New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 832322	53 (1.010)	6 (0.120)	6/232	NT	10.8%	coding (82/1098 nt)	PP_0716	HlyD family secretion protein
	?	NC_002947	= 832338	49 (0.990)					coding (98/1098 nt)	PP_0716	HlyD family secretion protein

GCGAGTTGCTCGACGAGCCAGCCCCCACCGCGCATGCACAAGGTGAAACCGAATGAGCGACGCCACGCCAACGCCGCCCCCATCAGCCCCGGATCGCGGCATACGCTGGGTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTCGCCTGCAGGCTTACGTAGTCCCGGTGGCCGCCGAAGTGGCCGGGCAGATCAAGCGTGTGGCCGTAGGCAACAACCAGGAGGTGCGCCAGGGCGATGTGCTGTTCGAACTCGA  >  NC_002947/832189‑832485                                                                                                                                                      |                                                                                                                                                    gCGAGTTGCTCGACGAGCCAGCCCCCACCGCGCATGCACAAGGTGAAACCGAATGAGCGACGCCACGCCAACGCCGCCCCCATCAGCCCCGGATCGCGGCATACGCTGGGTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTACTTgct                                                                                                                                                     <  1:58238/150‑1 (MQ=255)        gCTCGACGAGCCAGCCCCCACCGCGCATGCACAAGGTGAAACCGAATGAGCGACGCCACGCCAACGCCGCCCCCATCAGCCCCGGATCGCGGCATACGCTGGGTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTACTTGCTggctgac                                                                                                                                              <  1:1231217‑M2/150‑8 (MQ=255)               gaGCCAGCCCCCACCGCGCATGCACAAGGTGAAACCGAATGAGCGACGCCACGCCAACGCCGCCCCCATCAGCCCCGGATCGCGGCATACGCTGGGTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCtata                                                                                                                                       >  1:721026/1‑150 (MQ=255)               gaGCCAGCCCCCACCGCGCATGCACAAGGTGAAACCGAATGAGCGACGCCACGCCAACGCCGCCCCCATCAGCCCCGGATCGCGGCATACGCTGGGTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCtata                                                                                                                                       <  2:896458/150‑1 (MQ=255)                  ccagccCCCACCGCGCATGCACAAGGTGAAACCGAATGAGCGACGCCACGCCAACGCCGCCCCCATCAGCCCCGTATAACGCCATCAGGCGCGCCCACCTGGGGATGGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACGGCTATACGc                                                                                                                                    >  1:525650/1‑150 (MQ=255)                   cagccCCCACCGCGCATGCACAAGGTGAAACCGAATGAGCGACGCCACGCCAACGCCGCCCCCATCAGCCCCGGATCGCGGCATACGCTGGGTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGcc                                                                                                                                   <  1:135664/150‑1 (MQ=255)                      cccccACCGCGCATGCACAAGGTGAAACCGAATGAGCGACGCCACGCCAACGCCGCCCCCATCAGCCCCGGATCGCGGCATACGCTGGGTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTa                                                                                                                                >  2:175912/1‑150 (MQ=255)                                gcATGCACAAGGTGAAACCGAATGAGCGACGCCACGCCAACGCCGCCCCCATCAGCCCCGGATCGCGGCATACGCTGGGTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCaa                                                                                                                      <  1:355982/150‑1 (MQ=255)                                     cacaAGGTGAAACCGAATGAGCGACGCCACGCCAACGCCGCCCCCATCAGCCCCGGATCGCGGCATACGCTGGGTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTCg                                                                                                                 >  1:814083/1‑150 (MQ=255)                                      acaAGGTGAAACCGAATGAGCGACGCCACGCCAACGCCGCCCCCATCACCCCCGGATCGCGGCATACGCTGGGTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTCGc                                                                                                                <  2:952761/150‑1 (MQ=255)                                           gTGAAACCGAATGAGCGACGCCACGCCAACGCCGCCCCCATCAGCCCCGGATCGCGGCATACGCTGGGTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTCGCCTGCa                                                                                                           <  2:879122/150‑1 (MQ=255)                                               aaCCGAATGAGCGACGCCACGCCAACGCCGCCCCCATCAGCCCCGGATCGCGGCATACGCTGGGTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTc                                                                                                                  <  1:48366/139‑1 (MQ=255)                                               aaCCGAATGAGCGACGCCACGCCAACGCCGCCCCCATCAGCCCCGGATCGCGGCATACGCTGGGTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTc                                                                                                                  >  2:48366/1‑139 (MQ=255)                                                 