New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	USA300TCH1516_ALE	= 557240	NA (NA)	3 (0.050)	3/250	NT	NA	intergenic (+298/‑1471)	USA300TCH1516_00504/USA300TCH1516_00505	tRNA‑Ala/tRNA‑Ile
	?	USA300TCH1516_ALE	= 557277	NA (NA)					intergenic (+335/‑1434)	USA300TCH1516_00504/USA300TCH1516_00505	tRNA‑Ala/tRNA‑Ile

TTGCTTCTCTGATGTTAGCGGCGGACGGGTGAGTAACACGTGGATAACCTACCTATAAGACTGGGATAACTTCGGGAAACCGGAGCTAATACCGGATAATATTTTGAACCGCATGGTTCAAAAGTGAAAGACGGTCTTGCTGTCACTTATAGATGGATCCGCGCTGCATTAGCTAGTTGGTAAGGT  >  USA300TCH1516_ALE/557147‑557332                                                                                                                                   |                                                        tggcctctcGGATGTTCGCGGCGGACGGGTGAGTAACACGTGGATAACCTACCTATAAGACTGGGATAACTTCGGGAAACCGGAGCTAATACCGGATAATATTTTGAACCGCATGGTTCAAAAGTGAAAGACGGTCTTGc                                                <  1:582708/135‑1 (MQ=0)     ttttctGATGTTAGCGGCGGACGGGTGAGTAACACGTGGATAACCTACCTATAAGACTGGGATAACTTCGGGAAACCGGAGCTAATACCGGATAATATTTTGAACCGCATGGTTCAAAAGTGAAAGACGGTCTTGCTGTc                                            <  1:574678/137‑1 (MQ=1)                                               acttacctcTAAGACACGGCTAACTACGGGAAACCTGAGCTAATACCGGATAATATTTTTAACCGCATGGTTCAAAAGTGAAAGACGGTCTTGCTGTAACTTATAGATGGATCCGCGCTGCATTAGCTAGTTggtaaggt  <  2:227030/137‑1 (MQ=1)                                                                                                                                   |                                                        TTGCTTCTCTGATGTTAGCGGCGGACGGGTGAGTAACACGTGGATAACCTACCTATAAGACTGGGATAACTTCGGGAAACCGGAGCTAATACCGGATAATATTTTGAACCGCATGGTTCAAAAGTGAAAGACGGTCTTGCTGTCACTTATAGATGGATCCGCGCTGCATTAGCTAGTTGGTAAGGT  >  USA300TCH1516_ALE/557147‑557332

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ 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.