New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	2038740 =	49 (1.090)	3 (0.070)	3/234	NT	6.2%	coding (783/1143 nt)	rffE	UDP‑N‑acetylglucosamine‑2‑epimerase
	?	NC_002947	2038777 =	45 (1.060)					coding (746/1143 nt)	rffE	UDP‑N‑acetylglucosamine‑2‑epimerase

TGTCGCGCATCACCAGCACCGGTTTGCCCAGGGCCGGCGCTTCCTCCTGAATGCCACCCGAGTCGGTCAGAATCACATAGGCCCGGGTCATGAGGTAAACGAACGGCAGGTAATCCAGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCGGGTA‑CACCACGTCCAACTCGGGGAATTGCCGTGCAATCTGCACCAGGGCCTGGCAGATGCGCTCGAAGCCGCCACCAAAGTTCTCGCGCCGGTGGCCG  >  NC_002947/2038592‑2038887                                                                                                                                                     |                                                                                                                                                     gctacctggcagccgagcgccggctgttgctggtcaccggccaccggcgcgagaactttggtggcggcttcgagcgcatctgccaggccctggtgcagattgcacggcaattccccgagttggacgtggtgtacccggtccacctcaacc                                                                                                                                                     >  1:280796‑M1/149‑150 (MQ=255)   tCGCGCATCACCAGCACCGGTTTGCCCAGGGCCGGCGCTTCCTCCTGAATGCCACCCGAGTCGGTCAGAATCACATAGGCCCGGGTCATGAGGTAAACGAACGGCAGGTAATCCAGCGGTTCGACAAGGTGGATGTTGCTCACATccccc                                                                                                                                                   >  1:779069/1‑150 (MQ=255)             ccAGCACCGGTTTGCCCAGGGCCGGCGCTTCCTCCTGAATGCCACCCGAGTCGGTCAGAATCACATAGGCCCGGGTCATGAGGTAAACGAACGGCAGGTAATCCAGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGt                                                                                                                                         >  2:375489/1‑150 (MQ=255)                   ccGGTTTGCCCAGGGCCGGCGCTTCCTCCTGAATGCCACCCGAGTCGGTCAGAATCACATAGGCCCGGGTCATGAGGTAAACGAACGGCAGGTAATCCAGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCg                                                                                                                                   >  1:1193690/1‑150 (MQ=255)                   ccGGTTTGCCCAGGGCCGGCGCTTCCTCCTGAATGCCACCCGAGTCGGTCAGAATCACATAGGCCCGGGTCATGAGGTAAACGAACGGCAGGTAATCCAGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCg                                                                                                                                   >  2:752606/1‑150 (MQ=255)                    cGGTTTGCCCAGGGCCGGCGCTTCCTCCTGAATGCCACCCGAGTCGGTCAGAATCACATAGGCCCGGGTCATGAGGTAAACGAACGGCAGGTAATCCAGCGGTTCGACAAGGGGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCgg                                                                                                                                  >  2:197014/1‑150 (MQ=255)                           ttgctggtcaccggccaccggcgcgagaactttggtggcggcttcgagcgcatctgccaggccctggtgcagattgcacggcaattccccgagttggacgtggtgtacccggtccacctcaac                                                                                                                                                      >  1:1043236‑M1/123‑123 (MQ=255)                           ttgctggtcaccggccaccggcgcgagaactttggtggcggcttcgagcgcatctgccaggccctggtgcagattgcacggcaattccccgagttggacgtggtgtacccggtccacctcaac                                                                                                                                                      <  2:1043236‑M1/1‑1 (MQ=255)                            ccAGGGCCGGCGCTTCCTCCTGAATGCCACCCGAGTCGGTCAGAATCACATAGGCCCGGGTCATGAGGTAAACGAACGGCAGGTAATCCAGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGAGGGGCTCGCGCa                                                                                                                          >  1:487258/1‑150 (MQ=255)                            ccAGGGCCGGCGCTTCCTCCTGAATGCCACCCGAGTCGGTCAGAATCACATAGGCCCGGGTCATGAGGTAAACGAACGGCAGGTAATCCAGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTCAACCGGCtgttggg                                                                                                                          <  1:200375/150‑7 (MQ=255)                             cAGGGCCGGCGCTTCCTCCTGAATGCCACCCGAGTCGGTCAGAATCACATAGGCCCGGGTCATGAGGTAAACGAACGGCAGGTAATCCAGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCAc                                                                                                                         >  2:502635/1‑150 (MQ=255)                                   cGGCGCTTCCTCCTGAATGCCACCCGAGTCGGTCAGAATCACATAGGCCCGGGTCATGAGGTAAACGAACGGCAGGTAATCCAGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTggg                                                                                                                   <  2:1193690/150‑1 (MQ=255)                                        