New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	USA300TCH1516_ALE	= 289526	53 (1.150)	3 (0.070)	3/244	NT	5.4%	coding (186/468 nt)	gatA_1	PTS system galactitol‑specific EIIA component
	?	USA300TCH1516_ALE	= 289549	55 (1.270)					coding (209/468 nt)	gatA_1	PTS system galactitol‑specific EIIA component

CAATTTGTCGGCAACTGATAAAGAATCCGTATTGTCACAAATGTCAGATGTGTTATTTCAAAATGGGTTCGTGAAGTCAACGTTTAAAGATGCAGTCATCGACAGAGAAAAAGAATTTGCTACTGGTTTACCAACGCATCTATGTTCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  USA300TCH1516_ALE/289379‑289526 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tatgttcgACATCTGTATGCGGTATAGCGACCGAACATAGATGCGTTGGTAAACCAGTAGCAAATTCTTTTTCTCTGTCGATGACTGCATCTTTAAACGTTGACTTCACGAACCCATTTTGAAATAACACATCTGACATTTGTGACAA  <  USA300TCH1516_ALE/289549‑289410                                                                                                                                                                                                                                                                                                  CAATTTGTCGGCAACTGATAAAGAATCCGTATTGTCACAAATGTCAGATGTGTTATTTCAAAATGGGTTCGTGAAGTCAACGTTTAAAGATGCAGTCATCGACAGAGAAAAAGAATTTGCTACTGGTTTACCAACGCATCT                                                                                                                                                     >  1:490338/1‑141    TTTGTCGGCAACTGATAAAGAATCCGTATTGTCACAAATGTCAGATGTGTTATTTCAAAATGGGTTCGTGAAGTCAACGTTTAAAGATGCAGTCATCGACAGAGAAAAAGAATTTGCTACTGGTTTACCAACGCATCTATG                                                                                                                                                  >  1:235497/1‑141        TCGGCAACTGATAAAGAATCCGTATTGTCACAAATGTCAGATGAGTTATTTCAAAATGGGTTCGTGAAGTCAACGTTTAAAGATGCAGTCATCGACAGAGAAAAAGAATTTGCTACTGGTTTACCAACGCATCTATGTTCG                                                                                                                                              <  1:339238/141‑1                                 TGTCACAAATGTCAGATGTGTTATTTCAAAATGGGTTCGTGAAGTCAACGTTTAAAGATGCAGTCATCGACAGAGAAAAAGAATTTGCTACTGGTTTACCAACGCATCTATGTTCGACATCTGTATGCGGTATAGCGACCG                                                                                                                     <  1:506543/141‑1                                     ACAAATGTCAGATGTGTTATTTCAAAATGGGTTCGTGAAGTCAACGTTTAAAGATGCAGTCATCGACAGAGAAAAAGAATTTGCTACTGGTTTACCAACGCATCTATGTTCGACATCTGTATGCGGTATAGCGACCGAACA                                                                                                                 <  2:220593/141‑1                                                                         GAAGTCAACGTTTAAAGATGCAGTCATCGACAGAGAAAAAGAATTTGCTACTGGTTTACCAACGCATCTATGTTCGACATCTGTATGCGGTATAGCGACCGAACATAGATGCGTTGGTAAACCAGTAGCAAATTCTTTTTC                                                                             <  1:671949/141‑1                                                                                                                                                 TTCGACATCTGTATGCGGTATAGCGACCGAACATAGATGCGTTGGTAAACCAGTAGCAAATTCTTTTTCTCTGTCGATGACTGCATCTTTAAACGTTGACTTCACGAACCCATTTTGAAATAACACATCTGACATTTGTGA     >  1:566537/1‑141                                                                                                                                                    GACATCTGTATGCGGTATAGCGACCGAACATAGATGCGTTGGTAAACCAGTAGCAAATTCTTTTTCTCTGTCGATGACTGCATCTTTAAACGTTGACTTCACGAACCCATTTTGAAATAACACATCTGACATTTGTGACAA  <  1:108892/141‑1                                                                                                                                                                                                                                                                                                  CAATTTGTCGGCAACTGATAAAGAATCCGTATTGTCACAAATGTCAGATGTGTTATTTCAAAATGGGTTCGTGAAGTCAACGTTTAAAGATGCAGTCATCGACAGAGAAAAAGAATTTGCTACTGGTTTACCAACGCATCTATGTTCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  USA300TCH1516_ALE/289379‑289526 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tatgttcgACATCTGTATGCGGTATAGCGACCGAACATAGATGCGTTGGTAAACCAGTAGCAAATTCTTTTTCTCTGTCGATGACTGCATCTTTAAACGTTGACTTCACGAACCCATTTTGAAATAACACATCTGACATTTGTGACAA  <  USA300TCH1516_ALE/289549‑289410

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ 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.