New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	34173 =	74 (1.250)	4 (0.070)	3/254	NT	5.0%	coding (462/480 nt)	orfX	hypothetical protein OrfX
	?	CP000730	= 88831	79 (1.370)					coding (126/138 nt)	USA300HOU_0086	hypothetical protein

ACCTCATATGTTCTGATACATTCAAAATCCCTTTATGAAGCGGCTGAAAAAACCGCATCATTTATGATATGCTTCT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  CP000730/34248‑34173 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tctGCGTATCGGTTAATGATGCGGTTTTTAATTATATAATTTCAATTAATAAGGTAATGAACAGTTTTTTGATAAATGTTATTCTTCTAAAATTCTTTTTAATTTACACACTAAAAAATATCCTCCTTAACAATAATAAGTT  <  CP000730/88831‑88693                                                                                                                                                                                                                         ACCTCATATGTTCTGATACATTCAAAATCCCTTTATGAAGCGGCTGAAAAAACCGCATCATTTATGATATGCTTCTGCGTATCGGTTAATGATGCGGTTTTTAATTATATAATTTCAATTAATAAGGTAATGAACAGTTTT                                                                            <  2:356490/141‑1                             CCCTTTATGAAGCGGCTGAAAAAACCGCATCATTTATGATATGCTTCTGCGTATCGGTTAATGATGCGGTTTTTAATTATATAATTTCAATTAATAAGGTAATGAACAGTTTTTTGATAAATGTTATTCTTCTAAAATTCT                                                >  2:413873/1‑141                                                                  GATATGCTTCTGCGTATCGGTTAATGATGCGGTTTTTAATTATATAATTTCAATTAATAAGGTAATGAACAGTTTTTTGATAAATGTTATTCTTCTAAAATTCTTTTTAATTTACACACTAAAAAATATCCTCCTTAACAA           >  1:6128/1‑141                                                                  GATATGCTTCTGCGTATCGGTAAATGATGCGGTTTTTAATTATATAATTTCAATTAATAAGGTAATGAACAGTTTTTTGATAAATGTTATTCTTCTAAAATTCTTTTTAATTTAAACACTAAAAAATAACATCCTTAACAA           >  2:476795/1‑141                                                                           CTGCGTATCGGTTAATGATGCGGTTTTTAATTATATAATTTCAATTAATAAGGTAATGAACAGTTTTTTGATAAATGTTATTCTTCTAAAATTCTTTTTAATTTACACACTAAAAAATATCCTCCTTAACAATAATAAGTT  >  1:287073/1‑141                                                                           CTGCGTATCGGTTAATGATGCGGTTTTTAATTATATAATTTCAATTAATAAGGTAATGAACAGTTTTTTGATAAATGTTATTCTTCTAAAATTCTTTTTAATTTACACACTAAAAAATATCCTCCTTAACAATAATAAGTT  >  2:499714/1‑141                                                                                                                                                                                                                         ACCTCATATGTTCTGATACATTCAAAATCCCTTTATGAAGCGGCTGAAAAAACCGCATCATTTATGATATGCTTCT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  CP000730/34248‑34173 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tctGCGTATCGGTTAATGATGCGGTTTTTAATTATATAATTTCAATTAATAAGGTAATGAACAGTTTTTTGATAAATGTTATTCTTCTAAAATTCTTTTTAATTTACACACTAAAAAATATCCTCCTTAACAATAATAAGTT  <  CP000730/88831‑88693

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