New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 3409923	52 (0.700)	4 (0.060)	4/240	NT	7.5%	intergenic (‑446/‑90)	PP_3022/PP_3024	AraC family transcriptional regulator/hypothetical protein
	?	NC_002947	= 3409954	49 (0.700)					intergenic (‑477/‑59)	PP_3022/PP_3024	AraC family transcriptional regulator/hypothetical protein

CAGCGAATACCTATTCCTGGCCATCAAGGTGGTGGGCGCGGCCTACCTGTTCTACATCGCCTGGCAACTGTGGCGCGCACCCGTGAGCGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAATATAAACTCTAGCTTCAGGGTAAATTGGTATCAACCCTCCATGCATTGACTCAGCAGGCGAACAGAGGCAAATTGCCACGCTTGTCGTACTTACAAATCACCTGCGCATTGAAT  >  NC_002947/3409808‑3410102                                                                                                                                                   |                                                                                                                                                     cAGCGAATACCTATTCCTGGCCATCAAGGTGGTGGGCGCGGCCTACCTGTTCTACATCGCCTGGCAACTGTGGCGCGCACCCGTGAGCGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTctg                                                                                                                                                   <  2:1517280‑M2/150‑4 (MQ=255) cAGCGAATACCTATTCCTGGCCATCAAGGTGGTGGGCGCGGCCTACCTGTTCTACATCGCCTGGCAACTGTGGCGCGCACCCGTGAGCGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTctg                                                                                                                                                   >  1:189914‑M2/1‑147 (MQ=255)  aGCGAATACCTATTCCTGGCCATCAAGGTGGTGGGCGCGGCCTACCTGTTCTACATCGCCTGGCAACTGTGGCGCGCACCCGTGAGCGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGTGCGCCAGGAGTTctgg                                                                                                                                                  >  1:1044040‑M2/1‑146 (MQ=255)      aaTACCTATTCCTGGCCATCAAGGTGGTGGGCGCGGCCTACCTGTTCTACATCGCCTGGCAACTGTGGCGCGCACCCGTGAGCGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTgg                                                                                                                                              <  1:247696/150‑1 (MQ=255)      aaTACCTATGCCTGGCCATCAAGGTGGTGGGCGCGGCCTACCTGTTCTACATCGCCTGGCAACTGTGGCGCGCACCCGTGAGCGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTgg                                                                                                                                              <  2:1394215/150‑1 (MQ=255)        tACCTATTCCTGGCCATCAAGGTGGTGGGCGCGGCCTACCTGTTCTACATCGCCTGGCAACTGTGGCGCGCACCCGTGAGCGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTggcg                                                                                                                                            <  1:991032/150‑1 (MQ=255)           cTATTCCTGGCCATCAAGGTGGTGGGCGCGGCCTACCTGTTCTACATCGCCTGGCAACTGTGGCGCGCACCCGTGAGCGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGcggcc                                                                                                                                         >  2:199580/1‑150 (MQ=255)            tATTCCTGGCCATCAAGGTGGTGGGCGCGGCCTACCTGTTCTACATCGCCTGGCAACTGTGGCGCGCACCCGTGAGCGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGcggccg                                                                                                                                        >  1:1326009/1‑150 (MQ=255)                 cTGGCCATCAAGGTGGTGGGCGCGGCCTACCTGTTCTACATCGCCTGGCAACTGTGGCGCGCACCCGTGAGCGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAAc                                                                                                                                   >  2:329304/1‑150 (MQ=255)                  tGGCCATCAAGGTGGTGGGCGCGGCCTACCTGTTCTACATCGCCTGGCAACTGTGGCGCGCACCCGTGAGCGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAAcc                                                                                                                                  >  1:1575254/1‑150 (MQ=255)                       aTCAAGGTGGTGGGCGCGGCCTACCTGTTCTACATCGCCTGGCAACTGTGGCGCGCACCCGTGAGCGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGc                                                                                                                             >  2:1247431/1‑150 (MQ=255)                           aGGTGGTGGGCGCGGCCTACCTGTTCTACATCGCCTGGCAACTGTGGCGCGCACCCGTGAGCGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACt                                                                                                                         <  2:1076291/150‑1 (MQ=255)                                 tggGCGCGGCCTACCTGTTCTACATCGCCTGGCAACTGTGGCGCGCACCCGTGAGCGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAat                                                                                                                   <  1:1136191/150‑1 (MQ=255)                                        ggCCTACCTGTTCTACATCGCCTGGCAACTGTGGCGCGCACCCGTGAGCGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAATATAAAct                                                                                                            >  1:755307/1‑150 (MQ=255)                                          ccTACCTGTTCTACATCGCCTGGCAACTGTGGCGCGCACCCGTGAGCGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACCGACAATATAAActct                                                                                                          >  1:1414093/1‑150 (MQ=255)                                                  ttCTACATCGCCTGGCAACTGTGGCGCGCACCCGTGAGCGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCACCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAATATAAACTCTAGCTTCAg                                                                                                  >  1:1757151/1‑150 (MQ=255)                                                   tggaCATCGCCTGGCAACTTTGGCTCTTACCCGTGAGCGAGACCGTGGTGGCACGCGACCACCCAGCCGGCACGTGGCGACTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAATATAAACTCTAGCTTCAgg                                                                                                 <  2:611313/147‑1 (MQ=255)                                                    cTACATCGCCTGGCAACTGTGGCGCGCACCCGTGAGCGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTTGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCATAGCGACTGACAATATAAACTCTAGCTTCAggg                                                                                                >  1:1861405/1‑150 (MQ=255)                                                         