New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 2902753	53 (1.000)	3 (0.060)	3/246	NT	5.9%	coding (1835/1908 nt)	quiC	3‑dehydroshikimate dehydratase
	?	NC_002947	= 2902805	45 (0.880)					coding (1887/1908 nt)	quiC	3‑dehydroshikimate dehydratase

CTCAGTGAGCTGGCGTACTACAACGTGCTGTATGACCGCGACGCTCAAGGTGGCGAGCTGTTCCACGTCTATACCGAGCCGTTCGAGGAGCGTTTCTTCTTCGAGATCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTGTAGTCGCCTGCACCGGCCTGTCTTGTGGGAGTGGGGTGAACCCTGCTTCCACAGGATTATTACGGCCCGATTCAG  >  NC_002947/2902611‑2902898                                                                                                                                               |                                                                                                                                                  cTCAGTGAGCTGGCGTACTACAACGTGCTGTATGACCGAGACGCTCAAGGTGGCGAGCTGTTCCACGTCTATACCGAGCCGTTAGAGGAGCGTTTCTTCTTCGAGATCATCCAGCGCAAGGCGTGGTACGCTGGTTACTGCTCTGCCaa                                                                                                                                             >  1:50672/1‑149 (MQ=255)          cTGTCGTACTACAACGTTCTGTATGACCGCGTCGCTCAAGGTGGCGAGCTGTTCCACGTCTATACCGAGCCGTTCGAGGAGCGTTTCTTCTTGGAGATCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCgg                                                                                                                                     <  2:50672/148‑1 (MQ=255)             gCGTACTACAACGTGCTGTATGACCGCGACGCTCAAGGTGGCGAGCTGTTCCACGTCTATACAGAGCCGTTCGAGGAGCGTTTCTTCTTCGAGATCATCCAGCGCAAGGCGGGGTACGATGGTTACGGCGCTGCCAACGttgcgttgcg                                                                                                                                 >  5:330008/1‑149 (MQ=255)                             tGTATGACCGCGACGCTCAAGGTGGCGAGCTGTTCCACGTCTATACCGAGCCGTTCGAGGAGCGTTTCTTCTTCGAGATCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATg                                                                                                                    >  1:66946/1‑146 (MQ=255)                             tGTATGACCGCGACGCTCAAGGTGGCGAGCTGTTCCACGTCTATACCGAGCCGTTCGAGGAGCGTTTCTTCTTCGAGATCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATg                                                                                                                    <  2:66946/146‑1 (MQ=255)                                            cTCAAGGTGGCGAGCTGTTCCACGTCTATACCGAGCCGTTCGAGGAGCGTTTCTTCTTCGAGATCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCcgccccgctacgggccttggccatggctgccaggcgcaccgcaacgttg                                                                                                  >  1:236439‑M1/1‑100 (MQ=255)                                                   tGGCGAGCTGTTCCACGTCTATACCGAGCCGTTCGAGGAGCGTTTCTTCTTCGAGATCATCCAGCGCAAGGCGTGGTACGCTGGTTACGGCGCcgccccgctacgggccttggccatggctgccaggcgcaccgcaacgttggcagcgc                                                                                           <  2:236439‑M1/149‑57 (MQ=255)                                                         gCTGTTCCACGTCTATACCGAGCCGTTCGAGGAGCGTTTCTTCTTCGAGATCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAgg                                                                                                             <  7:243454/125‑1 (MQ=255)                                                         gCTGTTCCACGTCTATACCGAGCCGTTCGAGGAGCGTTTCTTCTTCGAGATCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAgg                                                                                                             >  8:243454/1‑125 (MQ=255)                                                         gCTGTTCCACGTCTATACCGAGCCGTTCGAGGAGCGTTTCTTCTTCGAGATCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGc                                                                                     >  3:178525/1‑149 (MQ=255)                                                             ttCCACGTCTATACCGAGCCGTTCGAGGAGCGTTTCTTCTTCGAGATCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGt                                                                                 >  8:302587/1‑149 (MQ=255)                                                             ttCCACGTCTATACCGAGCCGTTCGAGGAGCGTTTCTTCTTCGAGATCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGt                                                                                 >  3:159012/1‑149 (MQ=255)                                                               ccACGTCTATACCGAGCCGTTCGAGGAGCGTTTCTTCTTCGAGATCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTg                                                                                <  4:178525/148‑1 (MQ=255)                                                                cACGTCTATACCGAGCCGTTCGAGGAGCGTTTCTTCTTCGAGATCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCt                                                                              >  3:208239/1‑149 (MQ=255)                                                                   gTCTATACCGAGCCGTTCGAGGAGCGTTTCTTCTTCGAGATCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTg                                                                             >  1:57497/1‑147 (MQ=255)                                                                      tataCCGAGCCGTTCGAGGAGCGTTTCTTCTTCGAGATCATCCAGCGCAAGGCGGGGTACGCTCGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTGTAGTc                                                                        >  5:355142/1‑149 (MQ=255)                                                                         aCCGAGCCGTTCGAGGAGCGTTTCTTCTTCGAGATCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTg                                                                                                                                        <  2:256942/82‑1 (MQ=255)                                                                         