New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	6088213 =	37 (0.690)	5 (0.100)	5/256	NT	11.9%	coding (435/1044 nt)	aphA	acetylpolyamine aminohydrolase
	?	NC_002947	6088266 =	38 (0.730)					coding (488/1044 nt)	aphA	acetylpolyamine aminohydrolase

GCCGGCGCCCCCATCACCGCGGGTACCTGGCAGGCGGCCTACAGTGCTGCGCAAGTTGCCCTGACCGCCCAGGCTGCAATTCAGCAAGGCGCCCATGCCGCGTTCGCCCTGTGCCGTCCGCCAGGGCACCACGCTGCCGGCGAAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCTTCCTCGACCAAGGCCGACGCAAGGTCGCCATCCTTGACGTCGACTACCACCACGGCAACGGTACGCAGGACATCTTCTACAGCCGCGACGACGT  >  NC_002947/6088124‑6088413                                                                                                                                               |                                                                                                                                                    aaggatggcgaccttgcgtcggccttggtcgaggaaggcctgggcggcgatggcggcattattcagatagcagtagccgcccatcacttCGCCCATGCCGCGTTCGCCCTGTGCCGTCCGCCAGGGCACCACGCTGCCGGCGAAGTGa                                                                                                                                                >  7:281501‑M1/90‑148 (MQ=255)  ccGGCGCCCCCATCACCGCGGGTACCTGGCAGGCGGCCTACAGTGCTGCGCAAGTTGCCCTGACCGCCCAGGCTGCAATTCAGCAAGGCGCCCATGCCGCGTTCGCCCTGTGCCGTCCGCCAGGGCACCACGCTGCCGGCGAAGTGAt                                                                                                                                               <  2:324960/148‑1 (MQ=255)       gcCCCCATCACCGCGGGTACCTGGCAGGCGGCCTACAGTGCTGCGCAAGTTGCCCTGACCGCCCAGGCTGCAATTCAGCAAGGCGCCCATGCCGCGTTCGCCCTGTGCCGTCCGCCAGGGCACCACGCTGCCGGCGAAGTGATGggcgg                                                                                                                                         <  8:252466/149‑1 (MQ=255)         ccctATCACCGCGGGTACCTGGCAGGCGGCCTACAGTGCTGCGCAAGTTGCCCTGACCGCCCAGGCTGCAATTCAGCAAGGCGCCCATGCCGCGTTCGCCCTGTGCCGTCCGCCAGGGCACCACGCTGCCGGCGAAGTGATGggcggc                                                                                                                                        >  1:201434/1‑148 (MQ=255)            cATCACCGCGGGTACCTGGCAGGCGGCCTACAGTGCTGCGCAAGTTGCCCTGACCGCCCAGGCTGCAATTCAGCAAGGCGCCCATGCCGCGTTCGCCCTGTGCCGTCCGCCAGGGCACCACGCTGCCGGCGAAGTGATGGGCGGCTACt                                                                                                                                    >  4:245009/1‑149 (MQ=255)                  cgcgGGTACCTGGCAGGCGGCCTACAGTGCTGCGCAAGTTGCCCTGACCGCCCAGGCTGCAATTCAGCAAGGCGCCCATGCCGCGTTCGCCCTGTGCCGTCCGCCAGGGCACCACGCTGCCGGCGAAGTGATGGGCGGCTACTGCTATc                                                                                                                              >  4:318232/1‑149 (MQ=255)                     gggTACCTGGCAGGCGGCCTACAGTGCTGCGCAAGTTGCCCTGACCGCCCAGGCTGCAATTCAGCAAGGCGCCCATGCCGCGTTCGCCCTGTGCCGTCCGCCAGGGCACCACGCTGCCGGCGAAGTGATGGGCGGCTACTGCTATCTg                                                                                                                            >  6:340548/1‑148 (MQ=255)                     ggccttggtcgaggaaggcctgggcggcgatggcggcattattcagatagcagtagccgcccatcacttCGCCCATGCCGCGTTCGCCCTGTGCCGTCCGCCAGGGCACCACGCTGCCGGCGAAGt                                                                                                                                                  <  5:106661‑M1/57‑1 (MQ=255)                     ggccttggtcgaggaaggcctgggcggcgatggcggcattattcagatagcagtagccgcccatcacttCGCCCATGCCGCGTTCGCCCTGTGCCGTCCGCCAGGGCACCACGCTGCCGGCGAAGt                                                                                                                                                  >  6:106661‑M1/70‑126 (MQ=255)                      ggTACCTGGCAGGCGGCCTACAGTGCTGCGCAAGTTGCCCTGACCGCCCAGGCTGCAATTCAGCAAGGCGCCCATGCCGCGTTCGCCCTGTGCCGTCCGCCAGGGCACCACGCTGCCGGCGAAGTGATGGGCGGCTACTGCTATCTGaa                                                                                                                          <  8:100891/149‑1 (MQ=255)                               cAGGCGGCCTACAGTGCTGCGCAAGTTGCCCTGACCGCCCAGGCTGCAATTCAGCAAGGCGCCCATGCCGCGTTCGCCCTGTGCCGTCCGCCAGGGCACCACGCTGCCGGCGAAGTGATGGGCGGCTACTGCTATCTGAATAATgccgc                                                                                                                 <  3:245009/149‑1 (MQ=255)                                      