New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	= 1164938	33 (0.890)	3 (0.090)	3/238	NT	9.5%	intergenic (+2/‑160)	USA300HOU_1090/USA300HOU_1091	hypothetical protein/hypothetical protein
	?	CP000730	= 1164987	27 (0.790)					intergenic (+51/‑111)	USA300HOU_1090/USA300HOU_1091	hypothetical protein/hypothetical protein

TTTTCAAACGTACAAGAACTGTTGCAACACACCGTAAAGCACAAAGAGCTGTTAATTTAATTCATTTCCAACACAGTTATGAAAAGAAAAAATTACAAAGACAAATCGATCTAGTTTTAAAATATAATACTTTAAAATAATT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP000730/1164797‑1164938 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑taaaataattATACCTTTGGATATAGCAAAAAGCCACACTCTATAGCATGGCTTCTATCAATTATTTTAAAGTATTATATTTTAAAACTAGATCGATTTGTCTTTGTAATTTTTTCTTTTCATAACTG  <  CP000730/1164987‑1164870                                                                                                                                                                                                                                                                      TTTTCAAACGTACAAGAACTGTTGCAACACACCGTAAAGCACAAAGAGCTGTTAATTTAATTCATTTCCAACACAGTTATGAAAAGAAAAAATTACAAAGACAAATCGATCTAGTTTTAAAATATAATACTTTAAAATAAT                                                                                                                         <  2:217131/141‑1                                                                          CAGTTATGAAAAGAAAAAATTACAAAGACAAATCGATCTAGTTTTAAAATATAATACTTTAAAATAATTATACCTTTGGATATAGCAAAAAGCCACACTCTATAGCATGGCTTCTATCAATTATTTTAAAGTATTATATTT                                                >  2:82404/1‑141                                                                               ATGAAAAGAAAAAATTACAAAGACAAATCGATCTAGTTTTAAAATATAATACTTTAAAATAATTATACCTTTGGATATAGCAAAAAGCCACACTCTATAGCATGGCTTCTATCAATTATTTTAAAGTATTATATTTTAAAA                                           >  2:236429/1‑141                                                                                                                        AAATATAATACTTTAAAATAATTATACCTTTGGATATAGCAAAAAGCCACACTCTATAGCATGGCTTCTATCAATTATTTTAAAGTATTATATTTTAAAACTAGATCGATTTGTCTTTGTAATTTTTTCTTTTCATAACTG  <  1:82404/141‑1                                                                                                                                                                                                                                                                      TTTTCAAACGTACAAGAACTGTTGCAACACACCGTAAAGCACAAAGAGCTGTTAATTTAATTCATTTCCAACACAGTTATGAAAAGAAAAAATTACAAAGACAAATCGATCTAGTTTTAAAATATAATACTTTAAAATAATT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP000730/1164797‑1164938 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑taaaataattATACCTTTGGATATAGCAAAAAGCCACACTCTATAGCATGGCTTCTATCAATTATTTTAAAGTATTATATTTTAAAACTAGATCGATTTGTCTTTGTAATTTTTTCTTTTCATAACTG  <  CP000730/1164987‑1164870

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ 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.