New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	2457361 =	64 (1.250)	4 (0.090)	3/254	4.9	7.8%	intergenic (+40/+90)	USA300HOU_2317/USA300HOU_2318	hypothetical protein/hypothetical protein
	?	CP000730	2457434 =	37 (0.800)					intergenic (+113/+17)	USA300HOU_2317/USA300HOU_2318	hypothetical protein/hypothetical protein
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

AATGTATAACAGAACATTGAAATAATTACCTTTCATTATAAGTGTTAAATGAACTTTTCAAAACAAAAAGGAATCAACTTACACATCGTTTGTATAATAGTCTTATCTATAACCACTGATGCTATTGATTCCTTTTTTATGTTATATATTTTCTTTATTTCAAACTGTATATTAATGATGTCACTTCATTTGATACGATTCTTGATAACCTATTCAAAATTCCGCCAAATAACATAAATATTATATAAATGCCGATACTTTTAATCATTTTCTA  >  CP000730/2457297‑2457570                                                                                                                                          |                                                                                                                                         aaTGTATAACAGAACATTGAAATAATTACCTTTCATTATAAGTGTTAAATGAACTTTTCAAAACAAAAAGGAATCAACTTACACATCGTTTGTATAATAGTCTTATCTATAACCACTGATGCTATTGATTCCTTTTTTATg                                                                                                                                       <  2:121440/141‑1 (MQ=255)   tGTATAACAGAACATTGAAATAATTACCTTTCATTATAAGTGTTAAATGAACTTTTCAAAACAAAAAGGAATCAACTTACACATCGTTTGTATAATAGTCTTATCTATAACCACTGATGCTATTGATTCCTTTTTTATGtt                                                                                                                                     >  1:146827/1‑141 (MQ=255)    gTATAACAGAACATTGAAATAATTACCTTTCATTATAAGTGTTAAATGAACTTTTCAAAACAAAAAGGAATCAACTTACACATCGTTTGTATAATAGTCTTATCTATAACGACTGATGCTATTGATTCCTTTTTTATGTta                                                                                                                                    <  2:511040/141‑1 (MQ=255)    gTATAACAGAACATTGAAATAATTACCTTTCATTATAAGTGTTAAATGAACTTTTCAAAACAAAAAGGAATCAACTTACACATCGTTTGTATAATAGTCTTATCTATAACCACTGATGCTATTGATTCCTTTTTTATGTta                                                                                                                                    <  1:497601/141‑1 (MQ=255)    gTATAACAGAACATTGAAATAATTACCTTTCATTATAAGTGTTAAATGAACTTTTCAAAACAAAAAGGAATCAACTTACACATCGTTTGTATAATAGTCTTATCTATAACCACTGATGCTATTGATTCCTTTTTTATGTta                                                                                                                                    <  1:441537/141‑1 (MQ=255)            gAACATTGAAATAATTACCTTTCATTATAAGTGTTAAATGAACTTTTCAAAACAAAAAGGAATCAACTTACACATCGTTTGTATAATAGTCTTATCTATAACCACTGATGCTATTGATTCCTTTTTTATGTTATATAtttt                                                                                                                            <  1:363222/141‑1 (MQ=255)                                   aTTATAAGTGTTAAATGAACTTTTCAAAACAAAAAGGAATCAACTTACACATCGTTTGTATAATAGTCTTATCTATAACCACTGATGCTATTGATTCCTTTTTTATGTTATATATTTTCTTTATTTCAAACTGTATATTaa                                                                                                     >  1:121726/1‑141 (MQ=255)                                      ataAGTGTTAAATGAACTTTTCAAAACAAAAAGGAATCAACTTACACATCGTTTGTATAATAGTCTTATCTATAACCACTTATGCTATTGATTCCTTTTTTATGTTATATATTTTCTTTATTTCAAACTGTATATTAatga                                                                                                  <  2:358224/141‑1 (MQ=255)                                        