New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_pgi	= 4239999	502 (12.440)	17 (0.420)	11/278	2.7	3.3%	intergenic (+4/+40)	psiE/xylE	phosphate starvation inducible protein/D‑xylose transporter
	?	NC_000913_3_pae_pgi	= 4240029	496 (12.290)					intergenic (+34/+10)	psiE/xylE	phosphate starvation inducible protein/D‑xylose transporter
Rejected: Frequency below/above cutoff threshold.

GTGCGCTTGATCATCGTCGATCATAAATCGCCACTGGATGTGTTGATCTACTCGGCTGCGATCCTGTTACTGGTGATCACCCTGTGGCTGTGTAATTCGAAACGGCTGAAGCGGGAGTAAAAAG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913_3_pae_pgi/4239876‑4239999 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CCAGCACGCCGCGCCATTTCGGCGTGCTGACTTTTTACTCCCGCTTCAGCCGTTTCGAA  <  NC_000913_3_pae_pgi/4240029‑4239971                                                                                                                                                                                         GTGCGCTTGATCATCGTCGATCATAAATCGCCACTGGATGTGTTGATCTACTCGGCTGCGATCCTGTTACTGGTGATCACCCTGTGGCTGTGTAATTCGAAACGGCTGAAGCGGGAGTAAAAAGTCAGCACGCCGCGCCATTTCGGCGT                                    <  1:447859/149‑1  TGCGCTTGATCATCGTCGATCATAAATCGCCACTGGATGTGTTGATCTACTCGGCTGCGATCCTGTTACTGGTGATCACCCTGTGGCTGTGTAATTCGACACGGCTGAAGCGGGAGTAAAAAGTCAGCACGCCGCGCCATTTCGGCGTG                                   <  2:428897/149‑1   GCGCTTGATCATCGTCGATCATAAATCGCCACTGGATGTGTTGATCTACTCGGCTGCGATCCTGTTACTGGTGATCACCCTGTGGCTGTGTAATTCGAAGCGGCTGAAGCGGGAGTAAAAAGTCAGCACGCCGCGCCATTTCGGCGTGC                                  <  2:252230/149‑1   GCGCTTGATCATCGTCGATCATAAATCGCCACTGGATGTGTTGATCTACTCGGCTGCGATCCTGTTACTGGTGATCACCCTGTGGCTGTGTAATTAGAAACGGCTGAAGCGGGAGTAAAAAGTCAGCACGCCGCGCCATTTCGGCGTGC                                  <  1:479527/149‑1    CGCTTGATTATCGTCGATCATAAATCGCCACTGGATGTGTTGATCTACTCGGCTGCGATCCTGTTACTGGTGATCACCCTGTGGCTGTGTAATTCGAAACGGCTGAAGCGGGAGTAAAAAGTCAGCACGCCGCGCCATTTCGGCGTGCT                                 <  2:172635/149‑1    CGCTTGATCATCGTCGATCATAAATCGCCACTGGATGTGTTGATCTACTCGGCTGCGATCCTGTTACTGGTGATCACCCTGTGGCTGTGTAATTCGAAACGGCTGAAGCGGGAGTAAAAAGTCAGCACGCCGCGCCATTTCGGCGTGCT                                 <  2:13049/149‑1      CTTGATGATCGTCGATCATAAATCGCCACTGGATGTGTTGATCTACTCGGCTGCGATCCTGTTACTGGTGATCACCCTGTGGCTGTGTAATTCGAAACGGCTGAAGCGGGAGTAAAAAGTCAGCACGCCGCGCCATTTCGGCGTGCTGA                               <  2:18783/149‑1           TCATCGTCGATCATAAATCGCCACTGGATGTGTTGATCTACTCGGCTGCGATCCTGTTACTGGTGATCACCCTGTGGCTGTGTAATTCGAAACGGCTGAAGCGGGAGTAAAAAGTCAGCACGCCGCGCCATTTC                                         <  1:591982/134‑1           TCATCGTCGATCATAAATCGCCACTGGATGTGTTGATCTACTCGGCTGCGATCCTGTTACTGGTGATCACCCTGTGGCTGTGTAATTCGAAACGGCTGAAGCGGGAGTAAAAAGTCAGCACGCCGCGCCATTTC                                         >  2:591982/1‑134                                                    TCGGCTGCGATCCTGTTACTGGTGATCACCCTGTGGCTGTGTAATTCGAAACGGCTGAAGCGGGAGTAAAAAGTCAGCACGCCGCGCCATTTCGGCGTGC                                  <  1:131391/100‑1                                                    TCGGCTGCGATCCTGTTACTGGTGATCACCCTGTGGCTGTGTAATTCGAAACGGCTGAAGCGGGAGTAAAAAGTCAGCACGCCGCGCCATTTCGGCGTGC                                  >  2:131391/1‑100                                                      GGCTGCGATCCTGTTACTGGTGATCACCCTGTGGCTGTGTAATTCGAAACGGCTGAAGCGGGAGTAAAAAGTCAGCACGCCGCGCCATTTCGGCGTGCT                                 >  1:298896/1‑99                                                      GGCTGCGATCCTGTTACTGGTGATCACCCTGTGGCTGTGTAATTCGAAACGGCTGAAGCGGGAGTAAAAAGTCAGCACGCCGCGCCATTTCGGCGTGCT                                 <  2:298896/99‑1                                                      GGCTGCGATCCTGTTACTGGTGATCACCCTGTGGCTGTGTAATTCGAAACGGCTGAAGCGGGAGTAAAAAGCCAGCACGCCGCGCCATTTCGGCGTGCTGACTTTTTTCTCCCGCTTCAGCCGTTTCGAA  <  1:9504/130‑1                                                      GGCTGCGATCCTGTTACTGGTGATCACCCTGTGGCTGTGTAATTCGAAACGGCTGAAGCGGGAGTAAAAAGCCAGCACGCCGCGCCATTTCGGCGTGCTGACTTTTTACTCCCGCTTCAGCCGTTTCGAA  >  2:9504/1‑130                                                         TGCGATCCTGTTACTGGTGATCACCCTGTGGCTGTGTAATTCGAAACGGCTGAAGCGGGAGTAAAAAGTCAGCACGCCGCGCCATTTCGGCGTG                                   <  2:236543/94‑1                                                         TGCGATCCTGTTACTGGTGATCACCCTGTGGCTGTGTAATTCGAAACGGCTGAAGCGGGAGTAAAAAGTCAGCACGCCGCGCCATTTCGGCGTG                                   >  1:236543/1‑94                                                                                                                                                                                         GTGCGCTTGATCATCGTCGATCATAAATCGCCACTGGATGTGTTGATCTACTCGGCTGCGATCCTGTTACTGGTGATCACCCTGTGGCTGTGTAATTCGAAACGGCTGAAGCGGGAGTAAAAAG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913_3_pae_pgi/4239876‑4239999 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CCAGCACGCCGCGCCATTTCGGCGTGCTGACTTTTTACTCCCGCTTCAGCCGTTTCGAA  <  NC_000913_3_pae_pgi/4240029‑4239971

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ 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.