New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	6133946 =	49 (1.090)	4 (0.090)	4/234	NT	8.2%	intergenic (‑38/‑158)	copA‑II/PP_5381	copper resistance protein A/hypothetical protein
	?	NC_002947	6133971 =	43 (1.010)					intergenic (‑63/‑133)	copA‑II/PP_5381	copper resistance protein A/hypothetical protein

GGCCAGGGCTGGTCACAGCCCAGACCGGCGCGCGCCACATGCCCAGTCCACCCAGTAATCCAGTAGCGGCCAGGCCTTTGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCAAGTCACAGTGGGAGAAAGCGATTTGAAACTGCCACATAAAAGATTCCCGAGTGATTACATTTCTGTAAGCTCGGA  >  NC_002947/6133797‑6134091                                                                                                                                                      |                                                                                                                                                  taaacacgggcagcatgagaactgctgatccgagcttacagaaatgtaatcactcgggaatcttttatgtggcagtttcaaatcgctttctcccactgtgacttgcgctttcgagtaattccctaagacttgtgggatccccaaggaagc                                                                                                                                                   <  2:584954‑M1/1‑1 (MQ=255)       ggCTGGTCACAGCCCAGACCGGCGCGCGCCACATGCCCAGTCCACCCAGTAATCCAGTAGCGGCCAGGCCTTTGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGcc                                                                                                                                             >  1:667291/1‑150 (MQ=255)        gCTGGTCACAGCCCAGACCGGCGCGCGCCACATGCCCAGTCCACCCAGTAATCCAGTAGCGGCCAGGCCTTTGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCg                                                                                                                                            >  1:785729/1‑150 (MQ=255)          tGGTCACAGCCCAGACCGGCGCGCGCCACATGCCCAGTCCACCCAGTAATCCAGTAGCGGCCAGGCCTTTGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCt                                                                                                                                          >  2:968596/1‑150 (MQ=255)             tCACAGCCCAGACCGGCGCGCGCCACATGCCCAGTCCACCCAGTAATCCAGTAGCGGCCAGGCCTTTGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGa                                                                                                                                       >  2:1100071/1‑150 (MQ=255)               acaGCCCAGACCGGCGCGCGCCACATGCCCAGTCCACCCAGTAATCCAGTAGCGGCCAGGCCTTTGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGa                                                                                                                                       <  1:1022419/148‑1 (MQ=255)               acaGCCCAGACCGGCGCGCGCCACATGCCCAGTCCACCCAGTAATCCAGTAGCGGCCAGGCCTTTGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGa                                                                                                                                       >  2:1022419/1‑148 (MQ=255)                  gCCCAGACCGGCGCGCGCCACATGCCCAGTCCACCCAGTAATCCAGTAGCGGCCAGGCCTTTGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCa                                                                                                                                  <  2:667291/150‑1 (MQ=255)                      aGACCGGCGCGCGCCACATGCCCAGTCCACCCAGTAATCCAGTAGCGCTGAGGCGTAATACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGCTAATTCGCTGATATCCGGGCCGCTCGATCGCAGGcc                                                                                                                              >  2:709713/1‑150 (MQ=255)                           ggCGCGCGCCACATGCCCAGTCCACCCAGTAATCCAGTAGCGGCCAGGCCTTTGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCt                                                                                                                         >  2:612645/1‑150 (MQ=255)                                gcgcCACATGCCCAGTCCACCCAGTAATCCAGTAGCGGCCAGGCCTTTGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCtt                                                                                                                    >  2:78665/1‑150 (MQ=255)                                 cgcCACATGCCCAGTCCACCCAGTAATCCAGTAGCGGCCAGGCCTTTGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTg                                                                                                                   <  1:600143/150‑1 (MQ=255)                                  gcCACATGCCCAGTCCACCCAGTAATCCAGTAGCGGCCAGGCCTTTGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTgg                                                                                                                  <  2:785729/150‑1 (MQ=255)                                  gcCACATGCCCAGTCCACCCAGTAATCCAGTAGCGGCCAGGCCTTTGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTgg                                                                                                                  <  1:1100071/150‑1 (MQ=255)                                  gcCACATGCCCAGTCCACCCAGTAATCCAGTAGCGGCCAGGCCTTTGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCACTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTgg                                                                                                                  <  1:397264/150‑1 (MQ=255)                                         gCCCAGTCCACCCAGTAATCCAGTAGCGGCCAGGCCTTTGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGAt                                                                                                              >  2:480125/1‑147 (MQ=255)                                         gCCCAGTCCACCCAGTAATCCAGTAGCGGCCAGGCCTTTGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGAt                                                                                                              <  1:480125/147‑1 (MQ=255)                                          cccAGTCCACCCAGTAATCCAGTAGCGGCCAGGCCTTTGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATACTTCTCGGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCca                                                                                                          <  1:936991/150‑1 (MQ=255)                                           ccAGTCCACCCAGTAATCCAGTAGCGGCCAGGCCTTTGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCt                                                                                                                     >  1:352914/1‑138 (MQ=255)                                           ccAGTCCACCCAGTAATCCAGTAGCGGCCAGGCCTTTGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCt                                                                                                                     <  2:352914/138‑1 (MQ=255)                                             aGTCCACCCAGTAATCCAGTAGCGGCCAGGCCTTTGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACaa                                                                                                       <  1:794921/150‑1 (MQ=255)                                                    ccAGTAATCCAGTAGCGGCCAGGCCTTTGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAg                                                                                                >  1:1049011/1‑150 (MQ=255)                                                         ggaatcttttatgtggcagtttcaaatcgctttctcccactgtgacttgcgctttcgagcaagtccctaagacttgtgggatccccaaggaagCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTg                                                                                                                   <  1:354666‑M1/33‑1 (MQ=255)                                                         ggaatcttttatgtggcagtttcaaatcgctttctcccactgtgacttgcgctttcgagcaagtccctaagacttgtgggatccccaaggaagCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTg                                                                                                                   >  2:354666‑M1/94‑126 (MQ=255)                                                                tAGCGGCCAGGCCTTTGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGa                                                                                    >  1:281985/1‑150 (MQ=255)                                                                  gCGGCCAGGCCTTTGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGaaa                                                                                  >  2:485221/1‑150 (MQ=255)                                                                  gCGGCCAGGCCTTTGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGaaa                                                                                  <  1:98781/150‑1 (MQ=255)                                                                       cAGGCCTTTGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCa                                                                             >  1:792710/1‑150 (MQ=255)                                                                       cAGGCCTTTGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCa                                                                             <  1:485221/150‑1 (MQ=255)                                                                        aGGCCTTTGACGAAAGATCATCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCaa                                                                            <  2:792710/150‑1 (MQ=255)                                                                            cTTTGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCAAGTca                                                                        <  2:281985/150‑1 (MQ=255)                                                                             tttGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCAAGTcac                                                                       <  2:769436/150‑1 (MQ=255)                                                                                  cGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCAAGTCACAGTgg                                                                  <  2:765196/150‑1 (MQ=255)                                                                                    aaaGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCAAGTCACAGTGGga                                                                <  2:99008/150‑1 (MQ=255)                                                                                      ctttctcccactgtgtcttgcgctttcgagcaagtccctaagacttgtgggatccccaaggaagCCGGGCCGCTCGATCGCAGGCCCGGCt                                                                                                                         >  1:269967‑M1/65‑91 (MQ=255)                                                                                      ctttctcccactgtgacttgcgctttcgagcaagtccctaagacttgtgggatccccaaggaagCCGGGCCGCTCGATCGCAGGCCCGGCt                                                                                                                         <  2:269967‑M1/27‑1 (MQ=255)                                                                                            tctcGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGTCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTc                                                                                      <  1:945391/120‑1 (MQ=255)                                                                                            tctcGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGTCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTc                                                                                      >  2:945391/1‑120 (MQ=255)                                                                                                gTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCAAGTCACAGTGGGAGAAAGCGATTTg                                                    >  1:633189/1‑150 (MQ=255)                                                                                                   gTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCAAGTCACAGTGGGAGAAAGCGATTTGaaa                                                 >  2:371275/1‑150 (MQ=255)                                                                                                               aTGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCAAGTCACAGTGGGAGAAAGCGATTTGAAACTGCCACATaaa                                     <  1:612645/150‑1 (MQ=255)                                                                                                                tGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCAAGTCACAGTGGGAGAAAGCGATTTGAAACTGCCACATaaaa                                    <  1:939148/150‑1 (MQ=255)                                                                                                                 gCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACaa                                                                                                       <  2:932656/82‑1 (MQ=255)                                                                                                                 gCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACaa                                                                                                       >  1:932656/1‑82 (MQ=255)                                                                                                                  ccGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCAAGTCAGAGTg                                                                   >  1:369330/1‑117 (MQ=255)                                                                                                                  ccGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCAAGCCACAGTg                                                                   <  2:369330/117‑1 (MQ=255)                                                                                                                         gtCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCAAGTCACAGTGGGAGAAAGCGATTTGAAACTGCCACATAAAAGATTCCCGa                           <  1:371275/150‑1 (MQ=255)                                                                                                                             agtcagtcAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCAAGTCACAGTGGGAGAAAGCGATTTGAAACTGCCACATAAAAGATTCCCGAGTGa                       >  2:768611/1‑150 (MQ=255)                                                                                                                              gtcagtcaGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCAAGTCACAGTGGGAGAAAGCGATTTGAAACTGCCACATAAAAGATTCCCGAGTGAt                      <  2:1049011/150‑1 (MQ=255)                                                                                                                                      gATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCAAGTCACAGTGGGAGAAAGCGATTTGAAACTGCCACATAAAAGATTCCCGAGTGATTACATTTc              >  2:538036/1‑150 (MQ=255)                                                                                                                                       aTAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCTCGGCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCAAGTCACAGTGGGAGAAAGCGATTTGAAACTGCCACATAAAAGATTCCCGAGTGATTACATTTCt             <  1:968596/150‑1 (MQ=255)                                                                                                                                        tAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCAAGTCACAGTGGGAGAAAGCGATTTGAAACTGCCACATAAAAGATTCCCGAGTGATTACATTTCTg            <  1:538036/150‑1 (MQ=255)                                                                                                                                              gCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCAAGTCACAGTGGGAGAAAGCGATTTGAAACTGCCACATAAAAGATTCCCGAGTGATTACATTTCTg            <  2:779752/144‑1 (MQ=255)                                                                                                                                              gCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCAAGTCACAGTGGGAGAAAGCGATTTGAAACTGCCACATAAAAGATTCCCGAGTGATTACATTTCTg            >  1:779752/1‑144 (MQ=255)                                                                                                                                                  atatCCGGGCCGCTCGATCGCAGGCCCGGCTTCAGTGTGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCAAGTCACAGTGGGAGAAAGCGATTTGAAACTGCCACATAAAAGATTCCCGCGTGATTACATTTTTGTAAGCTCGGa  >  1:584954/1‑150 (MQ=255)                                                                                                                                                      |                                                                                                                                                  GGCCAGGGCTGGTCACAGCCCAGACCGGCGCGCGCCACATGCCCAGTCCACCCAGTAATCCAGTAGCGGCCAGGCCTTTGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCAAGTCACAGTGGGAGAAAGCGATTTGAAACTGCCACATAAAAGATTCCCGAGTGATTACATTTCTGTAAGCTCGGA  >  NC_002947/6133797‑6134091

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ 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.