New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NZ_CP009273	= 3626674	0 (0.000)	8 (0.550)	8/170	0.6	100%	pseudogene (1145/1607 nt)	BW25113_RS18065	YhiJ/YhiL family protein
	?	NZ_CP009273	3645396 =	NA (NA)					pseudogene (746/747 nt)	BW25113_RS18155	hypothetical protein

TTAAATGGAACCTGCAAAGCACCGAGACAATAACATTTTTTTCTTCATCTCTTATTATTCCGTGATGACTGGTTAAAACTTGCCTTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NZ_CP009273/3626588‑3626674 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGT  >  NZ_CP009273/3645396‑3645479                                                                                                                                                                             TTAAATGGAACCTGCAAAGCACCGAGACAATAACATTTTTTTCTTCATCTCTTATTATTCCGTGATGACTGGTTAAAACTTGCCTTTGGAA                                                                                  <  1:128466/91‑1         AACCTGCAAAGCACCGAGACAATAACATTTTTTTCTTCATCTCTTATTATTCCGTGATGACTGGTTAAAACTTGCCTTTGGAAGGTGCGAA                                                                          <  1:109002/91‑1         AACCTGCAAAGCACCGAGACAATAACATTTTTTTCTTCATCTCTTATTATTCCGTGATGACTGGTTAAAACTTGCCTTTGGAAGGTGCGAA                                                                          >  1:140853/1‑91                                          TCTTCATCTCTTATTATTCCGTGATGACTGGTTAAAACTTGCCTTTGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTC                                         <  1:127141/91‑1                                                              GTGATGACTGGTTAAAACTTGCCTTTGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTG                     >  2:221458/1‑91                                                                GATGACTGGTTAAAACTTGCCTTTGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAG                   >  2:366717/1‑91                                                                   GACTGGTTAAAACTTGCCTTTGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCG                >  1:82690/1‑91                                                                                 TGCCTTTGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGT  >  1:245628/1‑91                                                                                                                                                                             TTAAATGGAACCTGCAAAGCACCGAGACAATAACATTTTTTTCTTCATCTCTTATTATTCCGTGATGACTGGTTAAAACTTGCCTTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NZ_CP009273/3626588‑3626674 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGT  >  NZ_CP009273/3645396‑3645479

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ 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.