New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	1522029 =	48 (1.060)	4 (0.090)	4/240	NT	7.7%	coding (1244/1353 nt)	murD	UDP‑N‑acetylmuramoylalanine‑‑D‑glutamate ligase
	?	NC_002947	1522072 =	50 (1.140)					coding (1287/1353 nt)	murD	UDP‑N‑acetylmuramoylalanine‑‑D‑glutamate ligase

CCGTGATGCCGAGCGCCTGGCCGAGGCCTTGGGCGATGCCGTGCCACTGGTTCGGGTCAAGACGCTTGACGATGCCGTACAGCAGTGTGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGAGGAACGGGGACGCCTGTTCGCCCAGGCAGCGGGAGGTCTTGCATGATCTTCGGCATCTTCAAACCCTACCCGTCGCCGCTGATCAGCGGCCGTGGCATCGACCTGGACTTCCCGA  >  NC_002947/1521928‑1522207                                                                                                                                                 |                                                                                                                                        agcggcgacgggtagggtttgaagatgccgaagatcatgcaagacctcccgctgcctgggcgaacaggcgtccccgttcctcgaagttcttgaacatgtcgAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACAt                                                                                                                                    >  2:904408‑M1/102‑150 (MQ=255)       tGCCGAGCGCCTGGCCGAGGCCTTGGGCGATGCCGTGCCACTGGTTCGGGTCAAGACGCTTGACGATGCCGTACAGCAGTGTGCCGAACTGTCGCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCaa                                                                                                                              <  2:895061/150‑1 (MQ=255)         ccGAGCGCCTGGCCGAGGCCTTGGGCGATGCCGTGCCACTGGTTCGGGTCAAGACGCTTGACGATGCCGTACAGCAGTGTGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGa                                                                                                                            >  2:449100/1‑150 (MQ=255)          cGAGCGCCTGGCCGAGGCCTTGGGCGATGCCGTGCCACTGGTTCGGGTCAAGACGCTTGACGATGCCGTACAGCAGTGTGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGaa                                                                                                                           >  2:402121/1‑150 (MQ=255)               gcatGGCCGAGGCCTTGGGCGATGCCGTGCCACTGGTTCGGGTCAAGACGCTTGACGATGCCGTACAGCAGTGTGCCGAAATGGCCTAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCg                                                                                                                      <  2:591024/147‑1 (MQ=255)                ccTGGCCGAGGCCTTGGGCGATGCCGTGCCACTGGTTCGGGTCAAGACGCTTGACGATGCCGTACAGCAGTGTGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGa                                                                                                                     <  1:714852/150‑1 (MQ=255)                ccTGGCCGAGGCCTTGGGCGATGCCGTGCCACTGGTTCGGGTCAAGACGCTTGACGATGCCGTACAGCAGTGTGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGa                                                                                                                     >  2:274392/1‑150 (MQ=255)                ccTGGCCGAGGCCTTGGGCGATGCCGTGCCACTGGTTCGGGTCAAGACGCTTGACGATGCCGTACAGCAGTGTGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGa                                                                                                                     >  2:714852/1‑150 (MQ=255)                ccTGGCCGAGGCCTTGGGCGATGCCGTGCCACTGGTTCGGGTCAAGACGCTTGACGATGCCGTACAGCAGTGTGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGa                                                                                                                     <  1:257699/150‑1 (MQ=255)                    gCCGAGGCCTTGGGCGATGCAGTGCCACTGGTTCGGGTCAAGACGCTTGACGATGCCGTACAGCAGTGTGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGAg                                                                                                                    >  1:330293/1‑147 (MQ=255)                    gCCGAGGCCTTGGGCGATGCAGTGCCACTGGTTCGGGTCAAGACGCTTGACGATGCCGTACAGCAGTGTGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGAg                                                                                                                    <  2:330293/147‑1 (MQ=255)                           ccTTGGGCGATGCCGTGCCACTGGTTCGGGTCAAGACGCTTGACGATGCCGTACAGCAGTGTGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGAGGAACGGGGAc                                                                                                          <  1:274392/150‑1 (MQ=255)                             ttGGGCGATGCCGTGCCACTGGTTCGGGTCAAGACGCTTGACGATGCCGTACAGCAGTGTGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGAGGAACGGGGACGc                                                                                                        >  1:757105/1‑150 (MQ=255)                                   