aaGTGTTAAATGAACTTTTCAAAACAAAAAGGAATCAACTTACACATCGTTTGTATAATAGTCTTATCTATAACCACTGATGCTATTGATTCCTTTTTTATGTTATATATTTTCTTTATTTCAAACTGTATATTAatgatg                                                                                                >  1:136243/1‑141 (MQ=255)                                        aaGTGTTAAATGAACTTTTCAAAACAAAAAGGAATCAACTTACACATCGTTTGTATAATAGTCTTATCTATAACCACTGATGCTATTGATTCCTTTTTTATGTTATATATTTTCTTTATTTCAAACTGTATATTAatgatg                                                                                                >  1:61243/1‑141 (MQ=255)                                        aaGTGTTAAATGAACTTTTCAAAACAAAAAGGAATCAACTTACACATCGTTTGTATAATAGTCTTATCTATAACCACTGATGCTATTGATTCCTTTTTTATGTTATATATTTTCTTTATTTCAAACTGTATATTAatgatg                                                                                                >  1:46179/1‑141 (MQ=255)                                          gtgtTAAATGAACTTTTCAAAACAAAAAGGAATCAACTTACACATCGTTTGTATAATAGTCTTATCTATAACCACTGATGCTATTGATTCCTTTTTTATGTTATATATTTTCTTTATTTCAAACTGTATATTAATGATGTc                                                                                              <  1:389163/141‑1 (MQ=255)                                                      cTTTTCAAAACAAAAAGGAATCAACTTACACATCGTTTGTATAATAGTCTTATCTATAACCACTGATGCTATTGATTCCTTTTTTATGTTATATATTTTCTTTATTTCAAACTGTATATTAATGATGTCACTTCATTTGAt                                                                                  <  2:555845/141‑1 (MQ=255)                                                             aaacaaaaAGGAATCAACTTACACATCGTTTGTATAATAGTCTTATCTATAACCACTGATGCTATTGATTCCTTTTTTATGTTATATATTTTCTTTATTTCAAACTGTATATTAATGATGTCACTTCATTTGATACGATTc                                                                           <  1:374897/141‑1 (MQ=255)                                                                caaaaAGGAATCAACTTACACATCGTTTGTATAATAGTCTTATCTATAACCACTGATGCTATTGATTCC‑TTTTTATGTTATATATTTTCTTTATTTCAAACTGTATATTAATGATGTCACTTCATTTGATACGATTCTTGa                                                                       <  1:459211/141‑1 (MQ=255)                                                                 aaaaaGGAATCAACTTACACATCGTTTGTATAATAGTCTTATCTATAACCACTGATGCTATTGATTCCTTTTTTATGTTATATATTTTCTTTATTTCAAACTGTATATTAATGATGTCACTTCATTTGATACGATTCTTGa                                                                       <  2:189686/141‑1 (MQ=255)                                                                   aaaGGAATCAACTTACACATCGTTTGTATAATAGTCTTATCTATAACCACTGATGCTATTGATTCCTTTTTTATGTTATATATTTTCTTTATTTCAAACTGTATATTAATGATGTCACTTCATTTGATACGATTCTTGATa                                                                     >  2:471319/1‑141 (MQ=255)                                                                   aaaGGAATCAACTTACACATCGTTTGTATAATAGTCTTATCTATAACCACTGATGCTATTGATTCCTTTTTTATGTTATATATTTTCTTTATTTCAAACTGTATATTAATGATGTCACTTCATTTGATACGATTCTTGATa                                                                     >  2:377651/1‑141 (MQ=255)                                                                   aaaGGAATCAACTTACACATCGTTTGTATAATAGTCTTATCTATAACCACTGATGCTATTGATTCCTTTTTTATGTTATATATTTTCTTTATTTCAAACTGTATATTAATGATGTCACTTCATTTGATACGATTCTTGATa                                                                     >  2:55287/1‑141 (MQ=255)                                                                    aaGGAATCAACTTACACATCGTTTGTATAATAGTCTTATCTATAACCACTGATGCTATTGATTCCTTTTTTATGTTATATATTTTCTTTATTTCAAACTGTATATTAATGATGTCACTTCATTTGATACGATTCTTGATaa                                                                    <  2:286899/141‑1 (MQ=255)                                                                      ggAATCAACTTACACATCGTTTGTATAATAGTCTTATCTATAACCACTGATGCTATTGATTCCTTTTTTATGTTATATATTTTCTTTATTTCAAACTGTATATTAATGATGTCACTTCATTTGATACGATTCTTGATAAcc                                                                  >  1:460127/1‑141 (MQ=255)                                                                      ggAATCAACTTACACATCGTTTGTATAATAGTCTTATCTATAACCACTGATGCTATTGATTCCTTTTTTATGTTATATATTTTCTTTATTTCAAACTGTATATTAATGATGTCACTTCATTTGATACGATTCTTGATAAcc                                                                  >  1:359926/1‑141 (MQ=255)                                                                             aCTTACACATCGTTTGTATAATAGTCTTATCTATAACCACTGATGCTATTGATTCCTTTTTTATGTTATATATTTTCTTTATTTCAAACTGTATATTCATGATGTCACTTCATTTGATACGATTCTTGATAACCTATTCaa                                                           >  1:447200/1‑141 (MQ=255)                                                                             aCTTACACATCGTTTGTATAATAGTCTTATCTATAACCACTGATGCTATTGATTCCTTTTTTATGTTATATATTTTCTTTATTTCAAACTGTATATTAATGATGTCACTTCATTTGATACGATTCTTGATAACCTATTCaa                                                           >  2:85778/1‑141 (MQ=255)                                                                                        gTTTGTATAATAGTCTTATCTATAACCACTGATGCTATTGATTCCTTTTTTATGTTATATATTTTCTTTATTTCAAACTGTATATTAATGATGTCACTTCATTTGATACGATTTTTGATAACCTATTCAAAATTTCGCCaa                                                >  2:186887/1‑141 (MQ=255)                                                                                          ttGTATAATAGTCTTATCTATAACCACTGATGCTATTGATTCCTTTTTTATGTTATATATTTTCTTTCTTTCAACCTGTATATTAATGATGTCACTTCATTTGATACGATTCTTGATAACCTATTCAAAATTCCGCCAAAt                                              <  1:285651/141‑1 (MQ=255)                                                                                                         aTCTATAACCACTGATGCTATTGATTCCTTTTTTATGTTATATATTTTCTTTATTTCAAACTGTATATTAATGATGTCACTTCATTTGATACGATTCTTGATAACCTATTCAAAATTCCGCCAAATAACATAAATATtata                               >  1:477538/1‑141 (MQ=255)                                                                                                                  cACTGATGCTATTGATTCCTTTTTTATGTTATATATTTTCTTTATTTCAAACTGTATATTAATGATGTCACTTCATTTGATACGATTCTTGATAACCTATTCAAAATTCCGCCAAATAACATAAATATTATATAAATGCCg                      >  2:377447/1‑141 (MQ=255)                                                                                                                      gATGCTATTGATTCCTTTTTTATGTTATATATTTTCTTTATTTCAAACTGTATATTAATGATGTCACTTCATTTGATACGATTCTTGATAACCTATTCAAAATTCCGCCAAATAACATAAATATTATATAAATGCCGATAc                  >  2:493967/1‑141 (MQ=255)                                                                                                                          cTATTGATTCCTTTTTTTTTTTTTTTTTTTTCTTTATTTCAAACTGTATATTAATGATGTCACTTCATTTGATACGATTCTTGATAACCTATTCAAAATTCCGCCAAATAACATATATATTATATAATTGCTGATACtttt              >  2:49206/1‑141 (MQ=255)                                                                                                                          cTATTGATTCCTTTTTTATGTTATATATTTTCTTTATTTCAAACTGTATATTAATGATGTCACTTCATTTGATACGATTCTTGATAACCTATTCAAAATTCCGCCAAATAACATAAATATTATATAAATGCCGCTACtttt              <  1:450379/141‑1 (MQ=255)                                                                                                                          