New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AE015451	= 4043373	56 (0.820)	3 (0.050)	3/320	NT	4.9%	coding (371/978 nt)	PP_3564	Transcriptional regulator, AraC family
	?	AE015451	= 4043429	63 (0.970)					coding (315/978 nt)	PP_3564	Transcriptional regulator, AraC family
Rejected: Frequency below/above cutoff threshold.

GCTGTCGCGGGTCTCGTCCACCAGCATGTCAGCCAGCCCTTTGAGCGCACGGGTTCGCCCGCAAGCGCGTGACAGTAGTGCAACGGCCAGATCTATGGCGGCGGTGCCACCGGCGCACGTGATGCGGTTGCCATCGATGCAGTACAACTGCTCGCGCAACAGCTGCAACTGCGGAAACGCAGCACGAAACTCGGCTTCGTGACGCCAGTGCACCACCACTTTGTGCCCCTGCAGCAGGCCGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  AE015451/4043132‑4043373 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gcaggccgcCAAGGCGGGTGTCAAGCTGGTGGGGGTCGACAATGGCGCCTTCCTGCTGGCTGCCTGCGGCCTGCTGCAGGGGCACAAAGTGGTGGTGCACTGGCGTCACGAAGCCGAGTTTCGTGCTGCGTTTCCGCAGTTGCAGCTGTTGCGCGAGCAGTTGTACTGCATCGATGGCAACCGCATCACGTGCGCCGGTGGCACCGCCGCCATAGATCTGGCCGTTGCACTACTGTCACGCGCT  <  AE015451/4043429‑4043195                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               GCTGTCGCGGGTCTCGTCCACCAGCATGTCAGCCAGCCCTTTGAGCGCACGGGTTCGCCCGCAAGCGCGTGACAGTAGTGCAACGGCCAGATCTATGGCGGCGGTGCCACCGGCGCACGTGATGCGGTTGCCATCGATGCAGTACAACTGCTCGCGCAACAGCTGCAACTGCGGAAACGCAGCACGAAACTCGGCTTCGTGACGCCAGTGCACCACCACTTTGTGCCCCTGCAGCA                                                                                                                                                                                                                                                   >  1:11131/1‑236   TGTCGCGGGTCTCGTCCACCAGCATGTCAGCCAGCCCTTTGAGCGCACGGGTTCGCCCGCAAGCGCGTGACAGTAGTGCAACGGCCAGATCTATGGCGGCGGTGCCACCGGCGCACGTGATGCGGTTGCCATCGATGCAGTACAACTGCTCGCGCAACAGCTGCAACTGCGGAAACGCAGCACGAAACTCGGCTTCGTGACGCCAGTGCACCACCACTTTGTGCCCCTGCAGCAGG                                                                                                                                                                                                                                                 >  1:409352/1‑236        CGGGTCTCGTCCACCAGCATGTCAGCCAGCCCTTTGAGCGCACGGGTTCGCCCGCAAGCGCGTGACAGTAGTGCAACGGCCAGATCTATGGCGGCGGTGCCACCGGCGCACGTGATGCGGTTGCCATCGATGCAGTACAACTGCTCGCGCAACAGCTGCAACTGCGGAAACGCAGCACGAAACTCGGCTTCGTGACGCCAGTGCACCACCACTTTGTGCCCCTGCAGCA                                                                                                                                                                                                                                                   <  2:1188371/229‑1                                                                     gcGACAGTAGTGCAACGGCCAGATCTATGGCGGCGGTGCCACCGGCGCACGTGATGCGGTTGCCATCGATGCAGTACAACTGCTCGCGCAACAGCTGCAACTGCGGAAACGCAGCACGAAACTCGGCTTCGTGACGCCAGTGCACCACCACTTTGTGCCCCTGCAGCAGGCCGC                                                                                                                                                                                                                                             <  2:1104212/172‑1                                                                                                             ACCGGCGCACGTGATGCGGTTGCCATCGATGCAGTACAACTGCTCGCGCAACAGCTGCAACTGCGGAAACGCAGCACGAAACTCGGCTTCGTGACGCCAGTGCACCACCACTTTGTGCCCCTGCAGCAGGCCGCCAAGGCGGGTGTCAAGCTGGTGGGGGTCGACAATGGCGCCTTCCTGCTGGCTGC                                                                                                                                                                                       <  1:763673/188‑1                                                                                                             ACCGGCGCACGTGATGCGGTTGCCATCGATGCAGTACAACTGCTCGCGCAACAGCTGCAACTGCGGAAACGCAGCACGAAACTCGGCTTCGTGACGCCAGTGCACCACCACTTTGTGCCCCTGCAGCAGGCCGCCAAGGCGGGTGTCAAGCTGGTGGGGGTCGACAATGGCGCCTTCCTGCTGGCTGC                                                                                                                                                                                       >  2:763670/1‑188                                                                                                                                                            