine kinase EnvZ
Rejected: Frequency below/above cutoff threshold.

TATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NZ_CP009273/3528801‑3528874 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ttccgtcgggAGATCTACCGTGAGCTGGGGATCTCTCTCTACTCCAACGAGGCTGCCGAAGAGGCAGGTCTGCGTTGGGCGCAACACTATGAATTCTTA  <  NZ_CP009273/3528992‑3528904                                                                                                                                                                     TATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGAGATCTACCGTGAGCT                                                                           >  2:870367/1‑90     GGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGAGATCTACCGTGAGCTGGGG                                                                       >  1:1047865/1‑90         GACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGAGATCTACCGTGAGCTGGGGATCT                                                                   >  1:576677/1‑90                                                                 TTCCGTCGGGAGATCTACCGTGAGCTGGGGATCTCTCTCTACTCCAACGAGGCTGCCGAAGAGGCAGGTCTGCGTTGGGCGCAACACTAT           >  2:1150920/1‑90                                                                  TCCGTCGGGAGATCTACCGTGAGCTGGGGATCTCTCTCTACTCCAACGAGGCTGCCGAAGAGGCAGGTCTGCGTTGGGCGCAACACTATG          <  2:569298/90‑1                                                                          GAGATCTACCGTGAGCTGGGGATCTCTCTCTACTCCAACGAGGCTGCCGAAGAGGCAGGTCTGCGTTGGGCGCAACACTATGAATTCTTA  <  1:233351/90‑1                                                                                                                                                                     TATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NZ_CP009273/3528801‑3528874 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ttccgtcgggAGATCTACCGTGAGCTGGGGATCTCTCTCTACTCCAACGAGGCTGCCGAAGAGGCAGGTCTGCGTTGGGCGCAACACTATGAATTCTTA  <  NZ_CP009273/3528992‑3528904

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ 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.