New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 5764475	42 (0.800)	6 (0.120)	4/232	NT	14.0%	coding (400/1317 nt)	ctpA	carboxy‑terminal‑processing protease
	?	NC_002947	= 5764490	34 (0.690)					coding (415/1317 nt)	ctpA	carboxy‑terminal‑processing protease

GGCCTACCTCGGCCCCGAGGACTTCCAGGAGCTGCAGGAAAGCACCAGCGGCGAGTTCGGCGGGCTGGGCATTGAAGTAGGCCAGGAAGACGGCTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCAGGCTGGTGACCTGATCGTCAAGATCAACGGCGCCCCGACCCGCGGCCAGACCATGACCGAAGCCGTCGACAAGATGCGCGGCAAGGTCGGCGAGAAAATCACCCTGACCTTGGTGCGCGACGGCGGCAACCCGTTC  >  NC_002947/5764342‑5764627                                                                                                                                                     |                                                                                                                                          ggCCTACCTCGGCCCCGAGGACTTCCAGGAGCTGCAGGAAAGCACCAGCGGCGAGTTCGGCGGGCTGGGCATTGAAGTAGGCCAGGAAGACGGCTCCCTGATCGTTAGGTCTCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCa                                                                                                                                          <  2:397605‑M2/150‑2 (MQ=255)  gCCTACCTCGGCCCCGAGGACTTCCAGGAGCTGCAGGAAAGCACCAGCGGCGAGTTCGGCGGGCTGGGCATTGAAGTAGGCCAGGAAGACGGCTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCag                                                                                                                                         >  1:1077266‑M2/1‑148 (MQ=255)      aCCTCGGCCCCGAGGACTTCCAGGAGCTGCAGGAAAGCACCAGCGGCGAGTTCGGCGGGCTGGGCATTGAAGTAGGCCAGGAAGACGGCTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCaggctg                                                                                                                                     >  2:174993‑M2/1‑144 (MQ=255)      aCCTCGGCCCCGAGGACTTCCAGGAGCTGCAGGAAAGCACCAGCGGCGAATAGGGCGGGCTGGGCATTGAAGTAGGCCAGGAAGACGGCTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCaggctg                                                                                                                                     >  1:1155893‑M2/1‑144 (MQ=255)      aCCTCGGCCCCGAGGACTTCCAGGAGCTGCAGGAAAGCACCAGCGGAGAGTACGCCGGGTTGGGCTTTTAGGTAGGCCAGGAAGACGGCTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCaggctg                                                                                                                                     >  1:526183‑M2/1‑144 (MQ=255)         tCGGCCCCGAGGACTTCAAGGAGCTGCAGGAAAGCACCAGCGGCGAGTTCGGCGGGCTGGGCATTGAAGTAGGCCAGGAAGACGGCTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCAGGCTGGTg                                                                                                                                  >  1:280008/1‑150 (MQ=255)           ggCCCCGAGGACTTCCAGGAGCTGCAGGAAAGCACCAGCGGCGAGTTCGGCGGGCTGGGCATTGAAGTAGGCCAGGAAGACGGCTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCAGGCTGGTGAc                                                                                                                                <  2:280008/150‑1 (MQ=255)                 gAGGACTTCCAGGAGCTGCAGGAAAGCACCAGCGGCGAGTTCGGCGGGCTGGGCATTGAAGTAGGCCAGGAAGACGGCTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCAGGCTGGTGACCTGATc                                                                                                                          >  2:975237/1‑150 (MQ=255)                   ggACTTCCAGGAGCTGCAGGAAAGCACCAGCGGCGAGTTCGGCGGGCTGGGCATTGAAGTAGGCCAGGAAGACGGCTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCT‑GCACGCCGGCACGCgaggctggggtgtcgtcgat                                                                                                                       <  2:486143‑M2/150‑21 (MQ=255)                    gACTTCCAGGAGCTGCAGGAAAGCACCAGCGGCGAGTTCGGCGGGCTGGGCATTGAAGTAGGCCAGGAAGACGGCTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCT‑GCACGCCGGCACGCgaggctggggtgtcgtcgatt                                                                                                                      >  1:486143‑M2/1‑129 (MQ=255)                      cTTCCAGGAGCTGCAGGAAAGCACCAGCGGCGAGTTCGGCGGGCTGGGCATTGAAGTAGGCCAGGAAGACGGCTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCAGGCTGGTGACCTGATCGTCaa                                                                                                                     <  1:250520/150‑1 (MQ=255)                       ttCCAGGAGCTGCAGGAAAGCACCAGCGGCGAGTTCGGCGGGCTGGGCATTGAAGTAGGCCAGGAAGACGGCTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCaggctg                                                                                                                                     >  2:50673‑M2/1‑127 (MQ=255)                       