New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AE015451	5252000 =	53 (0.770)	3 (0.050)	3/320	NT	5.7%	coding (843/882 nt)	cidR	transcriptional regulator, LysR family
	?	AE015451	5252049 =	49 (0.750)					intergenic (+10/+12)	cidR/PP_4628	transcriptional regulator, LysR family/conserved protein of unknown function

GCGACTCCAGCTACGGCGATACCTATTGCGGGGGTGGCGAGCAGATGCGTGAGCTGTTCGCCGAACTGGGCGTACGCGAAGTGCAGCCAATGCTGCGCCTGGATGCGAGCGAGACGGTGACCCCGGAGGCGGATGCCGAGCCTTGGCTGGCTGAGTTGGCGAGCGCACTGAACGCCTGACCCGGCACCTGTGCAGGCGTGTTAGCCGTGGGGCTCGCGCAACAAGGCCAACCACGCCTGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  AE015451/5252239‑5252000 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cacgcctgcACAGGTGCCGGGTCAGGCGTTCAGTGCGCTCGCCAACTCAGCCAGCCAAGGCTCGGCATCCGCCTCCGGGGTCACCGTCTCGCTCGCATCCAGGCGCAGCATTGGCTGCACTTCGCGTACGCCCAGTTCGGCGAACAGCTCACGCATCTGCTCGCCACCCCCGCAATAGGTATCGCCGTAGCTGGAGTCGCCCAAGGCGATCACCGCGCCAGGCAGGCCGCGCCAGGCCGCAGG  >  AE015451/5252049‑5252282                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            GCGACTCCAGCTGCGGCGATACCTATTGCGGGGGTGGCGAGCAGATGCGTGAGCTGTTCGCCGAACTGGGCGTACGCGAAGTGCAGCCAATGCTGCGCCTGGATGCGAGCGAGACGGTGACCCCGGAGGCGGATGCCGAGCCTTGGCTGGCTGAGTTGGCGAGCGCACTGAACGCCTGACCCGGCACCTGTGCAGGCGTGTTAGCCGTGGGGCTCGCGCAACAAGGCCAACCAC                                                                                                                                                                                                                                                  <  2:989162/234‑1  CGACTCCAGCTACGGCGATACCTATTGCGGGGGTGGCGAGCAGATGCGTGAGCTGTTCGCCGAACTGGGCGTACGCGAAGTGCAGCCAATGCTGCGCCTGGATGCGAGCGAGACGGTGACCCCGGAGGCGGATGCCGAGCCTTGGCTGGCTGAGTTGGCGAGCGCACTGAACGCCTGACCCGGCACCTGTGCAGGCGTGTTAGCCGTGGGGCTCGCGCAACAAGGCCAACCACGC                                                                                                                                                                                                                                                >  1:638899/1‑235                                                                                              TGCGCCTGGATGCGGGCGAGACGGTGACCCCGGAGGCGGATGCCGAGCCTTGGCTGGCTGAGTTGGCGAGCGCACTGAACGCCTGACCCGGCACCTGTGCAGGCGTGTTAGCCGTGGGGCTCGCGCAACAAGGCCAACCACGCCT                                                                                                                                                                                                                                              <  2:198165/145‑1                                                                                              TGCGCCTGGATGCGAGCGAGACGGTGACCCCGGAGGCGGATGCCGAGCCTTGGCTGGCTGAGTTGGCGAGCGCACTGAACGCCTGACCCGGCACCTGTGCAGGCGTGTTAGCCGTGGGGCTCGCGCAACAAGGCCAACCACGCCT                                                                                                                                                                                                                                              <  1:44891/145‑1                                                                                                                            CGGAGGCGGATGCCGAGCCTTGGCGGGCTGAGTTGGCGAGCGCACTGAACGCCTGACCCGGCACCTGTGCAGGCGTGTTAGCCGTGGGGCTCGCGCAACAAGGCCAACCACGCCTGCACAGGTGCCGGGTCAGGCGTTCAGTGCGCTCGCCAACTCAGCCAGCCAAGGCTCGGCAT                                                                                                                                                                                 <  2:792032/176‑1                                                                                                                                           AGCCTTGGCTGGCTGAGTTGGCGAGCGCACTGAACGCCTGACCCGGCACCTGTGCAGGCGTGTTAGCCGTGGGGCTCGCGCAACAAGGCCAACCAC                                                                                                                                                                                                                                                  <  2:399659/96‑1                                                                                                                                                                                                 