New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	5688301 =	67 (1.370)	4 (0.090)	4/252	NT	6.3%	coding (665/2061 nt)	pilJ	twitching motility protein PilJ
	?	NC_002947	5688340 =	54 (1.150)					coding (626/2061 nt)	pilJ	twitching motility protein PilJ

GCCGCCCAGGCGGCCGACGCCTTCGGCCGTGACGCCGGGCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_002947/5688341‑5688301 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gggcgGCGCTGTCGTCACCGGCCAGCACGGTGTTGACCGAGCCAAGGATGCGTTCGGCCAGCAACAGCTGGCGCTGGGCCACCGCAACCTGATTGGCCGGGGCACCGCTCTGCAGCAGGATCTCGACCACTTTTTCGTATTCCACCTGCAG  >  NC_002947/5688340‑5688485                                                                                                                                                                                             GCCGCCCAGGCGGCCGACGCCTTCGGCCGTGACGCCGGGCGGCGCTGTCGTCACCGGCCAGCACGGTGTTGACCGAGCCAAGGATGCGTTCGGCCAGCAACAGCTGGCGCTGGGCCACCGCAACCTGATTGGCCGGGGCACCGCTCTG                                         >  1:157521/1‑148   CGCCCAGGCGGCCGACGCCTTCGGCCGTGACGCCGGGCGGCGCTGTCGTCACCGGCCAGCACGGTGTTGACCGAGCCAAGGATGCGTTCGGCCAGCAACAGCTGGCGCTGGGCCACCGCAACCTGATTGGCCGGGGCACCGCTCTGCAG                                      <  5:2360/149‑1   CGCCCAGGCGGCCGACGCCTTCGGCCGTGACGCCGGGCGGCGCTGTCGTCACCGGCCAGCACGGTGTTGACCGAGCCAAGGATGCGTTCGGCCAGCAACAGCTGGCGCTGGGCCACCGCAACCTGATTGGCCGGGGCACCGCTCTGCAG                                      >  6:2360/1‑149             GCCGACGCCTTCGGCCGTGACGCCGGGCGGCGCTGTCGTCACCGGCCAGCACGGTGTTGACCGAGCCAAGGATGCGTTCGGCCAGCAACAGCTGGCGCTGGGCCACCGCAACCTGATTGGCCGGGGCACCGCTCTGCAGCAGGATCTCG                            <  2:157521/149‑1                                     GGGCGGCGCTGTCGTCACCGGCCAGCACGGTGTTGACCGAGCCAAGGATGCGTTCGGCCAGCAACAGCTGGCGCTGGGCCACCGCAACCTGATTGGCCGGGGCACCGCTCTGCAGCAGGATCTCGACCACTTTTTCGTATTCCACCTG     >  7:26164/1‑148                                      GGCGGCGCTGTCGTCACCGGCCAGCACGGTGTTGACCGAGCCAAGGATGCGTTCGGCCAGCAACAGCTGGCGCTGGGCCACCGCAACCTGATTGGCCGGGGCACCGCTCTGCAGCAGGATCTCGACCACTTTTTCGTATTCCACCTGC    <  1:183333/148‑1                                       GCGGCGCTGTCGTCACCGGCCAGCACGGTGTTGACCGAGCCAAGGATGCGTTCCGCCAGCAACAGCTGGCGCTGGGCCACCGCAACCTGATTGGCCGGGGCACCGCTCTGCAGCAGGATCTCGACCACTTTTTCGTATTCCACCTGCAG  <  4:29178/149‑1                                                                                                                                                                                             GCCGCCCAGGCGGCCGACGCCTTCGGCCGTGACGCCGGGCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_002947/5688341‑5688301 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gggcgGCGCTGTCGTCACCGGCCAGCACGGTGTTGACCGAGCCAAGGATGCGTTCGGCCAGCAACAGCTGGCGCTGGGCCACCGCAACCTGATTGGCCGGGGCACCGCTCTGCAGCAGGATCTCGACCACTTTTTCGTATTCCACCTGCAG  >  NC_002947/5688340‑5688485

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ 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.