ttCCAGGAGCTGCAGGAAAGCACCAGCGGCGAGTTCGGCGGGCTGGGCATTGAAGTAGGCCAGGAAGACGGCTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCaggctg                                                                                                                                     <  1:50673‑M2/133‑7 (MQ=255)                        tCCAGGAGCTGCAGGAAAGCACCAGCGGCGAGTTCGGCGGGCTGGGCATTGAAGTAGGCCAGGAAGACGGCTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGCCTTGCAGGCTGGTGACCTGATCGTCAAGa                                                                                                                   <  1:397605/150‑1 (MQ=255)                                  gCAGGAAAGCACCAGCGGCGAGTTCGGCGGGCTGGGCATTGAAGTAGGCCAGGAAGACGGCTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCAGGCTGGTGACCTGATCGTCAAGATCAACGgcgc                                                                                                         >  1:1188482/1‑150 (MQ=255)                                     ggAAAGCACCAGCGGCGAGTTCGGCGGGCTGGGCATTGAAGTAGGCCAGGACGACGGCTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCAGGCTGGTGACCTGATCGTCAAGATCAACGGCGcccc                                                                                                      >  1:1241741/1‑150 (MQ=255)                                        aaGCACCAGCGGCGAGTTCGGCGGGCTGGGCATTGAAGTAGGCCAGGAAGACGGCTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCAGGCTGGTGACCTGATCGTCAAGATCAACGGCGCCCCGAc                                                                                                   >  1:232637/1‑150 (MQ=255)                                                 cggcgAGTTCGGCGGGCTGGGCATTGAAGTAGGCCAGGAAGACGGCTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCAGGCTGGTGACCTGATCGTCAAGATCAACGGCGCCCCGACCCGCGGCCa                                                                                          <  1:1349134/150‑1 (MQ=255)                                                              gggCTGGGCATTGAAGTAGGCCAGGAAGACGGCTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCAGGCTGGTGACCTGATCGTCAAGATCAACGGCGCCCCGACCCGCGGCCAGACCATGACCGaa                                                                             <  2:314129/150‑1 (MQ=255)                                                                gCTGGGCATTGAAGTAGGCCAGGAAGACGGCTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCAGGCTGGt                                                                                                                                   <  2:751652/94‑1 (MQ=255)                                                                gCTGGGCATTGAAGTAGGCCAGGAAGACGGCTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCAGGCTGGt                                                                                                                                   >  1:751652/1‑94 (MQ=255)                                                                     gCATTGAAGTAGGCCAGGAAGACGGCTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCAGGCTGGTGACCTGATCGTCAAGATCAACGGCGCCCCGACCCGCGGCCAGACCATGACCGAAGCCGTCg                                                                      >  1:686558/1‑150 (MQ=255)                                                                        ttGAAGTAGGCCAGGAAGACGGCTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCAGGCTGGt                                                                                                                                   <  1:1200427/86‑1 (MQ=255)                                                                        ttGAAGTAGGCCAGGAAGACGGCTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCAGGCTGGt                                                                                                                                   >  2:1200427/1‑86 (MQ=255)                                                                                ggCCAGGAAGACGGCTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCAGGCTGGTGACCTGATCGTCAAGATCAACGGCGCCCCGACCCGCGGCCATACCATGACCGAAGCCGTCGACAAGATgcgc                                                           <  1:929349/150‑1 (MQ=255)                                                                                  ccAGGAAGACGGCTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCAGGCTGGTGACCTGATCGTCAAGATCAACGGCGCCCCGACCCGCGGCCAGACCATGAc                                                                                 >  1:1012718/1‑126 (MQ=255)                                                                                  ccAGGAAGACGGCTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCAGGCTGGTGACCTGATCGTCAAGATCAACGGCGCCCCGACCCGCGGCCAGACCATGAc                                                                                 <  2:1012718/126‑1 (MQ=255)                                                                                  ccAGGAAGACGGCTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCAGGCTGGTGACCTGATCGTCAAGATCAACGGCGCCCCGACCCGCGGCCAGACCATGACCGAAGCCGTCGACAAGa                                                                >  1:646907/1‑143 (MQ=255)                                                                                  ccAGGAAGACGGCTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCAGGCTGGTGACCTGATCGTCAAGATCAACGGCGCCCCGACCCGCGGCCAGACCATGACCGAAGCCGTCGACAAGa                                                                <  2:646907/143‑1 (MQ=255)                                                                                   cAGGAAGACGGCTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCAGGCTGGTGACCTGATCGTCAAGATCAAc                                                                                                              <  1:197052/96‑1 (MQ=255)                                                                                   cAGGAAGACGGCTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCAGGCTGGTGACCTGATCGTCAAGATCAAc                                                                                                              >  2:197052/1‑96 (MQ=255)                                                                                         gACGGCTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCAGGCTGGTGACCTGATCGTCAAGATCAACGGCGCCCCGACCCGCGGCCAGACCATGACCGAAGCCGTCGACAAGATGCGCGGCAAGGTc                                                  >  2:706347/1‑150 (MQ=255)                                                                                          aCGGCTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCAGGCTGGTGACCTGATCGTCAAGATCAACGGCGCCCCGACCCGCGGCCAGACCATGACCGAAGCCGTCGACAAGATGCGCGGCAAGGTCg                                                 <  1:835476/150‑1 (MQ=255)                                                                                            ggCTTCCTCACGGTAGCTACGCCACTCGCCGCCACTCCACACTCGCGCGCCGGCGTGAAGGCTGGAGACCTAATCGACAAGACCAACGGCGCCCCGACCCGCGGCCAGACCATGACCGAAGCCGTCGACAAGATGCGCGGCAAGGTCGGc                                               <  2:299448/150‑1 (MQ=255)                                                                                              cTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCa                                                                                                                                          <  1:76043‑M2/57‑2 (MQ=255)                                                                                              cTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCa                                                                                                                                          >  2:76043‑M2/1‑56 (MQ=255)                                                                                              cTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCAGGCTGGTGACCTGATCGTCAAGATCAACGGCGCCCCGACCCGCGGCCAGACCATGACCGAAGCCGTCGACAAGATGCGCGGCaa                                                      >  1:100124/1‑141 (MQ=255)                                                                                              cTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCAGGCTGGTGACCTGATCGTCAAGATCAACGGCGCCCCGACCCGCGGCCAGACCATGACCGAAGCCGTCGACAAGATGCGCGGCaa                                                      <  2:100124/141‑1 (MQ=255)                                                                                              cTTCATCAAGGCAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCAGGCTGGTGACCTCATCGTCAAGATCAACGGCGCCCCGACCCGCGGCCAGCCCATGACCGACGACGTCGCCCAGCCGCGCCGCAAGATCGGCga                                             >  2:504945/1‑150 (MQ=255)                                                                                                  atcaAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCAGGCTGGTGACCTGATCGTCAAGATCAACGGCGCCCCGACCCGCGGCCAGACCATGACCGAAGCCGTCGACAAGATGCGCGGCAAGGTCGGCGAGaaa                                         >  2:1284062/1‑150 (MQ=255)                                                                                                        gtcgTTTCGCCAATCGACGACCCCCCAGCCTCGCGTGCCGGCGTGCAGGCTGGTGACCTGATCGTCAAGATCAACGGCGCCCCGACCCGCGGCCAGACCATGACCGAAGCCGTCGACAAGATGCGCGGCAAGGTCGGCGAGAAAATCAcc                                   <  1:504945/147‑1 (MQ=255)                                                                                                        gTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCAGGCTGGTGACCTGATCGTCAAGATCAACGGCGCCCCGACCCGCGGCCAGACCATGACCGAAGCCGTCGACAAGATGCGCGGCAAGGTCGGCGAGAAAATCAcc                                   <  2:782150/150‑1 (MQ=255)                                                                                                           gTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCAGGCTGGTGAcc                                                                                                                               <  2:270236/55‑1 (MQ=255)                                                                                                           gTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCAGGCTGGTGAcc                                                                                                                               >  1:270236/1‑55 (MQ=255)                                                                                                                gCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCAGGCTGGTGACCTGATCGTCAAGATCAACGGCGCCCCGACCCGCGGCCAGACCATGACCGAAGCCGTCGACAAGATGCGCGGCAAGGTCGGCGAGAAAATCACCCTGACCtt                           >  1:382182/1‑150 (MQ=255)                                                                                                                               cccAGCCTCGCGTGCCGGCGTGCaggctggggtgtcgtcgattggcgaaactaccttgatgaagccgtcttcctggcctacttcaatgcccagcccgccgaactcgccgctggtgctttcctgcagctcctggaagtcctcggggccgag            <  2:672410‑M2/150‑128 (MQ=255)                                                                                                                               cccAGCCTCGCGTGCCGGCGTGCaggctggggtgtcgtcgattggcgaaactaccttgatgaagccgtcttcctggcctacttcaa                                                                            >  1:1013768‑M2/1‑23 (MQ=255)                                                                                                                               cccAGCCTCGCGTGCCGGCGTGCaggctggggtgtcgtcgattggcgaaactaccttgatgaagccgtcttcctggcctacttcaa                                                                            <  2:1013768‑M2/86‑64 (MQ=255)                                                                                                                               cccAGCCTCGCGTGCCGGCGTGCaggccggggtgtcgtcgattggcgaaactaccttgatgaagccgtcttcctggcctacttcaatgcccagcccgccgaactcgccgctggtgctttcctgcagctcctggaagtcctcggggccgag            <  1:176264‑M2/150‑128 (MQ=255)                                                                                                                               cccAGCCTCGCGTGCCGGCGTGCAGGCTGGTGACCTGATCGTCAAGATCAACGGCGCCCCGACCCGCGGCCAGACCATGACCGAAGCCGTCGACAAGATGCGCGGCAAgg                                                    >  2:605689/1‑110 (MQ=255)                                                                                                                               cccAGCCTCGCGTGCCGGCGTGCAGGCTGGTGACCTGATCGTCAAGATCAACGGCGCCCCGACCCGCGGCCAGACCATGACCGAAGCCGTCGACAAGATGCGCGGCAAgg                                                    <  1:605689/110‑1 (MQ=255)                                                                                                                                 cAGCCTCGCGTGCCGGCGTGCAGGCTGGTGACCTGATCGTCAAGATCAACGGCGCCCCGACCCGCGGCCAGACCATGACCGAAGCCGTCGACAAGATGCGCGGCAAGGTCGGCGAGAAAATCACCCTGACCTTGGTGCGCGAcgg               >  2:287327/1‑145 (MQ=255)                                                                                                                                 cAGCCTCGCGTGCCGGCGTGCAGGCTGGTGACCTGATCGTCAAGATCAACGGCGCCCCGACCCGCGGCCAGACCATGACCGAAGCCGTCGACAAGATGCGCGGCAAGGTCGGCGAGAAAATCACCCTGACCTTGGTGCGCGAcgg               <  1:287327/145‑1 (MQ=255)                                                                                                                                    ccTCGCGTGCCGGCGTGCAGGCTGCTGACCTGATCGTCAAGATCAACGGCGCCCCGACCCGCGGCCAGACCATGACCGAAGCCGTCGACAAGATGAGCGGCAAGGTCGGAGAGAACAGCACCCTGACCCTGGGGCGCGACGGCGGCAAcc       >  1:338982/1‑150 (MQ=255)                                                                                                                                         cgTGCCGGCGTGCAGGCTGGTGACCTGATCGTCAAGATCAACGGCGCCCCGACCCGCGGCCAGACCATGACCGAAGCCGTCGACAAGATGCGCGGCAAGGTCGGCGAGAAAATCACCCTGACCTTGGTGCGCGACGGCGGCAACCCGTTc  <  1:1284062/150‑1 (MQ=255)                                                                                                                                         cgTGCCGGCGTGCAGGCTGGTGACCTGATCGTCAAGATCAACGGCGCCCCGACCCGCGGCCAGACCATGACCGAAGCCGTCGACAAGATGCGCGGCAAGGTCGGCGAGAAAATCACCCTGACCTTGGTGCGCGACGGCGGCAACCCGTTc  <  2:1241741/150‑1 (MQ=255)                                                                                                                                         cgTGCCGGCGTGCAGGCTGGTCACCTGATCGTCAAGATCAACGGCGCCCCGACCCGCGGCCAGACCATGACCGAAGCCGTCGACAAGATGCGCGGCAAGGTCGGCGAGAAAATCACCCTGACCTTTGTGCGCGACGGCCGCAACCCGTTc  <  2:382182/150‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                          GGCCTACCTCGGCCCCGAGGACTTCCAGGAGCTGCAGGAAAGCACCAGCGGCGAGTTCGGCGGGCTGGGCATTGAAGTAGGCCAGGAAGACGGCTTCATCAAGGTAGTTTCGCCAATCGACGACACCCCAGCCTCGCGTGCCGGCGTGCAGGCTGGTGACCTGATCGTCAAGATCAACGGCGCCCCGACCCGCGGCCAGACCATGACCGAAGCCGTCGACAAGATGCGCGGCAAGGTCGGCGAGAAAATCACCCTGACCTTGGTGCGCGACGGCGGCAACCCGTTC  >  NC_002947/5764342‑5764627

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