New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 4956389	52 (0.810)	4 (0.070)	4/244	NT	7.5%	coding (366/1374 nt)	fliI	flagellum‑specific ATP synthase
	?	NC_002947	= 4956435	49 (0.800)					coding (320/1374 nt)	fliI	flagellum‑specific ATP synthase

CGGCCGACGGTAAGCAGGCCGTTGATACTGCGAATGCCCACATCCAACGGCTTGCTGATAGGGTCGCGGTTGAGCGGGTTGATCACCGGGCCGTCCATCGGCACCCAGTCCTCGGCCTTCATCCCGCCCTTGCCATCCAGCGCACGGCCGGCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/4956237‑4956389 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cggcgGCCGTCTGCCCATGGGCATGAGCATGCTGGGCCGGGTGCTCGACGGCGCCGGCCGTGCGCTGGATGGCAAGGGCGGGATGAAGGCCGAGGACTGGGTGCCGATGGACGGCCCGGTGATCAACCCGCTCAACCGCGACCCTATCAGCAA  <  NC_002947/4956435‑4956288                                                                                                                                                                                                                                                                                                               CGGCCGACGGTAAGCAGGCCGTTGATACTGCGAATGCCCACATCCAACGGCTTGCTGATAGGGTCGCGGTTGAGCGGGTTGATCACCGGGCCGTCCATCGGCACCCAGTCCTCGGCCTTCATCCCGCCCTTGCCATCCAGCGCACGGCC                                                                                                                                                          <  2:110591/149‑1     CGACGGTAAGCAGGCCGTTGATACTGCGAATGCCCACATCCAACGGCTTGCTGATAGGGTCGCGGTTGAGCGGGTTGATCACCGGGCCGTCCATCGGCACCCAGTCCTCGGCCTTCATCCCGCCCTTGCCATCCAGCGCACGGCCGGCG                                                                                                                                                      >  5:234753/1‑149                                                                                            CGTCCATCGGCACCCAGTCCTCGGCCTTCATCCCGCCCTTGCCATCCAGCGCACGGCCGGCGGCCGTCTGCCCATGGGCATGAGCATGCTGGGCCGGGTGCTCGACGGCGCCGGCCGTGC                                                                                            >  3:149420/1‑120                                                                                            CGTCCATCGGCACCCAGTCCTCGGCCTTCATCCCGCCCTTGCCATCCAGCGCACGGCCGGCGGCCGTCTGCCCATGGGCATGAGCATGCTGGGCCGGGTGCTCGACGGCGCCGGCCGTGC                                                                                            <  4:149420/120‑1                                                                                                                TCGGCCTTCATCCCGCCCTTGCCATCCAGCGCACGGCCGGCGGCCGTCTGCCCATGGGCATGAGCATGCTGGGCCGGGTGCTCGACGGCGCCGGCCG                                                                                               >  5:143224/1‑97                                                                                                                TCGGCCTTCATCCCGCCCTTGCCATCCAGCGCACGGCCGGCGGCCGTCTGCCCATGGGCATGAGCATGCTGGGCCGGGTGCTCGACGGCGCCGGCCG                                                                                               <  6:143224/97‑1                                                                                                                                                     CGGCGGCCGTCTGCCCATGGGCATGAGCATGCTGGGCCGGGTGCTCGACGGCGCCGGCCGTGCGCTGGATGGCAAGGGCGGGATGAAGGCCGAGGACTGGGTGCCGATGGACGGCCCGGTGATCAACCCGCTCAACCGCGACCCTATCA      <  3:340681/149‑1                                                                                                                                                         GGCCGTCTGCCCATGGGCATGAGCATGCTGGGCCGGGTGCTCGACGGCGCCGGCCGTGCGCTGGATGGCAAGGGCGGGATGAAGGCCGAGGACTGGGTGCCGATGGACAGCCCGGTGATCAACCCGCTCAACCGCGACCCTATCAGCAA  <  1:51844/149‑1                                                                                                                                                                                                                                                                                                               CGGCCGACGGTAAGCAGGCCGTTGATACTGCGAATGCCCACATCCAACGGCTTGCTGATAGGGTCGCGGTTGAGCGGGTTGATCACCGGGCCGTCCATCGGCACCCAGTCCTCGGCCTTCATCCCGCCCTTGCCATCCAGCGCACGGCCGGCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/4956237‑4956389 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cggcgGCCGTCTGCCCATGGGCATGAGCATGCTGGGCCGGGTGCTCGACGGCGCCGGCCGTGCGCTGGATGGCAAGGGCGGGATGAAGGCCGAGGACTGGGTGCCGATGGACGGCCCGGTGATCAACCCGCTCAACCGCGACCCTATCAGCAA  <  NC_002947/4956435‑4956288

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