New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 3874929	38 (0.770)	4 (0.090)	3/240	NT	10.9%	intergenic (‑22/‑80)	ltg/xcpT	lytic transglycosylase/type II secretion pathway protein XcpT
	?	NC_002947	= 3874973	30 (0.650)					intergenic (‑66/‑36)	ltg/xcpT	lytic transglycosylase/type II secretion pathway protein XcpT

TCATAGTGTCGCCCTGGTCGATGGACATTGGTCAGTACGTAGCCACCCTTGGCATCGATTGAGATGTACACATCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/3874780‑3874929 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cgtcgtggTGACTGTCCTCGGGTTTTCCGGGGCATTTCCCCCACATCGGGGGCCACGACGAAGAGG  <  NC_002947/3874973‑3874916                                                                                                                                                                                                                  TCATAGTGTCGCCCTGGTCGATGGACATTGGTCAGTACGTAGCCACCCTTGGCATCGATTGAGATGTACACATCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTG                                                             >  6:311846/1‑149   ATAGTGTCGCCCTGGTCGATGGACATTGGTCAGTACGTAGCCACCCTTGGCATCGATTGAGATGTACACATCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGG                                                            <  5:146557/148‑1   ATAGTGTCGCCCTGGTCGATGGACATTGGTCAGTACGTAGCCACCCTTGGCATCGATTGAGATGTACACATCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTC                                                                <  5:56745/144‑1   ATAGTGTCGCCCTGGTCGATGGACATTGGTCAGTACGTAGCCACCCTTGGCATCGATTGAGATGTACACATCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTC                                                                >  6:56745/1‑144   ATAGCGTCGCCCTGGTCGATGGACATTGGTCAGTACGTAGCCACCCTTGGCATCGATTGAGATGTACACATCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTG                                                             <  8:102220/147‑1                 GTCGATGGACATTGGTCAGTACGTAGCCACCCTTGGCATCGATTGAGATGTACACATCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTG                                                             >  3:281318/1‑133                 GTCGATGGACATTGGTCAGTACGTAGCCACCCTTGGCATCGATTGAGATGTACACATCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTG                                                             <  4:281318/133‑1                                 CAGTACGTAGCCACCCTTGGCATCGATTGAGATGTACACATCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGTGACTGTCCTCGGGTTTTCCGGGGCATTTCC                             >  4:146480/1‑149                                                             GAGATGTACACATCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGTGACTGTCCTCGGGTTTTCCGGGGCATTTCCCCCACATCGGGGGCCACGACGAAGAGG  <  3:146480/148‑1                                                                                   CAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGTGACTGTCCTCGGGTTTTCCGGGGCATTTCCCCCACATCGGGGGCCACGACGAAGAGG  <  1:97108/126‑1                                                                                   CAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGGTGACTGTCCTCGGGTTTTCCGGGGCATTTCCCCCACATCGGGGGCCACGACGAAGAGG  >  2:97108/1‑126                                                                                                                                                                                                                  TCATAGTGTCGCCCTGGTCGATGGACATTGGTCAGTACGTAGCCACCCTTGGCATCGATTGAGATGTACACATCGGCCTGGGCAGCACCTGCCGCCAGCCAGATCAAACCGATAATGAGTCCACGCATGCCGGTCGCCTCTTCGTCGTGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/3874780‑3874929 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cgtcgtggTGACTGTCCTCGGGTTTTCCGGGGCATTTCCCCCACATCGGGGGCCACGACGAAGAGG  <  NC_002947/3874973‑3874916

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.