New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	802131 =	47 (1.270)	4 (0.120)	4/236	NT	9.5%	intergenic (+372/+252)	USA300HOU_0748/dgkA1	hypothetical protein/possible diacylglycerol kinase
	?	CP000730	802180 =	33 (0.980)					intergenic (+421/+203)	USA300HOU_0748/dgkA1	hypothetical protein/possible diacylglycerol kinase

AGTGTAACTCATGCATTCATATTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATCCGATTTTTTATAGAATTTGAAAAAGACGCATAAACCACTATGATTTAAAATACAACATCAATCATTTTAGTGGCATGCGCCAAAATTATATGTCTGTT  >  CP000730/801993‑802271                                                                                                                                              |                                                                                                                                             aGTGTAACTCATGCATTCATATTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATaaa                                                                                                                                            <  1:406366/141‑1 (MQ=255) aGTGTAACTCATGCATTCATATTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATaaa                                                                                                                                            <  2:235302/141‑1 (MQ=255)  caccttatattcgtttttattagctttaagctattaccctgtttcaaaaacagacatataattttggcgcatgccactaaaatgattgatgttgtattttaaatcatagtggtttatgcgtctttttcaaattctataaaa                                                                                                                                              <  1:412994‑M1/1‑1 (MQ=255)   tgtAACTCATGCATTCATATTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATc                                                                                                                                          >  1:438404/1‑141 (MQ=255)    tacaCTCATGCATTCATATTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCg                                                                                                                                         >  2:259007/4‑141 (MQ=255)    ccttatattcgtttttattagctttaagctattaccctgtttcaaaaacagacatataattttggcgcatgccactaaaatgattgatgttgtattttaaatcatagtggtttatgcgtcttttttaaattctataaaaaa                                                                                                                                            >  1:151126‑M1/139‑141 (MQ=255)     tAACTCATGCATTCATATTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCgg                                                                                                                                        >  1:431764/1‑141 (MQ=255)     cttatattcgtttttattagctttaagctattaccctgtttcaaaaacagacatataattttggcgcatgccactaaaatgattgatgttgtattttaaatcatagtggtttatgcgtctttttcaaattctataaaAAAt                                                                                                                                           <  2:197519‑M1/4‑1 (MQ=255)       tatattcgtttttattagctttaagctattaccctgtttcaaaaacagacatataattttggcgcatgccactaaaatgattgatgttgtattttaaatcatagtggtttatgcgtctttttcaaattctataaaAAATCg                                                                                                                                         <  2:344788‑M1/6‑1 (MQ=255)       aCTCATGCATTCATATTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGAt                                                                                                                                      <  2:444674/141‑1 (MQ=255)        cccactccctcctatTTTTAAGTACACATTAGCTTTGACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTCTA‑‑‑TCTCATTATTATAAATCGGATg                                                                                                                                     <  1:352755/129‑1 (MQ=37)           aTGCATTCATATTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAAt                                                                                                                                  >  1:41947/1‑141 (MQ=255)            tcgtttttattagctttaagctattaccctgtttcaaaaacagacatataattttggcgcatgccactaaaatgattgatgttgtattttaaatcatagtggtttatgcgtctttttcaaattctataaaAAATCGGATGa                                                                                                                                    <  1:333043‑M1/11‑1 (MQ=255)              cATTCATATTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAAtgtg                                                                                                                               <  2:328026/141‑1 (MQ=255)              cATTCATATTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAAtgtg                                                                                                                               <  2:403821/141‑1 (MQ=255)               aTTCATATTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAATgtgt                                                                                                                              <  1:37060/141‑1 (MQ=255)                ttCATATTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAATGTGtt                                                                                                                             <  2:448977/141‑1 (MQ=255)                     atTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAATGTGTTAATCt                                                                                                                        >  1:197519/1‑141 (MQ=255)                      tttttAAGTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAATGTGTTAATCTa                                                                                                                       >  1:186134/1‑141 (MQ=255)                        tttAAGTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAATGTGTTAATCTATg                                                                                                                     >  1:109323/1‑141 (MQ=255)                            aGTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAATGTGTTAATCTATGGCAg                                                                                                                 >  2:199617/1‑141 (MQ=255)                             gTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTATTTTA‑‑‑TCTTATTATTATAAATCGGATGAATGTGTTAATCTATGGCAGa                                                                                                                >  2:181019/1‑141 (MQ=255)                             gTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGTATTAATGTGTTAATCTATGTCAGa                                                                                                                >  2:362151/1‑141 (MQ=255)                               acacATTAGCTGTGACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAATGTGTTAATCTATGGCAGAtt                                                                                                              >  1:72245/1‑141 (MQ=255)                                       cctgtttcaaaaacagacatataattttggcgcatgccactaaaatgattgatgttgtattttaaatcatagtggtttatgcgtctttttcaaattctataaaAAATCGGATGAATGTGTTAATCTATGGCAGATTACACg                                                                                                         >  2:452673‑M1/104‑141 (MQ=255)                                          gtgACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTATCTTCTTATTATTATAAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCa                                                                                                      >  2:407630/1‑141 (MQ=255)                                          gtgACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATcc                                                                                                   >  2:312117/1‑141 (MQ=255)                                           tgACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATCCg                                                                                                  <  1:55088/141‑1 (MQ=255)                                            gACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATCCGa                                                                                                 <  1:278706/141‑1 (MQ=255)                                               aaaaacagacatataattttggcgcatgccactaaaatgattgatgttgtattttaaatcatagtggtttatgcgtctttttcaaattctataaaAAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATCCGa                                                                                                 >  2:430736‑M1/96‑141 (MQ=255)                                                aaaacagacatataattttggcgcatgccactaaaatgattgatgttgtattttaaatcatagtggtttatgcgtctttttcaaattctataaaAAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATcc                                                                                                   >  2:57230‑M1/95‑138 (MQ=255)                                                aaaacagacatataattttggcgcatgccactaaaatgattgatgttgtattttaaatcatagtggtttatgcgtctttttcaaattctataaaAAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATcc                                                                                                   <  1:57230‑M1/44‑1 (MQ=255)                                                aaTGTTAAAGGATCGCTACATAATCAATCATTAGTCGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATCCGAtttt                                                                                             <  2:303867/141‑1 (MQ=255)                                                  tGATAAAGAATCGCTACATAATCACTCAGTAGTCGTTCTTGATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATCCGAtttttt                                                                                           <  2:402323/141‑1 (MQ=255)                                                        aGAATCGCTACATAATCAATCATTAGTCGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATCCGATTTTTTATAGaa                                                                                     >  2:54188/1‑141 (MQ=255)                                                        aGAATCGCTACATAATCAATCATTAGTCGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATCCGATTTTTTATAGaa                                                                                     >  2:292502/1‑141 (MQ=255)                                                          aaTCGCTACATAATCAATCATTAGTCGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATCCGATTTTTTATAGAAtt                                                                                   <  1:345463/141‑1 (MQ=255)                                                           aTCGCTACATAATCAATCATTAGTCGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATCCGATTTTTTATAGAAttt                                                                                  <  2:208595/141‑1 (MQ=255)                                                             cGCTACATAATCAATCATTAGTCGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATCCGATTTTTTATAGAATTTGa                                                                                <  1:423289/141‑1 (MQ=255)                                                                 aCATAATCAATCATTAGTCGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATCCGATTTTTTATAGAATTTGaaaaa                                                                            >  2:370945/1‑141 (MQ=255)                                                                             aTTAGTCGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATCCGATTTTTTATAGAATTTGAAAAAGACGCATAAAcc                                                                >  1:364298/1‑141 (MQ=255)                                                                             aTTAGTCGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATCCGATTTTTTATAGAATTTGAAAAAGACGCATAAAcc                                                                <  1:259007/141‑1 (MQ=255)                                                                                 gTCGTTCTTTATCATTTCCGGCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATCCGATTTTTTATAGAATTTGAAAAAGACGCATAAACCACTa                                                            <  1:397833/141‑1 (MQ=255)                                                                                  tCGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATCCGATTTTTTATAGAATTTGAAAAAGACGCATAAACCACTAt                                                           >  2:268807/1‑141 (MQ=255)                                                                                   cGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATCCGATTTTTTATAGAATTTGAAAAAGACGCATAAACCACTATg                                                          >  2:214010/1‑141 (MQ=255)                                                                                     ttCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATCCGATTTTTTATAGANTTTGAAAAAGACNCATAAACCACTATGAt                                                        <  1:328330/141‑1 (MQ=255)                                                                                      tCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAATTTGTTAATCTATGACAGATTACACGTCTTCCAATTTTTTATAGAATTTGAAAAAGACGCATATACCACTATGAtt                                                       >  2:166853/1‑141 (MQ=255)                                                                                           aTCATTTCCGTTCCTCTCTTAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATCCGATTTTTTATAGAATTTGAAAAAGACTCATAAACCACTATGATTTaaaa                                                  >  2:188323/1‑141 (MQ=255)                                                                                             cATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATCCGATTTTTTATAGAATTTGAAAAAGACGCATAAACCACTATGATTTAAAATa                                                >  1:170763/1‑141 (MQ=255)                                                                                             cATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATCATAAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATCCGATTTTTTATAGAATTTGAAAAAGACGCATAAACCACTATGATTTAAAATa                                                <  2:424332/141‑1 (MQ=255)                                                                                                ttCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATCCGATTTTTTATAGAATTTGAAAAAGACGCATAAACCACTATGATTTAAAATacaa                                             <  1:252042/141‑1 (MQ=255)                                                                                                ttCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATCCGATTTTTTATAGAATTTGAAAAAGACGCATAAACCACTATGATTTAAAATacaa                                             >  2:272300/1‑141 (MQ=255)                                                                                                  ccGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATCCGATTTTTTATAGAATTTGAAAAAGACGCATAAACCACTATGATTTAAAATacaaca                                           >  2:265784/1‑141 (MQ=255)                                                                                                   cGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATCCGATTTTTTATAGAATTTGAAAAAGACGCATAAACCACTATGATTTAAAATACAACat                                          >  1:330612/1‑141 (MQ=255)                                                                                                       ccGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATCCGATTTTTTATAGAATTTGAAAAAGACGCATAAACCACTATGATTTAAAATACAACatcaat                                      <  2:109323/141‑1 (MQ=255)                                                                                                       ccGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATCCGATTTTTTATAGAATTTGAAAAAGACGCATAAACCACTATGATTTAAAATACAACatcaat                                      >  2:336809/1‑141 (MQ=255)                                                                                                       ccGCTCTCAATAAAAGTTAGATTA‑‑‑TCTTTTTAGTATAAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATCCGATTTTTTATAGAATTGGAAAAAGACGAATAAACCACTATTCTTTAAAATACAACataaaa                                      >  2:106193/1‑140 (MQ=255)                                                                                                                                  tCTTATTATTATAAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATCCGATTTTTTATAGAATTTGAAAAAGACGCATAAACCACTATGATTTAAAATACAACATCAATCATTTTAGTGGCATGCGCCAAAAt              >  2:50361/1‑141 (MQ=255)                                                                                                                                        tattatAAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATCCGATTTTTTATAGAATTTGAAAAAGACGCATAAACCACTATGATTTAAAATACAACATCAATCATTTTAGTGGCATGCGCCAAAATTATATg        <  1:57008/141‑1 (MQ=255)                                                                                                                                            ataAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATCCGATTTTTTATAGAATTTGAAAAAGACGCATAAACCACTATGATTTAAAATACAACATCAATCATTTTAGTGGCATGCGCCAAAATTATATGTCTg    <  1:268807/141‑1 (MQ=255)                                                                                                                                              AAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATCCGATTTTTTATAGAATTTGAAAAAGACGCATAAACCACTATGATTTAAAATACAACATCAATCATTTTAGTGGCATGCGCCAAAATTATATGTCTGtt  <  1:308645‑M1/141‑1 (MQ=255)                                                                                                                                              |                                                                                                                                             AGTGTAACTCATGCATTCATATTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTTCTTTATCATTTCCGTCCCGCTCTCAATAAATGTTAGTTTA‑‑‑TCTTATTATTATAAATCGGATGAATGTGTTAATCTATGGCAGATTACACGTCATCCGATTTTTTATAGAATTTGAAAAAGACGCATAAACCACTATGATTTAAAATACAACATCAATCATTTTAGTGGCATGCGCCAAAATTATATGTCTGTT  >  CP000730/801993‑802271

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.