gccaccggcgcgagaactttggtggcggcttcgagcgcatctgccaggccctggtgcagattgcacggcaattccccgagttggacgtggtgtacccggtccacctcaaCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGa                                                                                                              >  2:86973‑M1/110‑150 (MQ=255)                                         ttCCTCCTGAATGCCACCCGAGTCGGTCAGAATCACATAGGCCCGGGTCATGAGGTAAACGAACGGCAGGTAATCCAGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAg                                                                                                             >  2:745108/1‑150 (MQ=255)                                             tcctGAATGCCACCCGAGTCGGTCAGAATCACATAGGCCCGGGTCATGAGGTAAACGAACGGCAGGTCATCCAGCGGTTCGACAAGCTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTgg                                                                                                         >  2:1107151/1‑150 (MQ=255)                                             tcctGAATGCCACCCGAGTCGGTCAGAATCACATAGGCCCGGGTCATGAGGTAAACGAACGGCAGGTAATCCAGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTgg                                                                                                         >  2:325374/1‑150 (MQ=255)                                             tcctGAATGCCACCCGAGTCGGTCAGAATCACATAGGCCCGGGTCATGAGGTAAACGAACGGCAGGTAATCCAGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTgg                                                                                                         >  1:33717/1‑150 (MQ=255)                                                  aaTGCCACCCGAGTCGGTCAGAATCACATAGGCCCGGGTCATGAGGTAAACGAACGGCAGGTAATCCAGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCgg                                                                                                    <  2:779069/150‑1 (MQ=255)                                                      ccACCCGAGTCGGTCAGAATCACATAGGCCCGGGTCATGAGGTAAACGAACGGCAGGTAATCCAGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCGGGTa‑c                                                                                               >  1:4242/1‑150 (MQ=255)                                                       cACCCGAGTCGGTCAGAATCACATAGGCCCGGGTCATGAGGTAAACGAACGGCAGGTAATCCAGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTggg                                                                                                                   <  1:661571/130‑1 (MQ=255)                                                       cACCCGAGTCGGTCAGAATCACATAGGCCCGGGTCATGAGGTAAACGAACGGCAGGTAATCCAGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTggg                                                                                                                   >  2:661571/1‑130 (MQ=255)                                                        aCCCGAGTCGGTCAGAATCACATAGGCCCGGGTCATGAGGTAAACGAACGGCAGGTAATCCAGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCGGGTa‑cac                                                                                             <  1:502635/150‑1 (MQ=255)                                                              gTCGGTCAGAATCACATAGGCCCGGGTCATGAGGTAAACGAACGGCAGGTAATCCAGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCGGGTA‑CACCACGTc                                                                                       <  2:977225/150‑1 (MQ=255)                                                              gTCGGTCAGAATCACATAGGCCCGGGTCATGAGGTAAACGAACGGCAGGTAATCCAGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCGGGTA‑CACCACGTc                                                                                       <  2:814681/150‑1 (MQ=255)                                                               tCGGTCAGAATCACATAGGCCCGGGTCATGAGGTAAACGAACGGCAGGTAATCCAGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCGGGTA‑CACCACGTcc                                                                                      >  2:238681/1‑150 (MQ=255)                                                                      gAATCACATAGGCCCGGGTCATGAGGTAAACGAACGGCAGGTAATCCAGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCGGGTA‑CACCACGTCCAACTCgg                                                                               <  1:752606/150‑1 (MQ=255)                                                                           acaTAGGCCCGGGTCATGAGGTAAACGAACGGCAGGTAATCCAGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCGGGTA‑CACCACGTCCAACTCGGGGAAt                                                                          >  2:204288/1‑150 (MQ=255)                                                                            caTAGGCCCGGGTCATGAGGTAAACGAACGGCAGGTAATCCAGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCGGGTA‑CACCACGTCCAACTCGGGGAAtt                                                                         <  2:4242/150‑1 (MQ=255)                                                                             