New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	514644 =	NA (NA)	11 (0.130) +TGG	3/252	NT	84.9%	intergenic (+312/‑62)	rrs1/rrl1	16S ribosomal RNA/23S ribosomal RNA
	?	CP000730	558945 =	2 (0.020)					intergenic (+158/‑12)	USA300HOU_t0012/rrl2	tRNA‑Ile/23S ribosomal RNA

AATATAGATTTTACCAAGCAAAACCGAGTGAATAAAGAGTTTTAAATAAGCTTGAATTCATAAGAAATAATCGCTAGTGTTCGAAAGAACACTCACAAGATTAATAACGCGTTTCCTGTAGGATGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGATGAAGGACGTTACTAACGACGATATGCTTTGGGGAGCTGTAAGTAAGCTTTGATCCAGAGATTTCCGAATGGGGAAACCC  >  CP000730/558822‑559083                                                                                                                            |                                                                                                                                           aagataGATTTTACCAAGCAAAACCGAGTGAATAAAGAGTTTTAAATAAGCTTGAATTCATAAGAAATAATCGCTAGTGTTCGAAAGAACACTCACAAGATTAATAACGCGTTTCCTGTAGGATGGAAACATAGATTAAGt                                                                                                                           <  1:22158/138‑1 (MQ=1)                        ccaaGTGAAAAAAGAGTTTTAAATAAGCTTGAATTCATAAGAAATAATCGCTAGTTTTCGAAAGAACACTCACAAGATTAATAACGCGTTTCCTGTAGTATGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGc                                                                                                    <  2:265021/138‑1 (MQ=0)                                                                           ttttataagtcaaacgttaacatgaagttacgttcttttataaaaatggTGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGATGAAGGACGTTACTAACGACGATATGCTTTggg                                                 >  2:815010‑M2/50‑141 (MQ=255)                                                                                   gtcaaacgttaacatgaagttacgttcttttataaaaatggTGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGATGAAGGACGTTACTAACGACGATATGCTTTGGGGAGCTgta                                         <  2:401977‑M2/100‑1 (MQ=255)                                                                                       aacgttaacatgaagttacgttcttttataaaaatggTGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGATGAAGGACGTTACTAACGACGATATGCTTTGGGGAGCTgtaagta                                     >  2:516067‑M2/38‑141 (MQ=255)                                                                                                                ttataaaaatggTGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGATGAAGGACGTTACTAACGACGATATGCTTTGGGGAGCTGTAAGTAAGCTTTGATCCAGAGATTTCCGAAt            <  1:912248‑M2/129‑1 (MQ=255)                                                                                                                ttataaaaatggTGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGATGAAGGACGTTACTAACGACGATATGCTTTGGGGAGCTGTAAGTAAGCTTTGATCCAGAGATTTCCGAAt            <  2:518179‑M2/129‑1 (MQ=255)                                                                                                                  ataaaaatggTGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGATGAAGGACGTTACTAACGACGATATGCTTTGGGGAGCTGTAAGTAAGCTTTGATCCAGAGATTTCCGAATgg          >  2:431136‑M2/11‑141 (MQ=255)                                                                                                                  ataaaaatggTGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGATGAAGGACGTTACTAACGACGATATGCTTTGGGGAGCTGTAAGTAAGCTTTGATCCAGAGATTTCCGAATgg          >  2:502307‑M2/11‑141 (MQ=255)                                                                                                                   taaaaatggTGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGATGAAGGACGTTACTAACGACGATATGCTTTGGGGAGCTGTAAGTAAGCTTTGATCCCGAGATTTCCGAATggg         <  2:495832‑M2/132‑1 (MQ=255)                                                                                                                   taaaaatggTGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGATGAAGGACGTTACTAACGACGATATGCTTTGGGGAGCTGTAAGTAAGCTTTGATCCAGAGATTTCCGAATggg         >  1:725288‑M2/10‑141 (MQ=255)                                                                                                                   taaaaatggTGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGATGAAGGACGTTACTAACGACGATATGCTTTGGGGAGCTGTAAGTAAGCTTTGATCCAGAGATTTCCGAATggg         >  1:231143‑M2/10‑141 (MQ=255)                                                                                                                   taaaaatggTGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGATGAAGGACGTTACTAACGACGATATGCTTTGGGGAGCTGTAAGTAAGCTTTGATCCAGAGATTTCCGAATggg         >  2:450030‑M2/10‑141 (MQ=255)                                                                                                                    aaaaatggTGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGATGAAGGACGTTACTAACGACGATATGCTTTGGGGAGCTGTAAGTAAGCTTTGATCCAGAGATTTCCGAATgggg        >  1:1076289‑M2/9‑141 (MQ=255)                                                                                                                     aaaatggTGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGATGAAGGACGTTACTAACGACGATATGCTTTGGGGAGCTGTAAGTAAGCTTTGATCCAGAGATTTCCGAATGGGGa       <  2:763664‑M2/134‑1 (MQ=255)                                                                                                                      aaatggTGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGATGAAGGACGTTACTAACGACGATATGCTTTGGGGAGCTGTAAGTAAGCTTTGATCCAGAGATTTCCGAATGGGGaa      >  2:448569‑M2/7‑141 (MQ=255)                                                                                                                      aaatggTGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGATGAAGGACGTTACTAACGACGATATGCTTTGGGGAGCTGTAAGTAAGCTTTGATCCAGAGATTTCCGAATGGGGaa      <  1:93919‑M2/135‑1 (MQ=255)                                                                                                                      aaatggTGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGATGAAGGACGTTACTAACGACGATATGCTTTGGGGAGCTGTAAGTAAGCTTTGATCCAGAGATTTCCGAATGGGGaa      <  1:693799‑M2/135‑1 (MQ=255)                                                                                                                       aatggTGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGATGAAGGACGTTACTAACGACGATATGCTTTGGGGAGCTGTAAGTAAGCTTTGATCCAGAGATTTCCGAATGGGGaaa     >  2:685738‑M2/6‑141 (MQ=255)                                                                                                                       aatggTGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGATGAAGGACGTTACTAACGACGATATGCTTTGGGGAGCTGTAAGTAAGCTTTGATCCAGAGATTTCCGAATGGGGaaa     >  1:816357‑M2/6‑141 (MQ=255)                                                                                                                        atggTGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGAt                                                                                 <  2:344660‑M2/60‑1 (MQ=255)                                                                                                                        atggTGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGAt                                                                                 >  1:344660‑M2/5‑64 (MQ=255)                                                                                                                        atggTGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGATGAAGGACGTTACTAACGACGATATGCTTTGGGGAGCTGTAAGTAAGCTTTGATCCAGAGATTTCCGAATGGggaacc    >  2:168039‑M2/5‑139 (MQ=255)                                                                                                                        atggTGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGATGAAGGACGTTACTAACGACGATATGCTTTGGGGAGCTGTAAGTAAGCTTTGATCCAGAGATTTCCGAATGGGGAAAc    <  1:962039‑M2/137‑1 (MQ=255)                                                                                                                        atggTGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGATGAAGGACGTTACTAACGACGATATGCTTTGGGGAGCTGTAAGTAAGCTTTGATCCAGAGATTTCCGAATGGGGAAAc    <  1:961878‑M2/137‑1 (MQ=255)                                                                                                                        atggTGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGATGAAGGACGTTACTAACGACGATATGCTTTGGGGAGCTGTAAGTAAGCTTTGATCCAGAGATTTCCGAATGGGGAAAc    >  2:795685‑M2/5‑141 (MQ=255)                                                                                                                        atggTGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGATGAAGGACGTTACTAACGACGATATGCTTTGGGGAGCTGTAAGTAAGCTTTGATCCAGAGATTTCCGAATGGGGAAAc    <  2:804749‑M2/137‑1 (MQ=255)                                                                                                                        atggTGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGATGAAGGACGTTACTAACGACGATATGCTTTGGGGAGCTGTAAGTAAGCTTTGATCCAGAGATTTCCGAATGGGGAAAc    <  1:1086079‑M2/137‑1 (MQ=255)                                                                                                                         tggTGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGATGAAGGACGTTACTAACGACGATATGCTTTGGGGAGCTGTAAGTAAGCTTTGATCCAGAGATTTCCGAATGGGGAAAcc   <  1:781589‑M2/138‑1 (MQ=255)                                                                                                                         tggTGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGATGAAGGACGTTACTAACGACGATATGCTTTGGGGAGCTGTAAGTAAGCTTTGATCCAGAGATTTCCGAATGGGGAAAcc   >  2:16287‑M2/4‑141 (MQ=255)                                                                                                                          ggTGGAAACATAGATTAAGTTTTTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGATGAAGGACGTTACTAACGACGATATGCTTTGGGGAGCTGTAAGTAAGCTTTGATCCAGAGATTTCCGAATGGGGAAAccc  <  1:226573‑M2/139‑1 (MQ=255)                                                                                                                          ggTGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGATGAAGGACGTTACTAACGACGATATGCTTTGGGGAGCTGTAAGTAAGCTTTGATCCAGAGATTTCCGAATGGGGAAAccc  <  2:764668‑M2/139‑1 (MQ=255)                                                                                                                          ggTGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGATGAAGGACGTTACTAACGACGATATGCTTTGGGGAGCTGTAAGTAAGCTTTGATCCAGAGATTTCCGAATGGGGAAAccc  <  2:764792‑M2/139‑1 (MQ=255)                                                                                                                          ggTGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGATGAAGGACGTTACTAACGACGATATGCTTTGGGGAGCTGTAAGTAAGCTTTGATCCAGAGATTTCCGAATGGGGAAAccc  >  1:985440‑M2/3‑141 (MQ=255)                                                                                                                          ggTGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGATGAAGGACGTTACTAACGACGATATGCTTTGGGGAGCTGTAAGTAAGCTTTGATCCAGAGATTTCCGAATGGGGAAAccc  <  1:799600‑M2/139‑1 (MQ=255)                                                                                                                          ggTGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGATGAAGGACGTTACTAACGACGATATGCTTTGGGGAGCTGTAAGTAAGCTTTGATCCAGAGATTTCCGAATGGGGAAAccc  >  2:302613‑M2/3‑141 (MQ=255)                                                                                                                            |                                                                                                                                           AATATAGATTTTACCAAGCAAAACCGAGTGAATAAAGAGTTTTAAATAAGCTTGAATTCATAAGAAATAATCGCTAGTGTTCGAAAGAACACTCACAAGATTAATAACGCGTTTCCTGTAGGATGGAAACATAGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGATGAAGGACGTTACTAACGACGATATGCTTTGGGGAGCTGTAAGTAAGCTTTGATCCAGAGATTTCCGAATGGGGAAACCC  >  CP000730/558822‑559083

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