New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	3612448 =	43 (0.800)	4 (0.080)	4/254	NT	9.1%	coding (1236/3396 nt)	mcoA	Mn(II) copper oxidase A
	?	NC_002947	3612488 =	38 (0.720)					coding (1196/3396 nt)	mcoA	Mn(II) copper oxidase A

ACGTTCTGCGCCGTGAAATCCATCATGTGGTCGTGGAACCAGTGGGTACTCATGGTTTCGCGCCAGTCGCCACGAATCTTGATGCTGCCGTTCTCGCAGGTTTTCAGGCCCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGATGGTGTCGTAGCCGGCCAGCTGCACCGGCCAGCGGTAGTCGTAGTACTGGCCGGGGAAGAAGTACGCGTTGGCAAAGCCGTCGCTTTCGGCCGGGGAGTGGCCGTT  >  NC_002947/3612341‑3612636                                                                                                                                                    |                                                                                                                                                     tacttcttccccggccagtactacgactaccgctggccggtgcagctggccggctacgacaccatcaacacccgtgcccaggacccgcgtgccgctttcccctgctcGCCCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGa                                                                                                                                                     >  1:51544‑M1/108‑149 (MQ=255)   cttcttccccggccagtactacgactaccgctggccggtgcagctggccggctacgacaccatcaacacccgtgcccaggacccgcgtgccgctttcccctgctcGCCCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGAg                                                                                                                                                    >  5:280115‑M1/106‑148 (MQ=255)      cttccccggccagtactacgactaccgctggccggtgcagctggccggctacgacaccatcaacacccgtgcccaggacccgcgtgccgctttcccctgctcGCCCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGAGCa                                                                                                                                                  >  1:126669‑M1/103‑147 (MQ=255)         cgcCTTGAAATACATCATGTGGTCGTGGAACCAGTGGGTACTCATGGTATCGCTCCAGTCGCCACGAATCTTGATGCTGCCGTTCTCGCAGGTTTTCAGGCCCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAgg                                                                                                                                                <  7:309134/146‑1 (MQ=255)              tGAAATCCATCATGTGGTCGTGGAACCAGTGGGTACTCATGGTTTCGCGCCAGTCGCCACGAATCTTGATGCTGCCGTTCTCGCAGGTTTTCAGGCCCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCg                                                                                                                                        >  3:41107/1‑149 (MQ=255)                          tgtgGTCGTGGAACCAGTGGGTACTCATGGTTTCGCGCCAGTCGCCACGAATCTTGATGCTGCCGTTCTCGCAGGTTTTCAGGCCCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTcc                                                                                                                            >  1:303840/1‑149 (MQ=255)                            tgGTCGTGGAACCAGTGGGTACTCATGGTTTCGCGCCAGTCGCCACGAATCTTGATGCTGCCGTTCTCGCAGGTTTTCAGGCCCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTg                                                                                                                          >  4:97982/1‑149 (MQ=255)                                 gTGGAACCAGTGGGTACTCATGGTTTCGCGCCAGTCGCCACGAATCTTGATGCTGCCGTTCTCGCAGGTTTTCAGGCCCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCAc                                                                                                                     >  2:44939/1‑149 (MQ=255)                                  tGGAACCAGTGGGTACTCATGGTTTCGCGCCAGTCGCCACGAATCTTGATGCTGCCGTTCTCGCAGGTTTTCAGGCCCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACg                                                                                                                    <  3:97982/149‑1 (MQ=255)                                           tGGGTACTCATGGTTTCGCGCCAGTCGCCACGAATCTTGATGCTGCCGTTCTCGCAGGTTTTCAGGCCCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGAt                                                                                                           <  6:39011/149‑1 (MQ=255)                                           tGGGTACTCATGGTTTCGCGCCAGTCGCCACGAATCTTGATGCTGCCGTTCTCGCAGGTTTTCAGGCCCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGAt                                                                                                           <  6:190501/149‑1 (MQ=255)                                               