New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	2249230 =	46 (1.100)	3 (0.080)	3/244	NT	6.6%	intergenic (‑223/+176)	USA300HOU_2120/USA300HOU_2121	hypothetical protein/hypothetical protein
	?	CP000730	2249273 =	41 (1.040)					intergenic (‑266/+133)	USA300HOU_2120/USA300HOU_2121	hypothetical protein/hypothetical protein

TGTTGCCAGTAGTTGACTGAATATGCGTTTGTAACAAGCTTTTTTCGATTCTAGTCAACAGTAATTAAATTTATGATATGGCAATACTTTGTAATACTAATATTAAATGGCGACTTTTATTTCACTA‑TGTTATAAGAGTTGCCATTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  CP000730/2249376‑2249230 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gccatttAATATTAGTATTACAAAGTATTGCCATATCATAAATTTAATTACTGTTGACTAGAATCGAAAAAAGCTTGTTACAAACGCATATTCAGTCAACTACTG  >  CP000730/2249273‑2249370                                                                                                                                                                                                                                                        TGTTGCCAGTAGTTGACTGAATATGCGTTTGTAACAAGCTTTTTTCGATTCTAGTCAACAGTAATTAAATTTATGATATGGCAATACTTTGTAATACTAATATTAAATGGCGACTTTTATTTCACTA‑TGTTATAAGAGTTG                                                                                                          <  1:305286/141‑1  GTTGCCAGTAGTTGACTGAATATGCGTTTGTAACAAGCTTTTTTCGATTCTAGTCAACAGTAATTAAATTTATGATATGGCAATACTTTGTAATACTAATATTAAATGGCGACTTTTATTTCACTA‑TGTTATAAGAGTTGC                                                                                                         <  2:351483/141‑1               GACTGAATATGCGTTTGTAACAAGCTTTTTTCGATTCTAGTCAACAGTAATTAAATTTATGATATGGCAATACTTTGTAATACTAATATTAAATGGCAACTCTTATAACA‑TAGTGAAATAAAAGTCGCCATTTAATATTAG                                                                                            <  1:251123/141‑1                                                                                                       TTAAATGGCGACTTTTATTTCACTA‑TGTTATAAGAGTTGCCATTTAATATTAGTATTACAAAGTATTGCCATATCATAAATTTAATTACTGTTGACTAGAATCGAAAAAAGCTTGTTACAAACGCATATTCAGTCAACTAC    >  1:349959/1‑141                                                                                                         AAATGGCGACTTTTATTTCACTA‑TGTTATAAGAGTTGCCATTTAATATTAGTATTACAAAGTATTGCCATATCATAAATTCAATTACTGTTGACTAGAATCGAAAAAAGCTTGTTACAAACGCATATTCAGTCAACTACTG  >  2:351119/1‑141                                                                                                                                                                                                                                                        TGTTGCCAGTAGTTGACTGAATATGCGTTTGTAACAAGCTTTTTTCGATTCTAGTCAACAGTAATTAAATTTATGATATGGCAATACTTTGTAATACTAATATTAAATGGCGACTTTTATTTCACTA‑TGTTATAAGAGTTGCCATTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  CP000730/2249376‑2249230 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gccatttAATATTAGTATTACAAAGTATTGCCATATCATAAATTTAATTACTGTTGACTAGAATCGAAAAAAGCTTGTTACAAACGCATATTCAGTCAACTACTG  >  CP000730/2249273‑2249370

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.