New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	329202 =	81 (1.220)	6 (0.100)	6/246	7.1	8.1%	intergenic (+70/+73)	USA300HOU_0295/USA300HOU_0296	hypothetical membrane protein/hypothetical protein
	?	CP000730	329255 =	61 (0.990)					intergenic (+123/+20)	USA300HOU_0295/USA300HOU_0296	hypothetical membrane protein/hypothetical protein
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

ACTTTCGTAAACGATTTTGATTAATGGGGAATGTAGAGAACATTTCTTTGTAATTTTATAATCGAATAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCTGAAGCAGAGATGGTTCTTGATGAAACGATATATTCACCAATCCAGTTCATTTCTGAAATTAGAATACTTCCATCAATATTAACTTTT  >  CP000730/329123‑329392                                                                                                                                      |                                                                                                                                          aCTTTCGTAAACGATTTTGATTAATGGGGAATGTAGAGAACATTTCTTTGTAATTTTATAATCGAATAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATg                                                                                                                                   >  1:572213/1‑141 (MQ=255)   tttCGTAAACGATTTTGATTAATGGGGAATGTAGAGAACATTTCTTTGTAATTTTATAATCGAATAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTc                                                                                                                                 <  2:197967/141‑1 (MQ=255)    ttCGTAAACGATTTTGATTAATGGGGAATGTAGAGAACATTTCTTTGTAATTTTATAATCGAATAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCa                                                                                                                                <  1:627777/141‑1 (MQ=255)     tCGTAAACGATTTTGATTAATGGGGAATGTAGAGAACATTTCTTTGTAATTTTATAATCGAATAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATAGTAAACTGCGAACTGGACGC‑TTTTTATTGATGTCaa                                                                                                                               >  2:168421/1‑140 (MQ=255)       gTAAACGATTTTGATTAATGGGGAATGTAGAGAACATTTCTTTGTAATTTTATAATCGAATAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGa                                                                                                                             <  1:426370/141‑1 (MQ=255)         aaaCGATTTTGATTAATGGGGAATGTAGAGAACATTTCTTTGTAATTTTATAATCGAATAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGAtt                                                                                                                           >  1:36626/1‑141 (MQ=255)         aaaCGATTTTGATTAATGGGGAATGTAGAGAACATTTCTTTGTAATTTTATAATCGAATAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGAtt                                                                                                                           <  1:327541/141‑1 (MQ=255)                tttGATTAATGGGGAATGTAGAGAACATTTCTTTGTAATTTTATAATCGAATAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGAttaatttaa                                                                                                                    <  1:581176/141‑1 (MQ=255)                   gATTAATGGGGAATGTAGAGAACATTTCTTTGTAATTTTATAATCGAATAACATACAAAATAAAGCGATCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATgg                                                                                                                 >  1:665138/1‑141 (MQ=255)                      tAATGGGGAATGTAGAGAACATTTCTTTGTAATTTTATAATCGAATAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATg                                                                                                              <  2:265635/141‑1 (MQ=255)                               aTGTAGAGAACATTTCTTTGTAATTTTATAATCGAATAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTatat                                                                                                     >  1:343249/1‑141 (MQ=255)                                   agagAACATTTCTTTGTAATTTTATAATCGAATAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATatgatg                                                                                                 <  1:156068/141‑1 (MQ=255)                                   agagAACATTTCTTTGTAATTTTATAATCGAATAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATatgatg                                                                                                 <  2:328701/141‑1 (MQ=255)                                    gagaACATTTCTTTGTAATTTTATAATCGAATAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATAtgatga                                                                                                <  2:278660/141‑1 (MQ=255)                                      gaACATTTCTTTGTAATTTTATAATCGAATAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGaaa                                                                                              <  1:559280/141‑1 (MQ=255)                                       aaCATTTCTTTGTAATTTTATAATCGAATAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAAc                                                                                             <  1:126703/141‑1 (MQ=255)                                        aCATTTCTTTGTAATTTTATAAACGAATAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACt                                                                                            <  1:178400/141‑1 (MQ=255)                                         cATTTCTTTGTAATTTTATAATCGAATAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATatga                                                                                                   <  2:62113/133‑1 (MQ=255)                                         cATTTCTTTGTAATTTTATAATCGAATAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATatga                                                                                                   >  1:62113/1‑133 (MQ=255)                                          