New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	4059604 =	71 (1.340)	3 (0.060)	3/238	NT	5.2%	coding (1295/1638 nt)	pgm	phosphoglucomutase
	?	NC_002947	4059694 =	42 (0.850)					coding (1205/1638 nt)	pgm	phosphoglucomutase

GCCTCGACACGGGTGGCGAACGGCTTGCCCAGCGCCTCGGTCAGGTCGGCATAAGCCTGGCTCGGGTTACGCCCGGTACGGGCGGTCATTTCGGCGGCCAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACACCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTGCACTTTCTTCGCCACCAAAACCGAGCGAACCGTCGAACAGGCCCTGGGCGAAGAACTTGAAGCCCACCGGCACCTCATACAGATCGCGGCCCAGCCGTTGGGTAACGCGGTCGAT  >  NC_002947/4059547‑4059833                                                                                                                                                     |                                                                                                                                              cgggtcgctcggttttggtggcgaagaaagtgcaggggcttcgttcctgcgtcgcgaTGGCTCGGGTTACGCCCGGTACGGGCGGTCATTTCGGCGGCCAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACACCGAGCCATc                                                                                                                                              >  3:79831‑M1/58‑149 (MQ=255)  ccTCGACACGGGTGGCGAACGGCTTGCCCAGCGCCTCGGTCAGGTCGGCATAAGCCTGGCTCGGGTTACGCCCGGTACGGGCGGTCATTTCGGCGGCCAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACACCGAGCCATcg                                                                                                                                             >  7:155901/1‑149 (MQ=255)   cTCGACACGGGTGGCGAACGGCTTGCCCAGCGCCTCGGTCAGGTCGGCATAAGCCTGGCTCGGGTTACGCCCGGTACGGGCGGTCATTTCGGCGGCCAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACACCGAGCCATcgc                                                                                                                                            <  7:281896/149‑1 (MQ=255)    tCGACACGGGTGGCGAACGGCTTGCCCAGCGCCTCGGTCAGGTCGGCATAAGCCTGGCTCGGGTTACGCCCGGTACGGGCGGTCATTTCGGCGGCCAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACACCGAGCCATcgcg                                                                                                                                           >  3:84415/1‑149 (MQ=255)       acacGGGTGGCGAACGGCTTGCCCAGCGCCTCGGTCAGGTCGGCATAAGCCTGGCTCGGGTTACGCCCGGTACGGGCGGTCATTTCGGCGGCCAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACACCGAGCCATCGCGACg                                                                                                                                        <  6:15456/149‑1 (MQ=255)        cacGGGTGGCGAACGGCTTGCCCAGCGCCTCGGTCAGGTCGGCATAAGCCTGGCTCGGGTTACGCCCGGTACGGGCGGTCATTTCGGCGGCCAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACACCGAGCCATCGCGACg                                                                                                                                        >  2:346824/1‑148 (MQ=255)           gggTGGCGAACGGCTTGCCCAGCGCCTCGGTCAGGTCGGCATAAGCCTGGCTCGGGTTACGCCCGGTACGGGCGGTCATTTCGGCGGCCAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACACCGAGCCATCGCGACGCAg                                                                                                                                     >  4:293617/1‑148 (MQ=255)              tGGCGAACGGCTTGCCCAGCGCCTCGGTCAGGTCGGCATAAGCCTGGCTCGGGTTACGCCCGGTACGGGCGGTCATTTCGGCGGCCAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACACCGAGCCATCGCGACGCAGGAAc                                                                                                                                 >  7:62249/1‑149 (MQ=255)              tGGCGAACGGCTTGCCCAGCGCCTCGGTCAGGTCGGCATAAGCCTGGCTCGGGTTACGCCCGGTACGGGCGGTCATTTCGGCGGCCAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACACCGAGCCATCGCGACGCAGGAAc                                                                                                                                 <  8:62271/149‑1 (MQ=255)                 cGAACGGCTTGCCCAGCGCCTCGGTCAGGTCGGCATAAGCCTGGCTCGGGTTACGCCCGGTACGGGCGGTCATTTCGGCGGCCAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACACCGAGCCATCGCGACGCAGGAACGaa                                                                                                                              <  6:33173/149‑1 (MQ=255)                 cGAACGGCTTGCCCAGCGCCTCGGTCAGGTCGGCATAAGCCTGGCTCGGGTTACGCCCGGTACGGGCGGTCATTTCGGCGGCCAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACACCGAGCCATCGCGACGCAGGAACGaa                                                                                                                              <  1:346824/149‑1 (MQ=255)                     cGGCTTGCCCAGCGCCTCGGTCAGGTCGGCATAAGCCTGGCTCGGGTTACGCCCGGTACGGGCGGTCATTTCGGCGGCCAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACACCGAGCCATCGCGACGCAGGAACGAA‑‑Gccc                                                                                                                        <  2:13309/149‑1 (MQ=255)                     cGGCTTGCCCAGCGCCTCGGTCAGGTCGGCATAAGCCTGGCTCGGGTTACGCCCGGTACGGGCGGTCATTTCGGCGGCCAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACACCGAGCCATCGCGACGCAGGAACGAA‑‑Gccc                                                                                                                        <  4:84415/149‑1 (MQ=255)                        cTTGCCCAGCGCCTCGGTCAGGTCGGCATAAGCCTGGCTCGGGTTACGCCCGGTACGGGCGGTCATTTCGGCGGCCAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACACCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTg                                                                                                                     >  3:261935/1‑149 (MQ=255)                         ttGCCCAGCGCCTCGGTCAGGTCGGCATAAGCCTGGCTCGGGTTACGCCCGGTACGGGCGGTCATTTCGGCGGCCAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACCCCGCGCCAACGCGACGACGGAACGAG‑‑Gcccatc                                                                                                                     >  5:160782/1‑145 (MQ=255)                         ttGCCCAGCGCCTCGGTCAGGTCGGCATAAGCCTGGCTCGGGTTACGCCCGGTACGGGCGGTCATTTCGGCGGCCAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACACCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTg                                                                                                                     >  3:160731/1‑148 (MQ=255)                           gCCCAGCGCCTCGGTCAGGTCGGCATAAGCCTGGCTCGGGTTACGCCCGGTACGGGCGGTCATTTCGGCGGCCAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACACCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTGc                                                                                                                    <  5:268446/147‑1 (MQ=255)                             ccAGCGCCTCGGTCAGGTCGGCATAAGCCTGGCTCGGGTTACGCCCGGTACGGGCGGTCATTTCGGCGGCCAGCAAGGCCGGGAT‑CACCCCGTCCTTGTCGGTGGCCCACCCCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTGCACtt                                                                                                                >  2:274432/1‑149 (MQ=255)                                    cTCGGTCAGGTCGGCATAAGCCTGGCTCGGGTTACGCCCGGTACGGGCGGTCATTTCGGCGGCCAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACACCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTGCACTTTCTTCGc                                                                                                         <  8:62249/149‑1 (MQ=255)                                       ggTCAGGTCGGCATAAGCCTGGCTCGGGTTACGCCCGGTACGGGCGGTCATTTCGGCGGCCAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACACCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTg                                                                                                                     <  2:330888/134‑1 (MQ=255)                                       ggTCAGGTCGGCATAAGCCTGGCTCGGGTTACGCCCGGTACGGGCGGTCATTTCGGCGGCCAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACACCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTg                                                                                                                     >  1:330888/1‑134 (MQ=255)                                        gTCAGGTCGGCATAAGCCTGGCTCGGGTTACGCCCGGTACGGGCGGTCATTTCGGCGGCCAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACACCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTGCACTTTCTTCGccac                                                                                                      >  1:209413/1‑148 (MQ=255)                                              tCGGCATAAGCCTGGCTCGGGTTACGCCCGGTACGGGCGGTCATTTCGGCGGCCAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACACCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTGCACTTTCTTCGCCACCAAAAcc                                                                                               <  8:155901/149‑1 (MQ=255)                                                ggCATAAGCCTGTCTCGGGTTACGCCCGGTACGGGCGGTCATTTCGGCGGCCAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGTTGGCCCACACCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTGCACTTTCTTCGCCACCAAAACCGa                                                                                             <  5:195582/149‑1 (MQ=255)                                                   aTAAGCCTGGCTCGGGTTACGCCCGGTACGGGCGGTCATTTCGGCGGCCAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACACCGAGCCATCGCGACGCAGGAACGaa                                                                                                                              >  1:138777/1‑115 (MQ=255)                                                         gatggctcggtgtgggccaccgacaaggacgggttgatcccggccttgctggccgccgaaatgaccgcccgtaccgggcgtaacccgagccaTCGCGACGCAGGAACGAA‑‑GCCCCTGCACTTTCTTCGCCACCAAAACCGAGCGACCCg                                                                                     >  3:79831‑M2/93‑149 (MQ=255)                                                            ggctcggtgtgggccaccgacaaggacgggttgatcccggccttgctggccgccgaaatgaccgcccgtaccgggcgtaacccgagccaTCGCGACGCAGGAACGAA‑‑GCCCCTGCACTTTCTTCGCCACCAAAACCGAGCGAACCGTc                                                                                   >  6:320016‑M2/90‑148 (MQ=255)                                                                      