New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 1181587	51 (0.900)	4 (0.070)	4/250	NT	7.9%	coding (640/1407 nt)	cumA	multicopper oxidase
	?	NC_002947	= 1181632	44 (0.810)					coding (685/1407 nt)	cumA	multicopper oxidase

GCTGAGCCTGAAGAACTGGCATGTGGACGAGCAGGGCGCATGGCTGCCTTT‑CAGCATCCCGCGCGAGGCCGCGCGCAACGGCACTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGCGCCTGCTGAACCTGGACAATACCTGGACCTACCGCCTCAACCTCAAGGGCAACTGCGAGGCGAGAATCTATGCCCTCGACGGCAACCCGGTGACCCCGCGTGCGCTGGACGAATACTGGCTAGGCCCGGGCATGC  >  NC_002947/1181484‑1181779                                                                                                                                                      |                                                                                                                                                    gCTGAGCCTGAAGAACTGGCATGTGGACGAGCAGGGCGCATGGCTGCCTTT‑CAGCATCCCGCGCGAGGCCGCGCGCAACGGCACTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAgg                                                                                                                                                     <  7:149446/149‑1 (MQ=255)  cTGAGCCTGAAGAACTGGCATGTGGACGAGCAGGGCGCATGGCTGCCTTT‑CAGCATCCCGCGCGAGGCCGCGCGCAACGGCACTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGt                                                                                                                                                    <  1:194526‑M2/149‑2 (MQ=255)     aGCCTGTAGAAGTGGCATGTGGACGAGCAGGGCGCATGGCTGCCTTT‑CAGCATCCCGCGCGAGGCCGCGCGCAACGGCACTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGTCCAGGtg                                                                                                                                                   >  3:254908‑M2/1‑145 (MQ=255)      gCCTGAAGAACTGGCATGTGGACGAGCAGGGCGCATGGCTGCCTTT‑CAGCATCCCGCGCGAGGCCGCGCGCAACGGCACTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGtggtg                                                                                                                                                <  7:266880‑M2/149‑6 (MQ=255)         tGAAGAACTGGCATGTGGACGAGCAGGGCGCATGGCTGCCTTT‑CAGCATCCCGCGCGAGGCCGCGCGCAACGGCACTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTggtgcgg                                                                                                                                             >  2:18140/1‑149 (MQ=255)           aagaaCTGGCATGTGGACGAGCAGGGCGCATGGCTGCCTTT‑CAGCATCCCGCGCGAGGCCGCGCGCAACGGCACTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTggtgcgggt                                                                                                                                           >  2:183957/1‑149 (MQ=255)                   gCATGTGGACGAGCAGGGCGCATGGCTGCCTTT‑CAGCATCCCGCGCGAGGCCGCGCGCAACGGCACTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGCGCctgc                                                                                                                                   <  1:223738/149‑1 (MQ=255)                   gCATGTGGACGAGCAGGGCGCATGGCTGCCTTT‑CAGCATCCCGCGCGAGGCCGCGCGCAACGGCACTGCCGGGAGGTTGATCACCATCAATGGCCAGGCCGCCTCGATCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGCGCctgc                                                                                                                                   >  8:328890/1‑149 (MQ=255)                    cttgtgGACGAGCAGGGCGCATGGCTGCCTTT‑CAGCATCCCGCGCGAGGCCGCGCGCAACGGCACTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGCGCctgc                                                                                                                                   <  5:368563/146‑1 (MQ=255)                     aTGTGGACGAGCAGGGCGCATGGCTGCCTTTCCAGCATCCCGCGCGAGGCCGCGCGCAACGGCAGTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCAAGGTGGTGCGGGTGCGCctgct                                                                                                                                  >  1:42720/1‑149 (MQ=255)                     aTGTAGACGAGCAGGGCGCATGGCTGCCTTT‑CAGCATCCCGCGCGAGGCCGCGCGCAACGGCACTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTgcgc                                                                                                                                       <  1:60732/143‑1 (MQ=255)                     aTGTAGACGAGCAGGGCGCATGGCTGCCTTT‑CAGCATCCCGCGCGAGGCCGCGCGCAACGGCACTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTgcgc                                                                                                                                       >  2:60732/1‑143 (MQ=255)                       gtgGACGAGCAGGGCGCATGGCTGCCTTT‑CAGCATCCCGCGCGAGGCCGCGCGCAACGGCACTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGCGCctgc                                                                                                                                   >  6:368563/1‑145 (MQ=255)                          