aTTTCTTTGTAATTTTATAATCGAATAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTc                                                                                          <  2:699604/141‑1 (MQ=255)                                          aTTTCTTTGTAATTTTATAATCGAATAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTc                                                                                          <  2:275191/141‑1 (MQ=255)                                           tttCTTTGTAATTTTATAATCGAATAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCt                                                                                         <  1:87149/141‑1 (MQ=255)                                             tCTTTGTAATTTTATAATCGAATAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGAt                                                                                                                            <  1:124106/104‑1 (MQ=255)                                             tCTTTGTAATTTTATAATCGAATAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGAt                                                                                                                            >  2:124106/1‑104 (MQ=255)                                             tCTTTGTAATTTTATAATCGAATAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCTGa                                                                                       <  1:478324/141‑1 (MQ=255)                                             tCTTTGTAATTTTATAATCGAATAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCTGa                                                                                       >  2:524821/1‑141 (MQ=255)                                              cTTTGTAATTTTATAATCGAATAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCTGaa                                                                                      <  1:605013/141‑1 (MQ=255)                                                ttGTAATTTTATAATCGAATAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCTGAAGc                                                                                    >  2:647859/1‑141 (MQ=255)                                                  gTAATTTTATAATCGAATAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCTGAAGCag                                                                                  <  2:79460/141‑1 (MQ=255)                                                   tAATTTTATAATCGAATAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCTGAAGCaga                                                                                 >  1:471862/1‑141 (MQ=255)                                                   tAATTTTATAATCGAATAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCTGAAGCaga                                                                                 >  1:685366/1‑141 (MQ=255)                                                           taATCGAATAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCTGAAGCAGAGATGGTTc                                                                         <  1:280215/141‑1 (MQ=255)                                                           taATCGAATAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCTGAAGCAGAGATGGTTc                                                                         >  2:189397/1‑141 (MQ=255)                                                                 aaTAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATatgat                                                                                                  <  1:503106/110‑1 (MQ=255)                                                                 aaTAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATatgat                                                                                                  >  2:503106/1‑110 (MQ=255)                                                                    aaCATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCTGAAGCAGAGATGGTTCTTGATGaaa                                                                <  2:65424/141‑1 (MQ=255)                                                                      cATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCTGAAGCAGAGATGGTTCTTGATGAAACg                                                              <  2:737068/141‑1 (MQ=255)                                                                        tACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCTGAAGCAGAGATGGTTCTTGATGAAACGat                                                            <  1:226624/141‑1 (MQ=255)                                                                         aCAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCTGAAGCAGAGATGGTTCTTGATGAAACGata                                                           <  2:720665/141‑1 (MQ=255)                                                                                aaaGCGACCAATTTTGCAGTGTTACGTATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCTGAAGCAGAGATGGTTCTTGATGAAACGATATATTCAc                                                    <  1:371254/141‑1 (MQ=255)                                                                                 aaGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCTGAAGCAGAGATGGTTCTTGATGAAACGATATATTCAcc                                                   >  1:175954/1‑141 (MQ=255)                                                                                       ccAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCTGAAGCAGAGATGGTTCTTGATGAAACGATATATTCACCAATCCa                                             <  2:210049/141‑1 (MQ=255)                                                                                          aTTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGGTTAATTTAATGGATGTAATTATATGATGAAACTTCTGAAGCAGAGATGGTTCTTGATGAAACGATATATTCACCAATCCAGtt                                          <  2:570830/141‑1 (MQ=255)                                                                                             ttGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCTGAAGCAGAGATGGTTCTTGATGAAACGATATATTCACCAATCCAGTTCAt                                       <  2:290282/141‑1 (MQ=255)                                                                                               gCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCTGAAGCAGAGATGGTTCTTGATGAAACGATATATTCACCAATCCAGTTCAttt                                     <  2:657763/141‑1 (MQ=255)                                                                                                 aGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCTGAAGCAGAGATGGTTCTTGATGAAACGATATATTCACCAATCCAGTTCATTTCt                                   >  1:753245/1‑141 (MQ=255)                                                                                                  gtgtTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATtat                                                                                                       <  1:362005/72‑1 (MQ=255)                                                                                                  gtgtTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATtat                                                                                                       >  2:362005/1‑72 (MQ=255)                                                                                                  gtgtTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCTGAAGCAGAGATGGTTCTTGATGAAACGATATATTCACCAATCCAGTTCATTTCTg                                  <  2:385244/141‑1 (MQ=255)                                                                                                      tACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCTGAAGCAGAGATGGTTCTTGATGAAACGATATATTCACCAATCCAGTTCATTTCTGAAAt                              <  2:445084/141‑1 (MQ=255)                                                                                                      tACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCTGAAGCAGAGATGGTTCTTGATGAAACGATATATTCACCAATCCAGTTCATTTCTGAAAt                              <  2:445074/141‑1 (MQ=255)                                                                                                       aCGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCTGAAGCAGAGATGGTTCTTGATGAAACGATATATTCACCAATCCAGTTCATTTCTGAAAtt                             <  2:458134/141‑1 (MQ=255)                                                                                                       aCGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCTGAAGCAGAGATGGTTCTTGATGAAACGATATATTCACCAATCCAGTTCATTTCTGAAAtt                             <  1:132731/141‑1 (MQ=255)                                                                                                         gAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCTGAAGCAGAGATGGTTCTTGATGAAACGATATATTCACCAATCCAGTTCATTTCTGAAATTAg                           >  1:569557/1‑141 (MQ=255)                                                                                                              gTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCTGAAGCAGAGATGGTTCTTGATGAAACGATATATTCACCAATCCAGTTCATTTCTGAAATTAGAATAc                      >  1:266525/1‑141 (MQ=255)                                                                                                                aaaCTGCGAACTGGTCGCTTTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCTGAAGCAGAGATGGTTCTTGATGAAACGATATATTCACCAATCCAGTTCATTTCTGAAATTAGAATACt                     >  2:342034/1‑141 (MQ=255)                                                                                                                  aCTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCTGAAGCAGAGATGGTTCTTGATGAAACGATATATTCACCAATCCAGTTCATTTCTGAAATTAGAATACTTcc                  >  2:339212/1‑141 (MQ=255)                                                                                                                    tGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCTGAAGCAGAGATGGTTCTTGATGAAACGATATATTCACCAATCCAGTTCATTTCTGAAATTAGAATACTTCCAt                <  1:720393/141‑1 (MQ=255)                                                                                                                      cGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCTGAAGCAGAGATGGTTCTTGATGAAACGATATATTCACCAATCCAGTTCATTTCTGAAATTAGAATACTTCCATCa              <  1:430914/141‑1 (MQ=255)                                                                                                                        aaCTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCTGAAGCAGAGATGGTTCTTGATGAAACGATATATTCACCAATCCAGTTCATTTCTGAAATTAGAATACTTCCATCAat            >  2:282428/1‑141 (MQ=255)                                                                                                                        aaCTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCTGAAGCAGAGATGGTTCTTGATGAAACGATATATTCACCAATCCAGTTCATTTCTGAAATTAGAATACTTCCATCAat            >  2:340618/1‑141 (MQ=255)                                                                                                                                   tttttATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCTGAAGCAGAGATGGTTCTTGATGAAACGATATAGACGCCAATCCAGTTCATTTCTGAAATTAGAATACTTCCATCAATATTAACtttt  >  1:450444/1‑141 (MQ=255)                                                                                                                                      |                                                                                                                                          ACTTTCGTAAACGATTTTGATTAATGGGGAATGTAGAGAACATTTCTTTGTAATTTTATAATCGAATAACATACAAAATAAAGCGACCAATTTTGCAGTGTTACGAATTGTAAACTGCGAACTGGTCGC‑TTTTTATTGATGTCATGATTAATTTAATGGATGTAATTATATGATGAAACTTCTGAAGCAGAGATGGTTCTTGATGAAACGATATATTCACCAATCCAGTTCATTTCTGAAATTAGAATACTTCCATCAATATTAACTTTT  >  CP000730/329123‑329392

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ 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.