New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AP009048	= 962405	59 (1.010)	3 (0.050)	3/102	NT	5.2%	intergenic (+99/‑12)	cmk/rpsA	cytidylate kinase/30S ribosomal subunit protein S1
	?	AP009048	= 962430	50 (0.850)					coding (14/1674 nt)	rpsA	30S ribosomal subunit protein S1

TTAAACAACCCCATCCGGCATGGAGCCAGGTGGACGTTAAATATAAACCT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  AP009048/962356‑962405 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑AAAGATTCAGTCATGTTTAATCTTCAG  <  AP009048/962430‑962404                                                                               TTAAACAACCCCATCCGGCATGGAGCCAGGTGGACGTTAAATATAAACCTGAAGATTCAGTCATG              <  1:4625846/65‑1                       GAGCCAGGTGGACGTTAAATATAAACCTAAAGATTCAGTCATGTTTAATCTTCAG  >  1:3680821/1‑55                               TGGACGTTAAATATAAACCTAAAGATTCAGTCATGTTTAATCTTC    <  1:2880728/45‑1                                                                               TTAAACAACCCCATCCGGCATGGAGCCAGGTGGACGTTAAATATAAACCT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  AP009048/962356‑962405 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑AAAGATTCAGTCATGTTTAATCTTCAG  <  AP009048/962430‑962404

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ 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.