New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	2687471 =	58 (1.540)	3 (0.090)	3/256	5.8	5.4%	intergenic (+25/+44)	clp/USA300HOU_2543	S14 family endopeptidase Clp/hypothetical protein
	?	CP000730	2687511 =	52 (1.500)					intergenic (+65/+4)	clp/USA300HOU_2543	S14 family endopeptidase Clp/hypothetical protein
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

GTATTGTTGAACAGCAAGTACGTGACAAAATTACAGATTACTATTTAGATCATACAGACGTTAAACATGTGGATATAGATGTTGAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTCCCTGGAAAATGATTCGCTGTGTGCTGTTCTGTTCCACAACAATCACGATTAATGTCACATGTACCACATTTTCCTTGTTTTGAACGCTT  >  CP000730/2687331‑2687610                                                                                                                                             |                                                                                                                                            gTATTGTTGAACAGCAAGTACGTGACAAAATTACAGATTACTATTTAGATCATACAGACGTTAAACATGTGGATATAGATGTTGAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCa                                                                                                                                             >  1:2474/1‑141 (MQ=255)    ttgttgAACAGCAAGTACGTGACAAAATTACAGATTACTATTTAGATCATACAGACGTTAAACATGTGGATATAGATGTTGAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCaaaa                                                                                                                                          <  2:294750/141‑1 (MQ=255)       ttgAACAGCAAGTACGTGACAAAATTACAGATTACTATTTAGATCATACAGACGTTAAACATGTGGATATAGATGTTGAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATg                                                                                                                                       >  1:197997/1‑141 (MQ=255)          aaCAGCAAGTACGTGACAAAATTACAGATTACTATTTAGATCATACAGACGTTAAACATGTGGATATAGATGTTGAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGc                                                                                                                                    >  2:166209/1‑141 (MQ=255)           aCAGCAAGTACGTGACAAAATTACAGATTACTATTTAGATCATACAGACGTTAAACATGTGGATATAGATGTTGAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCa                                                                                                                                   >  2:115382/1‑141 (MQ=255)              gCAAGTACGTGACAAAATTACAGATTACTATTTAGATCATACAGACGTTAAACATGTGGATATAGATGTTGAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCa                                                                                                                                <  1:417653/141‑1 (MQ=255)                  gTACGTGACAAAATTACAGATTACTATTTAGATCATACAGACGTTAAACATGTGGATATAGATGTTGAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTc                                                                                                                            >  2:388224/1‑141 (MQ=255)                  gTACGTGACAAAATTACAGATTACTATTTAGATCATACAGACGTTAAACATGTGGATATAGATGTTGAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTc                                                                                                                            >  2:269475/1‑141 (MQ=255)                   tACGTGACAAAATTACAGATTACTATTTAGATCATACAGACGTTAAACATGTGGATATAGATGTTGAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCg                                                                                                                           <  1:20468/141‑1 (MQ=255)                               ttACAGATTACTATTTAGATCATACAGACGTTAAACATGTGGATATAGATGTTGAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCtgtg                                                                                                               >  2:26428/1‑141 (MQ=255)                                  cAGATTACTATTTAGATCATACAGACGTTAAACATGTGGATATAGATGTTGAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTc                                                                                                            >  1:16321/1‑141 (MQ=255)                                    gATTACTATTTAGATCATACAGACGTTAAACATGTGGATATAGATGTTGAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCAt                                                                                                          >  1:189535/1‑141 (MQ=255)                                      agcgtATTTAGATCATACAGACGTTAAACATGTGGATATAGATGTTGAGGATAACGAATCATTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCAttt                                                                                                        <  1:7437/137‑1 (MQ=255)                                       tACTATTTAGATCATACAGACGTTAAACATGTGGATATAGATGTTGAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCAtttt                                                                                                       <  1:93450/141‑1 (MQ=255)                                        aCTATTTAGATCATACAGACGTTAAACATGTGGATATAGATGTTGAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCAttttt                                                                                                      >  2:349861/1‑141 (MQ=255)                                            tttAGAGCATACAGACGTTAAACATGTGGATATCGATGGTGAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCAtttttttca                                                                                                  <  2:63896/141‑3 (MQ=255)                                             ttAGATCATACAGACGTTAAACATGTGGATATAGATGTTGAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAat                                                                                                 <  1:162355/141‑1 (MQ=255)                                              tAGATCATACAGACGTTAAACATGTGGATATAGATGTTGAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAatt                                                                                                >  2:181364/1‑141 (MQ=255)                                                   cATACAGACGTTAAACATGTGGATATAGATGTTGAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTc                                                                                           >  1:47460/1‑141 (MQ=255)                                                   cATACAGACGTTAAACATGTGGATATAGATGTTGAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTc                                                                                           <  1:240528/141‑1 (MQ=255)                                                     tACAGACGTTAAACATGTGGATATAGATGTTGAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTccc                                                                                         >  1:308408/1‑141 (MQ=255)                                                     tACAGACGTTAAACATGTGGATATAGATGTTGAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTccc                                                                                         >  2:133797/1‑141 (MQ=255)                                                            gTTAAACATGTGGATATAGATGTTGAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTCCCTGGaaaa                                                                                  <  1:248748/141‑1 (MQ=255)                                                             ttAAACATGTGGATATAGATGTTGAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTCCCTGGAAAAt                                                                                 >  1:180025/1‑141 (MQ=255)                                                              tAAACATGTGGATATAGATGTTGAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTCCCTGGAAAATg                                                                                >  1:371111/1‑141 (MQ=255)                                                               aaaCATGTGGATATAGATGTTGAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTCCCTGGAAAATGa                                                                               <  1:114227/141‑1 (MQ=255)                                                                   aTGTGGATATAGATGTTGAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTCCCTGGAAAATGATTCg                                                                           <  2:372864/141‑1 (MQ=255)                                                                          tataGATGTTGAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTCCCTGGAAAATGATTCGCtgtgtg                                                                    <  1:189732/141‑1 (MQ=255)                                                                           ataGATGTTGAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTCCCTGGAAAATGATTCGCTGTGTGc                                                                   <  2:226492/141‑1 (MQ=255)                                                                            taGATGTTGAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTCCCTGGAAAATGATTCGCTGTGTGct                                                                  >  1:129011/1‑141 (MQ=255)                                                                            taGATGTTGAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTCCCTGGAAAATGATTCGCTGTGTGct                                                                  >  1:183547/1‑141 (MQ=255)                                                                              gATGTTGAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTCCCTGGAAAATGATTCGCTGTGTGctgt                                                                <  2:16321/141‑1 (MQ=255)                                                                               aTGTTGAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTCCCTGGAAAATGATTCGCTGTGTGctgtt                                                               <  2:61455/141‑1 (MQ=255)                                                                                  ttGAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTCCCTGGAAAATGATTCGCTGTGTGctgttctg                                                            >  2:190998/1‑141 (MQ=255)                                                                                    gAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTCCCTGGAAAATGATTCGCTGTGTGctgttctgtt                                                          >  2:113570/1‑141 (MQ=255)                                                                                     aGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTCCCTGGAAAATGATTCGCTGTGTGCtgttctgttc                                                         >  1:389194/1‑141 (MQ=255)                                                                                      ggATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCAGCAAAAATTAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTCCCTGGAAAATGATTCGCTGTGTGCTGTTCTGTTcc                                                        <  1:130386/141‑1 (MQ=255)                                                                                         tAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTCCCTGGAAAATGATTCGCTGTGTGCTGTTCTGTTCcaca                                                     >  2:398151/1‑141 (MQ=255)                                                                                          aaCGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTCCCTGGAAAATGATTCGCTGTGTGCTGTTCTGTTCCacaa                                                    <  1:18099/141‑1 (MQ=255)                                                                                               aTTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTCCCTGGAAAATGATTCGCTGTGTGCTGTTCTGTTCCACAACAATc                                               <  2:123962/141‑1 (MQ=255)                                                                                               aTTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTCCCTGGAAAATGATTCGCTGTGTGCTGTTCTGTTCCACAACAATc                                               <  1:8536/141‑1 (MQ=255)                                                                                                  aGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTCCCTGGAAAATGATTCGCTGTGTGCTGTTCTGTTCCACAACAATCACg                                            >  1:311112/1‑141 (MQ=255)                                                                                                   gTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTCCCTGGAAAATGATTCGCTGTGTGCTGTTCTGTTCCACAACAATCACGa                                           >  1:410689/1‑141 (MQ=255)                                                                                                     cGTACAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTCCCTGGAAAATGATTCGCTGTGTGCTGTTCTGTTCCACAACAATCACGAtt                                         <  1:38499/141‑1 (MQ=255)                                                                                                        tatttaccttttaCGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTCCCTGGAAAATGATTCGCTGTGTGCTGTTCTGTTCCACAACAATCACGATTAAt                                      >  1:145569/13‑141 (MQ=255)                                                                                                               aaaTAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTCCCTGGAAAATGATTCGCTGTGTGCTGTTCTGTTCCACAACAATCACGATTAATGTCACAt                               >  2:187790/1‑141 (MQ=255)                                                                                                                  tAACGACACTTTAACATATCGCGAATCAAAAATGACCATCAGGTCGCCCTTGCCTGTGCTCATGTTTTTAATTATTTCGCTGGAAAATGATTCGCTGTGTGCTGTTCTGTTCCACAACAATCACGATTAATGTCACATGTa                            >  2:354614/1‑141 (MQ=255)                                                                                                                       acacTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGACGGTGCTCATTTTTTTAATTATTTCCCTGGAAAATGATTCGCTGTGTGCTTTTCTGTTCCACAACACTCACGATTAATGTCACATGTACgaca                       >  1:393627/1‑141 (MQ=255)                                                                                                                         acTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTCCCTGGAAAATGATTCGCTGTGTGCTGTTCTGTTCCACAACAATCACGATTAATGTCACATGTACCACAtt                     <  1:126893/141‑1 (MQ=255)                                                                                                                                  tatCGCGCATCAAAAATGAGCATCAGGGCGCCCTTGCCTGTGCTCATTTTTTGAATTATTGCCCTGGAAAAGGATTCGCTTTGTGCTGTTCTGTTCCACAACAATCACGATTAATGTCACATGTACCACATTTTCCTTGtt            >  1:378072/1‑141 (MQ=255)                                                                                                                                   atCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTCCCTGGAAAATGATTCGCTGTGTGCTGTTCTGTTCCACAACAATCACGATTAATGTCACATGTACCACATTTTCCTTGttt           <  1:166209/141‑1 (MQ=255)                                                                                                                                    tCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTCCCTGGAAAATGATTCGCTGTGTGCTGTTCTGTTCCACAACAATCACGATTAATGTCACATGTACCACATTTTCCTTGtttt          >  2:64550/1‑141 (MQ=255)                                                                                                                                    tCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTCCCTGGAAAATGATTCGCTGTGTGCTGTTCTGTTCCACAACAATCACGATTAATGTCACATGTACCACATTTTCCTTGtttt          >  1:58118/1‑141 (MQ=255)                                                                                                                                    tCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTCCCTGGAAAATGATTCGCTGTGTGCTGTTCTGTTCCACAACAATCACGATTAATGTCACATGTACCACATTTTCCTTGtttt          >  1:417471/1‑141 (MQ=255)                                                                                                                                       cgcATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTCCCTGGAAAATGATTCGCTGTGTGCTGTTCTGTTCCACAACAATCACGATTAATGTCACATGTACCACATTTTCCTTGTTTTGaa       >  2:233067/1‑141 (MQ=255)                                                                                                                                         cATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTCCCTGGAAAATGATTCGCTGTGTGCTGTTCTGTTCCACAACAATCACGATTAGTGTCACATGTACCACATTTTCCTTGTTTTGAACg     <  1:309057/141‑1 (MQ=255)                                                                                                                                          aTCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGATCATTTTTTTAATAATTTCCCTGGAAAATGATTCGCTGTGTGCTGTTCTGTTCCACAACAATCACGATTAATGTCACATGTACAACATTTTCCTTGTTTTGAACGc    >  1:146868/1‑141 (MQ=255)                                                                                                                                            cAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTCCCTGGAAAATGATTCGCTGTGTGCTGTTCTGTTCCACAACAATCACTATTAATGTCACATGTACCACATTTTCCTTGTTTTGAACGCtt  <  2:153897/141‑1 (MQ=255)                                                                                                                                             |                                                                                                                                            GTATTGTTGAACAGCAAGTACGTGACAAAATTACAGATTACTATTTAGATCATACAGACGTTAAACATGTGGATATAGATGTTGAGGATAACGAATTAGTCGTAAAAGGTAAATAACGACACTTTAACATATCGCGCATCAAAAATGAGCATCAGGTCGCCCTTGCCTGTGCTCATTTTTTTAATTATTTCCCTGGAAAATGATTCGCTGTGTGCTGTTCTGTTCCACAACAATCACGATTAATGTCACATGTACCACATTTTCCTTGTTTTGAACGCTT  >  CP000730/2687331‑2687610

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