New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AE015451	1747861 =	68 (1.560)	4 (0.100)	4/326	NT	5.8%	intergenic (‑353/+178)	PP_5473/PP_5474	putative transcriptional regulator, LuxR family/conserved protein of unknown function of phage origin
	?	AE015451	1747917 =	65 (1.560)					intergenic (‑409/+122)	PP_5473/PP_5474	putative transcriptional regulator, LuxR family/conserved protein of unknown function of phage origin

GTGCCGCGCAACGAACTGCGCACACAGCAGTAGCACCGCGTCAGCCTGACGGAAACTGCCCGGTACACCTAGCTCCCCATCGCCAGGCTGCATCGGTGTGTGATCTGAATGCGCAGACCGCGCACAACTGGAAGTGGTCAGCCCGTCTGGCGTATGCCGGGGTAGCACCAGCGGTTACCAGGTAAAGCTGAGCCGAAAAAATGACCCCGGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  AE015451/1748071‑1747861 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑accccggcATACGCCAGACGGGCTGACCACTTCCAGTTGTGCGCGGTCTGCGCATTCAGATCACACACCGATGCAGCCTGGCGATGGGGAGCTAGGTGTACCGGGCAGTTTCCGTCAGGCTGACGCGGTGCTACTGCTGTGTGCGCAGTTCGTTGCGCGGCACCCATCCGCTGCTGGTCTTCACCATGCAGCCAACGAA  >  AE015451/1747917‑1748107                                                                                                                                                                                                                                                                                                                                                                                                                    GTGCCGCGCAACGAACTGCGCACACAGCAGTAGCACCGCGTCAGCCTGACGGAAACTGCCCGGTACACCTAGCTCCCCATCGCCA‑GCTGCATCGGTGTGTGATCTGAATGCGCAGACCGCGCACAACTGGAAGTGGTCAGCCCGTCTGGCGTATGCCGGGGTAGCACCAGCGGTTACCAGGTAAAGCTGAGCCGAAAAAATGACCCC                                                                                                                                                                                                    <  2:541290/207‑1            CGAACTGCGCACACAGCAGTAGCACCGCGTCAGCCTGACGGAAACTGCCCGGTACACCTAGCTCCCCATCGCCAGGCTGCATCGGTGTGTGATCTGAATGCGCAGACCACGCACAACTGGAAGTGGTCAGCCCGTCTGGCGTATGCCGGGGTAGCACCAGCGGTTACCAGGTAAAGCTGAGCCGAAAAAATGA                                                                                                                                                                                                        <  2:67042/193‑1                                                              GGTACACCTAGCTCCCCATCGCCAGGCTGCATCGGTGTGTGATCTGAATGCGCAGACCGCGCACAACTGGAAGTGGTCAGCCCGTCTGGCGTATGCCGGGGTAGCACCAGCGGTTACCAGGTAAAGCTGAGCCGAAAAAATGACCCCGGCATACGCCAGACGGGCTGACCACTTCCAGTTGTGCGCGGTCTGCGCATTCAGATCACACA                                                                                                                                      >  1:699522/1‑209                                                               GTACACCTAGCTCCCCATCGCCAGGCTGCATCGGTGTGTGATCTGAATGCGCAGACCGCGCACAACTGGAAGTGGTCAGCCCGTCTGGCGTATGCCGGGGTAGCACCAGCGGTTACCAGGTAAAGCTGAGCCGAAAAAATGA                                                                                                                                                                                                        <  1:299550/142‑1                                                               GTACACCTAGCTCCCCATCGCCAGGCTGCATCGGTGTGTGATCTGAATGCGCAGACCGCGCACAACTGGAAGTGGTCAGCCCGTCTGGCGTATGCCGGGGTAGCACCAGCGGTTACCAGGTAAAGCTGAGCCGAAAAAATGA                                                                                                                                                                                                        >  2:299548/1‑142                                                                                              CGGTGTGTGATCTGAATGCGCAGACCGCGCACAACTGGAAGTGGTCAGCCCGTCTGGCGTATGCCGGGGTAGCACCAGCGGTTACCAGGTAAAGCTGAGCCGCAAAAATGACCCCGGagcc                                                                                                                                                                                              >  2:206666/1‑117                                                                                               GGTGTGTGATCTGAATGCGCAGACCGCGCACAACTGGAAGTGGTCAGCCCGTCTGGCGTATGCCGGGGTAGCACCAGCGGTTACCAGGTAAAGCTGAGCCGAAAAAATGACCCCGGCATACGCCAGACGGGCTGACCACTTCCAGTTGTGCGCGGTCTGCGCA                                                                                                                                                   <  