ccTACAGTGCTGCGCAAGTTGCCCTGACCGCCCAGGCTGCAATTCAGCAAGGCGCCCATGCCGCGTTCGCCCTGTGCCGTCCGCCAGGGCACCACGCTGCCGGCGAAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATcgcc                                                                                                          >  8:12721/1‑149 (MQ=255)                                       cTACAGTGCTGCGCAAGTTGCCCTGACCGCCCAGGCTGCAATTCAGCAAGGCGCCCATGCCGCGTTCGCCCTGTGCCGTCCGCCAGGGCACCACGCTGCCGGCGAAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATcgccg                                                                                                         >  8:73244/1‑149 (MQ=255)                                       cTACAGTGCTGCGCAAGTTGCCCTGACCGCCCAGGCTGCAATTCAGCAAGGCGCCCATGCCGCGTTCGCCCTGTGCCGTCCGCCAGGGCACCACGCTGCCGGCGAAGTGATGGGCGGCTACTGCTATCTGAATAAAGCCGCCATcgccg                                                                                                         >  4:53512/1‑149 (MQ=255)                                           aGTGCTGCGCAAGTTGCCCTGACCGCCCAGGCTGCAATTCAGCAAGGCGCCCATGCCGCGTTCGCCCTGTGCCGTCCGCCAGGGCACCACGCTGCCGGCGAAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATCgccgcc                                                                                                       >  1:18502/1‑147 (MQ=255)                                                tgcGCAAGTTGCCCTGACCGCCCAGGCTGCAATTCAGCAAGGCGCCCATGCCGCGTTCGCCCTGTGCCGTCCGCCAGGGCACCACGCTGCCGGCGAAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCt                                                                                                >  3:32431/1‑149 (MQ=255)                                                     acgTTGCCCTGACCGCCCAGGCTGCAATTCAGCAAGGCGCCCATGCCGCGTTCGCCCTGTGCCGTCCGCCAGGGCACCACGCTGCCGGCGAAGTGATGGGCAGCTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCt                                                                                                <  4:171107/142‑1 (MQ=255)                                                     aaGTTGCCCTGACCGCACAGGCTGCAATTCAGCAAGGCGCCCATGCCGCGTTCGCCCTGTGCCGTCCGCCAGGGCCCCACGCTGCCGGCGAAGTGATGGGCAGCTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCttatat                                                                                           >  3:171107/1‑145 (MQ=255)                                                        ttGCCCTGACCGCCCAGGCTGCAATTCAGCAAGGCGCCCATGCCGCGTTCGCCCTGTGCCGTCCGCCAGGGCACCACGCTGCCGGCGAAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCTTCCTCGAc                                                                                        <  3:318232/149‑1 (MQ=255)                                                             cTGACCGCCCAGGCTGCAATTCAGCAAGGCGCCCATGCCGCGTTCGCCCTGTGCCGTCCGCCAGGGCACCACGCTGCCGGCGAAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCTTCCTCGACCAAgg                                                                                   <  5:340548/149‑1 (MQ=255)                                                              tGACCGCCCAGGCTGCAATTCAGCAAGGCGCCCATGCCGCGTTCGCCCTGTGCCGTCCGCCAGGGCACCACGCTGCCGGCGAAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCTTCCTCGACCAAGGc                                                                                  >  6:159586/1‑149 (MQ=255)                                                                 ccGCCCAGGCTGCAATTCAGCAAGGCGCCCATGCCGCGTTCGCCCTGTGCCGTCCGCCAGGGCACCACGCTGCCGGCGAAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCTTCCTCGACCAAGGCCGa                                                                               <  2:201434/149‑1 (MQ=255)                                                                    cccAGGCTGCAATTCAGCAAGGCGCCCATGCCGCGTTCGCCCTGTGCCGTCCGCCAGGGCACCACGCTGCCGGCGAAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCTTCCTCGACCAAGGCCGACg                                                                             >  5:55570/1‑148 (MQ=255)                                                                           tGCAATTCAGCAAGGCGCCCATGCCGCGTTCGCCCTGTGCCGTCCGCCAGGGCACCACGCTGCCGGCGAAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCTTCCTCGACCAAGGCCGACGCAAGGTCg                                                                     >  1:78395/1‑149 (MQ=255)                                                                                ttCAGCAAGGCGCCCATGCCGCGTTCGCCCTGTGCCGTCCGCCAGGGCACCACGCTGCCGGCGAAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCTTCCTCGACCAAGGCCGACGCAAGGTCGCCATc                                                                <  6:55570/149‑1 (MQ=255)                                                                                 tCAGCATGGCGCCGATGCCGCGTTCGCCCTGTGCCGTCCGGCAGGGCACCAGGCTGCCGGCGTAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCTTCCTCGACCAAGGCCGACGCAAGGTCGCCATc                                                                <  7:309119/148‑1 (MQ=255)                                                                                   aGCAAGGCGCCCATGCCGCGTTCGCCCTGTGCCGTCCGCCAGGGCACCACGCTGCCGGCGAAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCTTCCTCGACCAAGGCCGACGCAAGGTCGCCATCCtt                                                             >  6:292147/1‑149 (MQ=255)                                                                                   aGCAAGGCGCCCATGCCGCGTTCGCCCTGTGCCGTCCGCCAGGGCACCACGCTGCCGGCGAAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCTTCCTCGACCAAGGCCGACGCAAGGTCGCCATCCtt                                                             <  2:18502/149‑1 (MQ=255)                                                                                    tcacttcgccggcagcgtggtgccctggcggacggcacagggcgaacgcggcatgggcgAAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCTTCCTCGACCAAGGCCGACGCAAGGTCGCCATCCtt                                                             >  7:281501‑M2/60‑148 (MQ=255)                                                                                      acttcgccggcagcgtggtgccctggcggacggcacagggcgaacgcggcatgggcgAAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCTTCCTCGACCAAGGcc                                                                                 <  5:106661‑M2/69‑1 (MQ=255)                                                                                      acttcgccggcagcgtggtgccctggcggacggcacagggcgaacgcggcatgggcgAAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCTTCCTCGACCAAGGcc                                                                                 >  6:106661‑M2/58‑126 (MQ=255)                                                                                            CCCATGCCGCGTTCGCCCTGTGCCGTCCGCCAGGGCACCACGCTGCCGGCGAAGTGATGGGCGACTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCTTCCTCGACCAAGGCCGACGCAAGGTCGCCATCCTTGACGTCGa                                                     <  6:181725‑M1/148‑1 (MQ=255)                                                                                              cATGCCGCGTTCGCCCTGTGCCGTCCGCCAGGGCACCACGCTGCCGGCGAAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCTTCCTCGACCAAGGCCGACGCAAGGTCGCCATCCTTGACGTCGACTa                                                  >  5:144391/1‑149 (MQ=255)                                                                                                  ccGCGTTCGCCCTGTGCCGTCCGCCAGGGCACCACGCTGCCGGCGAAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCTTCCTCGACCAAGGCCGACGCAAGGTCGCCATCCTTGACGTCGACTaccac                                              >  2:217821/1‑149 (MQ=255)                                                                                                    gcgTTCGCCCTGTGCCGTCCGCCAGGGCACCACGCTGCCGGCGAAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCTTCCTCGACCAAGGCCGACGCAAGGTCGCCATCCTTGACGTCGACTAccacca                                            <  2:78395/149‑1 (MQ=255)                                                                                                          gCCCTGTGCCGTCCGCCAGGGCACCACGCTGCCGGCGAAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCTTCCTCGACCAAGGCCGACGCAAGGTCGCCATCCTTGACGTCGACTACCACCACGGCaa                                      >  5:332400/1‑149 (MQ=255)                                                                                                               gtgCCGTCCGCCAGGGCACCACGCTGCCGGCGAAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCTTCCTCGACCAAGGCCGACGCAAGGTCGCCATCCTTGACGTCGACTACCACCACGGCAACGGTa                                 >  7:150897/1‑149 (MQ=255)                                                                                                                  ccGTCCGCCAGGGCACCACGCTGCCGGCGAAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCTTCCTCGACCAAGGCCGACGCAAGGTCGCCATCCTTGACGTCGACTACCACCACGGCAACGGTACg                               >  2:267966/1‑148 (MQ=255)                                                                                                                   