tCGCCTGGCAACTGTGGCGCGCACCCGTGAGCGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAATATAAACTCTAGCTTCAGGGTAAAt                                                                                           >  1:968854/1‑150 (MQ=255)                                                          cGCCTGGCAACTGTGGCGCGCACCCGTGAGCGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAATATAAACTCTAGCTTCAGGGTAAAtt                                                                                          <  2:1711694/150‑1 (MQ=255)                                                            ccTGGCAACTGTGGCGCGCACCCGTGAGCGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAATATAAACTCTAGCTTCAg                                                                                                  <  2:294445/140‑1 (MQ=255)                                                            ccTGGCAACTGTGGCGCGCACCCGTGAGCGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAATATAAACTCTAGCTTCAg                                                                                                  >  1:294445/1‑140 (MQ=255)                                                             cTGGCAACTGTGGCGCGCACCCGTGAGCGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGcggccg                                                                                                                                        >  2:406047/1‑101 (MQ=255)                                                             cTGGCAACTGTGGCGCGCACCCGTGAGCGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGcggccg                                                                                                                                        <  1:406047/101‑1 (MQ=255)                                                             cTGGCAACTGTGGCGCGCACCCGTGAGCGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAATATAAACTCTAGCTTCAGGGTAAATTGGt                                                                                       <  1:1188641/150‑1 (MQ=255)                                                               ggCAACTGTGGCGCGCACCCGTGAGCGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAATATAAACTCTAGCTTCAGGGTAAATTGGTAt                                                                                     <  1:1247431/150‑1 (MQ=255)                                                                  aaCTGTGGCGCGCACCCGTGAGCGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGACGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAATATAAACTCTAGCTTCAGGGTAAATTGGTATCaa                                                                                  >  2:1091277/1‑150 (MQ=255)                                                                     tgtgGCGCGCACCCGTGAGCGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAATATAAAc                                                                                                             <  2:166677/120‑1 (MQ=255)                                                                     tgtgGCGCGCACCCGTGAGCGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAATATAAAc                                                                                                             >  1:166677/1‑120 (MQ=255)                                                                       tgGCGCGCACCCGTGAGCGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAATATAAACTCTAGCTTCAGGGTAAATTGGTATCAACCCTc                                                                             >  2:1211706/1‑150 (MQ=255)                                                                         gcgcgcACCCGTGAGCGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAATATAAACTCTAGCTTCAGGGTAAATTGGTATCAGCCCTCCa                                                                           <  2:1861405/150‑1 (MQ=255)                                                                              cACCCGTGAGCGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAATATAAACTCTAGCTTCAGGGTAAATTGGTATCAACCCTCCATGCAt                                                                      <  1:66823/150‑1 (MQ=255)                                                                              cACCCGTGAGCGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACCGACAATATAAACTCTAGCTTCAGGGTAAATTGGTATCAACCCTCCATGCAt                                                                      <  2:1414093/150‑1 (MQ=255)                                                                                       gCGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAATATAAACTCTAGCTTCAGGGTAAATTGGTATCAACCCTCCATGCATTGACTcagc                                                             <  2:1326009/150‑1 (MQ=255)                                                                                        cGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAATATAAACTCTAGCTTCAGGGTAAATTGGTATCAACCCTCCATGCATTGACTcagca                                                            >  2:1913786/1‑150 (MQ=255)                                                                                           gaCCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAAtata                                                                                                                <  2:251658/95‑1 (MQ=255)                                                                                           gaCCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAAtata                                                                                                                <  2:251264/95‑1 (MQ=255)                                                                                           gaCCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAAtata                                                                                                                >  1:251264/1‑95 (MQ=255)                                                                                           gaCCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAAtata                                                                                                                >  1:251658/1‑95 (MQ=255)                                                                                                    ggCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAATATAAACTCTAGCTTCAGGGTAAATTGGTATCAACCCTCCATGCATTGACTCAGCAGGCGAACAGAgg                                                <  2:1007856/150‑1 (MQ=255)                                                                                                       aaGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAATATAAACTCTAGCTTCAGGGTAAATTGGTATCAACCCTCCATGCATTGACTCAGCAGGCGAACaga                                                  >  2:539336/1‑145 (MQ=255)                                                                                                       aaGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAATATAAACTCTAGCTTCAGGGTAAATTGGTATCAACCCTCCATGCATTGACTCAGCAGGCGAACaga                                                  <  1:539336/145‑1 (MQ=255)                                                                                                          cGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAATATAAACTCTAGCTTCAGGGTAAATTGGTATCAACCCTCCATGCATTGACTCAGCAGGCGAACAGAGGCAAAtt                                          <  1:1517280/150‑1 (MQ=255)                                                                                                           gATCACCCAGGCGGCACTTGGCGCCTGGCGGGCGGGGAGTTCTGGGTGGCGGCCGGCAACCCTCTAATTTTTTAAGATAAACTCTAGCTTCAGGGTAAATTGGTATCAACCCTCCATGCATTGACTCAGCAGGCGAACAGAGGCAAATTg                                         <  1:329304/150‑1 (MQ=255)                                                                                                           gATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAATATAAACTCTAGCTTCAGGGTAAATTg                                                                                         <  2:1699722/102‑1 (MQ=255)                                                                                                           gATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAATATAAACTCTAGCTTCAGGGTAAATTg                                                                                         >  1:1699722/1‑102 (MQ=255)                                                                                                            aTCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAATATAAACTCTAGCTTCAGGGTAAATTGGTATCAACCCTCCATGCATTGACTCAGCAGGCGAACAGAGGCAAATTGc                                        >  2:201945/1‑150 (MQ=255)                                                                                                               aCCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTctgggtgatcgcttgccaccacggtctcgctcacgggtgcgcgccacagttgcca                                                                                               <  2:1424344‑M2/92‑56 (MQ=255)                                                                                                               aCCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTctgggtgatcgcttgccaccacggtctcgctcacgggtgcgcgccacagttgcca                                                                                               >  1:1424344‑M2/1‑37 (MQ=255)                                                                                                                 ccAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTctgggtgatcgcttgccaccacggtctcgctcacgggtgcgcgccacagttgccaggcgatgtagaacaggtaggccgcgcccaccaccttgatggccaggaataggtattcgct                                   <  2:1299815‑M2/150‑116 (MQ=255)                                                                                                                 ccAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAATATAAACTCTAGCTTCAGGGTAAATTGGTATCAACCCTCCATGCATTGACTCAGCAGGCGAACAGAGGCAAATTGCCACGc                                   >  2:1880508/1‑150 (MQ=255)                                                                                                                        gcACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAATATAAACTCTAGCTTCAGGGTAAATTGGTATCAACCCTCCATGCATTGACTCAGCAGGCGAACAGAGGCAAATTGCCACGCTTGTCGt                            <  2:968854/150‑1 (MQ=255)                                                                                                                         cACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAATATAAACTCTAGCTTCa                                                                                                   <  2:390341/78‑1 (MQ=255)                                                                                                                         cACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAATATAAACTCTAGCTTCa                                                                                                   >  1:390341/1‑78 (MQ=255)                                                                                                                            ttGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAATATAAACTCTAGCTTCAGGGTAAATTGGTATCAACCCTCCATGCATTGACTCAGCAGGCGAACa                                                    >  2:392607/1‑122 (MQ=255)                                                                                                                            ttGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAATATAAACTCTAGCTTCAGGGTAAATTGGTATCAACCCTCCATGCATTGACTCAGCAGGCGAACa                                                    <  1:392607/122‑1 (MQ=255)                                                                                                                             cggCGCCTGCCGCTTCAGGAGTTCTAGGTGGCGGCCGGCAACCCTAGCGACTGACAATATAAACTCTAGCTTCAGGGTAAATTGGTATCAACCCTCCATGCATTGACTCAGCAGGCGAACAGAGGCAAATTGCCACGCTTGTCGTACTTa                       <  2:755307/149‑1 (MQ=255)                                                                                                                              ggCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAACAACTGACAATATAAACTCTAGCTTCAGGGTAAATTGGTATCAACCCTCCATGCATTGACTCAGCAGGCGAACAGAGGCAAATTGCCACGCTTGTCGTACTTAc                      <  1:1153716/150‑1 (MQ=255)                                                                                                                                      gcgcgcCAGGAGTTctgggtgatcgcttgccaccacggtctcgctcacgggtgcgcgccacagttgccaggcgatgtagaacaggtaggccgcgcccaccaccttgatggccaggaataggtattcgctggtatgcaacaccactgccag              >  1:1299815‑M2/1‑14 (MQ=255)                                                                                                                                                  ttCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAATATAATCTCTAGCTTCAGGGTAAATTGGTATCAACCCTCCATGCATTGACTCAGCAGGCGAACAGAGGCAAATTGCCACGCTTGTCGTACTTACAAATCACCTGCGCATTGAAt  <  2:1577806/150‑1 (MQ=255)                                                                                                                                                   |                                                                                                                                                     CAGCGAATACCTATTCCTGGCCATCAAGGTGGTGGGCGCGGCCTACCTGTTCTACATCGCCTGGCAACTGTGGCGCGCACCCGTGAGCGAGACCGTGGTGGCAAGCGATCACCCAGGCGGCACTTGGCGCCTGGCGCGCCAGGAGTTCTGGGTGGCGGCCGGCAACCCTAGCGACTGACAATATAAACTCTAGCTTCAGGGTAAATTGGTATCAACCCTCCATGCATTGACTCAGCAGGCGAACAGAGGCAAATTGCCACGCTTGTCGTACTTACAAATCACCTGCGCATTGAAT  >  NC_002947/3409808‑3410102

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.