cGCCCGGTACGGGCGGTCATTTCGGCGGCCAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACACCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTGCACTTTCTTCGCCACCAAAACCGAGCGAACCGTCGAACAGGCCCTg                                                                       <  2:209413/149‑1 (MQ=255)                                                                       gCCCGGTACGGGCGGTCATTTCGGCGGCCAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACACCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTGCACTTTCTTCGCCACCAAAACCGAGCGAACCGTCGAACAGGCCCTgg                                                                      >  2:191171/1‑149 (MQ=255)                                                                       gCCCGGTACGGGCGGTCATTTCGGCGGCCAGCAAGGCCGGGAT‑CAACCCGTCCTTGACGGTGGCCCACACCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTGCACTTTCTTCGCCACCAAAACCGAGCGAACCGTCGAACAGGCCCTgg                                                                      >  7:1962/1‑149 (MQ=255)                                                                         ccGGTACGGGCGGTCATTTCGGCGGCCAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACACCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTGCACTTTCTTCGCCACCAAAACCGAGCGAACCGTCGAACAGGCCCTGGGc                                                                    >  8:283595/1‑149 (MQ=255)                                                                           ggTACGGGCGGTCATTTCGGCGGCCAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACACCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTGCACTTTCTTCGCCACCAAAACCGAGCGAACCGTc                                                                                   >  1:139574/1‑132 (MQ=255)                                                                               cGGGCGGTCATTTCGGCGGCCAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACACCGAGCCATCGCGACGCAGGAACGAATCGCCCCTGCACTTTCTTCGCCACCAAAACCGAGCGAACCGTCGAACAGGCCCTGGGCgaa                                                                 <  1:274432/148‑1 (MQ=255)                                                                                ggggggTGATTTCCGCCGCCATGAATGGCGGGTTCCAACCCTCCCTTG‑CGGGTGCCCACACCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTGCACTTTCTTCGCCACCAAAACCGAGCGAACCGTCGAACAGGCCCTGGGCgaagaa                                                              <  6:160782/148‑1 (MQ=255)                                                                                gggCGGTCATTTCGGCGGCCAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACACCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTGCACTTTCTTCGCCACCAAAACCGAGCGAACCGTCGAACAGGCCCTGGGCGAAGAAc                                                             <  5:10863/149‑1 (MQ=255)                                                                                      cgggttgatcccggccttgctggccgccgaaatgaccgcccgtaccgggcgtaacccgagccaTCGCGACGCAGGAACGAA‑‑GCCCCTGCACTTTCTTCGCCACCAAAACCGAGCGAACCGTCGAACAGGCCCTGGGCGAAGAACTTGaa                                                        <  5:320016‑M2/86‑1 (MQ=255)                                                                                        aTTTCGGCGGCCAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACACCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTGCACTTTCTTCGCCACCAAAACCGAGCGAACCGTCGAACAGGCCCTGGGCGAAGAACTTGAAGc                                                      <  4:160731/148‑1 (MQ=255)                                                                                               cggcCAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACACCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTGCACTTTCTTCGCCACCAAAACCGAGCGAACCGTCGAACAGGCCCTGGGCGAAGAACTTGAAGCCCACCGGc                                              <  4:261935/149‑1 (MQ=255)                                                                                                   cAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACACCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTGCACTTTCTTCGCCACCAAAACCGAGCGAACCGTCGAACAGGCCCTGGGCGAAGAACTTGAAg                                                       >  1:348726/1‑136 (MQ=255)                                                                                                   cAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACACCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTGCACTTTCTTCGCCACCAAAACCGAGCGAACCGTCGAACAGGCCCTGGGCGAAGAACTTGAAg                                                       <  2:348726/136‑1 (MQ=255)                                                                                                    gacAAGGACGGGTT‑GATCCCGGCCTTGTCGGTGGCCCACACCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTGCACTTTCTTCGCCACCAAAACCGAGCGAACCGTCGAACAGGCCCTGGGCGAAGAACTTg                                                          >  2:125974/3‑132 (MQ=255)                                                                                                    gacAAGGACGGGTT‑GATCCCGGCCTTGTCGGTGGCCCACACCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTGCACTTTCTTCGCCACCAAAACCGAGCGAACCGTCGAACAGGCCCTGGGCGAAGAACTTg                                                          <  1:125974/130‑1 (MQ=255)                                                                                                        aGGACGGGTT‑GATCCCGGCCTTGTCGGTGGCCCACACCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTGCACTTTCTTCGCCACCAAAACCGAGCGAACCGTCGAACAGGCCCTGGGCGAAGAACTTGAAGCCCACCGGCACCTCATa                                      >  3:76737/1‑148 (MQ=255)                                                                                                         ggCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACACCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTGCACTTTCTTCGCCACCAAAACCGAGCGAACCGTCGAACAGGCCCTGGGCTAAGTACTTGAAGCCCACCGGCACCTCATACa                                    <  1:191171/149‑1 (MQ=255)                                                                                                                     aCCCGTCCTTGTCGGTGGCCCACACCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTGCACTTTCTTCGCCACCAAAACCGAGCGAACCGTCGAACAGGCCCTGGGCGAAGAACTTGAAGCCCACCGGCACCTCATa                                      <  3:323742/136‑1 (MQ=255)                                                                                                                     aCCCGTCCTTGTCGGTGGCCCACACCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTGCACTTTCTTCGCCACCAAAACCGAGCGAACCGTCGAACAGGCCCTGGGCGAAGAACTTGAAGCCCACCGGCACCTCATa                                      >  4:323742/1‑136 (MQ=255)                                                                                                                             ttGTCGGTGGCCCACACCGAGCCATCGCCACGCAGGAACGAA‑‑GCCACTGCACTTTCTTCGCCACCAAAACCGAGCGAACCGTCGAACAGGCCCTGGGCGAAGAACTTGAAGCCCACCGGCACCTCATAAAGATCGCGGCCCAGCCGTTg                 >  1:197352/1‑149 (MQ=255)                                                                                                                                   gTGGCCCACACCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTGCACTTTCTTCGCCACCAAAACCGAGCGAACCGTCGAACAGGCCCTGGGCGAAGAACTTGAAGCCCACCGGCACCTCATACAGATCGCGGCCCAGCCGTTGGGTAAc           <  3:293617/149‑1 (MQ=255)                                                                                                                                      gCCCACACCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTGCACTTTCTTCGCCACCAAAACCGAGCGAACCGTCGAACAGGCCCTGGGCGAAGAACTTGAAGCCCACCGGCACCTCATACAGATCGCGGCCCAGCCGTTGGGTAAcgcg        >  8:1673/1‑149 (MQ=255)                                                                                                                                        ccACACCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTGCACTTTCTTCGCCACCAAAACCGAGCGAACCGTCGAACAGGCCCTGGGCGAAGAACTTGaa                                                        >  7:37778/1‑99 (MQ=255)                                                                                                                                        ccACACCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTGCACTTTCTTCGCCACCAAAACCGAGCGAACCGTCGAACAGGCCCTGGGCGAAGAACTTGaa                                                        <  8:37778/99‑1 (MQ=255)                                                                                                                                        ccACACCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTGCACTTTCTTCGCCACCAAAACCGAGCGAACCGTCGAACAGGCCCTGGGCGAAGAACTTGAAGCCCACCGGCACCTCATACAGATCGCGGCCCAGCCGTTGGGTAACGCGGt      <  4:76737/149‑1 (MQ=255)                                                                                                                                            acCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTGCACTTTCTTCGCCACCAAAACCGAGCGAACCGTCGAACAGGCCCTGGGCGAAGAACTTGAAGCCCACCGGCACCTCATACAGATCGCGGCCCAGCCGTTGGGTAACGCGGTCGAt  <  7:283595/149‑1 (MQ=255)                                                                                                                                            acCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTGCACTTTCTTCGCCACCAAAACCGAGCGAACCGTCGAACAGGCCCTGGGCGAAGAACTTGAAGCCCACCGGCACCTCATACAGATCGCGGCCCAGCCGTTGGGTAACGCGGTCGAt  <  8:1962/149‑1 (MQ=255)                                                                                                                                              cgagccaTCGCGACGCAGGAACGAA‑‑GCCCCTGCACTTTCTTCGCCACCAAAACCGAGCGAACCGTCGAACAGGCCCTGGGCGAAGAACTTGAAGCCCACCGGCACCTCATACAGATCGCGGCCCAGCCGTTGGGTAACGCGGTCGa   >  4:327142‑M2/8‑146 (MQ=255)                                                                                                                                              cgagccaTCGCGACGCAGGAACGAA‑‑GCCCCTGCACTTTCTTCGCCACCAAAACCGAGCGAACCGTCGAACAGGCCCTGGGCGAAGAACTTGAAGCCCACCGGCACCTCATACAGATCGCGGCCCAGCCGTTGGGTAACGCGGTCGa   <  3:327142‑M2/139‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                              GCCTCGACACGGGTGGCGAACGGCTTGCCCAGCGCCTCGGTCAGGTCGGCATAAGCCTGGCTCGGGTTACGCCCGGTACGGGCGGTCATTTCGGCGGCCAGCAAGGCCGGGAT‑CAACCCGTCCTTGTCGGTGGCCCACACCGAGCCATCGCGACGCAGGAACGAA‑‑GCCCCTGCACTTTCTTCGCCACCAAAACCGAGCGAACCGTCGAACAGGCCCTGGGCGAAGAACTTGAAGCCCACCGGCACCTCATACAGATCGCGGCCCAGCCGTTGGGTAACGCGGTCGAT  >  NC_002947/4059547‑4059833

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.