New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AP009048	= 344428	75 (0.920)	7 (0.090)	4/96	NT	8.0%	intergenic (+213/‑200)	yahL/yahM	hypothetical protein/hypothetical protein
	?	AP009048	= 344452	87 (1.090)					intergenic (+237/‑176)	yahL/yahM	hypothetical protein/hypothetical protein

CGCTTAAAAAAGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  AP009048/344358‑344428 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tATGAATGTCAACCAACACATTCACAAAACATCTGCATGAGATCATTTTTTATACACCGCATGGCTGCGA  <  AP009048/344452‑344384                                                                                                                                              CGCTTAAAAAAGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTT                                                                       >  1:4605245/1‑71   CTTAAAAAAGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTT                                                                       <  1:126463/69‑1          AAGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTTATGAATGT                                                               >  1:700616/1‑70          AAGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATCATCTCATGCAGATGTTTTAT                                                                     >  1:3476420/1‑64                               AGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTTATGAATGTCAACCAACACATTCACAA                                             <  1:2018366/67‑1                               AGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTTATGAATGTCAACCAACACATTCACAA                                             <  1:2899660/67‑1                                                 AAATGATCTCATGCAGATGTTTTATGAATGTCAACCAACACATT                                                  >  1:3524700/1‑44                                                 AAATGATCTCATGCAGATGTTTTATGAATGTCAACCAACACATT                                                  >  1:5123349/1‑44                                                        CTCATGCAGATGTTTTATGAATGTCAACCAACACATTCAC                                               >  1:1872238/1‑40                                                        CTCATGCAGATGTTTTATGAATGTCAACCAACACATTCAC                                               >  1:4548155/1‑40                                                                       TATGAATGTCAACCAACACATTCACAAAACATCTGCATGAGATCATTTTTTATACACa              >  1:1970170/1‑57                                                                       TATGAATGTCAACCAACACATTCACAAAACATCTGCATGAGATCATTTTTTATACACCGCATGGCTG     <  1:4292742/67‑1                                                                       TATGAATGTCAACCAACACATTCACAAAACATCTACATGAGATCATTTTTTATACACCGCATGGCTGCGA  >  1:1852893/1‑70                                                                       TATGAATGTCAACCAACAAATTCACAAAACATCTGCATGAGATCATTTTTTATACACCGCATGGCTG     <  1:6919183/67‑1                                                                                                                                              CGCTTAAAAAAGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  AP009048/344358‑344428 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tATGAATGTCAACCAACACATTCACAAAACATCTGCATGAGATCATTTTTTATACACCGCATGGCTGCGA  <  AP009048/344452‑344384

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ 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.