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

GGCGCGCGCCACATGCCCAGTCCACCCAGTAATCCAGTAGCGGCCAGGCCTTTGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCAAGTCACAGTGGGAGAAAGCGATTTGAAACTGCCACATAAAAGATTCCCGAGTGATTACATTTCTGTAAGCTCGGATCAGCAGTTCTCATGCTGCCCGTGTTTAT  >  NC_002947/6133823‑6134120                                                                                                                                                     |                                                                                                                                                      ggCGCGCGCCACATGCCCAGTCCACCCAGTAATCCAGTAGCGGCCAGGCCTTTGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCt                                                                                                                                                      >  2:612645/1‑150 (MQ=255)      gcgcCACATGCCCAGTCCACCCAGTAATCCAGTAGCGGCCAGGCCTTTGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCtt                                                                                                                                                 >  2:78665/1‑150 (MQ=255)       cgcCACATGCCCAGTCCACCCAGTAATCCAGTAGCGGCCAGGCCTTTGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTg                                                                                                                                                <  1:600143/150‑1 (MQ=255)        gcCACATGCCCAGTCCACCCAGTAATCCAGTAGCGGCCAGGCCTTTGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTgg                                                                                                                                               <  1:1100071/150‑1 (MQ=255)        gcCACATGCCCAGTCCACCCAGTAATCCAGTAGCGGCCAGGCCTTTGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTgg                                                                                                                                               <  2:785729/150‑1 (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                                                                                                                   >  2:945391/1‑120 (MQ=255)                                                                  tctcGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGTCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTc                                                                                                                   <  1:945391/120‑1 (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                                         >  1:779752/1‑144 (MQ=255)                                                                                                                    gCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCAAGTCACAGTGGGAGAAAGCGATTTGAAACTGCCACATAAAAGATTCCCGAGTGATTACATTTCTg                                         <  2:779752/144‑1 (MQ=255)                                                                                                                    caaggaagccgggcctgcgatcgagcggcccggCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCAAGTCACAGTGGGAGAAAGCGATTTGAAACTGCCACATAAAAGATTcc                                                           <  1:354666‑M2/93‑1 (MQ=255)                                                                                                                    caaggaagccgggcctgcgatcgagcggcccggCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCAAGTCACAGTGGGAGAAAGCGATTTGAAACTGCCACATAAAAGATTcc                                                           >  2:354666‑M2/34‑126 (MQ=255)                                                                                                                        atatCCGGGCCGCTCGATCGCAGGCCCGGCTTCAGTGTGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCAAGTCACAGTGGGAGAAAGCGATTTGAAACTGCCACATAAAAGATTCCCGCGTGATTACATTTTTGTAAGCTCGGa                               >  1:584954/1‑150 (MQ=255)                                                                                                                          agccgggcctgcgatcgagcggcccggCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCAAGTCACAGTGGGAGAAAg                                                                                        <  2:269967‑M2/64‑1 (MQ=255)                                                                                                                          agccgggcctgcgatcgagcggcccggCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCAAGACACAGTGGGAGAAAg                                                                                        >  1:269967‑M2/28‑91 (MQ=255)                                                                                                                                     tCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAGGTGCTTGCTCGAAAGCGCAAGTGACAGTGGGAGTAAGCGATTTGAAACTGCCACATAAAATATTCCCGAGTGATTCCATTTCTGTAAGCGAGGAACACCAGATCTCa                  >  2:92613/1‑150 (MQ=255)                                                                                                                                      cGATCGCAGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCAAGTCACAGTGGGAGAAAGCGATTTGAAACTGCCACATAAAAGATTCCCGAGTGATTACATTTCTGTAAGCTCGGATCAGCAGTTCTCAt                 <  1:768611/150‑1 (MQ=255)                                                                                                                                            cAGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCAAGTCACAGTGGGAGAAAGCGATTTGAAACTGCCACATAAAAGATTCCCGAGTGATTACATTTCTGTAAGCTCGGATCAGCAGTTCTCATGCTGcc           >  2:840302/1‑150 (MQ=255)                                                                                                                                             aGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCAAGTCACAGTGGGAGAAAGCGATTTGAAACTGCCACATAAAAGATTCCCGAGTGATTACATTTCTGTAAGCTCGGATCAGCAGTTCTCATGCTGccc          <  2:633189/150‑1 (MQ=255)                                                                                                                                                    gCTTCCTTGGGGATCCCACAAGTCTTAGGGAATTACTCGAAAGCGCAAGTCACAGTGGGAGAAAGCGATTTGAAACTGCCACATAAAAGATTCCCGAGTGATTACATTTCTGTAAGCTCGGATCAGCAGTTCTCATGCTGCCCGTGTTTa   <  2:584954‑M2/149‑1 (MQ=255)                                                                                                                                                     cTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCAAGTCACAGTGGGAGAAAGCGATTTGAAACTGCCACATAAAAGATTCCCGAGTGATTACATTTCTGTAAGCTCGGATCAGCAGTTCTCATGCTGCCCGTGTTTAt  <  1:78665/150‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                                      GGCGCGCGCCACATGCCCAGTCCACCCAGTAATCCAGTAGCGGCCAGGCCTTTGACGAAAGATCGTCTCGTGGTTTTGCTTTGCATGCCGTAGTGTCCAGTCAGTCAGATAATTCGCTGATATCCGGGCCGCTCGATCGCAGGCCCGGCTTCCTTGGGGATCCCACAAGTCTTAGGGACTTGCTCGAAAGCGCAAGTCACAGTGGGAGAAAGCGATTTGAAACTGCCACATAAAAGATTCCCGAGTGATTACATTTCTGTAAGCTCGGATCAGCAGTTCTCATGCTGCCCGTGTTTAT  >  NC_002947/6133823‑6134120

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