aTAGGCCCGGGTCATGAGGTAAACGAACGGCAGGTAATCCAGCGGTTCGACAAGGTGGATGTTGCTCGCATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCGGGTA‑cacc                                                                                            >  1:486385/1‑130 (MQ=255)                                                                             aTAGGCCCGGGTCATGAGGTAAACGAACGGCAGGTAATCCAGCGGTTCGACAAGGTGGATGTTGCTCGCATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCGGGTA‑cacc                                                                                            <  2:486385/130‑1 (MQ=255)                                                                             aTAGGCCCGGGTCATGAGGTAAACGAACGGCAGGTAATCCAGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCGGGTA‑CACCACGTCCAACTCGGGGAATTg                                                                        >  2:821217/1‑150 (MQ=255)                                                                                 gCCCGGGTCATGAGGTAAACGAACGGCAGGTAATCCAGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCGGGTA‑CACCACGTCCAACTCGGGGAATTGCCGt                                                                    <  1:204288/150‑1 (MQ=255)                                                                                        tCATGAGGTAAACGAACGGCAGGTAATCCAGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCGGGTA‑CACCACGTCCAACTCGGGGAATTGCCGTGCAATCt                                                             >  1:311942/1‑150 (MQ=255)                                                                                            ggtgcagattgcacggcaattccccgagttggacgtggtgtacccggtccacctcaaCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTgggg                                                                                                                  >  1:681889‑M1/58‑94 (MQ=255)                                                                                            ggtgcagattgcacggcaattccccgagttggacgtggtgtacccggtccacctcaaCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTgggg                                                                                                                  <  2:681889‑M1/37‑1 (MQ=255)                                                                                              ggTAAACGAACGGCAGGTAATCCAGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCGGGTA‑CACCACGTCCAACTCGGGGAATTGcc                                                                      <  1:231182/135‑1 (MQ=255)                                                                                              ggTAAACGAACGGCAGGTAATCCAGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCGGGTA‑CACCACGTCCAACTCGGGGAATTGcc                                                                      >  2:231182/1‑135 (MQ=255)                                                                                                tAAACGAACGGCAGGTAATCCAGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCGGGTA‑CACCACGTCCAACTCGGGGAATTGCCGTGCAATCTGCACCAgg                                                     >  2:249132/1‑150 (MQ=255)                                                                                                      aacgGCAGGTAATCCAGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCGGGTA‑CACCACGTCCAACTCGGGGAATTGCCGTGCAATCTGCACCAGGGCCTgg                                               <  2:487258/150‑1 (MQ=255)                                                                                                          gCAGGTAATCCAGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCGGGTA‑CACCACGTCCAACTCGGGGAATTGCCGTGCAATCTGCACCAGGGCCTGGCAGa                                           >  1:1099222/1‑150 (MQ=255)                                                                                                           cAGGTAATCCAGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCGGGTA‑CACCACGTCCAACTCGGGGAATTGCCGTGCAATCTGCACCAGGGCCTGGCAGAt                                          >  2:1001036/1‑150 (MQ=255)                                                                                                                 aTCCAGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACAGTCTCGCTCACTTTTGTGTTGAGGTGGACCGGGTA‑CACCACGTCCAACTCGGGGAATTGCCGTGCAATCTGCACCAGGGCCTGGCAGATGCGCTc                                    <  1:745108/150‑1 (MQ=255)                                                                                                                    cAGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCGGGTA‑CACCACGTCCAACTCGGGGAATTGCCGt                                                                    <  2:1113115/115‑1 (MQ=255)                                                                                                                    cAGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCGGGTA‑CACCACGTCCAACTCGGGGAATTGCCGt                                                                    >  1:1113115/1‑115 (MQ=255)                                                                                                                     aGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCGGGTA‑CACCACGTCCAACTCGGGGAATTGCCGTGCAATCTGCACCAGGGCCTGGCAGATGCGCTCGAAg                                <  1:821217/150‑1 (MQ=255)                                                                                                                          ttCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCGGGTA‑CACCACGTCCAACTCGGGGAATTGCCGTGCAATCTGCACCAGGGCCTGGCAGATGCGCTCGAAgccgcc                           >  1:283075/1‑150 (MQ=255)                                                                                                                             gACAAGGTGGATGTTGCTCACATCCCCCAACAGGCGGTTGACCGTATCGCGCACGGGTGGGTTGAGGTTGGCCGGGAAGCATCAC‑CAAAGCTTTTTTTGTTGCCGTGCAATCTGCACCAGGGCCTGGCAGATGCGCTGGAAGCCGccacc                        >  1:275153/1‑150 (MQ=255)                                                                                                                             gACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCGGGTA‑CACCACGTCCAACTCGGGGAATTGCCGTGCAATCTGCACCAGGGCCTGGCAGATGCGCTCGAAGCCGccacc                        >  1:838958/1‑150 (MQ=255)                                                                                                                                   gTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCGGGTA‑CACCACGTCCAACTCGGGGAATTGCCGTGCAATCTGCACCAGGGCCTGGCAGATGCGCTCGAAGCCGCCACCAAAGtt                  >  2:247130/1‑150 (MQ=255)                                                                                                                                      gATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCGGGTA‑CACCACTTCCAACTCGGGGAATTGCAGTGCCATCTGCACCAGGGCCTGGCAGATGCGCTCGAAGCCGCCACCAAAGTtctc               <  2:471225/150‑1 (MQ=255)                                                                                                                                      gATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCGGGTA‑CACCACGTCCAACTCGGGGAATTGCCGTGCAATCTGCACCAGGGCCTGGCAGATGCGCTCGAAGCCGCCACCAAAGTtctc               <  1:197014/150‑1 (MQ=255)                                                                                                                                        tGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGGGCACGTTGGGGTTGAGGTGGACCGGGTA‑CACCACGTCCAACTCGGTGAATTGCCGTGAAATCTGCACCAGGGCCTGGCAGATGCGCTCGAAGCCGCCACGAAAGTTCTcgg             >  2:151615/1‑149 (MQ=255)                                                                                                                                        tGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCGGGTA‑CACCACGTCCAACTCGGGGAATTGCCGTGCAATCTGCACCAGGGCCTGGCAGAt                                          >  2:229945/1‑121 (MQ=255)                                                                                                                                        tGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCGGGTA‑CACCACGTCCAACTCGGGGAATTGCCGTGCAATCTGCACCAGGGCCTGGCAGAt                                          <  1:229945/121‑1 (MQ=255)                                                                                                                                        tGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCGGGTA‑CACCACGTCCAACTCGGGGAATTGCCGTGCAATCTGCACCAGGGCCTGGCAGATGCGCTCGAAGCCGCCACCAAAGTTCTcgc             <  1:325374/150‑1 (MQ=255)                                                                                                                                           tGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCGGGTA‑CACCACGTCCAACTCGGGGAATTGCCGTGCCATGGGCGACGGACCGTGGCAGGTGCGCGCGAAGCCGCCACCAAAGTTCTCGCgcc          <  1:151615/150‑1 (MQ=255)                                                                                                                                                acaTCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCGGGTA‑CACCACGTCCAACTCGGGGAATTGCCGTGCAATCTGCACCAGGGCCTGGCAGATGCGCTCGAAGCCGCCACCAAAGTTCTCGCgccggtgg     >  1:60813/1‑150 (MQ=255)                                                                                                                                                   ccccccAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCGGGTA‑CACCACGTCCAACTCGGGGAATTGCCGTGCAATCTGCACCAGGGCCTGGCAGATGCGCTCGAAGCCGCCACCAAAGTTCTCGCgccggtggccg  <  1:375489/149‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                                     TGTCGCGCATCACCAGCACCGGTTTGCCCAGGGCCGGCGCTTCCTCCTGAATGCCACCCGAGTCGGTCAGAATCACATAGGCCCGGGTCATGAGGTAAACGAACGGCAGGTAATCCAGCGGTTCGACAAGGTGGATGTTGCTCACATCCCCCAACAGCCGGTTGACCGGCTCGCGCACGTTGGGGTTGAGGTGGACCGGGTA‑CACCACGTCCAACTCGGGGAATTGCCGTGCAATCTGCACCAGGGCCTGGCAGATGCGCTCGAAGCCGCCACCAAAGTTCTCGCGCCGGTGGCCG  >  NC_002947/2038592‑2038887

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.