New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	= 536990	37 (1.070)	5 (0.150)	5/262	4.3	12.0%	intergenic (+183/‑128)	rplY/pth	ribosomal protein L25/aminoacyl‑tRNA hydrolase
	?	CP000730	= 1995778	37 (1.090)					intergenic (+31/+62)	USA300HOU_1855/USA300HOU_t0025	IS1181 transposase/tRNA‑Leu
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

TTTTCAGCTTGTACAAAGGAGAAAAAAGAAGACAACCAAGCCCAATAATGGACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTATTTTAAAAATAGTTCTTTAAATTATATACCCACCACATTTGGTGGAGAACCAAAAGAAACCTTGTTTTACAAGGTTTCTAATACGTTATGTTATGTAAATAACAGTTAATTATACCGGTGGTCGGGGTCGAACCGACACTCCACAAGTGGAACGGGATTTTGAGTCCCGCGCGTCTGCCAATTCCG  >  CP000730/1995641‑1995913                                                                                                                                          |                                                                                                                                        ttttCAGCTTGTACAAAGGAGAAAAAAGAAGACAACCAAGCCCAATAATGGACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTATTTTAAAAATAGTTCTTTAAATTATATACCCACCACATTTGGTGGAGAACCaaa                                                                                                                                      <  1:330742/141‑1 (MQ=38)   ttCAGCTTGTACAAAGGAGAAAAAAGAAGACAACCAAGCCCAATAATGGACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTATTTTAAAAATAGTTCTTTAAATTATATACCCACCACATTTGGTGGAGAACCAAAAg                                                                                                                                    <  2:401944/141‑1 (MQ=40)                  ggAGAAAAAAGAAGACAACCAAGCCCAATAATGGACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTATTTTAAAAATAGTTCTTTAAATTATATACCCACCACATTTGGTGGAGAACCAAAAGAAACCTTGTTTTACa                                                                                                                     <  1:101310/141‑1 (MQ=255)                  ggAGAAAAAAGAAGACAACCAAGCCCAATAATGGACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTATTTTAAAAATAGTTCTTTAAATTATATACCCACCACATTTGGTGGAGAACCAAAAGAAACCTTGTTTTACa                                                                                                                     >  1:189581/1‑141 (MQ=255)                   gagaAAAAAGAAGACAACCAAGCCCAATAATGGACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTATTTTAAAAATAGTTCTTTAAATTATATACCCACCACATTTGGTGGAGAACCAAAAGAAACCTTGtaaaacaa                                                                                                                    <  1:156479/141‑8 (MQ=255)                     gaagaaGGAAGCCAACCAGGGCCCATCATGGACTGGCCGCGTAATACTAAAGACTCTAAACGTTGTATTTTAAAGAGCGTTCTTGAAATTATATACCCACCACATTTGGTGGAGAACCAAAAGAAACCTTGtaaaccacgg                                                                                                                  <  2:2248/141‑10 (MQ=9)                        aaaaGAAGACAACCAAGCCCAATAATGGACGGGCCGCCTAATAATAGAAACTCTAAAAGTGGTATTGTAAAAAGAGTTCTTTAAATTATATACCCACCACTTTTCGTGGAGAACCAATAGAAACCTTGTCTTACAAGGctt                                                                                                               >  2:126266/1‑141 (MQ=14)                            gaagaCAACCAAGCCCAATAATGGACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTATTTTAAAAATAGTTCTTTAAATTATATACCCACCACATTTGGTGGAGAACCAAAAGAAACCTTGTTTTACAAGGTTTCTaa                                                                                                           >  1:241357/1‑141 (MQ=255)                            gaagaCAACCAAGCCCAATAATGGACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTATTTTAAAAATAGTTCTTTAAATTATATACCCACCACATTTGGTGGAGAACCAAAAGAAACCTTGTTTTACAAGGTTTCTaa                                                                                                           <  2:140137/141‑1 (MQ=255)                                aCAACCAAGCCCAATAATGGACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTATTTTAAAAATAGTTCTTTAAATTATATACCCACCACATTTGGTGGAGAACCAAAAGAAACCTTGTTTTACAAGGTTTCTAATACg                                                                                                       <  1:9007/141‑1 (MQ=255)                                   aCCAAGCCCAATAATGGACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTATTTTAAAAATAGTTCTTTAAATTATATACCCACCACATTTGGTGGAGAACCAAAAGAAACCTTGTTTTACAAGGTTTCTAATACgtta                                                                                                    <  2:260370/141‑1 (MQ=255)                                    ccAAGCCCAATAATGGACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTATTTTAAAAATAGTTCTTTAAATTATATACCCACCACATTTGGTGGAGAACCAAAAGAAACCTTGTTTTACAAGGTTTCTAATACgttat                                                                                                   <  2:99146/141‑1 (MQ=255)                                        gCCCAATAATGGACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTATTTTAAAAATAGTTCTTTAAATTATATACCCACCACATTTGGTGGAGAACCAAAAGAAACCTTGTTTTACAAGGTTTCTAATACgttatgtta                                                                                               <  1:231226/141‑1 (MQ=255)                                             ataatGGACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTATTTTAAAAATAGTTCTTTAAATTATATACCCACCACATTTGGTGGAGAACCAAAAGAAACCTTGTTTTACAAGGTTTCt                                                                                                             >  1:54654/1‑122 (MQ=255)                                             ataatGGACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTATTTTAAAAATAGTTCTTTAAATTATATACCCACCACATTTGGTGGAGAACCAAAAGAAACCTTGTTTTACAAGGTTTCt                                                                                                             <  2:54654/122‑1 (MQ=255)                                               aatGGACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTATTTTAAAAATAGTTCTTTAAATTATATACCCACCACATTTGGTGGAGAACCAAAAGAAACCTTGTTTTACAAGGTTTCTAATACGTTATGTTATGTAAAt                                                                                        <  1:295744/141‑1 (MQ=255)                                                                ataataaAAACTCTAAAAGTTGTATTTTAAAAATAGTTCTTTAAATTATATACCCACCACATTTGGTGGAGAACCAAAAGAAACCTTGTTTTACAAGGTTTCTAATACGTTATGTTATGTAAATAACAGTTAATTATACCg                                                                       <  2:184049/141‑1 (MQ=255)                                                                ataataaAAACTCTAAAAGTTGTATTTTAAAAATAGTTCTTTAAATTATATACCCACCACATTTGGTGGAGAACCAAAAGAAACCTTGTTTTACAAGGTTTCTAATACGTTATGTTATGTAAATAACAGTTAATTATACCg                                                                       <  2:159502/141‑1 (MQ=255)                                                                  aataaAAACTCTAAAAGTTGAATTTTAAAAATAGTTCTTTAAATTATATACCCACCACATTTGGTGGAGAACCAAAAGAAACCTTGTTTTACAAGGTTTCTAATACGTTATGTTATGTAAATAACAGTTAATTATACCggt                                                                     <  2:301115/141‑1 (MQ=255)                                                                           tctAAAAGTTGTATTTTAAAAATAGTTCTTTAAATTATATACCCACCACATTTGGTGGAGAACCAAAAGAAACCTTGTTTTACAAGGTTTCTAATACGTTATGTTATGTAAATAACAGTTAATTATACCGGTGGTCGGGGt                                                            >  2:140646/1‑141 (MQ=255)                                                                             tAAAAGTTGTATTTTAAAAATAGTTCTTTAAATTATATACCCACCACATTTGGTGGAGAACCAAAAGAAACCTTGTTTTACAAGGTTTCTAATACGTTATGTTATGTAAATAACAGTTAATTATACCGGTGGTCGGGGTCg                                                          >  1:382881/1‑141 (MQ=255)                                                                             tAAAAGTTGTATTTTAAAAATAGTTCTTTAAATTATATACCCACCACATTTGGTGGAGAACCAAAAGAAACCTTGTTTTACAAGGTTTCTAATACGTTATGTTATGTAAATAACAGTTAATTATACCGGTGGTCGGGGTCg                                                          <  2:65230/141‑1 (MQ=255)                                                                             tAAAAGTTGTATTTTAAAAATAGTTCATTAAATTATATACCCACCACATTTGGTGGAGAACCAAAAGAAACCTTGTTTTACAAGGTTTCTAATACGTTATGTTATGTAAATAACAGTTAATTATACCGGTGGACGGAGTCg                                                          >  2:347844/1‑141 (MQ=255)                                                                              aaaaGTTGTATTTTAAAAATAGTTCTTTAAATTATATACCCACCACATTTGGTGGAGAACCAAAAGAAACCTTGTTTTACAAGGTTTCTAATACGTTATGTTATGTAAATAACAGTTAATTATACCGGTGGTCggttcgac                                                         <  2:387899/141‑7 (MQ=255)                                                                               aaattttcatcttAAAATTATTTAATTAAAGTATATACCCATCACATTTGGTGAAGAACCTAAAGAAACCTTATTTTACAAGGTTTCTAATACGTTATGTTATGCAAATATCAGTTAATTATACCGGTGGTCGGGGTCGaa                                                        <  2:413531/130‑1 (MQ=255)                                                                                 aGTTGTATTTTAAAAATAGTTCTTTAAATTATATACCCACCACATTTGGTGGAGAACCAAAAGAAACCTTGTTTTACAAGGTTTCTAATACGTTATGTTATGTAAATAACAGTTAATTATACCGGTGGTCGGGGTCGAAcc                                                      <  2:189581/141‑1 (MQ=255)                                                                                      tATTTTAAAAATAGTTCTTTAAATTATATACCCACCACATTTGGTGGAGAACCAAAAGAAACCTTGTTTTACAAGGTTTCTAATACGTTATGTTATGTAAATAACAGTTAATTATACCGGTGGTCGGGGTCGAACCGacac                                                 <  2:408252/141‑1 (MQ=255)                                                                                           aaaaaaTAGTTCTTTAAATTATATACCCACCACATTTGGTGGAGAACCAAAAGAAACCTTGTTTTACAAGGTTTCTAATACGTTATGTTATGTAAATAACAGTTAATTATACCGGTGGTCGGGGTCGAACCGACACTCcac                                            <  2:59710/140‑1 (MQ=255)                                                                                                   gTTCTTTAAATTATATACCCACCACATTTGGTGGAGAACCAAAAGAAACCTTGTTTTACAAGGTTTCTAATACGTTATGTTATGTAAATAACAGTTAATTATACCGGTGGTCGGGGTCGAACCGACACTCCACAAGTGGaa                                    <  2:131762/141‑1 (MQ=255)                                                                                                        ttAAATTATATACCCACCACATTTGGTGGAGAACCAAAAGAAACCTTGTTTTACAAGGTTTCTAATACGTTATGTTATGTAAATAACAGTTAATTATACCGGTGGTCGGGGTCGAACCGACACTCCACAAGTGGAACGGGa                               <  1:421581/141‑1 (MQ=255)                                                                                                            aTTATATACCCACCACATTTGGTGGAGAACCAAAAGAAACCTTGTTTTACAAGGTTTCTAATACGTTATGTTATGTAAATAACAGTTAATTATACCGGTGGTCGGGGTCGAACCGACACTCCACAAGTGGAACGGGAtttt                           <  1:256831/141‑1 (MQ=255)                                                                                                                tataCCCACCACATTTGGTGGAGAACCAAAAGAAACCTTGTTTTACAAGGTTTCTAATACGTTATGTTATGTAAATAACAGTTAATTATACCGGTGGTCGGGGTCGAACCGACACTCCACAAGTGGAACGGGATTTTGAGt                       >  1:160686/1‑141 (MQ=255)                                                                                                                     ccaccaCATTTGGTGGAGAACCAAAAGAAACCTTGTTTTACAAGGTTTCTAATACGTTATGTTATGTAAATAACAGTTAATTATACCGGTGGTCGGGGTCGAACCGACACTCCACAAGTGGAACGGGATTTTGAGTCCcgc                  >  2:223524/1‑141 (MQ=255)                                                                                                                             tttGGTGGAGAACCAAAAGAAACCTTGTTTTACAAGGTTTCTAATACGTTATGTTATGTAAATAACAGTTAATTATACCGGTGGTCGGGGTCGAACCGACACTCCACAAGTGGAACGGGATTTTGAGTCCCGCGCGTCTGc          >  2:153657/1‑141 (MQ=255)                                                                                                                                ggtggAGAACCAAAAGAAACCTTGTTTTACAAGGTTTCTAATACGTTATGTTATGTAAATAACAGTTAATTATACCGGTGGTCGGGGTCGAACCGACACTCCACAAGTGGAACGGGATTTTGAGTCCCGCGCGTCTGCCaa       >  2:38365/1‑141 (MQ=255)                                                                                                                                 gtggAGAACCAAAAGAAACCTTGTTTTACAAGGTTTCTAATACGTTATGTTATGTAAATAACAGTTAATTATACCGGTGGTCGGGGTCGAACCGACACTCCACAAGTGGAACGGGATTTTGAGTCCCGCGCGTCTGCCAAt      >  1:293122/1‑141 (MQ=255)                                                                                                                                     agaACCAAAAGAAACCTTGTTTTACAAGGTTTCTAATACGTTATGTTATGTAAATAACAGTTAATTATACCGGTGGTCGGGGTCGAACCGACACTCCACAAGTGGAACGGGATTTTGAGTCCCGCGCGTCTGCCAATTCCg  <  1:223524/141‑1 (MQ=255)                                                                                                                                          |                                                                                                                                        TTTTCAGCTTGTACAAAGGAGAAAAAAGAAGACAACCAAGCCCAATAATGGACTGGCCGCCTAATAATAAAAACTCTAAAAGTTGTATTTTAAAAATAGTTCTTTAAATTATATACCCACCACATTTGGTGGAGAACCAAAAGAAACCTTGTTTTACAAGGTTTCTAATACGTTATGTTATGTAAATAACAGTTAATTATACCGGTGGTCGGGGTCGAACCGACACTCCACAAGTGGAACGGGATTTTGAGTCCCGCGCGTCTGCCAATTCCG  >  CP000730/1995641‑1995913

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