New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	3974772 =	76 (0.660)	5 (0.050)	4/234	NT	5.9%	intergenic (‑256/‑85)	PP_3503/PP_3504	sigma‑54 dependent transcriptional regulator/hypothetical protein
	?	NC_002947	3974818 =	87 (0.790)					intergenic (‑302/‑39)	PP_3503/PP_3504	sigma‑54 dependent transcriptional regulator/hypothetical protein

ACTGGAAAGGTTCGAAGGCGTGGTCGGCAATCAGCAGTGCTTCGTTGACACGGAGCGGGGCATTCATGGTTCGGTCTCTCTATGGTCCCAAACATCGAAGTGAAGTCCGCGTTGCTTCAAAGTCGCCTCATTGATCGCGAAGTGCAGCGCGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_002947/3974923‑3974772 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cgcggACTTCACTTCGATGTTTGGGACCATAGAGAGACCGAACCATGAATGCCCCGCTCCGTGTCAACGAAGCACTGCTGATTGCCGACCACGCCTTCGAACCTTTCCAGTGCGTAGCCTGGGATGCACCCAACGGTACTGGTGAACTGAGCC  >  NC_002947/3974818‑3974965                                                                                                                                                                                                                                                                                                              ACTGGAAAGGTTCGAAGGCGTGGTCGGCAATCAGCAGTGCTTCGTTGACACGGAGCGGGGCATTCATGGTTCGGTCTCTCTATGGTCCCAAACATCGAAGTGAAGTCCGCGTTGCTTCAAAGTCGCCTCATTGATCGCGAAGTGCAGCGC                                                                                                                                                        >  1:133952/1‑150                                                                                                            CGCGTTGCTTCAAAGTCGCCTCATTGATCGCGAAGTGCAGCGCGGACTTCACTTCGATGTTTGGGACCATAGAGAGACCGAACCATGAATGCCCCGCTCCGTGTCAACGAAGCACTGCTGATTGCCGACCACGCCTTCGAACCTTTCCAG                                             >  1:2893046/1‑150                                                                                                            CGCGTTGCTTCAAAGTCGCCTCATTGATCGCGAAGTGCAGCGCGGACTTCACTTCGATGTTTGGGACCATAGAGAGACCGAACCATGAATGCCCCGCTCCGTGTCAACGAAGCACTGCTGATTGCCGACCACGCCTTCGAACCTTTCCAG                                             >  2:2143619/1‑150                                                                                                                   CTTCAAAGTCGCCTCATTGATCGCGAAGTGCAGCGCGGACTTCACTTCGATGTTTGGGACCATAGAGAGACCGAACCATGAATGCCCCGCTCCGTGTCAACGAA                                                                                    >  1:162561/1‑104                                                                                                                   CTTCAAAGTCGCCTCATTGATCGCGAAGTGCAGCGCGGACTTCACTTCGATGTTTGGGACCATAGAGAGACCGAACCATGAATGCCCCGCTCCGTGTCAACGAA                                                                                    <  2:162561/104‑1                                                                                                                                           GAAGTGCAGCGCGGACTTCACTTCGATGTTTGGGACCATAGAGAGACCGAACCATGAATGCCCCGCTCCGTGTCAACGAAGCACTGCTGATTGCCGACCACGCCTTCGAACCTTTCCAGTGCGTAGCCTGGGATGCACCCAACGGTACTG              <  1:2143619/150‑1                                                                                                                                                      CGGACTTCACTTCGATGTTTGGGACCATAGAGAGACCGAACCATGAATGCCCCGCTCCGTGTCAACGAAGCACTGCTGATTGCCGACCACGCCTTCGAACCTTTCCAGTGCGTAGCCTGGGATGCACCCAACGGTACTGGTGAACTGAGC   <  1:1397371/150‑1                                                                                                                                                       GGACTTCACTTCGATGTTTGGGACCATAGAGAGACCGAACCATGAATGCCCCGCTCCGTGTCAACGAAGCACTGCTGATTGCCGACCACGCCTTCGAACCTTTCCAGTGCGTAGCCTGGGATGCACCCAACGGTACTGGTGAACTGAGCC  <  2:123469/150‑1                                                                                                                                                                                                                                                                                                              ACTGGAAAGGTTCGAAGGCGTGGTCGGCAATCAGCAGTGCTTCGTTGACACGGAGCGGGGCATTCATGGTTCGGTCTCTCTATGGTCCCAAACATCGAAGTGAAGTCCGCGTTGCTTCAAAGTCGCCTCATTGATCGCGAAGTGCAGCGCGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_002947/3974923‑3974772 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cgcggACTTCACTTCGATGTTTGGGACCATAGAGAGACCGAACCATGAATGCCCCGCTCCGTGTCAACGAAGCACTGCTGATTGCCGACCACGCCTTCGAACCTTTCCAGTGCGTAGCCTGGGATGCACCCAACGGTACTGGTGAACTGAGCC  >  NC_002947/3974818‑3974965

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ 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.