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

TCAAACGTACAAGAACTGTTGCAACACACCGTAAAGCACAAAGAGCTGTTAATTTAATTCATTTCCAACACAGTTATGAAAAGAAAAAATTACAAAGACAAATCGAT‑CTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTATAATATTGTGTTTATTTGAATGGTGAGCTTATTGGGATAAATAATATAAATAATTACTTAAAAGTGAATGCAATAGTTGTT  >  CP000730/1164800‑1165078                                                                                                                                            |                                                                                                                                             tttttttttttttaaCTGTAGCAACACACCGTAAAGCACAAAGAGCTGTTAATTTAATTCATTTCCAACTCAGTTATGAAAAGAAAATTTTTCTATTATTAATCGAT‑CTAGTTTTAAAATATAATACTTTAAAATAATTGa                                                                                                                                            >  2:201640/14‑141 (MQ=255)      cGTACAAGAACTGTTGCAACACACCGTAAAGCACAAAGAGCTGTTAATTTAATTCATTTCCAACACAGTTATGAAAAGAAAAAATTACAAAGACAAATCGAT‑CTAGTTTTAAAATATAATACTTTAAAATAATTGATAGaa                                                                                                                                       >  1:173174/1‑141 (MQ=255)      cGTACAAGAACTGTTGCAACACACCGTAAAGCACAAAGAGCTGTTAATTTAATTCATTTCCAACACAGTTATGAAAAGAAAAAATTACAAAGACAAATCGAT‑CTAGTTTTAAAATATAATACTTTAAAATAATTGATAGaa                                                                                                                                       >  1:270120/1‑141 (MQ=255)            aGAACTGTTGCAACACACCGTAAAGCACAAAGAGCTGTTAATTTAATTCATTTCCAACACAGTTATGAAAAGAAAAAATTACAAAGACAAATCGAT‑CTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATg                                                                                                                                 >  2:107645/1‑141 (MQ=255)             gaagtcttGCAACACGCCGTAAAGCACAAAGAGCTGTTAATTTAATTCATTTCCAACACAGTTATGAAAAGAAAAAATTACAAAGACAAATCGAT‑CTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGc                                                                                                                                <  2:286745/135‑1 (MQ=255)             gAACTGTTGCAACACACCGTAAAGCACAAAGAGCTGTTAATTTAATTCATTTCCAACACAGTTATGAAAAGAAAAAATTACAAAGACAAATCGAT‑CTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGc                                                                                                                                >  1:426022/1‑141 (MQ=255)                  gTTGCAACACACCGTAAAGCACAAAGAGCTGTTAATTTAATTCATTTCCAACACAGTTATGAAAAGAAAAAATTACAAAGACAAATCGAT‑CTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATag                                                                                                                           >  2:264726/1‑141 (MQ=255)                  gTTGCAACACACCGTAAAGCACAAAGAGCTGTTAATTTAATTCATTTCCAACACAGTTATGAAAAGAAAAAATTACAAAGACAAATCGAT‑CTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATag                                                                                                                           >  1:271377/1‑141 (MQ=255)                       aaCACACCGTAAAGCACAAAGAGCTGTTAATTTAATTCATTTCCACCACAGTTATGAAAAGAAAAACTTACAAAGACAAATCGAT‑CTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAgtgt                                                                                                                      <  1:224090/141‑1 (MQ=255)                         cacacCGTAAAGCACAAAGAGCTGTTAATTTAATTCATTTCCAACACAGTTATGAAAAGAAAAAATTACAAAGACAAATCGAT‑CTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTgg                                                                                                                    <  1:315897/141‑1 (MQ=255)                            acCGTAAAGCACAAAGAGCTGTTAATTTAATTCATTTCCAACACAGTTATGAAAAGAAAAAATTACAAAGACAAATCGAT‑CTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCtt                                                                                                                 >  1:109437/1‑141 (MQ=255)                                   aGCACAGAGAGCTGTTAATTTAATTCATTTCCAACCCATTTATGAAAAGAAAAAATTACTAAGACAAATCGAT‑CTAGTTTTAAAATATAATACTTTAAAATAATTGATAGCAGCCATGCTATAGAGTGTGGCTTTTTGCta                                                                                                          <  2:211298/141‑1 (MQ=255)                                   aGCACAAAAAGCTGTTAAATTAATACATTTCCAACACAGTTATGAAAAAAAAAAATTACAAAGACAAATCGAT‑CTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCta                                                                                                          <  2:445618/141‑1 (MQ=255)                                       caAAGAGCTGTTAATTTAATTCATTTCCAACACAGCTATGAAAAGAAAAAATTACAAAGACAAATCGAT‑CTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATc                                                                                                      >  2:356503/1‑141 (MQ=255)                                         aaGAGCTGTTAATTTAATTCATTTCCAACACAGTTATGAAAAGAAAAAATTACACTGAAATA‑AGATACTGGTTTTAATGAAGAAGAAGGGATTATGAGGGATAGAAGCCATGCTATATAGTGTGGCATTTTGCTATATCCa                                                                                                    >  1:317031/1‑141 (MQ=255)                                             gCTGTTAATTTAATTCATTTCCAACACAGTTATGAAAAGAAAAAATTACAAAGACAAATCGAT‑CTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCACAgg                                                                                                >  2:376418/1‑141 (MQ=255)                                              cTGTTAATTTAATTCATTTCCAACACAGTTATGAAAAGAAAAAATTACAAAGACAAATCGAT‑CTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGt                                                                                               <  2:379349/141‑1 (MQ=255)                                              cTGTTAATTTAATTCATTTCCAACACAGTTATGAAAAGAAAAAATTACAAAGACAAATCGAT‑CTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGt                                                                                               >  1:320612/1‑141 (MQ=255)                                                             aTTTCCAACACAGTTATGAAAAGAAAAAATTACAAAGACAAATCGAT‑CTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTataa                                                                                >  1:440994/1‑141 (MQ=255)                                                              tttCCAACACAGTTATGAAAAGAAAAAATTACAAAGACAAATCGAT‑CTAGTTTAAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTataat                                                                               >  1:341608/1‑141 (MQ=255)                                                                