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

ATTTCCAACACAGTTATGAAAAGAAAAAATTACAAAGACAAATCGATCTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTATAATATTGTGTTTATTTGAATGGTGAGCTTATTGGGATAAATAATATAAATAATTACTTAAAAGTGAATGCAATAGTTGTTTATGTTTTGAACAAGCGAGGTGGCTATTGTGAAAAGGAAATCGAAT  >  CP000730/1164860‑1165124                                                                                                                                |                                                                                                                                          aTTTCCAACACAGTTATGAAAAGAAAAAATTACAAAGACAAATCGATCTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTataa                                                                                                                              >  1:440994/1‑141 (MQ=255)  tttCCAACACAGTTATGAAAAGAAAAAATTACAAAGACAAATCGATCTAGTTTAAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTataat                                                                                                                             >  1:341608/1‑141 (MQ=255)    tCCAACACAGCTATGAAAAGAAAAAATTACAAAGACAAATCGATCTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTATAatat                                                                                                                           >  1:174900/1‑141 (MQ=255)      cAACACAGTTATGAAAAGAAAAAATTACAAAGACAAATCGATCTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTATAATATtg                                                                                                                         >  1:324569/1‑141 (MQ=255)        acacAGTTATGAAAAGAAAAAATTACAAAGACAAATCGATCTAGTTTTAAAATAGAATACTTTATAATAATTGATAGAAGCCCTGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTATAATATtgtt                                                                                                                       >  2:343205/1‑140 (MQ=255)         aacattgaTGAAAAGAAAAAATTACAAAGACAAATCGATCTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGTGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTATAATATTgtgt                                                                                                                      <  2:300458/134‑1 (MQ=255)          acaGTTATGAAAAGAAAAAATTACAAAGACAAATCGATCTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGTTATATCTAAAGGTATAATTATTTTATAATATTGTGtt                                                                                                                     >  2:357794/1‑141 (MQ=255)           caGTTATGAAAAGAAAAAATTACAAAGACAAATCGATCTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATaattattttaaagtattatattt                                                                                                                    <  1:82404‑M2/141‑24 (MQ=255)                aTGAAAAGAAAAAATTACAAAGACAAATCGATCTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTATAATATTGTGTTTATTTg                                                                                                               >  1:381406/1‑141 (MQ=255)                           aaaTTACAAAGACAAATCGATCTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTATAATATTGTGTTTATTTGAATGGTGAGCt                                                                                                    <  1:264726/141‑1 (MQ=255)                            aaTTACAAAGACAAATCGATCTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTATAATATTGTGTTTATTTGAATGGTGAGCtt                                                                                                   <  1:314208/141‑1 (MQ=255)                                aCAAAGACAAATCGATCTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTATAATATTGTGTTTATTTGAATGGTGAGCTTATTg                                                                                               <  2:292962/141‑1 (MQ=255)                                        aaaTCGATCTAGTGTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATGCAAAGGTATAATTATTTTATAATATTGTGTTTATTTGAATGGTGAGCTTATTGGGataaat                                                                                       <  2:410030/141‑1 (MQ=255)                                          aTCGATCTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTATAATATTGTGTTTATTTGAATGGTGAGCTTATTGGGataaatca                                                                                     >  1:351801/1‑139 (MQ=255)                                                 tAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTATAATATTGTGTTTATTTGAATGGTGAGCTTATTGGGataaataatataaat                                                                              >  2:248106/1‑141 (MQ=255)                                                    ttttAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATaattattttaaagtattatattttaaaactagatcgatttgtctttgtaattttttcttttcat                                                                           >  2:236429‑M2/1‑77 (MQ=255)                                                         aaaTATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATaattattttaaagtattatattttaaaactagatcgatttgtctttgtaattttttcttttcataactg                                                                      >  2:82404‑M2/1‑72 (MQ=255)                                                           atatAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTATAATATTGTGTTTATTTGAATGGTGAGCTTATTGGGATAAATAATATAAATAATTACTTaa                                                                    >  2:97319/1‑141 (MQ=255)                                                           atatAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTATAATATTGTGTTTATTTGAATGGTGAGCTTATTGGGATAAATAATATAAATAATTACTTaa                                                                    >  1:452621/1‑141 (MQ=255)                                                                               tGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTATAATATTGTGTTTATTTGAATGGTGAGCTTATTGGGATAAATAATATAAATAATTACTTAAAAGTGAATGCAATAgttgtt                                                <  1:197113/141‑1 (MQ=255)                                                                                    gAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTATAATATTGTGTTTATTTGAATGGTGAGCTTATTGGGATAAATAATATAAATAATTACTTAAAAGTGAATGCAATAGTTGTTTATGt                                           <  2:271377/141‑1 (MQ=255)                                                                                      aGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTATAATATTGTGTTTATTTGAATGGTGAGCTTATTGGGATAAATAATATAAATAATTACTTAAAAGTGAATGCAATAGTTGTTTATGttt                                         >  1:295807/1‑141 (MQ=255)                                                                                             cTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTATAATATTGTGTTTATTTGAATGGTGAGCTTATTGGGATAAATAATATAAATAATTACTTAAAAGTGAATGCAATAGTTGTTTATGTTTTGAACaa                                  <  2:270120/141‑1 (MQ=255)                                                                                                   agTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTATAATATTGTGTTTATTTGAATGGTGAGCTTATTGGGATAAATAATATAAATAATTACTTAAAAGTGAATGCAATAGTTGTTTATGTTTTGAACAAGCGAgg                            >  1:214047/1‑141 (MQ=255)                                                                                                   agTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTATAATATTGTGTTTATTTGAATGGTGAGCTTATTGGGATAAATAATATAAATAATTACTTAAAAGTGAATGCAATAGTTGTTTATGTTTTGAACAAGCGAgg                            >  1:214039/1‑141 (MQ=255)                                                                                                        ggCTTTTTGCTATATCCAAAGGTATAATTATTTTATAATATTGTGTTTATTTGAATGGTGAGCTTATTGGGATAAATAATATAAATAATTACTTAAAAGTGAATGCAATAGTTGTTTATGTTTTGAACAAGCGAGGTGGCt                       >  2:255112/1‑141 (MQ=255)                                                                                                         gCTTTTTGTTATATCTAAAGGTATAATTATTATATAATATTGTGTTTATTTGAATGGTGAGCTTATTGGGATAAATGAGATTAATTATTTCTTAAAAGGGAGTGCAATGGTTGTTTATGTTTTAAACAAGCGAGGTGGCTa                      <  2:278991/141‑1 (MQ=255)                                                                                                                   atatCCAAAGGTATAATTATTTTATAATATTGTGTTTATTTGAATGGTGAGCTTATTGGGATAAATAATATAAATAATTACTTAAAAGTGAATGCAATAGTTGTTTATGTTTTGAACAAGCGAGGTGGCTATTGTGAAAAg            <  1:174286/141‑1 (MQ=255)                                                                                                                   atatCCAAAGGTATAATTATTTTATAATATTGTGTTTATTTGAATGGTGAGCTTATTGGGATAAATAATATAAATAATTACTTAAAAGTGAATGCAATAGTTGTTTATGTTTTGAACAAGCGAGGTGGCTATTGTGAAAAg            <  1:342303/141‑1 (MQ=255)                                                                                                                    tatCCAAAGGTATAATTATTTTATAATATTGTGTTTATTTGAATGGTGAGCTTATTGGGATAAATAATATAAATAATTACTTAAAAGTGAATGCAATAGTTGTTTATGTTTTGAACAAGCGAGGTGGCTATTGTGAAAAgg           <  2:300714/141‑1 (MQ=255)                                                                                                                     atCCAAAGGTATAATTATTTTATAATATTGTGTTTATTTGAATGGTGAGCTTATTGGGATAAATAATATAAATAATTACTTAAAAGTGAATGCAATAGTTGTTTATGTTTTGAACAAGCGAGGTGGCTATTGTGAAAAGGa          <  1:104929/141‑1 (MQ=255)                                                                                                                          aaGGTATAATTATTTTATAATATTGTGTTTATTTGAATGGTGAGCTTATTGGGATAAATAATATAAATAATTACTTAAAAGTGAATGCAATAGTTGTTTATGTTTTGAACAAGCGAGGTGGCTATTGTGAAAAGGAAATCg     >  2:141116/1‑141 (MQ=255)                                                                                                                             gTATAATTATTTTATAATATTGTGTTTATTTGAATGGTGAGCTTATTGGGATAAATAATATAAATAATTACTTAAAAGTGAATGCAATAGTTGTTTATGTTTTGAACAAGCGAGGTGGCTATTGTGAAAAGGAAATCGAAt  >  1:341467/1‑141 (MQ=255)                                                                                                                                |                                                                                                                                          ATTTCCAACACAGTTATGAAAAGAAAAAATTACAAAGACAAATCGATCTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTATAATATTGTGTTTATTTGAATGGTGAGCTTATTGGGATAAATAATATAAATAATTACTTAAAAGTGAATGCAATAGTTGTTTATGTTTTGAACAAGCGAGGTGGCTATTGTGAAAAGGAAATCGAAT  >  CP000730/1164860‑1165124

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