CAGGCGTGTTAGCCGTGGGGCTCGCGCAACAAGGCCAACCACGCCTGCACAGGTGCCGGGTCAGGCGTTCAGTGCGCTCGCCAACTCAGCCAGCCAAGGCTCGGCATCCGCCTCCGGGGTCACCGTCTCGCTCGCATCCAGGCGCAGCATTGGCTGCACTTCGCGTACGCCCAGTTCGGC                                                                                                        >  1:1205078/1‑180                                                                                                                                                                                                 CAGGCGTGTTAGCCGTGGGGCTCGCGCAACAAGGCCAACCACGCCTGCACAGGTGCCGGGTCAGGCGTTCAGTGCGCTCGCCAACTCAGCCAGCCAAGGCTCGGCATCCGCCTCCGGGGTCACCGTCTCGCTCGCATCCAGGCGCAGCATTGGCTGCACTTCGCGTACGCCCAGTTCGGC                                                                                                        <  2:1205075/180‑1                                                                                                                                                                                                                                        CACGCCTGCACAGGTGCCGGGTCAGGCGTTCAGTGCGCTCGCCAACTCAGCCAGCCAAGGCTCGGCATCCGCCTCCGGGGTCACCGTCTCGCTCGCATCCAGGCGCAGCATTGGCTGCACTTCGCGTACGCCCAGTTCGG                                                                                                         >  1:128214/1‑140                                                                                                                                                                                                                                          CGCCTGCACAGGTGCCGGGTCAGGCGTTCAGTGCGCTCGCCAACTCAGCCAGCCAAGGCTCGGCATCCGCCTCCGGGGTCACCGTCTCGCTCGCATCCAGGCGCAGCATTGGCTGCACTTCGCGTACGCCCAGTTCGGCGAACAGCTCACGCATCTGCTCGCCACCCCCGCAATAGGTATCGCCGTAGCTGGAGTCGCCCAAGGCGATCACCGCGCCAGGCAGGCCGCGCCAG          >  2:1098020/1‑233                                                                                                                                                                                                                                          CGCCTGCACAGGTGCCGGGTCAGGCGTTCAGTGCGCTCGCCAACTCAGCCAGCCAAGGCTCGGCATCCGCCTCCGGGG                                                                                                                                                                     <  2:528964/78‑1                                                                                                                                                                                                                                              TGCCCAGGTGTCGGGTCAGGCGTTCAGTGCGCTCGCCAACTCAGCCAGCCAAGGCTCGGCATCCGCCTCCGGGGTCACCGTCTCGCTCGCATCCAGGCGCAGCATTGGCTGCACTTCGCGTACGCCCAGTTCGGCGAACAGCTCACGCATCTGCTCGCCACCCCCGCAATAGGTATCGCCGTAGCTGGAGTCGCCCAAGGCGATCACCGCGCCAGGCAGGCCGCGCCAGGCCGCAG   <  1:319547/236‑1                                                                                                                                                                                                                                               GCACAGGTGCCGGGTCAGGCGTTCAGTGCGCTCGCCAACTCAGCCAGCCAAGGCTCGGCATCCGCCTCCGGGGTCACCGTCTCGCTCGCATCCAGGCGCAGCATTGGCTGCACTTCGCGTACGCCCAGTTCGGCGAACAGCTCACGCATCTGCTCGCCACCCCCGCAATAGGTATCGCCGTAGCTGGAGTCGCCCAAGGCGATCACCGCGCCAGGCAGGCCGCGCCAGGCCGCAGG  >  1:1018159/1‑236                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            GCGACTCCAGCTACGGCGATACCTATTGCGGGGGTGGCGAGCAGATGCGTGAGCTGTTCGCCGAACTGGGCGTACGCGAAGTGCAGCCAATGCTGCGCCTGGATGCGAGCGAGACGGTGACCCCGGAGGCGGATGCCGAGCCTTGGCTGGCTGAGTTGGCGAGCGCACTGAACGCCTGACCCGGCACCTGTGCAGGCGTGTTAGCCGTGGGGCTCGCGCAACAAGGCCAACCACGCCTGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  AE015451/5252239‑5252000 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cacgcctgcACAGGTGCCGGGTCAGGCGTTCAGTGCGCTCGCCAACTCAGCCAGCCAAGGCTCGGCATCCGCCTCCGGGGTCACCGTCTCGCTCGCATCCAGGCGCAGCATTGGCTGCACTTCGCGTACGCCCAGTTCGGCGAACAGCTCACGCATCTGCTCGCCACCCCCGCAATAGGTATCGCCGTAGCTGGAGTCGCCCAAGGCGATCACCGCGCCAGGCAGGCCGCGCCAGGCCGCAGG  >  AE015451/5252049‑5252282

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ 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.