gACGAGCAGGGCGCATGGCTGCCTTT‑CAGCATCCCGCGCGAGGCCGCGCGCAACGGCACTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGCGCCTGCTGAACCt                                                                                                                            <  7:109282/149‑1 (MQ=255)                           aCGAGCAGGGCGCATGGCTGCCTTT‑CAGCATCCCGCGCGAGGCCGCGCGCAACGGCACTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGCGCCTGCTGAACCTg                                                                                                                           <  1:183957/149‑1 (MQ=255)                             gAGCAGGGCGCATGGCTGCCTTT‑CAGCATCCCGCGCGAGGCCGCGCGCAACGGCACTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGCGCCTGCTGAACCTGGa                                                                                                                         <  5:169739/149‑1 (MQ=255)                               gCAGGGCGCATGGCTGCCTTT‑CAGCATCCCGCGCGAGGCCGCGCGCAACGGCACTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTggtgc                                                                                                                                               >  3:157003/1‑125 (MQ=255)                               gCAGGGCGCATGGCTGCCTTT‑CAGCATCCCGCGCGAGGCCGCGCGCAACGGCACTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTggtgc                                                                                                                                               <  4:157003/125‑1 (MQ=255)                                   ggCGCATGGCTGCCTTT‑CAGCATCCCGCGCGAGGCCGCGCGCAACGGCACTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGCGCCTGCTGAACCTGGACAATAc                                                                                                                   <  8:266880/149‑1 (MQ=255)                                   ggCGCATGGCTACCTTT‑CAGCATCCCGCGCGAGGCCGCGCGCAACGGCACTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGCGCCTGCTGAACCTGGACAATAc                                                                                                                   >  6:249073/1‑149 (MQ=255)                                           gCTGCCTTT‑CAGCATCCCGCGCGAGGCCGCGCGCAACGGCACTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGCGCCTGCTGAACCTGGACAATACCTGGAcc                                                                                                            >  5:267835/1‑148 (MQ=255)                                               ccTTT‑CAGCATCCCGCGCGAGGCCGCGCGCAACGGCACTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGCGCCTGCTGAACCTGGACAATACCTGGACCTACCg                                                                                                       <  2:42720/149‑1 (MQ=255)                                                 ttt‑CAGCATCCCGCGCGAGGCCGCGCGCAACGGCACTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGCGCCTGCTGAACCTGGACAATACCTGGACCTACCGcc                                                                                                     >  8:263825/1‑149 (MQ=255)                                                  tt‑CAGCATCCCGCGCGAGGCCGCGCGCAACGGCACTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGCGCCTGCTGAACCTGGACAATACCTGGACCTACCGcct                                                                                                    >  7:6260/1‑149 (MQ=255)                                                  ct‑CAGCATCCCGCGCGAGGCCGCGCGCAACGGCACTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGCGCCTGCTGAACCTGGACAATACCTGGACCTACCGcct                                                                                                    <  5:193547/148‑1 (MQ=255)                                                      aGCATCCCGCGCGAGGCCGCGCGCAACGGCACTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGCGCCTGCTGAACCTGGACAATACCTGGACCTACCGcctcaa                                                                                                 <  8:6260/149‑1 (MQ=255)                                                             cgcgcgAGGCCGCGCGCAACGGCTCTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGCGCCTGCTGAACCTGGACAATACCTGGACCTACCGCCTCAACCTCAAg                                                                                          <  8:155659/149‑1 (MQ=255)                                                                gcgAGGCCGCGCGCAACGGCACTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGCGCCTGCTGAACCTGGACAATACCTGGACCTACCGCCTCAACCTCAAGGGc                                                                                       <  5:249073/149‑1 (MQ=255)                                                                  gAGGCCGCGCGCAACGGCACTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGCGCCTGCTGAACCTGGACAATACCTGGACCTACCGCCTCAACCTCAAGGGCaa                                                                                     <  7:205994/149‑1 (MQ=255)                                                                         cgcgcAACGGCACTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGCGCCTGCTGAACCTGGACAATACCTGGACCTACCGCCTCAACCTCAAGGGCAACTgcgag                                                                              <  