New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 2273408	43 (0.990)	3 (0.070)	3/246	NT	6.5%	coding (1002/1041 nt)	PP_2004	AraC family transcriptional regulator
	?	NC_002947	= 2273450	45 (1.070)					coding (960/1041 nt)	PP_2004	AraC family transcriptional regulator

TCGAAACCCAGGCTTACGAACTGGACACCCCGGAACCGGCCGACGACGCCACCGAACTCTAGCTCGGCTGCCGCTGGCTGCGGCGGAACTCCCCCGGCGTGAGGCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGATGTAGGTCTCGGCCAGGTCGCGCCGGGTTTCGTTGAGCAGGTCGCGAAAGCGCGTGCCTTCCTCCGCGAGCTTGCGGCGCAAGGTCCAG  >  NC_002947/2273311‑2273597                                                                                                                                            |                                                                                                                                                    ccGAAACCCAGGCTTACGAACTGGACACCCCGGAACCGGCCGACGCCGCCACCGAACTCTAGCTCGGCTGCCGCTGGCTGCGGCGGAACTCCCCCGGCGTGAGGCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAAGCaa                                                                                                                                           >  2:1036090/2‑150 (MQ=255)   gAAACCCAGGCTTACGAACTGGACACCCCGGAACCGGCCGACGACGCCACCGAACTCTAGCTCGGCTGCCGCTGGCTGCGGCGGAACTCCCCCGGCGTGAGGCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAAGCAAAc                                                                                                                                         >  2:106113/1‑150 (MQ=255)        ccAGGCTTACGAACTGGACACCCCGGAACCGGCCGACGACGCCACCGAACTCTAGCTCGGCTGCCGCTGGCTGCGGCGGAACTCCCCCGGCGTGAGGCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAAGCAAACCCCaa                                                                                                                                    <  1:428421/150‑1 (MQ=255)              ttACGAACTGGACACCCCGGAACCGGCCGACGACGCCACCGAACTCTAGCTCGGCTGCCGCTGGCTGCGGCGGAACTCCCCCGGCGTGAGGCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAGGCAAACCCCAACAGATa                                                                                                                              >  2:763259/1‑150 (MQ=255)                         acacCCCGGAACCGGCCGACGACGCCACCGAACTCTAGCTCGGCTGCCGCTGGCTGCGGCGGAACTCCCCCGGCGTGAGGCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGc                                                                                                                   <  2:707326/150‑1 (MQ=255)                                      ggCCGACGACGCCACCGAACTCTAGCTCGGCTGCCGCTGGCCGCGGCGGAACTCCCCCGGCGTGAGGCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAgcgc                                                                                                      >  1:1093983/1‑150 (MQ=255)                                          gacgacGCCACCGAACTCTAGCTCGGCTGCCGCTGGCTGCGGCGGAACTCCCCCGGCGTGAGGCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCgtg                                                                                                  >  1:1100092/1‑150 (MQ=255)                                              acgCCACCGAACTCTAGCTCGGCTGCCGCTGGCTGCGGCGGAACTCCCCCGGCGTGAGGCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCAc                                                                                              <  1:178662/150‑1 (MQ=255)                                               cgCCACCGAACTCTAGCTCGGCTGCCGCTGGCTGCGGCGGAACTCCCCCGGCGTGAGGCCCGTCCAGCGCTTGGATGCGCGCTGGAAGGCCTCGGCCGAAGCAAACCCCAACGGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACg                                                                                             <  1:250336/150‑1 (MQ=255)                                               cgCCACCGAACTCTAGCTCGGCTGCCGCTGGCTGCGGCGGAACTCCCCCGGCGTGAGGCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACg                                                                                             >  2:175681/1‑150 (MQ=255)                                                 ccACCGAACTCTAGCTCGGCTGCCGCTGGCTGCGGCGGAACTCCCCCGGCGTGAGGCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGa                                                                                           <  2:45622/150‑1 (MQ=255)                                                  cACCGAACTCTAGCTCGGCTGCCGCTGGCTGCGGCGGAACTCCCCCGGCGTGAGGCCCGTCCAGCGCTTGAATGCTCTCTGGAAGGCCTCGGCCGAAGCAACCCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGAt                                                                                          >  1:352421/1‑150 (MQ=255)                                                    ccGAACCCTAGCTCGGCTGCCGCTGGCTGCGGCGGAACTCCCCCGGCGTGAGGCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAAGCAAACCCCANCAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGATGt                                                                                        <  1:106113/150‑1 (MQ=255)                                                     cGACCTCTAGCTCGGCTGCCGCTGGCTGCGGCGGAACTCCCCCGGCGTGAGGCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGATGTa                                                                                       <  1:1036090/150‑1 (MQ=255)                                                          tctAGCTCGGCTGCCGCTGGCTGCGGCGGAACTCCCCCGGCGTGAGGCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGATGTAGGtct                                                                                  >  2:7526/1‑150 (MQ=255)                                                            tAGCTCGGCTGCCGCTGGCTGCGGCGGAACTCCCCCGGCGTGAGGCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCAc                                                                                              <  2:1058153/136‑1 (MQ=255)                                                            tAGCTCGGCTGCCGCTGGCTGCGGCGGAACTCCCCCGGCGTGAGGCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCAc                                                                                              >  1:1058153/1‑136 (MQ=255)                                                                   gCTGCCGCTGGCTGCGGCGGAACTCCCCCGGCGTGAGGCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGATGTAg                                                                                      >  1:557727/1‑137 (MQ=255)                                                                   gCTGCCGCTGGCTGCGGCGGAACTCCCCCGGCGTGAGGCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGATGTAg                                                                                      <  2:557727/137‑1 (MQ=255)                                                                     tGCCGCTGGCTGCGGCGGAACTCCCCCGGCGTGAGGCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAAGc                                                                                                                                             >  1:123408/1‑80 (MQ=255)                                                                     tGCCGCTGGCTGCGGCGGAACTCCCCCGGCGTGAGGCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAAGc                                                                                                                                             <  2:123408/80‑1 (MQ=255)                                                                        cGCTGGCTGCGGCGGAACTCCCCCGGCGTGAGGCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGATGTAGGTCTCGGCCAGGTCgcgc                                                                    >  1:84204/1‑150 (MQ=255)                                                                           tggctgCGGCGGAACTCCCCCGGCGTGAGGCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGATGTAGGTCTCGGCCAGGTCGCGCCgg                                                                 <  1:493004/150‑1 (MQ=255)                                                                               tgCGGCGGAACTCCCCCGGCGTGAGGCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGATGTAg                                                                                      >  1:959938/1‑125 (MQ=255)                                                                               tgCGGCGGAACTCCCCCGGCGTGAGGCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGATGTAg                                                                                      <  2:959938/125‑1 (MQ=255)                                                                                   gcggAACTCCCCCGGCGTGAGGCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGATGTAGGTCTCGGCCAGGTCGCGCCGGGTTTCGtt                                                         <  2:1075612/150‑1 (MQ=255)                                                                                     ggAACTCCCCCGGCGTGAGGCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAgg                                                                                                             >  1:719330/1‑96 (MQ=255)                                                                                     ggAACTCCCCCGGCGTGAGGCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAgg                                                                                                             <  2:719330/96‑1 (MQ=255)                                                                                       aaCTCCCCCGGCGTGAGGCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAGGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGATGTAGGTCTCGGCCAGGTCGCGCCGGGTTTCGTTGAGc                                                     <  1:763259/150‑1 (MQ=255)                                                                                          tCCCCCGGCGTGAGGCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGgccgggggagttccgccgcagccagcggcagccgagctagagttcggtggcgtcgtcggccggttccggggtgtcccgctcgtaagcctgggtttcgag                                                  <  2:339605‑M2/150‑100 (MQ=255)                                                                                          tCCCCCGGCGTGAGGCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGATGTAGGTCTCGGCCAGGTCGCGCCGGGTTTCGTTGAGCAgg                                                  >  2:353514/1‑150 (MQ=255)                                                                                              ccGGCGTGAGGCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGATGTAGGTCTCGGCCAGGTCGCGCCGGGTTTCGTTGAGCAGGTcgc                                              >  2:920585/1‑150 (MQ=255)                                                                                                  cGTGAGGCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGATGTAGGTCTCGGCCAGGTCGCGCCGGGTTTCGTTGAGCAGGTCGCGaaa                                          <  2:1100092/150‑1 (MQ=255)                                                                                                    tGAGGCCCGTCCAGCGCTTGAATGAGCTCTTGAAGGCCTCGGCCGAAGCAAACCCCAACAAATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGATGTAGGTCTCGGCCAGGTCGCGCCGGGTTTCGTTGAGCAGGTCGCGAAAgc                                        <  1:1050/150‑1 (MQ=255)                                                                                                       ggCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGATGTAGGTCTCGGCCAGGTCGCGCCGGGTTTCGTTGAGCAGGTCGCGAAAGcgcg                                     >  2:915256/1‑150 (MQ=255)                                                                                                       ggCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGATGTAGGTCTCGGCCAGGTCGCGCCGGGTTTCGTTGAGCAGGTCGCGAAAGcgcg                                     >  2:916017/1‑150 (MQ=255)                                                                                                       ggCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGATGTAGGTCTCGGCCAGGTCGCGCCGGGTTTCGTTGAGCAGGTCGCGAAAGcgcg                                     >  2:944621/1‑150 (MQ=255)                                                                                                        gCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGgccgggggagttccgccgcagccagcggcagccgagctagagttcggtggcgtcgtcggccggttccggggtgtccagttcgtaagcctgggtttcgagtagttcttcct                                       >  1:1123866‑M2/1‑37 (MQ=255)                                                                                                        gCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGgccgggggagttccgccgcagccagcggcagccgagctagagttcggtggcgtcgtcggccggttccggggtgtccagttcgtaagcctgggtttcgagtagttcttcct                                       <  2:1123866‑M2/147‑111 (MQ=255)                                                                                                             tCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGATGTAGGTCTCGGCCAGGTCGCGCCGGGTTTCGTTGAGCAGGTCGCGAAAGCGCGTGCCtt                               <  1:915256/150‑1 (MQ=255)                                                                                                             tCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGATGTAGGTCTCGGCCAGGTCGCGCCGGGTTTCGTTGAGCAGGTCGCGAAAGCGCGTGCCtt                               <  1:916017/150‑1 (MQ=255)                                                                                                                     ttGAATGCGCGCTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGATGTAGGTCTCGGCCAGGTCGCGCCGGGTTTCGTTGAGCAGGTCGCGAAAGCGCGTGCCTtcctcc                          <  2:280771/147‑1 (MQ=255)                                                                                                                     ttGAATGCGCGCTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGATGTAGGTCTCGGCCAGGTCGCGCCGGGTTTCGTTGAGCAGGTCGCGAAAGCGCGTGCCTtcctcc                          >  1:280771/1‑147 (MQ=255)                                                                                                                         aTGCGCGCTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGATGTAGGTCTCGGCCAGGTAGCGCCGGGTTTCGTTGATCAGGTCGCGAAAGCGCGTGCCTTCCTCCGCGAGcg                   >  1:461886/1‑149 (MQ=255)                                                                                                                             gcgcTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGATGTAGGTCTCGGCCAGGTCGCGCCGGGTTTCGTTGAGCAGGTCGCGAAAGCGCGTGCCTTCCTCCGCGAGCTTgcg               >  1:450607/1‑150 (MQ=255)                                                                                                                               gcTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGATGTAGGTCTCGGCCAGGTCGCGCCGGGTTTCGTTGa                                                       <  2:1046173/108‑1 (MQ=255)                                                                                                                               gcTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGATGTAGGTCTCGGCCAGGTCGCGCCGGGTTTCGTTGa                                                       >  1:1046173/1‑108 (MQ=255)                                                                                                                               ctggacgggCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGATGTAGGTCTCGGCCAGGTCGCGCCGGGTTTCGTTGAGCAGGTCGCGAAAGCGCGTGCCTTCCTCCGCGAGCTTgcggc             <  2:35664/143‑1 (MQ=255)                                                                                                                                cTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGATGTAGGTCTCGGCCAGGTCGCGCCGGGTTTCGTTGAGCAGGTCGCGAAAGCGCGTGCCTTCCTCCGCGAGATTgcggcg            >  1:147783/1‑150 (MQ=255)                                                                                                                                   gAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGATGTAGGTCTCGGCCAGGTCGCGCCGGGTTTCGTTGAGCAGGTCGCGAAAGCGCGTGCCTTCCTCCGCGAGCTTGCGGCGCaa         <  1:353514/150‑1 (MQ=255)                                                                                                                                        ccTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGATGTAGGTCTCGGCCAGGTCGCGCCGGGTTTCGTTGAGCAGGTCGCGAAAGCGCGTGCCTTCCTCCGCGAGCTTGCGGCGCAAGGTcc    >  1:65094/1‑150 (MQ=255)                                                                                                                                         cTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGATGTAGGTCTCGGCCAGGTCGCGCCGGGTTTCGTTGAGCAGGTCGCGAAAGCGCGTGCCTTCCTCCGCGAGCTTGCGGCGCAAGGTCCa   >  1:402034/1‑150 (MQ=255)                                                                                                                                         cTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGATGTAGGTCTCGGCCAGGTCGCGCCGGGTTTCGTTGAGCAGGTCGCGAAAGCGCGTGCCTTCCTCCGCGAGCTTGCGGCGCAAGGTCCa   >  1:393490/1‑150 (MQ=255)                                                                                                                                          tCGGCCGAAGCAAACCCCAACAGATAGGCTATCCCGCCAAAGGCCAGCGCCGTGTCACGGATGTAGGTCTCGGCCAGGTCGCGCCGGGTTTCGTTGAGCAGGTCGCGAAAGCGCGTGCCTTCCTCCGCGAGCTTGCGGCGCAAGGTCCAg  >  1:152226/1‑150 (MQ=255)                                                                                                                                            |                                                                                                                                                    TCGAAACCCAGGCTTACGAACTGGACACCCCGGAACCGGCCGACGACGCCACCGAACTCTAGCTCGGCTGCCGCTGGCTGCGGCGGAACTCCCCCGGCGTGAGGCCCGTCCAGCGCTTGAATGCGCGCTGGAAGGCCTCGGCCGAAGCAAACCCCAACAGATAGGCTATCTCGCCAAAGGCCAGCGCCGTGTCACGGATGTAGGTCTCGGCCAGGTCGCGCCGGGTTTCGTTGAGCAGGTCGCGAAAGCGCGTGCCTTCCTCCGCGAGCTTGCGGCGCAAGGTCCAG  >  NC_002947/2273311‑2273597

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