New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	782414 =	20 (0.870)	4 (0.190)	4/240	NT	18.4%	intergenic (‑209/+133)	USA300HOU_0730/USA300HOU_0731	hypothetical membrane protein/hypothetical lipoprotein
	?	CP000730	782453 =	17 (0.800)					intergenic (‑248/+94)	USA300HOU_0730/USA300HOU_0731	hypothetical membrane protein/hypothetical lipoprotein

CTTAAGCTAAACAAACCTCAAGCTCTAAAAAAATTTACTTATGTGCTCTGCAATCTTATGGGATTTAATAGTTGTATATATATTGAAAAAAGGAAAGTATGATTTCTACAAGCTAGGGGGGCTGT‑GAAATCATACGCTTTCCATTGAGTAATGAGTGTAATGTATATTTTAAAAATTTGTAATGTATAGTAATAGTATGTTGTAAATAAAAGTTTAACTCAGAAATTGATTATTTTAATTTAGCGCCGCCGAAGATGACGTGAGCT  >  CP000730/782318‑782583                                                                                                                                         |                                                                                                                                   cTTAAGCTAAACAAACCTCAAGCTCTAAAAAAATTTACTTATGTGCTCTGCAATCTTATGGGATTTAATAGTTGTATATATATTGAAAAAAGGAAAGTATGATTTCTACAAGCTAGGGGGGCTGT‑GAAATCATACGCTTTc                                                                                                                               <  1:265252/141‑1 (MQ=255)       tttctgagttaaacttttatttacaacatactattactatacattacaaatttttaaaatatacattacactcattactcaatggaaagcGTATGATTTCTACAAGCTAGGGGGGCTGT‑GAAATCATACGCTTTCCATTGa                                                                                                                         <  2:6237‑M1/51‑1 (MQ=255)        tttctgagttaaacttttatttacaacatactattactatacattacaaatttttaaaatatacattacactcattactcaatggaaagcgtatgatttcacagcccacctagcttgtaggaatcatacGCTTTCCATTGa                                                                                                                         >  1:6237‑M2/130‑141 (MQ=255)          aacaaacCTCAAGCTCTAAAAAAATTTACTTATGTGCTCTGCAATCTGATGGGATTTAATAGTTGTATATATATTGAAAAAAGGAAAGTATGATTTCTACAAGCTAGGGGGGCTGT‑GAAATCATACGCTTTCCAGTGAGTa                                                                                                                      >  2:174821/1‑141 (MQ=255)            caaacCTCAAGCTCTAAAAGAATTTACTTATGTGCTCTGCAATCTTATGGGATTTAATAGTTGTATATATATTGAAAAAAGGAAAGTATGCTTTCTACAAGCTAGGGGGGCTGT‑GAAATCATACGCTTTCCATTGAGTAAt                                                                                                                    >  1:143439/1‑141 (MQ=255)                               aaaTTTACTTATGTGCTCTGCAATCTTATGGGATTTAATAGTTGTATATATATTGAAAAAAGGAAAGTATGATTTCTACAAGCTAGGGGGGCTGT‑GAAATCATACGCTTTCCATTGAGTAATGAGTGTAATGTATATTTTa                                                                                                 <  1:113882/141‑1 (MQ=255)                               aaaTTTACTTATGTGCTCTGCAATCTTATGGGATTTAATAGTTGTATATATATTGAAAAAAGGAAAGTATGATTTCTACAAGCTAGGGGGGCTGT‑GAAATCATACGCTTTCCATTGAGTAATGAGTGTAATGTATATTTTa                                                                                                 <  1:50326/141‑1 (MQ=255)                                     aCTTATGTGCTCTTCAATCTTATGGGATTTAATAGTTGTATATATATTGAAAAAAGGAAAGTATGATTTCTACAAGCTAGGGGGGCTGT‑GAAATCATACGCTTTCCATTGAGTAATGAGTGTAATGTATATTTTAAAAAtt                                                                                           <  1:69339/141‑1 (MQ=255)                                           actatacattacaaatttttaaaatatacattacactcattactcaatggaaagcgtatgatttctacaagctaggggggctgtgaaatcatacGCTTTCCATTGAGTAATGAGTGTAATGTATATTTTAAAAATTTGTaa                                                                                      >  2:96179‑M2/95‑141 (MQ=255)                                           actatacattacaaatttttaaaatatacattacactcattactcaatggaaagcgtatgatttcacagcccccctagcttgtagaaatcatacGCTTTCCATTGAGTAATGAGTGTAATGTATATTTTAAAAATTTGTaa                                                                                      >  1:96179‑M2/95‑141 (MQ=255)                                                ctGCAATCTTATGGGATTTAATAGTTGTATATATATTGAAAAAAGGAAAGTATGATTTCTACAAGCTAGGGGGGCTGT‑GAAATCATACGCTTTCCATTGAGTAATGAGTGTAATGTATATTTTAAAAATTTGTAATGtatt                                                                                >  1:81846/1‑140 (MQ=255)                                                  ttacaaatttttaaaatatacattacactcattactcaatggaaagcGTATGATTTCTACAAGCTAGGGGGGCTGT‑GAAATCATACGCTTTCCATTGAGTAATGAGTGTAATGTATATTTTAAAAATTTGTAATGTatagt                                                                              >  1:96179‑M1/48‑141 (MQ=255)                                                  ttacaaatttttaaaatatacattacactcattactcaatggaaagcGTATGATTTC‑ACAGCCCCCCTAGCTTGTAGAAATCATACGCTTTCCATTGAGTAATGAGTGTAATGTATATTTTAAAAATTTGTAATGTatagt                                                                              >  2:96179‑M1/48‑141 (MQ=255)                                                  gCAATCTTATGGGATTTAATAGTTGTCTATATATTGAAAAAAGGAAAGTATGATTTCTACAAGCTAGGGGGGCTGT‑GAAATCATACGCTTTCCATTGAGTAATGAGTGTAATGTATCTTTTAAAAATTTGTAATGTagagt                                                                              >  2:167868/1‑141 (MQ=255)                                                  gCAATCTTATGGGATTTAATAGTTGTATATATATTGAAAAAAGGAAAGTATGATTTCTACAAGCTAGGGGGGCTGT‑GAAATCATACGCTTTCCATTGAGTAATGAGTGTAATGTATATTTTAAAAATTTGTAATGTatagt                                                                              >  1:243866/1‑141 (MQ=255)                                                  gCAATCTTATGGGATTTAATAGTTGTATATATATTGAAAAAAGGAAAGTATGATTTCTACAAGCTAGGGGGGCTGT‑GAAATCATACGCTTTCCATTGAGTAATGAGTGTAATGTATATTTTAAAAATTTGTAATGTatagt                                                                              >  2:182298/1‑141 (MQ=255)                                                      tCTTATGGGATTTAATAGTTGTATATATATTGAAAAAAGGAAAGTATGATTTCTACAAGCTAGGGGGGCTGT‑GAAATCATACGCTTTCCATTGAGTAATGAGTGTAATGTATATTTTAAAAATTTGTAATGTatagtaatc                                                                          <  1:187691/141‑2 (MQ=255)                                                       cTTATGGGATTTAATAGTTGTATATATATTGAAAAAAGTAAAGTATGATTTCTACAAGCTAGGGGGGCTGT‑GAAATCATACGCTTTCCCTTGAGTAATGAGTGTAATGTATATTTTAAAAATTCGTAATGTatagtaatag                                                                         >  1:115401/1‑141 (MQ=255)                                                           tGGGATTTAATAGTTGTATATATATTGAAAAAAGGAAAGTATGATTTCTACAAGCTAGGGGGGCTGT‑GAAATCATACGCTTTCAATTGAGTAATGAGGGTAATGTCTATTTTAAAAATTTGTAATGAATGGTAATAGTAtg                                                                     >  2:210375/1‑141 (MQ=255)                                                                  tAAGAGTTGTATATATATTGAAAAAAGGAAAGTATGATTTCTACAAGCTAGGGGGGCTGT‑GAAATCATACGCTTTCCATTGAGTAATGAGTGTAATGTATATTTTAAAAATTTGTAATGTATAGTAATAGTATGTTGtaaa                                                              <  1:170158/141‑1 (MQ=255)                                                                               tatatTGAAAAAAGGAAAGTATGATTTCTACAAGCTAGGGGGGCTGT‑GAAATCATACGCTTTCCATTGAGTAATGAGTGTAATGTATATTTTAAAAATTTGTAATGTATAGTAATAGTATTTTGTAAATAAAAGTTTAACt                                                 >  2:170047/1‑141 (MQ=255)                                                                                     tcaatggaaagcGTATGATTCCTACAAGCTAGGTGGGCTGT‑GAAATCATACGCTTTCCATTGAGTAATGAGTGTAATGTATATTTTAAAAATTTGTAATGTATAGTAATAGTATGTTGTAAATAAAAGTTTAACTCAGaaa                                           >  1:6237‑M1/13‑141 (MQ=255)                                                                                      tcaatggaaagcgtatgatttcacagcccccctagcttgtagaaatcatacGCTTTCCATTGAGTAATGAGTGTAATGTATATTTTAAAAATTTGTAATGTATAGTAATAGTATGTTGTAAATAAAAGTTTAACTCAGaaa                                           <  2:6237‑M2/90‑1 (MQ=255)                                                                                                         TCTACAAGCTAGGGGGGCTGT‑GAAATCATACGCTTTCCATTGAGTAATGAGTGTAATGTATATTTTAAAAATTTGTAATGTATAGTAATAGTATGTTGTAAATAAAAGTTTAACTCAGAAATTGATTATTTTAATTTAgcg                       <  2:243382‑M1/141‑1 (MQ=255)                                                                                                                  gaGGTGGGCTAT‑GAAATCATACGCTTTCCATTGAGTAATGAGTGTAATGTATATTTTAAAAATTTGTAATGTATAGTAATAGTATGTTGTAAATAAAAGTTTAACTCAGAAATTGATTATTTTAATTTAGCGCCGCCGAAg              <  2:143439/140‑1 (MQ=255)                                                                                                                      ggggCTGT‑GAAATCATACGCTTTCCATTGAGTAATGAGTGTAATGTATATTTTAAAAATTTGTAATGTATAGTAATAGTATGTTGTAAATAAAAGTTTAACTCGATAATTGATTATTTTAATTTAGCGCCGCCGAAGATGa          >  2:8814/1‑141 (MQ=255)                                                                                                                         gCTGT‑GAAATCATACGCTTTCCATTGAGTAATGAGTGTAATGTATATTTTAAAAATTTGTAATGTATAGTAATAGTATGTTGTAAATAAAAGTTTAACTCAGAAATTGATTATTTTAATTTAGCGCCGCCGAAGATGACGt       <  2:13050/141‑1 (MQ=255)                                                                                                                               gaaatcatacGCTTTCCATTTAGTAATGAGTGTAATGTATATTTTAAAAATTTGTAATGTATAGTAATAGTATGTTGTAAATAAAAGTTTAACTCAGAAATTGATTATTTTAATTTAGCGCCGCCGAAGATGACGTGAGCt  <  1:123758‑M2/131‑1 (MQ=255)                                                                                                                                         |                                                                                                                                   CTTAAGCTAAACAAACCTCAAGCTCTAAAAAAATTTACTTATGTGCTCTGCAATCTTATGGGATTTAATAGTTGTATATATATTGAAAAAAGGAAAGTATGATTTCTACAAGCTAGGGGGGCTGT‑GAAATCATACGCTTTCCATTGAGTAATGAGTGTAATGTATATTTTAAAAATTTGTAATGTATAGTAATAGTATGTTGTAAATAAAAGTTTAACTCAGAAATTGATTATTTTAATTTAGCGCCGCCGAAGATGACGTGAGCT  >  CP000730/782318‑782583

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