New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000731	= 64	638 (0.610)	12 (0.020) +TTGTTATATTAAGTTTATTATAGCACTTTAAAT	5/94	NT	6.1%	intergenic (–/‑168)	–/repA	–/replication protein A
	?	CP000731	= 27041	0 (0.000)					intergenic (‑194/–)	USA300HOU_pUSA300HOUMR0033/–	partitioning protein/–

‑‑‑ATTTAAAGTGCTATAATAAACTTAATATAACAAAAACCCCAACTACTGGTAATAGTCGGGGTTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP000731/1‑64 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑AAACTTATAAAAGGGAAAATATAGCTTTATCAAGGGTTT  <  CP000731/27041‑27003                                                                    |||||||||||||||||||||||||||||||||                                        tttATTTAAAGTGCTATAATAAACTTAATATAACAAAAACCCCAACTACTGGTAATAGTCGGGGTTTTTGTTATATTAAGTTTATTATAGC                                                  >  2:1640580/4‑91   tATTTAAAGTGCTATAATAAACTTAATATAACAAAAACCACAACTACTGGTAATAGTCGGGGTTTTTGTTATATTAAGTTTATTATAGCAC                                                >  2:1119378/2‑91                                        CCCCAACTACTGGTAATAGTCGGGGTTTTTGTTATATTAAGTTTATTATAGCACTTTAAATAATCTTATAAAAGGGTAAATATAGCTTTAT           >  2:2526756/1‑91                                        CCCCAACTACTGGTAATAGTCGGGGTTTTTGTTATATTAAGTTTATTATAGCACTTTAAATAAACTTATAAAAGGGAAAATATAGCTTTAT           >  1:1541087/1‑91                                        CCCCAACTACTGGTAATAGTCGGGGTTTTTGTTATATTAAGTTTATTATAGCACTTTAAATAAACATATAAACGGGAAAATATAGCTTTAT           >  2:2907905/1‑91                                           CAACTACTGGTAATAGTCGGGGTTTTTGTTATATTAAGTTTATTATAGCACTTTAAATAAACTTATAAAAGGGAAAATATAGCTTTATCAA        >  1:124048/1‑91                                           CAACTACTGGTAATAGTCGGGGTTTTTGTTATATTAAGTTTATTATAGCACTTTAAATAAACTTATAAAAGGGAAAATATAGCTTTATCAA        >  1:176685/1‑91                                           CAACTACTGGTAATAGTCGGGGTTTTTGTTATATTAAGTTTATTATAGCACTTTAAATAAACTTATAAAAGGGAAAATATAGCTTTATCAA        >  1:320180/1‑91                                           CAACTACTGGTAATAGTCGGGGTTTTTGTTATATTAAGTTTATTATAGCACTTTAAATAAACTTATAAAAGGGAAAATATAGCTTTATCAA        >  1:5859913/1‑91                                           CAACTACTGGTAATAGTCGGGGTTTTTGTTATATTAAGTTTATTATAGCACTTTAAATAAACTTATAAAAGGGAAAATATAGCTTTATCAA        >  2:1891106/1‑91                                            AACTACTGGTAATAGTCGGGGTTTTTGTTATATTAAGTTTATTATAGCACTTTAAATAAACTTATAAAAGGGAAAATATAGCTTTATCAAG       >  1:2683308/1‑91                                            AACTACTGGTAATAGTCGGGGTTTTTGTTATATTAAGTTTATTATAGCACTTTAAATAAACTTATAAAAGGGAAAATATAGCTTTATCAAG       >  2:4130908/1‑91                                                ACTGGTAATAGTCGGGGTTTTTGTTATATTAAGTTTATTATAGCACTTTAAATAAACTTATAAAAGGGAAAATATAGCTTTATCAAGGGTT   >  1:5234973/1‑91                                                 CTGGTAATAGTCGGGGTTTTTGTTATATTAAGTTTATTATAGCACTTTAAATAAACTTATAAAAGGGAAAATATAGCTTTATCAAGGGTTT  >  1:3703120/1‑91                                                                    |||||||||||||||||||||||||||||||||                                        ‑‑‑ATTTAAAGTGCTATAATAAACTTAATATAACAAAAACCCCAACTACTGGTAATAGTCGGGGTTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP000731/1‑64 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑AAACTTATAAAAGGGAAAATATAGCTTTATCAAGGGTTT  <  CP000731/27041‑27003

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ 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.