tCCAACACAGCTATGAAAAGAAAAAATTACAAAGACAAATCGAT‑CTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTATAatat                                                                             >  1:174900/1‑141 (MQ=255)                                                                  cAACACAGTTATGAAAAGAAAAAATTACAAAGACAAATCGAT‑CTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTATAATATtg                                                                           >  1:324569/1‑141 (MQ=255)                                                                    acacAGTTATGAAAAGAAAAAATTACAAAGACAAATCGAT‑CTAGTTTTAAAATAGAATACTTTATAATAATTGATAGAAGCCCTGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTATAATATtgtt                                                                         >  2:343205/1‑140 (MQ=255)                                                                     aacattgaTGAAAAGAAAAAATTACAAAGACAAATCGAT‑CTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGTGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTATAATATTgtgt                                                                        <  2:300458/134‑1 (MQ=255)                                                                      acaGTTATGAAAAGAAAAAATTACAAAGACAAATCGAT‑CTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGTTATATCTAAAGGTATAATTATTTTATAATATTGTGtt                                                                       >  2:357794/1‑141 (MQ=255)                                                                       caGTTATGAAAAGAAAAAATTACAAAGACAAATCGAT‑CTAGTTTTAAAATATAATACTTTAAAATAATTatacctttggatatagcaaaaagccacactctatagcatggcttctatcaattattttaaagtattatattt                                                                      >  2:82404‑M1/1‑69 (MQ=255)                                                                       caGTTATGAAAAGAAAAAATTACAAAGACAAATCGAT‑CTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATaattattttaaagtattatattt                                                                      <  1:82404‑M2/141‑24 (MQ=255)                                                                            aTGAAAAGAAAAAATTACAAAGACAAATCGAT‑CTAGTTTTAAAATATAATACTTTAAAATAATTatacctttggatatagcaaaaagccacactctatagcatggcttctatcaattattttaaagtattatattttaaaa                                                                 >  2:236429‑M1/1‑64 (MQ=255)                                                                            aTGAAAAGAAAAAATTACAAAGACAAATCGAT‑CTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTATAATATTGTGTTTATTTg                                                                 >  1:381406/1‑141 (MQ=255)                                                                                       aaaTTACAAAGACAAATCGAT‑CTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTATAATATTGTGTTTATTTGAATGGTGAGCt                                                      <  1:264726/141‑1 (MQ=255)                                                                                        aaTTACAAAGACAAATCGAT‑CTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTATAATATTGTGTTTATTTGAATGGTGAGCtt                                                     <  1:314208/141‑1 (MQ=255)                                                                                            aCAAAGACAAATCGAT‑CTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTATAATATTGTGTTTATTTGAATGGTGAGCTTATTg                                                 <  2:292962/141‑1 (MQ=255)                                                                                                    aaaTCGAT‑CTAGTGTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATGCAAAGGTATAATTATTTTATAATATTGTGTTTATTTGAATGGTGAGCTTATTGGGataaat                                         <  2:410030/141‑1 (MQ=255)                                                                                                      aTCGAT‑CTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTATAATATTGTGTTTATTTGAATGGTGAGCTTATTGGGataaatca                                       >  1:351801/1‑139 (MQ=255)                                                                                                              tAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTATAATATTGTGTTTATTTGAATGGTGAGCTTATTGGGataaataatataaat                                >  2:248106/1‑141 (MQ=255)                                                                                                                 ttttAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATaattattttaaagtattatattttaaaactagatcgatttgtctttgtaattttttcttttcat                             >  2:236429‑M2/1‑77 (MQ=255)                                                                                                                      aaaTATAATACTTTAAAATAATTatacctttggatatagcaaaaagccacactctatagcatggcttctatcaattattttaaagtattatattttaaaactagatcgatttgtctttgtaattttttcttttcataactg                        <  1:82404‑M1/141‑119 (MQ=255)                                                                                                                      aaaTATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATaattattttaaagtattatattttaaaactagatcgatttgtctttgtaattttttcttttcataactg                        >  2:82404‑M2/1‑72 (MQ=255)                                                                                                                        atatAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTATAATATTGTGTTTATTTGAATGGTGAGCTTATTGGGATAAATAATATAAATAATTACTTaa                      >  1:452621/1‑141 (MQ=255)                                                                                                                        atatAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTATAATATTGTGTTTATTTGAATGGTGAGCTTATTGGGATAAATAATATAAATAATTACTTaa                      >  2:97319/1‑141 (MQ=255)                                                                                                                                            tGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTATAATATTGTGTTTATTTGAATGGTGAGCTTATTGGGATAAATAATATAAATAATTACTTAAAAGTGAATGCAATAgttgtt  <  1:197113/141‑1 (MQ=255)                                                                                                                                            |                                                                                                                                             TCAAACGTACAAGAACTGTTGCAACACACCGTAAAGCACAAAGAGCTGTTAATTTAATTCATTTCCAACACAGTTATGAAAAGAAAAAATTACAAAGACAAATCGAT‑CTAGTTTTAAAATATAATACTTTAAAATAATTGATAGAAGCCATGCTATAGAGTGTGGCTTTTTGCTATATCCAAAGGTATAATTATTTTATAATATTGTGTTTATTTGAATGGTGAGCTTATTGGGATAAATAATATAAATAATTACTTAAAAGTGAATGCAATAGTTGTT  >  CP000730/1164800‑1165078

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