New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	USA300TCH1516_ALE	1502317 =	57 (1.120)	3 (0.060)	3/270	5.1	5.3%	intergenic (‑294/+104)	ebh_1/norB_4	Extracellular matrix‑binding protein ebh/Quinolone resistance protein NorB
	?	USA300TCH1516_ALE	1502366 =	52 (1.060)					intergenic (‑343/+55)	ebh_1/norB_4	Extracellular matrix‑binding protein ebh/Quinolone resistance protein NorB
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

ACGATACTCAATTATGATAATTGAGAATTAAATTGAAATCATACAAGTCGCTACAATATTAAACAAAAATATAAACCGATTCTTATGTGTCATTATTTTAAATGAACATAGGGATTGGTTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  USA300TCH1516_ALE/1502437‑1502317 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ggtttATATTTTTGTTTAATATTGTAGCGACTTGTATGATTTCAATTTAATTCTCAATTATCATAATTGAGTATCGTTTTGTTTAGGCACAAGTAAC  >  USA300TCH1516_ALE/1502366‑1502457                                                                                                                                                                                                                       ACGATACTCAATTATGATAATTGAGAATTAAATTGAAATCATACAAGTCGCTACAATATTAAACAAAAATATAAACCGATTCTTATGTGTCATTATTTTAAATGAACATAGGGATTGGTTTATATTTTTGTTTAATATTGT                                                                          <  2:250395/141‑1                                                            TAAACAAAAATATAAACCGATTCTTATGTGTCATTATTTTAAATGAACATAGGGATTGGTTTATATTTTTGTTTAATATTGTAGCGACTTGTATGATTTCAATTTAATTCTCAATTATCATAATTGAGTATCGTTTTGTTT               >  2:12413/1‑141                                                                         AAACCGATTCTTATGTGTCATTATTTTAAATGAACATAGGGATTGGTTTATATTTTTGTTTAATATTGTAGCGACTTGTATGATTTCAATTTAATTCTCAATTATCATAATTGAGTATCGTTTTGTTTAGGCACAAGTAAC  >  1:238959/1‑141                                                                                                                                                                                                                       ACGATACTCAATTATGATAATTGAGAATTAAATTGAAATCATACAAGTCGCTACAATATTAAACAAAAATATAAACCGATTCTTATGTGTCATTATTTTAAATGAACATAGGGATTGGTTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  USA300TCH1516_ALE/1502437‑1502317 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ggtttATATTTTTGTTTAATATTGTAGCGACTTGTATGATTTCAATTTAATTCTCAATTATCATAATTGAGTATCGTTTTGTTTAGGCACAAGTAAC  >  USA300TCH1516_ALE/1502366‑1502457

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