New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	= 52543	38 (0.580)	3 (0.050)	3/242	NT	7.8%	intergenic (+153/‑520)	USA300HOU_0043/USA300HOU_0044	hypothetical membrane protein/possible transcriptional regulator
	?	CP000730	= 52645	NA (NA)					intergenic (+255/‑418)	USA300HOU_0043/USA300HOU_0044	hypothetical membrane protein/possible transcriptional regulator

AAAATATTTATAGATATAATTAAAATTAATTAATATTAAGCCAGGATAATGTAGTCTTAATCGTTCTGAAATACGAAAAATGTTGTGGAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP000730/52401‑52543 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tcgcgcgaTTACTACGATGATTTCAAACGATTCCTCTGATTATTTCACGTGATTTTCGCGCGATTACTACGATGATTTCAAACGATTCCTCTGATTATTTCACGTGATTTTCGCGCGATTACTACGATGATTTCAAACGATTCCTCTG  <  CP000730/52645‑52506                                                                                                                                                                                                                                                                                             AAAATATTTATAGATATAATTAAAATTAATTAATATTAAGCCAGGATAATGTAGTCTTAATCGTTCTGAAATACGAAAAATGTTGTGGAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGC                                                                                                                                                <  2:518037/141‑1                                                          TAATCGTTCTGAAATACGAAAAATGTTGTGGAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGATTACTACGATGATTTCAAACGATTCCTCTGATTATTTCACGTGATTTTCGCGCGA                                                                                       <  1:308361/141‑1                                                                                                       AATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGATTACTACGATGATTTCAAACGATTCCTCTGATTATTTCACGTGATTTTCGCGCGATTACTACGATGATTTCAAACGATTCCTCTGATTATTTCACGTGAT                                          >  2:120936/1‑141                                                                                                                              ATCGTAGTAATCGCGCGATTACTACGATGATTTCAAACGATTCCTCTGATTATTTCACGTGATTTTCGCGCGATTACTACGATGATTTCAAACGATTCCTCTGATTATTTCACGTGATTTTCGCGCGATTACTACGATGAT                   >  2:449762/1‑141                                                                                                                                        TCGCGCGATTACTACGATGATTTCAAACGATTCCTCTGATTATTTCACGTGATTTTCGCGCGATTACTACGATGATTTCAAACGATTCTTCTGATTATTTCACGTGCTTTTCACGCGATTGCTACGATGATTTCAAcagat         >  2:34715/1‑136                                                                                                                                        TCGCGCGATTACTACGATGATTTCAAACGATTCCTCTGATTATTTCACGTGATTTTCGCGCGATTACTACGATGATTTCAAACGATTCCTCTGATTATTTCACGTGATTTTCGCGCGATTACTACGATGATTTCAAACGtt         >  1:225708/1‑139                                                                                                                                        TCGCGCGATTACTACGATGATTTCAAACGATTCCTCTGATTATTTCACGTGATTTTCGCGCGATTACTACGATGATTTCAAACGATTCCTCTGATTATTTCACGTGATTTTCGCGCGATTACTACGATGATTTCAAACGAT         >  2:280479/1‑141                                                                                                                                        TCGCGCGATTACTACGATGATTTCAAACGATTCCTCTGATTATTTCACGTGATTTTCGCGCGATTACTACGATGATTTCAAACGATTCCTCTGATTATTTCACGTGATTTTCGCGCGATTACTACGATGAT                   <  1:673903/131‑1                                                                                                                                         CGCGCGATTACTACGATGATTTCAAACGATTCCTCTGATTATTTCACGTGATTTTCGCGCGATTACTACGATGATTTCAAACGATTCCTCTGATTATTTCACGTGATTTTCACACGATTACTACGATTATATCACACGATT        >  2:281132/1‑141                                                                                                                                          GCGCGATTACTACGATGATTTCAAACGATTCCTCTGATTATTTCACGTGATTTTCGCGCGATTACTACGATGATTTCAAACGATTCCTCTGATTATTTCACGTGATT                                         >  1:414766/1‑107                                                                                                                                          GCGCGATTACTACGATGATTTCAAACGATTCCTCTGATTATTTCACGTGATTTTCGCGCGATTACTACGATGATTTCAAACGATTCCTCTGATTATTTCACGTGATT                                         <  2:414766/107‑1                                                                                                                                          GCGCGATTACTACGATGATTTCAAACGATTCCTCTGATTATTTCACGTGATTTTCGCGCGATTACTACGATGATTTCAAACGATTCCTCTGATTATTGCACGTGATTTTCGCCCGATTACTACGATCATTTCAAACCATTC       >  2:514591/1‑141                                                                                                                                          GCGCGATTACTACGATGATTTCAAACGATTCCTCTGATTATTTCACGTGATTTTCGCGCGATTACTACGATGAT                                                                          <  1:262790/74‑1                                                                                                                                          GCGCGATTACTACGATGATTTCAAACGATTCCTCTGATTATTTCACGTGATTTTCGCGCGATTACTACGATGAT                                                                          >  2:262790/1‑74                                                                                                                                            GCGATTACTACGATGATTTCAAACGATTCCTCTGATTATTTCACGTGATTTTCGCGCGATTACTACG                                                                               <  2:633733/67‑1                                                                                                                                            GCGATTACTACGATGATTTCAAACGATTCCTCTGATTATTTCACGTGATTTTCGCGCGATTACTACG                                                                               >  1:633733/1‑67                                                                                                                                            GCGATTACTACGATGATTTCAAACGATTCCTCTGATTATTTCACGTGATTTTCGC                                                                                           >  2:204887/1‑55                                                                                                                                            GCGATTACTACGATGATTTCAAACGATTCCTCTGATTATTTCACGTGATTTTCGC                                                                                           <  1:204887/55‑1                                                                                                                                            GCGATTACTACGATGATTTCAAACGATTCCTCTGATTATTTCACGTGATGTTCGCGCGTTTACTACGATGATTTCAAACGAATCCTCTGATTATTTCACGTGATTTTCGCGCCCTTTCTACCATGATcttacatgttgctt     >  1:591345/1‑127                                                                                                                                             CGATTACTACGATGATTTCAAACGATTCCTCTGATTATTTCACGTGATTTTCGCGCGATTACTACGATGATTTCAAACGATTCCTCTGATTATTTCACGTGATTTTCGCGCGATTATTACTATGTTTTCAAACGATTCCTC    >  2:504652/1‑141                                                                                                                                               ATTACTACGATGATTTCAAACGATCCCTCTTATTATTTCACGTGATTTTCGCGCGATTACTACGATGATTTCAAACGATTCCTCTGATTATTTCACGTGATTTTCGCGCGATTACTACGATGATTTCAAACGATTCCTCTG  <  2:304795/141‑1                                                                                                                                                                                                                                                                                             AAAATATTTATAGATATAATTAAAATTAATTAATATTAAGCCAGGATAATGTAGTCTTAATCGTTCTGAAATACGAAAAATGTTGTGGAAATCGCGTGAAATAATCAGAGGAATCGTTTGAAATCATCGTAGTAATCGCGCGA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP000730/52401‑52543 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tcgcgcgaTTACTACGATGATTTCAAACGATTCCTCTGATTATTTCACGTGATTTTCGCGCGATTACTACGATGATTTCAAACGATTCCTCTGATTATTTCACGTGATTTTCGCGCGATTACTACGATGATTTCAAACGATTCCTCTG  <  CP000730/52645‑52506

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ 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.