New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	4951669 =	53 (0.960)	3 (0.060)	3/248	NT	5.4%	coding (604/1266 nt)	fliK	flagellar hook‑length control protein FliK
	?	NC_002947	4951723 =	54 (1.010)					coding (550/1266 nt)	fliK	flagellar hook‑length control protein FliK

CGCCGAGGAGGCCTTCGATCCGGATGCTGACCCCCTGGCCAACCTGCCGACCCTGCGCCTGGCGCTGGAGCACAGTGCCCAGGCCAAGGGGGGCACCTCGGCACATGCCCTTGATGCTGCCCAGGCTCAGGGCGAGGAAGGGCAGGCGGCCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_002947/4951820‑4951669 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gccgAGGTGCCCCCCTTGGCCTGGGCACTGTGCTCCAGCGCCAGGCGCAGGGTCGGCAGGTTGGCCAGGGGGTCAGCATCCGGATCGAAGGCCTCCTCGGCGGACGGCTCTTCAGGCAGTGCTGCGGAAACCTGGGTTTGCGCCGTGGCC  >  NC_002947/4951723‑4951868                                                                                                                                                                                                                                                                                                            CGCCGAGGAGGCCTTCGATCCGGATGCTGACCCCCTGGCCAACCTGCCGACCCTGCGCCTGGCGCTGGAGCACAGTGCCCAGGCCAAGGGGGGCACCTCGGCACATGCCCTTGATGCTGCCCAGGCTCAGGGCGAGGAAGGGCAGGCGG                                                                                                                                                       >  7:201586/1‑149                                                                                                 CTCGGCACATGCCCTTGATGCTGCCCAGGCTCAGGGCGAGGAAGGGCAGGCGGCCGAGGTGCCCCCCTTGGCCTGGGCACTGTGCTCCAGCGCCAGGCGCAGGGTCGGCAGGTTGGCCAGGGGGTCAGCATCCGGATCGAAGGCCTCCT                                                       >  3:123072/1‑149                                                                                                      CACATGCCCTTGATGCTGCCCAGGCTCAGGGCGAGGAAGGGCAGGCGGCCGAGGTGCCCCCCTTGGCCTGGGCACTGTGCTCCAGCGCCAGGCGCAGGGTCGGCAGGTTGGCCAGGGGGTCAGCATCCGGATCGAAGGCCTCCTCGGCG                                                  <  4:123072/149‑1                                                                                                             CCTTGATGCTGCCCAGGCTCAGGGCGAGGAAGGGCAGGCGGCCGAGGTGCCCCCCTTGGCCTGGGCACTGTGCTCCAGCGCCAGGCGCAGGGTCGGCAGGTTGGCCAGGGGGTCAGCATCCGGATCGAAGGCCTCCTCGGCGGACGGCT                                           >  3:280241/1‑149                                                                                                                                                  GCGGCCGAGGTGCCCCCCTTGGCCTGGGCACTGTGCTCCAGCGCCAGGCGCAGGGTCGGCAGGTTGGCCAGGGGGTCAGCATCCGGATCGAAGGCCTCCTCGGCGGACGGCTCTTCAGGCAGTGCTGCGGAAACCTGGGTTTGCGCCGT      <  4:280241/149‑1                                                                                                                                                     GCCGAGGTGCCCCCCTTGGCCTGGGCACTGTGCTCCAGCGCCAGGCGCAGGGTCGGCAGGTTGGCCAGGGGGTCAGCATCCGGATCGAAGGCCTCCTCGGCGGACGGCTCTTCAGGCAGTGCTGCGGAAACCTGGGTTTGC           <  7:234114/141‑1                                                                                                                                                     GCCGAGGTGCCCCCCTTGGCCTGGGCACTGTGCTCCAGCGCCAGGCGCAGGGTCGGCAGGTTGGCCAGGGGGTCAGCATCCGGATCGAAGGCCTCCTCGGCGGACGGCTCTTCAGGCAGTGCTGCGGAAACCTGGGTTTGC           >  8:234114/1‑141                                                                                                                                                      CCGAGGTGCCCCCCTTGGCCTGGGCACTGTGCTCCAGCGCCAGGCGCAGGGTCGGCAGGTTGGCCAGGGGGTCAGCATCCGGATCGAAGGCCTCCTCGGCGGACGGCTCTTCAGGCAGTGCTGCGGAAACCTGGGTTTGCGCCGTGGCC  >  6:24088/1‑149                                                                                                                                                      CCGAGGTGCCCCCCTTGGCCTGGGCACTGTGCTCCAGCGCCAGGCGCAGGGTCGGCAGGTTGGCCAGGGGGTCAGCATCCGGATCGAAGGCCTCCTCGGCGGACGGCTCTTCAGGCAGTGCTGCGGAAACCTGGGTTTGCGCCGTGGC   <  7:38963/148‑1                                                                                                                                                                                                                                                                                                            CGCCGAGGAGGCCTTCGATCCGGATGCTGACCCCCTGGCCAACCTGCCGACCCTGCGCCTGGCGCTGGAGCACAGTGCCCAGGCCAAGGGGGGCACCTCGGCACATGCCCTTGATGCTGCCCAGGCTCAGGGCGAGGAAGGGCAGGCGGCCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_002947/4951820‑4951669 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gccgAGGTGCCCCCCTTGGCCTGGGCACTGTGCTCCAGCGCCAGGCGCAGGGTCGGCAGGTTGGCCAGGGGGTCAGCATCCGGATCGAAGGCCTCCTCGGCGGACGGCTCTTCAGGCAGTGCTGCGGAAACCTGGGTTTGCGCCGTGGCC  >  NC_002947/4951723‑4951868

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