cGTCCGCCAGGGCACCACGCTGCCGGCGAAGTGATGGGCGACTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCTTCCTCGACCAAGGCCGACGCAAGGTCGCCATCCTTGACGTCGACTACCACCACGGCAACGGTACGCa                             <  5:181725/149‑1 (MQ=255)                                                                                                                    gTCCGCCAGGGCACCACGCTGCCGGCGAAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCTTCCTCGACCAAGGCCGACGCAAGGTCGCCATCCTTGACGTCGACTACCACCACGGCAACGGTACGCAg                            <  6:332400/149‑1 (MQ=255)                                                                                                                        gCCAGGGCACCACGCTGCCGGCGAAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCTTCCTCGACCAAGGCCGACGCAAGGTCGCCATCCTTGACGTCGACTACCACCACGGCAACGGTACGCAGGACa                        >  8:72278/1‑149 (MQ=255)                                                                                                                          cAGGGCAACACGCTGCCGGCGAAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCTTCCTCGACCAAGGCCGACGCAAGGTCGCCATCCTTGACGTCGACTACCACCACGGCAACGGTACGCAGGACAtc                      <  1:98876/149‑1 (MQ=255)                                                                                                                           aGGGCACCACGCTGCCGGCGAAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCTTCCTCGACCAAGGCCGACGCAAGGTCGCCATCCTTGACGTCGACTACCACCACGGCAACGGTACGCAGGACAtct                     <  1:217821/149‑1 (MQ=255)                                                                                                                              gCACCACGCTGCCGGCGAAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCTTCCTCGACCAAGGCCGACGCAAGGTCGCCATCCTTGACGTCGACTACCACCACGGCAACGGTACGCAGGACAtcttc                   >  2:234371/1‑148 (MQ=255)                                                                                                                                  cacGCTGCCGGCGAAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCTTCCTCGACCAAGGCCGACGCAAGGTCGCCATCCTTGACGTCGACTACCACCACGGCAACGGTACGCAGGACATCTTCTACAg              >  3:120711/1‑149 (MQ=255)                                                                                                                                     ggcatgggcgAAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCTTCCTCGACCAAGGCCGACGCAAGGTCGCCATCCTTGACGTCGACTACCACCACGGCAACGGTACGCAGGACAtcttc                   >  4:258434‑M2/11‑141 (MQ=255)                                                                                                                                     ggcatgggcgAAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCTTCCTCGACCAAGGCCGACGCAAGGTCGCCATCCTTGACGTCGACTACCACCACGGCAACGGTACGCAGGACAtcttc                   <  3:258434‑M2/131‑1 (MQ=255)                                                                                                                                           ggcgAAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCTTCCTCGACCAAGGCCGACGCAAGGTCGCCATCCTTGACGTCGCCTACTACCACGGCAACGGTACGCAGGACATCTTCTACAGCCGcgacga     >  8:72923‑M2/5‑149 (MQ=255)                                                                                                                                              gAAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCTTCCTCGACCAAGGCCGACGCAAGGTCGCCATCCTTGACGTCGACTACCACCACGGCAACGGTACGCAGGACATCTTCTACAGCCGCGACGACGt  <  4:32431‑M2/148‑1 (MQ=255)                                                                                                                                              gAAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCTTCCTCGACCAAGGCCGACGCAAGGTCGCCATCCTTGACGTCGACTACCACCACGGCAACGGTACGCAGGACATCTTCTACAGCCGCGACGACGt  >  3:252493‑M2/2‑149 (MQ=255)                                                                                                                                               |                                                                                                                                                    GCCGGCGCCCCCATCACCGCGGGTACCTGGCAGGCGGCCTACAGTGCTGCGCAAGTTGCCCTGACCGCCCAGGCTGCAATTCAGCAAGGCGCCCATGCCGCGTTCGCCCTGTGCCGTCCGCCAGGGCACCACGCTGCCGGCGAAGTGATGGGCGGCTACTGCTATCTGAATAATGCCGCCATCGCCGCCCAGGCCTTCCTCGACCAAGGCCGACGCAAGGTCGCCATCCTTGACGTCGACTACCACCACGGCAACGGTACGCAGGACATCTTCTACAGCCGCGACGACGT  >  NC_002947/6088124‑6088413

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ 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.