New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AE015451	3875611 =	73 (1.020)	4 (0.060)	4/332	NT	5.9%	coding (103/1212 nt)	xcpS	Type II secretion pathway protein XcpS
	?	AE015451	3875688 =	58 (0.860)					coding (180/1212 nt)	xcpS	Type II secretion pathway protein XcpS

AGCGGCCCTCGTACAGCTGACGCACCAGCTCGGCGAGCACCTTGCGCGCTGTCGCTGCCGGGCTTTTCTCCGCCAGGCTTTCCAGTGCGTCGATCAGCGGCAGGCCGGCATTGAGCAAGGTTGACAGTTCCTGGCTGAACAGCACCAGGTCGAATGCCGCTTCACGGCGCCAGGCCATGCCGCGCAGCGCGCCGCCGCTGCTGCGCAGGCTGAGCACACGCAGGCCCTGGTCTTCGGCCTGGCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  AE015451/3875854‑3875611 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ggcctggcgCCGTGAAGCGGCATTCGACCTGGTGCTGTTCAGCCAGGAACTGTCAACCTTGCTCAATGCCGGCCTGCCGCTGATCGACGCACTGGAAAGCCTGGCGGAGAAAAGCCCGGCAGCGACAGCGCGCAAGGTGCTCGCCGAGCTGGTGCGTCAGCTGTACGAGGGCCGCTCGCTGTCCCAGGCGCTGGGCCAGCAACCGCGGGTATTCCCGCCGTTGTATGTGG  >  AE015451/3875688‑3875908                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   AGCGGCCCTCGTACAGCTGACGCACCAGCTCGGCGAGCACCTTGCGCGCTGTCGCTGCCGGGCTTTTCTCCGCCAGGCTTTCCAGTGCGTCGATCAGCGGCAGGCCGGCATTGAGCAAGGTTGACAGTTCCTGGCTGAACAGCACCAGGTCGAATGCCGCTTCACGGCGCCAGGCCATGCCGCGCAGCGCGCCGCCGCTGCTGCGCAGGCTGAGCACACGCAGGCCCTGGTCTTCG                                                                                                                                                                                                                                       <  1:1154923/236‑1                                                    TCGCTGCCGGGCTTTTCTCCGCCAGGCTTTCCAGTGCGTCGATCAGCGGCAGGCCGGCATTGAGCAAGGTTGACAGTTCCTGGCTGAACAGCACCAGGTCGAATGCCGCTTCACGGCGCCAGGCCATGCCGCGCAGCGCGCCGCCGCTGCTGCGCAGGCTGAGCACACGCAGGCCCTGGTCTTCGGCCTGGCG                                                                                                                                                                                                                               <  2:609227/193‑1                                                                       CGCCAGGCTTTCCAGTGCGTCGAGCAGCGGCAGGCCGGAATTGAGCAAGGTTGACAGTTCCTGGCTGAACAGCCCCAGGTCGAATGCCGCTTCACGGCGCCAGGCCATGCCGCGCAGCGCGCCGCCGCTGCTGCGCAGGCTGAGCACACGCAGGCCCTGGTCTTCGGCCTGGCGCCGTGAAGCGGCATTCGACCT                                                                                                                                                                                                          <  1:317030/195‑1                                                                                   CAGTGCGTCGATCAGCGGCAGGCCGGCATTGAGCAAGGTTGACAGTTCCTGGCTGAACAGCACCAGGTCGAATGCCGCTTCACGGCGCCAGGCCATGCCGCGCAGCGCGCCGCCGCTGCTGCGCAGGCTGAGCACACGCAGGCCCTGGTCTTCGGCCTGGCGCCGTG                                                                                                                                                                                                                          <  1:926407/167‑1                                                                                                                                           cCAGCACCAGGTCGCATGCCGCTTCACGGCGCCAGGCCATGCCGCGCCGCGCGCCGCCGCTGCTGCGCAGGCTGAGCACACGCAGGCCCTGGTCTTCGGCCTGGCGCCGTGAAGCGGCATTCGACCTGGTGCTGTTCAGCCAGGAAC                                                                                                                                                                                      <  2:468833/146‑1                                                                                                                                                                                                      CTGCTGCGCAGGCTGCGCACATGCAGGCCCTGGTCTTCGGCCTGGCGCCGTGAAGCGGCATTCGATCTGGTGCTGTTCAGCC                                                                                                                                                                                            <  2:999047/82‑1                                                                                                                                                                                                                       CACACGCAGGCCCTGGTCTTCGGCCTGGCGCCGTGAAGCGGCATTCGACCTGGTGCTGTTCAGCCAGGAGCTGTCAgc                                                                                                                                                                               >  2:252681/1‑76                                                                                                                                                                                                                                       agacaGGCCTGGCGCCGTGAAGCGGCATTCGACCTGGTGCTGTTCAGCCAGGAACTGTCAACCTGGCTCAATGCCGGCCTGCCGCTGATCGACGCACTGGAAAGCCTGGCGGAGAAAAGCCCGGCAGCGACAGCGCGCAAGGTGCTCGCCGAGCTGGTGCGTCAGCTGTACGAGGGCCGCTCGCTGTCCCAGGCGCTGGGCCAGCAACCGCGGGTATTCCCGCCGTTGTATGTGG  <  1:92319/230‑1                                                                                                                                                                                                                                            GGCCTGGCGCCGTGAAGCGGCATTCGACCTGGTGCTGTTCAGCCAGGAACTGTCAACCTTGCTCAATGCCGGCCTGCCGCTGATCGACGCACTGGAAAGCCTGGCGGAGAAAAGCCCGGCAGCGACAGCGCGCAAGGTGCTCGCCGAGCTGGT                                                                               >  2:983970/1‑153                                                                                                                                                                                                                                            GGCCTGGCGCCGGGAAGCGGCATTCGACCTGGTGCTGTTCAGCCAGGAACTGTCAACCTTGCTCAATGCCGGCCTGCCGCTGATCGACGCACTGGAAAGCCTGGCGGAGAAAAGCCCGGCAGCGACAGCGCGCAAGGTGCTCGCCGAGCTGGTGCGTCAGCTGTACGAGGGCCGCTCGCTGTCCCAGGCGCTGGGCCAGCAA                              <  2:424422/202‑1                                                                                                                                                                                                                                               CTGGCGCCGTGAAGCGGCATTCGACCTGGTGCTGTTCAGCCAGGAACTGTCAACCTTGCTCAATGCCGGCCTGCCGCTGATCGACGCACTGGAAAGCCTGGCGGAGAAAAGCCCGGCAGCGACAGCGCGCAAGGTGCTCGCCGAGCTGGTGCGTCAGCTGTACGAGGGCCGC                                                         <  1:450602/172‑1                                                                                                                                                                                                                                                 cGCGCCGTGAAGCGGCATTCGACCTGGTGCTGTTCAGCCAGGAACTGTCAACCTTGCTCAATGCCGGCCTGCCGCTGATCGACGCACTGGAAAGCCTGGCGGAGAAAAGCCCGGCAGCGACAGCGCGCAAGGTGCTCGCCGAGCTGGTGCGTCAGCTGTACGAGGGCCGCTCGCTGTCCCAGGCGCTGGGCCAGCAACCGCGGGTATTCCCGCCGTTGTATGTG   <  1:1093815/223‑1                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   AGCGGCCCTCGTACAGCTGACGCACCAGCTCGGCGAGCACCTTGCGCGCTGTCGCTGCCGGGCTTTTCTCCGCCAGGCTTTCCAGTGCGTCGATCAGCGGCAGGCCGGCATTGAGCAAGGTTGACAGTTCCTGGCTGAACAGCACCAGGTCGAATGCCGCTTCACGGCGCCAGGCCATGCCGCGCAGCGCGCCGCCGCTGCTGCGCAGGCTGAGCACACGCAGGCCCTGGTCTTCGGCCTGGCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  AE015451/3875854‑3875611 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ggcctggcgCCGTGAAGCGGCATTCGACCTGGTGCTGTTCAGCCAGGAACTGTCAACCTTGCTCAATGCCGGCCTGCCGCTGATCGACGCACTGGAAAGCCTGGCGGAGAAAAGCCCGGCAGCGACAGCGCGCAAGGTGCTCGCCGAGCTGGTGCGTCAGCTGTACGAGGGCCGCTCGCTGTCCCAGGCGCTGGGCCAGCAACCGCGGGTATTCCCGCCGTTGTATGTGG  >  AE015451/3875688‑3875908

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 40 ≤ 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.