2:699520/163‑1                                                                                                             ATGCGCAGACCGCGCACAACTGGAAGTGGTCAGCCCGTCTGGCGTATGCCGGGGTAGCACCAGCGGTTACCAGGTAAAGCTGAGCCGAAAAAATGA                                                                                                                                                                                                        <  1:356332/96‑1                                                                                                             ATGCGCAGACCGCGCACAACTGGAAGTGGTCAGCCCGTCTGGCGTATGCCGGGGTAGCACCAGCGGTTACCAGGTAAAGCTGAGCCGAAAAAATGA                                                                                                                                                                                                        >  2:356330/1‑96                                                                                                                     ACCGCGCACAACTGGAAGTGGTCAGCCCGTCTGGCGTATGCCGGGGTAGCACCAGCGGTTACCAGGTAAAGCTGAGCCGAAAAAATGACCCCG                                                                                                                                                                                                   >  1:772472/1‑93                                                                                                                     ACCGCGCACAACTGGAAGTGGTCAGCCCGTCTGGCGTATGCCGGGGTAGCACCAGCGGTTACCAGGTAAAGCTGAGCCGAAAAAATGACCCCG                                                                                                                                                                                                   <  2:772470/93‑1                                                                                                                                                                                         AAGCTGAGCCGAAAAAATGACCCCGGCATACGCCAGACGGGCTGACCACTTCCAGTTGTGCGCGGTCTGCGCATTCAGATCACACACCGATGCAGCCTG                                                                                                                         >  1:383305/1‑99                                                                                                                                                                                         AAGCTGAGCCGAAAAAATGACCCCGGCATACGCCAGACGGGCTGACCACTTCCAGTTGTGCGCGGTCTGCGCATTCAGATCACACACCGATGCAGCCTG                                                                                                                         <  2:383303/99‑1                                                                                                                                                                                                               CCGGCATACGCCAGACGGGCTGACCACTTCCATTTGTTCCCGGTCTGCGCATTCAGATCACACACCGATTCAGCCTGGCGATGGGGAGCTAGGTGTACCGGGCAGTTTCCGTCAGGCTGACGCGGTGCTACTGCTGTGTGCGCAGTTCGTTGCG                                            <  2:395617/154‑1                                                                                                                                                                                                               CCGGCATACGCCAGACGGGCTGACCACTTCCAGTTGTGCGCGGTCTGCGCATTCAGATCACACACCGATGCAGCCTGGCGATGGGGAGCTAGGTGTACCGGGCAGTTTCCGTCAGGCTGACGCGGTGCTACTGCTGTGTGCGCAGTTCGTTGCGCGGCACCCATCCGCTGCTGGTCTTCACCATGCAGCCAACGAA  >  2:727855/1‑196                                                                                                                                                                                                                                                                                                                                                                                                                    GTGCCGCGCAACGAACTGCGCACACAGCAGTAGCACCGCGTCAGCCTGACGGAAACTGCCCGGTACACCTAGCTCCCCATCGCCAGGCTGCATCGGTGTGTGATCTGAATGCGCAGACCGCGCACAACTGGAAGTGGTCAGCCCGTCTGGCGTATGCCGGGGTAGCACCAGCGGTTACCAGGTAAAGCTGAGCCGAAAAAATGACCCCGGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  AE015451/1748071‑1747861 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑accccggcATACGCCAGACGGGCTGACCACTTCCAGTTGTGCGCGGTCTGCGCATTCAGATCACACACCGATGCAGCCTGGCGATGGGGAGCTAGGTGTACCGGGCAGTTTCCGTCAGGCTGACGCGGTGCTACTGCTGTGTGCGCAGTTCGTTGCGCGGCACCCATCCGCTGCTGGTCTTCACCATGCAGCCAACGAA  >  AE015451/1747917‑1748107

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