aCCGAGCCGTTCGAGGAGCGTTTCTTCTTCGAGATCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTg                                                                                                                                        >  1:256942/1‑82 (MQ=255)                                                                          ccGAGCCGTTCGAGGAGCGTTTCTTCTTCGAGATCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTGTAGTc                                                                        <  8:266452/145‑1 (MQ=255)                                                                          ccGAGCCGTTCGAGGAGCGTTTCTTCTTCGAGATCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTGTAGTc                                                                        >  7:266452/1‑145 (MQ=255)                                                                          ccGAGCCGTTCGAGGAGCGTTTCTTCTTCGAGATCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTGTAGTCGCCt                                                                    >  3:251632/1‑149 (MQ=255)                                                                           cGAGCCGTTCGAGGAGCGTTTCTTCTTCGAGATCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCcgccccgctacgggccttggccatggctgccaggcgcaccgcaacgttggcagcgcc                                                                                          <  8:223641‑M1/126‑58 (MQ=255)                                                                                          gCGTTTCTTCTTCGAGATCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTGTAGTCGCCTGCACCGGCCTGTCTtg                                                    >  7:38981/1‑149 (MQ=255)                                                                                           cGTTTCTTCTTCGAGATCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATg                                                                                                                    >  5:301819/1‑84 (MQ=255)                                                                                           cGTTTCTTCTTCGAGATCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATg                                                                                                                    <  6:301819/84‑1 (MQ=255)                                                                                            gTTTCTTCTTCGAGATCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTGTAGTCGCCTGCACCGGCCTGTCTtgtg                                                  <  8:38981/149‑1 (MQ=255)                                                                                             tttCTTCTTCGAGATCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTGTAGTCGCCTGCACCGGCCTGTCTTGTgg                                                 >  5:252904/1‑149 (MQ=255)                                                                                               tcttcttcGAGATCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTGTAGTCGCCTGCACCGGCCTGTCTTGTgg                                                 >  8:250308/1‑147 (MQ=255)                                                                                                    ttcGAGATCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTGTAGTc                                                                        <  6:358267/119‑1 (MQ=255)                                                                                                    ttcGAGATCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTGTAGTc                                                                        >  5:358267/1‑119 (MQ=255)                                                                                                    ttcGAGATCATCCAGCGCAAGACGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTGTAGTc                                                                        <  6:95243/119‑1 (MQ=255)                                                                                                    ttcGAGATCATCCAGCGCAAGACGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTGTAGTc                                                                        >  5:95243/1‑119 (MQ=255)                                                                                                      cGAGATCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTGTAGTCGCCTGCACCGGCCTGTCTTGTGGGAGTggg                                          <  4:251632/147‑1 (MQ=255)                                                                                                      cGAGATCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTGTAGTCGCCTGCACCGGCCTGTCTTGTGGGAGTggg                                          <  4:159012/147‑1 (MQ=255)                                                                                                       gagaTCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTGTAGTCGCCTGCACCGGTCTGTCTTGTGGGAGTGGGGt                                        <  6:330008/148‑1 (MQ=255)                                                                                                        agaTCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCaa                                                                                                               <  5:276958/76‑1 (MQ=255)                                                                                                        agaTCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCaa                                                                                                               >  6:276958/1‑76 (MQ=255)                                                                                                         gaTCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGTGGCGGCGCGCAAGCCGGTGCTGTAGTCGCCTGCACCGGCCTGTCTTGTGGGAGTGGGGt                                        <  1:4241/146‑1 (MQ=255)                                                                                                         gaTCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTGTAGTCGCCTGCACCGGCCTGTCTTGTGGGAGTGGGGt                                        >  2:4241/1‑146 (MQ=255)                                                                                                         gaTCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTGTAGTCGCCTGCACCGGCCTGTCTTGTGGAAGCAGGGttca                                     >  4:259929/1‑146 (MQ=255)                                                                                                           tcatcCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTGTAGTCGCCTGCACCGGCCTGTCTTGTGGGAGTGGGGTGAAcc                                   <  2:57497/149‑1 (MQ=255)                                                                                                              tcCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTGTAGTCGCCTGCACCGGCCTGTCTtgtg                                                  >  1:172415/1‑131 (MQ=255)                                                                                                              tcCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTGTAGTCGCCTGCACCGGCCTGTCTtgtg                                                  <  2:172415/131‑1 (MQ=255)                                                                                                              tcCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTGTAGTCGCCTGCACCGGCCTGTCTTGTGGGa                                               >  5:68800/1‑134 (MQ=255)                                                                                                              tcCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTGTAGTCGCCTGCACCGGCCTGTCTTGTGGGa                                               <  6:68800/134‑1 (MQ=255)                                                                                                              tcCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTGTAGTCGCCTGCACCGGCCTGTCTTGTGGGAGTGGGGTGAACCCTg                                >  6:360378/1‑149 (MQ=255)                                                                                                               ccAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTGTAGTCGCCTGCACCGGCCTGTCTTGTGGGAGTGGGGTGAACCCTGc                               >  1:106872/1‑149 (MQ=255)                                                                                                                cAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTGTAGTCGCCTGCACCGGCCTGTCTTGTGGGAGTGGGGTGAACCCTGCt                              <  4:208239/149‑1 (MQ=255)                                                                                                                     cAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTGTAGTCGCCTGCACCGGCCTGTCTTGTGGAAGCAGGGTTCACCCCACTCCcac                         <  7:250308/149‑1 (MQ=255)                                                                                                                      aaGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTGTAGTCGCCTGCACCGGCCTGTCTTGTGGGAGTGGGGTGAACCCTGCTTCcaca                        <  6:252904/149‑1 (MQ=255)                                                                                                                       aGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTGTAGTCGCCTGCACCGGCCTGTCTTGTGGGAGTGGGGTGAACCCTGCTTCCACAg                       <  5:360378/149‑1 (MQ=255)                                                                                                                       aGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTGTAGTCGCCTGCACCGGCCTGTCTTGTGGAAGCAGGGTTCACCCCACTCCcacaa                       <  3:259929/149‑2 (MQ=255)                                                                                                                         gCGGGTTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTGTAGTCGCCTGCACCGGCCTGTCTTGTGGGAGTGGTGTGAACCCTGCTTCCACAGGa                     <  6:355142/149‑1 (MQ=255)                                                                                                                             ggTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTGTAGTCGCCTGCACCGGCCTGTCTTGTGGGAGTGGGGTGAACCCTGCTTCCACAGGattat                 >  4:123158/1‑149 (MQ=255)                                                                                                                               tACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTGTAGTCGCCTGCACCGGCCTGTCTTGTGGGAGTAGGGTGAACCCTGCTTCCACAGGAttatta               <  7:302587/149‑1 (MQ=255)                                                                                                                                       ttACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTGTAGTCGCCTGCACCGGCCTGTCTTGTGGGAGTGGGGTGAACCCTGCTTCCACAGGATTATTACGGCCCGa       <  2:106872/149‑1 (MQ=255)                                                                                                                                           ggCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGgcgccgtaaccagcgtaccccgccttgcgctggatgatctcgaagaagaaacgctcctcgaacggctcg                          <  8:223641‑M2/126‑70 (MQ=255)                                                                                                                                            gcgcTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGgcgccgtaaccagcgtaccacgccttgcgctggatgatctcgaagaagaaacgctcctcgaacggctcggtatagacgtggaacagctcgcca  <  2:236439‑M2/149‑94 (MQ=255)                                                                                                                                               |                                                                                                                                                  CTCAGTGAGCTGGCGTACTACAACGTGCTGTATGACCGCGACGCTCAAGGTGGCGAGCTGTTCCACGTCTATACCGAGCCGTTCGAGGAGCGTTTCTTCTTCGAGATCATCCAGCGCAAGGCGGGGTACGCTGGTTACGGCGCTGCCAACGTTGCGGTGCGCCTGGCAGCCATGGCCAAGGCCCGTAGCGGGGCGGCGCGCAAGCCGGTGCTGTAGTCGCCTGCACCGGCCTGTCTTGTGGGAGTGGGGTGAACCCTGCTTCCACAGGATTATTACGGCCCGATTCAG  >  NC_002947/2902611‑2902898

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ 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.