New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	USA300TCH1516_ALE	2278955 =	38 (1.060)	4 (0.150) +CCCAGTTGCAAACAATAAAGCTAAAGATATGCAA	3/212	2.8	11.8%	coding (3578/3882 nt)	ebh_3	Extracellular matrix‑binding protein ebh
	?	USA300TCH1516_ALE	= 2278980	41 (1.150)					coding (3553/3882 nt)	ebh_3	Extracellular matrix‑binding protein ebh
Rejected: Frequency below/above cutoff threshold.

TCTTCTGAAGCAAAAGAAAAAATGACTTCAACTAATGTTAGCCAAAAAGATGATACGGCAACAGCAGATACTAATGATACGCAAAAATCAGTTGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  USA300TCH1516_ALE/2279049‑2278955 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ACTAATGATACGCAAAAATCAGTTGGTTCAGCTGCAAACAATAAAGCTACGCAAAACGACGGTGCCAATGCAT  <  USA300TCH1516_ALE/2278980‑2278908                                                                                                ||||||||||||||||||||||||||||||||||                                                                          TCTTCTGAAGCAAAAGATAAAATGACTTCAACTAATGTTAGCCAAAAAGATGATACGGCAACAGCAGATACTAATGATACGCAAAAATCAGTTGGCCCAGTTGCAAACAATAAAGCTAAAGATATGCAAACTAATGATACG                                                               >  2:193641/1‑141                                                 GATGATACGGCAACAGCAGATACTAATGATACGCAAAAATCAGTTGGCCCAGTTGCAAACAATAAAGCTAAAGATATGCAAACTAATGATACGCAAAAATCAGTTGGTTCAGCTGCAAACAATAAAGCTACGCAAAACGAC               <  1:147583/141‑1                                                 GATGATACGGCAACAGCAGATACTAATGATACGCAAAAATCAGTTGGCCCAGTTGCAAACAATAAAGCTAAAGATATGCAAACTAATGATACGCAAAAATCAGTTGGTTCAGCTGCAAACAATAAAGCTACGCAAAACGAC               <  1:282755/141‑1                                                              CAGCAGATACTAATGATACGCAAAAATCAGTTGGCCCAGTTGCAAACAATAAAGCTAAAGATATGCAAACTAATGATACGCAAAAATCAGTTGGTTCAGCTGCAAACAATAAAGCTACGCAAAACGACGGTGCCAATGCAT  <  1:193641/141‑1                                                                                                ||||||||||||||||||||||||||||||||||                                                                          TCTTCTGAAGCAAAAGAAAAAATGACTTCAACTAATGTTAGCCAAAAAGATGATACGGCAACAGCAGATACTAATGATACGCAAAAATCAGTTGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  USA300TCH1516_ALE/2279049‑2278955 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ACTAATGATACGCAAAAATCAGTTGGTTCAGCTGCAAACAATAAAGCTACGCAAAACGACGGTGCCAATGCAT  <  USA300TCH1516_ALE/2278980‑2278908

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