cTATTGATTCCTTTTTTATGTTATATATTTTCTTTATTTCAAACTGTATATTAATGATGTCACTTCATTTGATACGATTCTTGATAACCTATTCAAAATTCCGCCAAATAACATAAATATTATATAAATGCCGATACtttt              <  1:518256/141‑1 (MQ=255)                                                                                                                          cTATTGATTCCTTTTTTATGTTATATATTTTCTTTATTTCAAACTGTATATTAATGATGTCACTTCATTTGATACGATTCTTGATAACCTATTCAAAATTCCGCCAAATAACATAAATATTATATAAATGCCGATACtttt              <  1:563674/141‑1 (MQ=255)                                                                                                                          cTATTGATTCCTTTTTTATGTTATATATTTTCTTTATTTCAAACTGTATATTAATGATGTCACTTCATTTGATACGATTCTTGATAACCTATTCAAAATTCCGCCAAATAACATAAATATTATAAAAATGCCGATACtttt              <  2:470687/141‑1 (MQ=255)                                                                                                                          cTATTGATTCCTTTTTTATGTTATATATTTTCTTTATTTCAAACTGTATATTAATGATGTCACTTCATTTGATACGATTCTTGATAACCTATTCAAAATTCCGCCAAATAACATAAATATTATAAAAATGCCGATACtttt              <  2:221472/141‑1 (MQ=255)                                                                                                                          cTATTGATTCCTTTTTTATGTTATATATTTTCTTTATTTCAAACTGTATATTAATGATGTCACTTCATTTGATACGATTCTTGATAACCTATTCAAAATTCCGCCAAATAACATAAATATTATAAAAATGCCGATACtttt              <  2:3681/141‑1 (MQ=255)                                                                                                                          cTATTGATTCCTTTTTTATGTTATATATTTTCTTTATTTCAAACTGTATATTAATGATGTCACTTCATTTGATACGATTCTTGATAACCTATTCAAAATTCCGCCAAATAACATAAATATTATAAAAATGCCGATACtttt              <  2:30803/141‑1 (MQ=255)                                                                                                                           agttGATTCCTTTTTTATGTTATATATTTTCTTTATTTCAAACTGTATATTAATGATGTCACTTCATTTGATACGATTCTTGATAACCTATTCAAAATTCCGCCAAATAACATAAATATTATATAAATGCCGATACTTTTa             <  2:405370/139‑1 (MQ=255)                                                                                                                                    cTTTTTTATTTTTTATATTTTCTTTATTTCAAACTGTATATTAATGATGTCACTTCATTTGATACGATTCTTGATAACCTATTCAAAATTCCGCCAAATAACATAAATATTATATAAATGCCGATACTTTTAATCATTTTc    >  2:352372/1‑141 (MQ=255)                                                                                                                                      tttttATGTTATATATTTTCTTTATTTCAAACTGTATATTAATGATGTCACTTCATTTGATACGATTCTTGATAACCTATTCAAAATTCCGCCAAATAACATAAATATTATATAAATGCCGATACTTTTAATCATTTTCTa  <  2:149084/141‑1 (MQ=255)                                                                                                                                      tttttATGTTATATATTTTCTTTATTTCAAACTGTATATTAATGATGTCACTTCATTTGATACGATTCTTGATAACCTATTCAAAATTCCGCCAAATAACATAAATATTATATAAATGCCGATACTTTTAATCATTTTCTa  <  1:206785/141‑1 (MQ=255)                                                                                                                                          |                                                                                                                                         AATGTATAACAGAACATTGAAATAATTACCTTTCATTATAAGTGTTAAATGAACTTTTCAAAACAAAAAGGAATCAACTTACACATCGTTTGTATAATAGTCTTATCTATAACCACTGATGCTATTGATTCCTTTTTTATGTTATATATTTTCTTTATTTCAAACTGTATATTAATGATGTCACTTCATTTGATACGATTCTTGATAACCTATTCAAAATTCCGCCAAATAACATAAATATTATATAAATGCCGATACTTTTAATCATTTTCTA  >  CP000730/2457297‑2457570

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.