gATGCCGTGCCACTGGTTCGGGTCAAGACGCTTGACGATGCTGTACAGCAGTGTGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCaa                                                                                                                              <  2:470545/122‑1 (MQ=255)                                   gATGCCGTGCCACTGGTTCGGGTCAAGACGCTTGACGATGCTGTACAGCAGTGTGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCaa                                                                                                                              >  1:470545/1‑122 (MQ=255)                                   gATGCCGTGCCACTGGTTCGGGTCAAGACGCTTGACGATGCCGTACAGCAGTGTGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGAg                                                                                                                    >  2:748725/1‑132 (MQ=255)                                   gATGCCGTGCCACTGGTTCGGGTCAAGACGCTTGACGATGCCGTACAGCAGTGTGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGAg                                                                                                                    <  1:748725/132‑1 (MQ=255)                                        cGTGCCACTGGTTCGGGTCAAGACGCTTGACGATGCCGTACAGCAGTGTGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGAg                                                                                                                    >  2:252923/1‑127 (MQ=255)                                        cGTGCCACTGGTTCGGGTCAAGACGCTTGACGATGCCGTACAGCAGTGTGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGAg                                                                                                                    <  1:252923/127‑1 (MQ=255)                                          tGCCACTGGTTCGGGTCAAGACGCTTGACGATGCCGTACAGCAGTGTGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGAGGAACGGGGACGCCTGTTCGCCCAgg                                                                                           <  2:182385/150‑1 (MQ=255)                                          tGCCACTGGTTCGGGTCAAGACGCTTGACGATGCCGTACAGCAGTGTGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCACCAGCCTCGACATGTTCAAGAACTTCGAGGAACggg                                                                                                             <  2:332553/132‑1 (MQ=255)                                          tGCCACTGGTTCGGGTCAAGACGCTTGACGATGCCGTACAGCAGTGTGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCACCAGCCTCGACATGTTCAAGAACTTCGAGGAACggg                                                                                                             >  1:332553/1‑132 (MQ=255)                                                   ttCGGGTCAAGACGCTTGACGATGCCGTACAGCAGTGTGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGAGGAACGGGGACGCCTGTTCGCCCAGGCAGCGGGAg                                                                                  <  1:57262/150‑1 (MQ=255)                                                   ttCGGGTCAAGACGCTTGACGACGCCGTACAGCAGTGTGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGAGGAACGGGGACGCCTGTTCGCCCAGGCAGCGGGAg                                                                                  >  2:369461/1‑150 (MQ=255)                                                      gggTCAAGACGCTTGACGATGCCGTACAGCAGTGTGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCaa                                                                                                                              <  1:95739/103‑1 (MQ=255)                                                      gggTCAAGACGCTTGACGATGCCGTACAGCAGTGTGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCaa                                                                                                                              >  2:95739/1‑103 (MQ=255)                                                        gTCAAGACGCTTGACGATGCCGTACAGCAGTGTGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGAGGAACGGGGACGCCTGTTCGCCCAGGCAGCgg                                                                                     >  1:447104/1‑142 (MQ=255)                                                        gTCAAGACGCTTGACGATGCCGTACAGCAGTGTGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGAGGAACGGGGACGCCTGTTCGCCCAGGCAGCgg                                                                                     <  2:447104/142‑1 (MQ=255)                                                            aGACGCTTGACGATGCCGTACAGCAGTGTGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGAGGAACGGGGACGCCTGTTCGCCCAGGCAGCGGGAg                                                                                  >  1:441508/1‑141 (MQ=255)                                                            aGACGCTTGACGATGCCGTACAGCAGTGTGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGAGGAACGGGGACGCCTGTTCGCCCAGGCAGCGGGAg                                                                                  <  2:441508/141‑1 (MQ=255)                                                                       gacgCCGTACAGCAGTGTGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGAGGAACGGGGACGCCTGTTCGCCCAGGCAGCGGGAGGTCTTGCATGATCTTCGGCa                                                              <  1:369461/147‑1 (MQ=255)                                                                       gATGCCGTACAGCAGTGTGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTc                                                                                                                                >  1:808351/1‑84 (MQ=255)                                                                       gATGCCGTACAGCAGTGTGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTc                                                                                                                                <  2:808351/84‑1 (MQ=255)                                                                          gCCGTACAGCAGTGTGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCGTGCGCCAGCCTAGAAATATTTAAGAACTGCGAGGAACGGGGACGCATGTTCGCCCAGGCAGCGGGAGGTCTTGCATGATCTTCGGCAtgt                                                           >  1:146152/1‑148 (MQ=255)                                                                               aCAGCAGTGTGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGAGGAACGGGGACGCCTGTTCGCCCAGGCAGCGGGAGGTCTTGCATGATCTTCGGCATCTTCaaa                                                      <  1:402121/150‑1 (MQ=255)                                                                                     gtgtGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGAGGAACGGGGACGCCTGTTCGCCCAGGCAGCGGGAGGTCTTGCATGATCTTCGGCATCTTCAAACCCTAc                                                <  2:757105/150‑1 (MQ=255)                                                                                     gtgtGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTGCGAGGAACGGGGACGCCTGTTCGCCCAGGCAGCGGGAGGTCTTGCATGATCTTCGGCATCTTCAAACCCTAc                                                <  2:887504/150‑1 (MQ=255)                                                                                      tgtgCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGAGGAACGGGGACGCCTGTTCGCCCAGGCAGCGGGAGGTCTTGCATGATCTTCGGCATCTTCAAACCCTAcc                                               >  1:551475/1‑150 (MQ=255)                                                                                               cTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAATCTGGCGGACGTAGGACGCCTGTTCGCCCAGACAGCGGGAGGTCTTGCATGATCTTCGGCATCTTCAAACCCTACCCGTcgccgc                                      <  1:449100/150‑1 (MQ=255)                                                                                               cTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGAGGAACGGGGACGCCTGTTCGCCCAGGCAGCGGGAGGTCTTGCATGATCTTCGGCATCTTCAAACCCTACCCGTcgccgc                                      <  2:551475/150‑1 (MQ=255)                                                                                                atgtcgaggctggcgcatgctggcgacagcagcacggcatcgccggcctCGACATGTTCAAGAACTTCGAGGAACGGGGACGCCTGTTCGCCCAGGCAGCGGGAGGTCTTGCATGATCTTCGGCATCTTCAAACCCTACCCGTCGCCGCt                                     >  2:904408‑M2/50‑150 (MQ=255)                                                                                                    ccAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGAGGAACGGGGACGCCTGTTCGCCCAGGCAGCGGGAGGTCTTGCATGATCTTCGGCATCTTCAAACCCTACCCGTCGCCGCTGATc                                 >  2:912850/1‑150 (MQ=255)                                                                                                     cAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGAGGAACGGGGACGCCTGTTCGccc                                                                                              >  2:383633/1‑88 (MQ=255)                                                                                                     cAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGAGGAACGGGGACGCCTGTTCGccc                                                                                              <  1:383633/88‑1 (MQ=255)                                                                                                     cAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGAGGAACGGGGACGCCTGTTCGCCCAGGCAGCGGGAGGTCTTGCATGATCTTCGGCATCTTCAAACCCTACCCGTCGCCGCTGATCa                                <  1:912850/150‑1 (MQ=255)                                                                                                       GGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGAGGAACGGGGACGCCTGTTCGCCCAGGCAGCGGGAGGTCTTGCATGATCTTCGGCATCTTCAAACCCTACCCGTCGCCGCTGATCAGc                              >  2:146152‑M1/1‑150 (MQ=255)                                                                                                        gctggcgcacgctggcgacagcagcacggcatcgccggcctCGACATGTTCAAGAACTTCGAGGAACGGGGACGCCTGTTCGCCCAGGCAGCGGGAGGTCTTGCATGATCTTCGGCATCTTCAAACCCTAcc                                               <  2:382612‑M2/91‑1 (MQ=255)                                                                                                        gctggcgcacgctggcgacagcagcacggcatcgccggcctCGACATGTTCAAGAACTTCGAGGAACGGGGACGCCTGTTCGCCCAGGCAGCGGGAGGTCTTGCATGATCTTCGGCATCTTCAAACCCTAcc                                               >  1:382612‑M2/42‑132 (MQ=255)                                                                                                        GCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGAGGAACGGGGACGCCTGTTCGCCCAGGCAGCGGGAGGTCTTGCATGATCTTCGGCATCTTCAAACCCTACCCGTCGCCGCTGATCAGCg                             <  2:791269‑M1/150‑1 (MQ=255)                                                                                                          tggcgcatgctggcgacagcagcacggcatcgccggcctCGACATGGTCAAGAACTTCGAGGAACGGGGACGCCTGTTCGCCCAGGCAGCGGGAGGTCTTGCATGATCTTCGGCATCTTCAAACCCTACCCGTCGCCGCTGATCAGCGGc                           >  1:26446‑M2/40‑150 (MQ=255)                                                                                                          cGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGAGGAACGGGGACGCCTGTTCGCCCAGGCAGCGGGAGGTCTTGCATGATCTTCGGCATCTTCAAACCCTACCCGTCGCCGCTGATCAGCGGc                           >  1:963680/1‑150 (MQ=255)                                                                                                          cGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGAGGAACGGGGACGCCTGTTCGCCCAGGCAGCGGGAGGTCTTGCATGATCTTCGGCATCTTCAAACCCTACCCGTCGCCGCTGATCAGCGGc                           >  1:759930/1‑150 (MQ=255)                                                                                                             cGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGAGGAACGGGGATGCCTGTTCGCCCAGGCAGCGGGAGGTCTTGCATGATCTTCGGCATCTTCAAACCCTACCCGTCGCCGCTGATCAGCGGCCGt                        <  2:346837/150‑1 (MQ=255)                                                                                                              gATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGAGGAACGGGGACGCCTGTTCGCCCAGGCAGCGGGAGGTCTTGCATGATCTTCGGCATCTTCAAACCCTACCCGTCGCCGCTGATCAGCGGCCGTg                       >  2:174803/1‑150 (MQ=255)                                                                                                                tGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGAGGAACGGGGACGCCTGTTCGCCCAGGTAGCGGGAGGTCTTGCATGATCTTCGGCATCTTCAAACCCTACCCGTCGCCGCTGATCAGCGGCCGTGGc                     <  2:963680/150‑1 (MQ=255)                                                                                                                               gCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGAGGAACGGGGACGCCTGTTCGCCCAGGCAGCGGGAGGTCTTGCATGATCTTCGGCATCTTCAAACCCTACCCGTCGCCGCTGATCAGCGGCCGTGGCATCGACCTGGACTTc      >  1:543417/1‑150 (MQ=255)                                                                                                                               gCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGAGGAACGGGGACGCCTGTTCGCCCAGGCAACGGGAGGTCTTGCATGATCTTCGGCATCTTCAAACCCTACCCGTCGCCGCTGATCAGCGGCCGTGGCATCGACCTGGACTTc      >  1:790316/1‑150 (MQ=255)                                                                                                                                                tCGACATGTTCAAGAACTTCGAGGAACGGGGACGCCTGTTCGCCCAGGCAGCGGGAGGTCTTGCATGATCTTCGGCATCTTCAAACCCTACCCGTCGCCGCTGATCAGCGGCCGTGGCATCGACCTGGACTTCCCGa  <  2:773293‑M2/136‑1 (MQ=255)                                                                                                                                                tCGACATGTTCAAGAACTTCGAGGAACGGGGACGCCTGTTCGCCCAGGCAGCGGGAGGTCTTGCATGATCTTCGGCATCTTCAAACCCTACCCGTCGCCGCTGATCAGCGGCCGTGGCATCGACCTGGACTTCCCGa  >  1:773293‑M2/2‑137 (MQ=255)                                                                                                                                                 |                                                                                                                                        CCGTGATGCCGAGCGCCTGGCCGAGGCCTTGGGCGATGCCGTGCCACTGGTTCGGGTCAAGACGCTTGACGATGCCGTACAGCAGTGTGCCGAACTGGCCCAGGCCGGCGATGCCGTGCTGCTGTCGCCAGCATGCGCCAGCCTCGACATGTTCAAGAACTTCGAGGAACGGGGACGCCTGTTCGCCCAGGCAGCGGGAGGTCTTGCATGATCTTCGGCATCTTCAAACCCTACCCGTCGCCGCTGATCAGCGGCCGTGGCATCGACCTGGACTTCCCGA  >  NC_002947/1521928‑1522207

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.