GCAACAGCTGCAACTGCGGAAACGCAGCACGAAACTCGGCTTCGTGACGCCAGTGCACCGCCACTTTGTGCCCCTGCAGCAGGCCGCCAAGGCGGGTGTCAAGCTGGTGGGGGTCGACCAGGGCGCCTTCCTGCTGGCTG                                                                                                                                                                                        >  1:799746/1‑140                                                                                                                                                                                                                                             GGCCGCCAAGGCGGGTGTCAAGCTGGTGGGGGTCGACAATGGCGCCTTCCTGCTGGCTGCCTGCGGCCTGCTGCAGGGGCACAAAGTGGTGGTGCACTGGCGTCACGAAGCCGAGTTTCGTGCTGCGTTTCCGCAGTTGCAGCTGTTGCGCGAGCAGTTGTACTGCATCGATGGCAACCGCATCACGTGCGCCGGTGGCACCGCCGCCATAGATCTGGCCGTTGCACTACTGTCA        >  1:995008/1‑235                                                                                                                                                                                                                                                CGCCAAGGCGGGTGTCAAGCTGGTGGGGGTCGACAATGGCGCCTTCCTGCTGGCTGCCTGCGGCCTGCTGCAGGGGCACAAAGTGGTGGTGCACTGGCGTCACGAAGCCGAGTTTCGTGCTGCGTTTCCGCAGTTGCAGCTGTTGCGCGAGCAGTTGTACTGCATCGATGGCAACCGCATCACGTGCGCCGGTGGCACCGCCGCCATAGATCTGGCCGTTGCA                 >  2:429799/1‑223                                                                                                                                                                                                                                                  CCAAGGCGGGTGTCAAGCTGGTGGGGGTCGACAATGGCGCCTTCCTGCTGGCTGCCTGCGGCCTGCTGCAGGGGCACAAAGTGGTGGTGCACTGGCGTCACGAAGCCGAGTTTCGTGCTGCGTTTCCGCAGTTGCAGCTGTTGCGCGAGCAGTTGTACTGCATCGATGGCAACCGCATCACGTGCGCCGGTGGCACCGCCGCCATAGATCTGGCCGTTGCACTACTGTCACGCGCT  >  1:1073734/1‑236                                                                                                                                                                                                                                                  CCAAGGCGGGTGTCAAGCTGGTGGGGGTCGACAATGGCGCCTTCCTGCTGGCTGCCTGCGGCCTGCTGCAGGGGCACAAAGTGGTGGTGCACTGGCGTCACGAAGCCGAGTTTCGTGCTGCGTTTCCGCAGTTGCAGCTGTTGCGCGAGCAGTTGTACTGCATCGATGGCAACCGCAGCACGTGCGCCGGTGGCA                                           >  2:433755/1‑195                                                                                                                                                                                                                                                  CCAAGGCGGGTGTCAAGCTGGTGGGGGTCGACAATGGCGCCTTCCTGCTGGCTGCCTGCGGCCTGCTGCAGGGGCACAAAGTGGTGGTGCACTGGCGTCACGAAGCCGA                                                                                                                                 >  2:50012/1‑109                                                                                                                                                                                                                                                  CCAAGGCGGGTGTCAAGCTGGTGGGGGTCGACAATGGCGCCTGCCTGCTGGCTGCCTGCGGCCTGCTGCAGGGGCACAAAGTGGTGGTGCACTGGCGTCACGAAGCCGAGTTTCGTGCTGCGTTTCCGCAGTTGCAGCTGTTGCGCGAGCAGTTGTACTGCATCGATGGCAACCGCATCACGTGCGCCGGTGGCAC                                          <  2:1213022/196‑1                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               GCTGTCGCGGGTCTCGTCCACCAGCATGTCAGCCAGCCCTTTGAGCGCACGGGTTCGCCCGCAAGCGCGTGACAGTAGTGCAACGGCCAGATCTATGGCGGCGGTGCCACCGGCGCACGTGATGCGGTTGCCATCGATGCAGTACAACTGCTCGCGCAACAGCTGCAACTGCGGAAACGCAGCACGAAACTCGGCTTCGTGACGCCAGTGCACCACCACTTTGTGCCCCTGCAGCAGGCCGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  AE015451/4043132‑4043373 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gcaggccgcCAAGGCGGGTGTCAAGCTGGTGGGGGTCGACAATGGCGCCTTCCTGCTGGCTGCCTGCGGCCTGCTGCAGGGGCACAAAGTGGTGGTGCACTGGCGTCACGAAGCCGAGTTTCGTGCTGCGTTTCCGCAGTTGCAGCTGTTGCGCGAGCAGTTGTACTGCATCGATGGCAACCGCATCACGTGCGCCGGTGGCACCGCCGCCATAGATCTGGCCGTTGCACTACTGTCACGCGCT  <  AE015451/4043429‑4043195

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 38 ≤ 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.