tACTCATGGTTTCGCGCCAGTCGCCACGAATCTTGATGCTGCCGTTCTCGCAGGTTTTCAGGCCCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGATGgtg                                                                                                       <  2:303840/149‑1 (MQ=255)                                                  tCATGGTTTCGCGCCAGTCGCCACGAATCTTGATGCTGCCGTTCTCGCAGGTTTTCAGGCCCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGAt                                                                                                           >  5:153789/1‑142 (MQ=255)                                                  tCATGGTTTCGCGCCAGTCGCCACGAATCTTGATGCTGCCGTTCTCGCAGGTTTTCAGGCCCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGAt                                                                                                           <  6:153789/142‑1 (MQ=255)                                                    aTGGTTTCGCGCCAGTCGCCACGAATCTTGATGCTGCCGTTCTCGCAGGTTTTCAGGCCCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGATGGTGTCg                                                                                                    >  8:223755/1‑147 (MQ=255)                                                    aTGGTTTCGCGCCAGTCGCCACGAATCTTGATGCTGCCGTTCTCGCAGGTTTTCAGGCCCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGATGGTGTCg                                                                                                    >  1:155047/1‑147 (MQ=255)                                                     tGGTTTCGCGCCAGTCGCCACGAATCTTGATGCTGCCGTTCTCGCAGGTTTTCAGGCCCGGTGAACCATCGTTGACGAACAAGGTTTCAACCGGCGAGCAGGGGAAAGCGGCCCGCGGGTCCTGGGCACGGGTGTTGATGGTGTCGTAg                                                                                                 >  7:30171/1‑149 (MQ=255)                                                      ggTTTCGCGCCAGTCGCCACGAATCTTGATGCTGCCGTTCTCGCAGGTTTTCAGGCCCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGgt                                                                                                                 <  8:30933/132‑1 (MQ=255)                                                      ggTTTCGCGCCAGTCGCCACGAATCTTGATGCTGCCGTTCTCGCAGGTTTTCAGGCCCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGgt                                                                                                                 >  7:30933/1‑132 (MQ=255)                                                              gcCAGTCGCCACGAATCTTGATGCTGCCGTTCTCGCAGGTTTTCAGGCCCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGATGGTGTCGTAGCCGGCCAGc                                                                                        >  8:189425/1‑149 (MQ=255)                                                                   acGCCACGAATCTTGATCCTGCCGTTCTCGCAGGTATTCAGGCCCGGTGAACCATCGTTGAAGAACAAGGTTTAACACGGCGAGAAGGCGAAAGCGGCCCGCCGGTCGGGGGCACGGGTGTTGATGGTGGCGTAGCCGGCCAGCTGCAc                                                                                   >  2:77982/2‑149 (MQ=255)                                                                         cGAATCTTGATGCTGCCGTTCTCGCAGGTTTTCAGGCCCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGATGGTGTCGTAGCCGGCCAGCTGCACCGGc                                                                               >  2:39566/1‑147 (MQ=255)                                                                               ttGATGCTGCCGTTCTCGCAGGTTTTCAGGCCCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGATGGTGTCGTAGCCGGCCAGCTGCACCGGCCAGCgg                                                                         >  6:181886/1‑147 (MQ=255)                                                                                 gATGCTGCCGTTCTCGCAGGTTTTCAGGCCCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGATGGTGTCGTAGCCGGCCAGCTGCACCGGCCAGCGGTa                                                                       <  2:155047/147‑1 (MQ=255)                                                                                    gctgcCGTTCTCGCAGGTTTTCAGGCCCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGATGGTGTCGTAGCCGGCCAGCTGCACCGGCCAGCGGTAGTCg                                                                   >  6:297128/1‑148 (MQ=255)                                                                                     ctgcCGTTCTCGCAGGTTTTCAGGCCCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGATg                                                                                                          >  6:283775/1‑108 (MQ=255)                                                                                     ctgcCGTTCTCGCAGGTTTTCAGGCCCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGATg                                                                                                          <  5:283775/108‑1 (MQ=255)                                                                                          gTTCTCGCAGGTTTTCAGGCCCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGATGGTGTCGTAGCCGGCCAGCTGCACCGGCCAGCGGTAGTCGTAGTACt                                                            <  8:280545/149‑1 (MQ=255)                                                                                                gCAGGTTTTCAGGCCCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGATGGTGTCGTAGCCGGCCAGCTGCACCGGCCAGCGGTAGTCGTAGTACTGGCCgg                                                      >  3:72146/1‑149 (MQ=255)                                                                                                gCAGGTTTTCAGGCCCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGATGGTGTCGTAGCCGGCCAGCTGCACCGGCCAGCGGTAGTCGTAGTACTGGCCgg                                                      >  2:171133/1‑149 (MQ=255)                                                                                                  aGGTTTTCAGGCCCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGATGGTGTCGTAGCCGGCCAGCTGCACCGGCCAGCGGTAGTCGTAGTACTGGCCgggg                                                    <  5:181886/149‑1 (MQ=255)                                                                                                       tgctcgccgggtgaaaccttgttcgtcaacgatggttcaccgggcGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGATGGTGTCGTAGCCGGCCAGCTGCACCGGCCAGCGGTAGTCGTAGTACTGGCCGGGgaag                                                 >  1:126669‑M2/46‑147 (MQ=255)                                                                                                         ctcgccgggtgaaaccttgttcgtcaacgatggttcaccgggcGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGATGGTGTCGTAGCCGGCCAGCTGCACCGGCCAGCGGTAGTCGTAGTACTGGCCGGGGaagaag                                              >  5:280115‑M2/44‑148 (MQ=255)                                                                                                          tcgccgggtgaaaccttgttcgtcaacgatggttcaccgggcGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGATGGTGTCGTAGCCGGCCAGCTGCACCGGCCAGCGGTAGTCGTAGTACTGGCCGGGGAAGAAGTa                                            >  1:51544‑M2/43‑149 (MQ=255)                                                                                                          aGGCCCGGTCAACCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGATGGTGTCGTAGCCGGCCAGCTGCACCGGCCAGCGGTAGTCGTAGTACTGGCCGGGGAAGAAGt                                             <  7:223755/148‑1 (MQ=255)                                                                                                            GCCCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGATGGTGTCGTAGCCGGCCAGCTGCACCGGCCAGCGGTAGTCgtag                                                                >  6:309828‑M1/1‑127 (MQ=255)                                                                                                             CCCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGATGGTGTCGTAGCCGGCCAGCTGCACCGGCCAGCGGTAGTCGTAGTACTGGCCGGGGAAGAAGTAcgc                                         >  1:171133‑M1/1‑149 (MQ=255)                                                                                                              CCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGATGGTGTCGTAGCCGGCCAGCTGCACCGGCCAGCGGTAGTCGTAGTACTGGCCGGGGAAGAAGTAcgcg                                        <  1:305467‑M1/149‑1 (MQ=255)                                                                                                              CCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGATGGTGTCGTAGCCGGCCAGCTGCACCGGCCAGCGGTAGTCGTAGTACTGGCCGGGGAAGAAGTAcgc                                         <  7:80473‑M1/148‑1 (MQ=255)                                                                                                              CCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGATGGTGTCGTAGCCGGCCAGCTGCACCGGCCAGCGGTAGTCGTAGTACTGGCCGGGGAAGAAGTAcgc                                         >  8:80473‑M1/1‑148 (MQ=255)                                                                                                                     aCCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAgg                                                                                                                                                >  4:243694/1‑38 (MQ=255)                                                                                                                     aCCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAgg                                                                                                                                                <  3:243694/38‑1 (MQ=255)                                                                                                                       cATCGTTGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGATGGTGTCGTAGCCGGCCAGCTGCACCGGCCAGCGGTAGTCGTAGTACTGGCCGGGGAAGAAGTACGCGTTGGCAAAg                               >  1:240041/1‑149 (MQ=255)                                                                                                                         tCGTTGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGATGGTGTCGTAGCCGGCCAGCTGCACCGGCCAGCGGTAGTCGTAGTACTGGCCGGGGAAGAAGTACGCGTTGGCAAAGcc                             >  5:137388/1‑149 (MQ=255)                                                                                                                            ttGACGAACAAGGTTTGACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGATGGTGTCGTAGCCGGCCAGCTGCACCGGCCAGCGGTAGTCGTAGTACTGGCCGGGGAAGAAGTACGCGTTGGCAAAGCCGTc                          <  4:41107/149‑1 (MQ=255)                                                                                                                             tGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGATGGTGTCGTAGCCGGCCAGCTGCACCGGCCAGCGGTAGTCGTAGTACTGGCCGGGGAAGAAGTACGCGTTGGCAAAGCCGTCg                         >  6:7997/1‑149 (MQ=255)                                                                                                                               aCGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGATGGTGTCGTAGCCGGCCAGCTGCACCGGCCAGCGGTAGTCGTAGTACTGGCCGGGGAAGAAGTACGCGTTGGCAAAGCCGTCGc                        <  1:39566/148‑1 (MQ=255)                                                                                                                                  aacgatggttcaccgggcGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGATGGTGTCGTAGCCGGCCAGCTGCACCGGCCAGCGGTAGTCGTAGTACTGGCCGGGGAAGAAGTACGCGTTGGCAAAGCCGTCGCTTTc                    <  2:51544‑M2/131‑1 (MQ=255)                                                                                                                                     aaGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGATGGTGTCGTAGCCGGCCAGCTGCACCGGCCAGCGGTAGTCGTAGTACTGGCCGGGGAAGAAGTACGCGTTGGCAAAGCCGTCGCTTTCGGc                 <  5:7997/149‑1 (MQ=255)                                                                                                                                         tttCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGATGGTGTCGTAGCCGGCCAGCTGCACCGGCCAGCGGTAGTCGTAGTACTGGCCGGGGAAGAAGTACGCGTTGGCAAAGCCGTCGCTTTCGGCCggg             <  6:137388/149‑1 (MQ=255)                                                                                                                                                    gAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGATGGTGTCGTAGCCGGCCAGCTGCACCGGCCAGCGGTAGTCGTAGTACTGGCCGGGGAAGAAGTACGCGTTGGCAAAGCCGTCGCTTTCGGCCGGGGAGTGGCCGtt  >  3:145454/1‑149 (MQ=255)                                                                                                                                                    gAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGATGGTGTCGTAGCCGGCCAGCTGCACCGGCCAGCGGTAGTCGTAGTACTGGCCGGGGAAGAAGTACGCGTTGGCAAAGCCGTCGCTTTCGGCCGGGGAGTGGCCGtt  <  2:305467/149‑1 (MQ=255)                                                                                                                                                    |                                                                                                                                                     ACGTTCTGCGCCGTGAAATCCATCATGTGGTCGTGGAACCAGTGGGTACTCATGGTTTCGCGCCAGTCGCCACGAATCTTGATGCTGCCGTTCTCGCAGGTTTTCAGGCCCGGTGAACCATCGTTGACGAACAAGGTTTCACCCGGCGAGCAGGGGAAAGCGGCACGCGGGTCCTGGGCACGGGTGTTGATGGTGTCGTAGCCGGCCAGCTGCACCGGCCAGCGGTAGTCGTAGTACTGGCCGGGGAAGAAGTACGCGTTGGCAAAGCCGTCGCTTTCGGCCGGGGAGTGGCCGTT  >  NC_002947/3612341‑3612636

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ 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.