5:27907/149‑1 (MQ=255)                                                                              aaCGGCACTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTggtgcgg                                                                                                                                             <  1:204135/81‑1 (MQ=255)                                                                              aaCGGCACTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTggtgcgg                                                                                                                                             >  2:204135/1‑81 (MQ=255)                                                                                 ggCACTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGCGCCTGCTGAACCTGGACAATACCTGGACCTACCGCCTCAACCTCAAGGGCAACTGCGAGGCGAGaa                                                                       >  6:88853/1‑148 (MQ=255)                                                                                 ggCACTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGCGCCTGCTGAACCTGGACAATACCTGGACCTACCGCCTCAACCTCAAGGGCAACTGCGAGGCGAGAAt                                                                      <  6:4046/149‑1 (MQ=255)                                                                                     cTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGTGCCTGCTGAACCTGGACAATACCTGGACCTACCGCCTCAACCTCAAGGGCAACTGCGAGGCGAGAATCTAt                                                                  <  2:194526/149‑1 (MQ=255)                                                                                     cTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGCGCCTGCTGAACCTGGACAATACCTGGACCTACCGCCTCAACCTCAAGGGCAACTGCGAGGCGAGAATCTAt                                                                  <  1:18140/149‑1 (MQ=255)                                                                                     cTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGCGCCTGCTGAACCTGGACAATACCTGGACCTACCGCCTCAACCTCAAGGGCAACTGCGAGGCGAGAATCTAt                                                                  <  7:263825/149‑1 (MQ=255)                                                                                               gTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGCGCCTGCTGAACCTGGACAATACCTGGACCTACCGCCTCAACCTCAAGGGCAACTGCGAGGCGAGAATCTATGCCCTCGACg                                                        <  8:148463/149‑1 (MQ=255)                                                                                               gTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGCGCCTGCTGAACCTGGACAATACCTGGACCTACCGCCTCAACCTCAAGGGCAACTGCGAGGCGAGAATCTATGCCCTCGACg                                                        >  7:14810/1‑149 (MQ=255)                                                                                                   aTCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGtggtgatcaaccgcccggcagtgccgttgcgcgcggcctcgcgcgggatgctgaaaggcagccatgcgccctgctcgtccacatgccagttcttcag                                                    <  5:369116‑M2/149‑98 (MQ=255)                                                                                                    tCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGCGCCTGCTGAACCTGGACAATACCTGGACCTACCGCCTCAACCTCAAGGGCAACTGCGAGGCGAGAATCTATGCCCTCGACGGCAAc                                                   >  1:210995/1‑149 (MQ=255)                                                                                                       ccATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGtggtgatcaaccgcccggcagtgccgttgcgcgcggcctcgcgcgggatgctgaaaggcagccatgcgccctgctcgtccacatgccagttcttcaggct                                                 <  5:340351‑M2/148‑101 (MQ=255)                                                                                                       ccATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGCGCCTGCTGAACCTGGACAATACCTGGACCTACCGCCTCAACCTCAAGGGCAACTGCGAGGCGAGAATCTATGCCCTCGACGGCAACCCg                                                <  1:317239/149‑1 (MQ=255)                                                                                                        cATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGCGCCTGCTGAACCTGGACAATACCTGGACCTACCGcc                                                                                                     >  5:360218/1‑95 (MQ=255)                                                                                                        cATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGCGCCTGCTGAACCTGGACAATACCTGGACCTACCGcc                                                                                                     <  6:360218/95‑1 (MQ=255)                                                                                                                     gCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGtggtgatcaaccgcccggcagtgccgttgcgcgcggcctcgcgcgggatgctgaaaggcagccatgcgccctgctcgtccacatgccagttcttcaggctcagcgtacgctcatg                                  >  6:369116‑M2/1‑34 (MQ=255)                                                                                                                         aCTCGATCACCGAGCTGCCGGCCGGCCAGGtggtgatcaaccgcccggcagtgccgttgcgcgcggcctcgcgcgggatgctgaaaggcagccatgcgccctgctcgtccacatgccagttcttcaggctcagcgtacgctcatgctg                               <  5:238907‑M2/148‑119 (MQ=255)                                                                                                                              aTCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGCGCCTGCTGAACCTGGACAATACCTGGACCTACCGCCTCACCCTCAAGGGCATCTGCGAGGCGAGAATCTATGCCCTCGACGGCGCCCCGGTGACCCCGCGGGCGCTGGCCg                          >  8:258569/1‑148 (MQ=255)                                                                                                                              aTCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGCGCCTGCTGAACCTGGACAATACCTGGACCTACCGCCTCAACCTCAAGGGCAACTGCGAGGCGAGAATCTATGCCCTCGACGGCAACCCGGTGACCCCGCGTGCGCTGGACGa                         <  8:14810/149‑1 (MQ=255)                                                                                                                                 aCCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGCGCCTGCTGAACCTGGACAATACCTGGACCTACCGCCTCAACCTCAAGGGCAACTGCGAGGCGAGAATCTATGCCCTCGACGGCAACCCGGTGACCCCGCGTGCGCTGGACGAAt                       <  2:210995/148‑1 (MQ=255)                                                                                                                                 aCCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGCGCCTGCTGAACCTGGACAATACCTGGACCAACCGCCTCAACCTCAAGGGCAACTGCGAGGCGAGAATCTATGCCCTCGACGGCAACCCGGTGACCCCGCGTGCGCTGGACGAATa                      <  7:328890/149‑1 (MQ=255)                                                                                                                                        tGCCGGCCGGCCAGGTGGTGCGGGTGCGCCTGCTGAACCTGGACAATACCTGGACCTACCGCCTCAACCTCAAGGGCAACTGCGAGGCGAGAATCTAt                                                                  >  5:72877/1‑98 (MQ=255)                                                                                                                                        tGCCGGCCGGCCAGGTGGTGCGGGTGCGCCTGCTGAACCTGGACAATACCTGGACCTACCGCCTCAACCTCAAGGGCAACTGCGAGGCGAGAATCTAt                                                                  <  6:72877/98‑1 (MQ=255)                                                                                                                                        tGCCGGCCGGCCAGGTGGTGCGGGTGCGCCTGCTGAACCTGGACAATACCTGGACCTACCGCCTCAACCTCAAGGGCAACTGCGAGGCGAGAATCTATGCCCTCGACGGCAACCCGGTGACCCCGCGt                                    >  7:64857/1‑128 (MQ=255)                                                                                                                                        tGCCGGCCGGCCAGGTGGTGCGGGTGCGCCTGCTGAACCTGGACAATACCTGGACCTACCGCCTCAACCTCAAGGGCAACTGCGAGGCGAGAATCTATGCCCTCGACGGCAACCCGGTGACCCCGCGt                                    <  8:64857/128‑1 (MQ=255)                                                                                                                                           cggccggcCAGGTGGTGCGGGTGCGCCTGCTGAACCTGGACAATACCTGGACCTACCGCCTCAACCTCAAGGGCATCTGCGAGGCGAGAATCTATGCCCTCGACGGCAACCCGGTGACCCCGCGTGCGCTGGACGAATACTGGCTAGGc            <  7:258569/149‑1 (MQ=255)                                                                                                                                           cggccggcCAGGTGGTGCGGGTGCGCCTGCTGAACCTGGACAATACCTGGACCTACCGCCTCAACCTCAAGGGCAACTGCGAGGCGAGAATCTATGCCCTCGACGGCAACCCGGTGACCCCGCGTGCGCTGGACGAATACTGGCTAGGc            <  5:88853/149‑1 (MQ=255)                                                                                                                                             gccggccAGGTGGTGCGGGTGCGCCTGCTGAACCTGGACAATACCTGGACCTACCGCCTCAACCTCAAGGGCAACTGCGAGGCGAGAATCTATGCCCTCGACGGCAACCCGGTGACCCCGCGTGCGCTGGACGAATACTGGCTAGGc            >  4:239118/1‑147 (MQ=255)                                                                                                                                                     ggtggtGCGGGTGCGCCTGCTGAACCTGGACAATACCTGGACCTACCGCCTCAACCTCAAGGGCAACTGCGAGGCGAGAATCTATGCCCTCGACGGCAACCCGGTGACCCCGCGTGCGCTGGACGAATACTGGCTAGGCCCGGGCATGc  <  3:239118/149‑1 (MQ=255)                                                                                                                                                      |                                                                                                                                                    GCTGAGCCTGAAGAACTGGCATGTGGACGAGCAGGGCGCATGGCTGCCTTT‑CAGCATCCCGCGCGAGGCCGCGCGCAACGGCACTGCCGGGCGGTTGATCACCATCAATGGCCAGGCCGACTCGATCACCGAGCTGCCGGCCGGCCAGGTGGTGCGGGTGCGCCTGCTGAACCTGGACAATACCTGGACCTACCGCCTCAACCTCAAGGGCAACTGCGAGGCGAGAATCTATGCCCTCGACGGCAACCCGGTGACCCCGCGTGCGCTGGACGAATACTGGCTAGGCCCGGGCATGC  >  NC_002947/1181484‑1181779

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.