ccGAATGAGCGACGCCACGCCAACGCCGCCCCCATCAGCCCCGGATCGCGGCATACGCTGGGTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTacac                                                                                                                             <  1:149957/126‑1 (MQ=255)                                                 ccGAATGAGCGACGCCACGCCAACGCCGCCCCCATCAGCCCCGGATCGCGGCATACGCTGGGTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTacac                                                                                                                             >  2:149957/1‑126 (MQ=255)                                                 ccGAATGAGCGACGCCACGCCAACGCCGCCCCCATCAGCCCCGGATCGCGGCATACGCTGGGTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTCGCCTGCAGGCTTa                                                                                                     >  2:92123/1‑150 (MQ=255)                                                         gCGACGCCACGCCAACGCCGCCCCCATCAGCCCCGGATCGCGGCATACGCTGGGTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGGCCTACACCCAGCAAGCTCGCCTGCAGGCTTACGTAGTcc                                                                                             >  1:434833/1‑150 (MQ=255)                                                          cGACGCCACGCCAACGCCGCCCCCATCAGCCCCGGATCGCGGCATACGCTGGGTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTCGCCTGCAGGCtt                                                                                                      >  1:1392921/1‑140 (MQ=255)                                                          cGACGCCACGCCAACGCCGCCCCCATCAGCCCCGGATCGCGGCATACGCTGGGTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTCGCCTGCAGGCtt                                                                                                      <  2:1392921/140‑1 (MQ=255)                                                             cgccacgccaACGCCGCCCCCATCAGCCCCGGATCGCGGCATACGCTGGGTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTCGCCTGCAGGCTTACGTAGTCCCGGt                                                                                         <  2:998183/150‑1 (MQ=255)                                                                cacgccaACGCCGCCCCCATCAGCCCCGGATCGCGGCATACGCTGGGTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTCGCCTGCAg                                                                                                          <  2:1144965/130‑1 (MQ=255)                                                                cacgccaACGCCGCCCCCATCAGCCCCGGATCGCGGCATACGCTGGGTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTCGCCTGCAg                                                                                                          >  1:1144965/1‑130 (MQ=255)                                                                cacgccaACGCCGCCCCCATCAGCCCCGGATCGCGGCATACGCTGGGTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTCGCCTGCAGGCTTACGTAGTCCCGGTGgc                                                                                      >  2:517901/1‑150 (MQ=255)                                                                          ccgccCCCATCAGCCCCGGATCGCGGCATACGCTGGGTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTCGCCTGCAGGCTTACGTAGTCCCGGTGGCCGCCGAAGTg                                                                            <  1:517901/150‑1 (MQ=255)                                                                                ccATCAGCCCCGGATCGCGGCATACGCTGGGTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTCGCCTGCAGGCTTACGTAGTCCCGGTGGCCGCCGAAGTGGCCggg                                                                      <  2:1029439/150‑1 (MQ=255)                                                                                 cATCAGCCCCGGATCGCGGCATACGCTGGGTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTCGCCTGCAGGCTTACGTAGTCCCGGTGGCCGCCGAAGTGGCCGGGc                                                                     >  1:136965/1‑150 (MQ=255)                                                                                    cAGCCCCGGATCGCGGCATACGCTGGGTGCTGCTGCTGATTGCCGCCAGCCTGCTCTGGTACTTGCTGGCGGACCGGTATACGCCGTCCCCGCAGCAAGCTCGCCTGCAGGCTTACGTAGTCCCGGTGGCCGCCGAAGTGGCCGGGCAGa                                                                  <  2:672234/150‑1 (MQ=255)                                                                                       ccccGGATCGCGGCATACGCTGGGTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTGCTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTCGCCTGCAGGCTTACGTAGTCCCGGTGGCCGGCGAAGTGGCCGGGCAGATCa                                                               >  1:1258304/1‑150 (MQ=255)                                                                                       ccccGGATCGCGGCATACGCTGGGTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTCGCCTGCAGGCTTACGTAGTCCCGGTGGCCGCCGAAGTGGCCGGGCAGATCa                                                               >  2:256960/1‑150 (MQ=255)                                                                                        cccGGATCGCGGCATACGCTGGGTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTACTTGCTg                                                                                                                                                    <  1:174339‑M2/64‑2 (MQ=255)                                                                                        cccGGATCGCGGCATACGCTGGGTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTACTTGCTg                                                                                                                                                    >  2:174339‑M2/1‑63 (MQ=255)                                                                                                gcgGCATACGCTGGGTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTCGCCTGCAGGCTTACGTAGTCCCGGTGGCCGCCGAAGTGGCCGGGCAGATCAAGCGTGTgg                                                      <  2:814083/150‑1 (MQ=255)                                                                                                 cgGCATACGCTGGGTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTCGCCTGCAGGCTTACGTAGTCCCGGTGGCCGCCGAAGTgg                                                                           <  2:921058/128‑1 (MQ=255)                                                                                                 cgGCATACGCTGGGTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTCGCCTGCAGGCTTACGTAGTCCCGGTGGCCGCCGAAGTgg                                                                           >  1:921058/1‑128 (MQ=255)                                                                                                     aTACGCTGGGTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTCGCCTGCAGGCTTACGTAGTCCCGGTGGCCGCCGAAGTGGCCGGGCAGATCAAGCGTGTGGCCGTa                                                 >  2:510796/1‑150 (MQ=255)                                                                                                              gTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTCGCCTGCAGGCTTACGTAGTCCCGGTGGCCGCCGAAGTGGCCGGGCAGATCAAGCGTGTGGCCGTAGGCaacaac                                        <  1:175912/150‑1 (MQ=255)                                                                                                                gctgctgctGATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTCGCCTGCAGGCTTACGTAGTCCCGGTGGCCGCCGaa                                                                               <  1:251500/109‑1 (MQ=255)                                                                                                                gctgctgctGATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTCGCCTGCAGGCTTACGTAGTCCCGGTGGCCGCCGaa                                                                               >  2:251500/1‑109 (MQ=255)                                                                                                                 ctgctgctgATCGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTCGCCTGCAGGCTTACGTAGTCCCGGTGGCCGCCGAAGTGGCCGGGCAGATCAAGCGTGTGGCCGTAGGCAACAACCag                                     <  1:462976/150‑1 (MQ=255)                                                                                                                   cctgcggATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATAAGCCGTACACCCAGCAAGCTCGCCTGCAGGCTTACGTAGTCCCGGTGGCCGCCGAAGTGGCCGGGCAGATCAAGCGTGTGGCCGTAGGCAACAACCagga                                   <  2:654566/149‑1 (MQ=255)                                                                                                                    ctgctgATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCGTGCCGGCGGGCTTACGTAGTCCCGGTGGCCGCCGAAGTGGCCGGGCAGATCAAGCGTGTGGCCGTAGGCAACAACCaggag                                  <  1:1032359/150‑1 (MQ=255)                                                                                                                    ctgctgATTGCCGTCAGCCTGCTCTGGTACGTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTCGCCTGCAGGCTTACGTAGTCCCGGTGGCCGCCGAAGTGGCCGGGCAGATCAAGCGTGTGGCCGTAGGCAACAACCaggag                                  <  1:372402/150‑1 (MQ=255)                                                                                                                      gctgATTGCCGTCAGCCTGCTCTGGTACTTGCTggctgacggcaatcagcagcagcacccagcgtatgccgcgatccggggctgatggggg                                                                                           >  1:348285‑M2/1‑33 (MQ=255)                                                                                                                      gctgATTGCCGTCAGCCTGCTCTGGTACTTGCTggctgacggcaatcagcagcagcacccagcgtatgccgcgatccggggctgatggggg                                                                                           <  2:348285‑M2/91‑59 (MQ=255)                                                                                                                        tgATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTCGCCTGCAGGCTTACGTAGTCCCGGTGGCCGCCGAAGTGGCCGGGCAGATCAAGCGTGTGGCCGTAGGCAACAACCAGGAGGTgc                              <  1:153270/150‑1 (MQ=255)                                                                                                                        tgATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTCGCCTGCAGGCTTACGTAGTCCCGGTGGCCGCCGAAGTGGCCGGGCAGATCAAGCGTGTGGCCGTAGGCAACAACCAGGAGGTgc                              <  1:510796/150‑1 (MQ=255)                                                                                                                            tGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTCGCCTGCAGGCTTACGTAGTCCCGGTGGCCGCCGAAGTGGCCGGGCAGATCAAGCGTGTGGCCGTAGGCAACAACCAGGAGGTGCGCCa                          <  1:92123/150‑1 (MQ=255)                                                                                                                              ccGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTCGCCTGCAGGCTTACGTAGTCCCGGTGgccgcc                                                                                  <  2:903541/92‑1 (MQ=255)                                                                                                                              ccGTCAGCCTGCTCTGGTACTTGCTGGCGGACCGCTATACGCCGTACACCCAGCAAGCTCGCCTGCAGGCTTACGTAGTCCCGGTGgccgcc                                                                                  >  1:903541/1‑92 (MQ=255)                                                                                                                                gTCAGCCTGCTCTGGTACTTGCTggctggcggcaatcagcagcagcacccagcgtatgccgcgatccggggctgatgggggcggcgttggcgtggcgtcgctcattcggt                                                              <  2:684707‑M2/110‑88 (MQ=255)                                                                                                                                gTCAGCCTGCTCTGGTACTTGCTggctggcggcaatcagcagcagcacccagcgtatgccgcgatccggggctgatgggggcggcgttggcgtggcgtcgctcattcggt                                                              >  1:684707‑M2/1‑23 (MQ=255)                                                                                                                                gTCAGCCTGCTCTGGTACTTGCTGGCTGACCTCTATACGCCGTACACCCAGCAAGCTCGCCTGCAGGCTTACGTAGTCCCGGTGGCCGCCGAAGTGGCCGGGCAGATCAAGCGTGTGGCCGTAGGCAACAACCAGGAGGTGCGCCAGGGc                      >  2:347644/1‑150 (MQ=255)                                                                                                                                 tCAGCCTGCTCTGGTACTTGCTggctgacggcaatcagcagcagcacccagcgtatgccgcgatccggggctgatgggggcggcgttggcgtggcgtcgctcattcggtttcaccttgtgcatgcgcggtgggggctggctcgtcgagca                     <  1:1381377‑M2/150‑129 (MQ=255)                                                                                                                                   aGCCTGCTCTGGTACTTGCTggctgacggcaatcagcagcagcacccagcgtatgccgcgatccggggctgatgggggcggcgttggcgtggcgtcgctcattcggtttcaccttgtgcatgcgcggtgggggctggctcgtcgagcaac                   >  2:1381377‑M2/1‑20 (MQ=255)                                                                                                                                   aGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTCGCCTGCAGGCGTACGTAGTCCCGGTGGCCGCCGAAGTGGCCGGGCAGATCAAGCGTGTGGCCGTAGGCAACAACCAGGAGGTGCGCCAGGGCGAt                   <  2:43433/150‑1 (MQ=255)                                                                                                                                       tGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTCGCCTGCAGGCTTACGTAGTCCCGGTGGCCGCCGAAGTGGCCGGGCAGATCAAGCGTGTGGCCGTAGGCAACAACCAGGAGGTGCGCCAGGGCGAtgtg                <  2:1134522/149‑1 (MQ=255)                                                                                                                                       tGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTCGCCTGCAGGCTTACGTAGTCCCGGTGGCCGCCGAAGTGGCCGGGCAGATCAAGCGTGTGGCCGTAGGCAACAACCAGGAGGTGCGCCAGGGCGAtgtg                >  1:1134522/1‑149 (MQ=255)                                                                                                                                           ctGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTCGCCTGCAGGCTTACGTAGTCCCGGTGGCCGCCGAAGTGGCCGGGCAGATCAAGCGTGTGGCCGTAGGCAACAACCAGGAGGTGCGCCAGGGCGATGTGCTGtt           <  1:789207/150‑1 (MQ=255)                                                                                                                                            gcgagcTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTCGCCTGCAGGCTTACGTAGTCCCGGTGGCCGCCGAAGTGGCCGGGCAGATCAAGCGTGTGGCCGTAGGCAACAACCAGGAGGTGCGCCAGGGCGATGTGCTGTTc          >  1:1296033/6‑150 (MQ=255)                                                                                                                                                    gctggctgACCGCTATACGCCGTACACCCAGCAAGCTCGCCTGCAGGCTTACGTAGTCCCGGTGGCCGCCGAAGTGGCCGGGCAGATCAAGCGTGTGGCCGTAGGCAACAACCAGGAGGTGCGCCAGGGCGATGTGCTGTTCGAACTCGa  >  2:986483/1‑150 (MQ=255)                                                                                                                                                      |                                                                                                                                                    GCGAGTTGCTCGACGAGCCAGCCCCCACCGCGCATGCACAAGGTGAAACCGAATGAGCGACGCCACGCCAACGCCGCCCCCATCAGCCCCGGATCGCGGCATACGCTGGGTGCTGCTGCTGATTGCCGTCAGCCTGCTCTGGTACTTGCTGGCTGACCGCTATACGCCGTACACCCAGCAAGCTCGCCTGCAGGCTTACGTAGTCCCGGTGGCCGCCGAAGTGGCCGGGCAGATCAAGCGTGTGGCCGTAGGCAACAACCAGGAGGTGCGCCAGGGCGATGTGCTGTTCGAACTCGA  >  NC_002947/832189‑832485

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