New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 1885679	44 (0.900)	4 (0.090)	3/248	NT	8.5%	coding (346/1488 nt)	rmuC	DNA recombination limiting inversions protein
	?	NC_002947	= 1885705	45 (0.970)					coding (372/1488 nt)	rmuC	DNA recombination limiting inversions protein

GCAGGCCCAGTTGGCCGCCCAAAGCCGTGAGCTGGAGCTGCTGCAGATCGATCGCGACAACGCCCGTGATGCCGCCCACGCCTGGAGCCTTGAGCGCGCCAATCGCGAAGCCGAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGACCTGCAGGAGGCCCGTGACACCTTGCGCGCCCAGTTCGCCGACATGGCCACCAAGATTTTCGACGAACGCGAGCAGCGCTTCGCCCAGACCAGCCAG  >  NC_002947/1885558‑1885852                                                                                                                                                      |                                                                                                                                                    gCAGGCCCAGTTGGCCGCCCAAAGCCGTGAGCTGGAGCTGCTGCAGATCGATCGCGACAACGCCCGTGATGCCGCCCACGCCTGGAGCCTTGAGCGCGCCAATCGCGAAGCCGAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTg                                                                                                                                                     >  7:114146/1‑148 (MQ=255)  cAGGCCCAGTTGGCCGCCCAAAGCCGTGAGCTGGAGCTGCTGCAGATCGATCGCGACAACGCCCGTGATGCCGCCCACGCCTGGAGCCTTGAGCGCGCCAATCGCGAAGCCGAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTg                                                                                                                                                     >  7:187389/1‑147 (MQ=255)  cAGGCCCAGTTGGCCGCCCAAAGCCGTGAGCTGGAGCTGCTGCAGATCGATCGCGACAACGCCCGTGATGCCGCCCACGCCTGGAGCCTTGAGCGCGCCAATCGCGAAGCCGAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTg                                                                                                                                                     <  8:187389/147‑1 (MQ=255)     gCCCAGTTGGCCGCCCAAAGCCGTGAGCTGGAGCTGCTGCAGATCGATCGCGACAACGCCCGTGATGCCGCCCACGCCTGGAGCCTTGAGCGCGCCAATCGCGAAGCCGAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGgacgc                                                                                                                                                >  3:109094‑M2/1‑144 (MQ=255)               ccgccCAAAGCCGTGAGCTGGAGCTGCTGCAGATCGATCGCGACAACGCCCGTGATGCCGCCCACGCCTGGAGCCTTGAGCGCGCCAATCGCGAAGCCGAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGt                                                                                                                                      <  3:116320/149‑1 (MQ=255)                           gTGAGCTGGAGCTGCTGCAGATCGATCGCGACAACGCCCGTGATGCCGCCCACGCCTGGAGCCTTGAGCGCGCCAATCGCGAAGCCGAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGa                                                                                                                           >  1:191368/1‑148 (MQ=255)                                 tggagctgCTGCAGATCGATCGCGACAACGCCCGTGATGCCGCCCACGCCTGGAGCCTTGAGCGCGCCAATCGCGAAGCCGAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGccac                                                                                                                    <  8:114146/149‑1 (MQ=255)                                        gctgcAGATCGATCGCGACAACGCCCGTGATGCCGCCCACGCCTGGAGCCTTGAGCGCGCCAATCGCGAAGCCGAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAAc                                                                                                             >  6:7461/1‑149 (MQ=255)                                                tcgatcgCGACAACGCCCGTGATGCCGCCCACGCCTGGAGCCTTGAGCGCGCCAATCGCGAAGCCGAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGaa                                                                                                     <  2:191368/149‑1 (MQ=255)                                                tcgatcgCGACAACGCCCGCGATGCCGCCCACGCCTGGAGCCTTGAGCGCGCCAATCGCGAAGCCGAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGaa                                                                                                     <  4:88125/149‑1 (MQ=255)                                                 cgatcgCGACAACGCCCGTGATGCCGCCCACGCCTGGAGCCTTGAGCGCGCCAATCGCGAAGCCGAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTgg                                                                                                       >  6:307034/1‑146 (MQ=255)                                                   atcgCGACAACGCCCGTGATGCCGCCCACGCCTGGAGCCTTGAGCGCGCCAATCGCGAAGCCGAACTGTACGACCCCTGGAGCCCCAAACCCCGCCCATGGACGCACACCTCCGTGAACAGCAGGAAAGCCACCACCACCGCATgg                                                                                                       >  1:95674/1‑146 (MQ=255)                                                   atcgCGACAACGCCCGTGATGCCGCCCACGCCTGGAGCCTTGAGCGCGCCAATCGCGAAGCCGAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGAc                                                                                                  >  5:64359/1‑149 (MQ=255)                                                   atcgCGACAACGCCCGTGATGCCGCCCACGCCTGGAGCCTTGAGCGCGCCAATCGCGAAGCCGAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGAc                                                                                                  >  1:151117/1‑149 (MQ=255)                                                                ccGTGATGCCGCCCACGCCTGGAGCCTTGAGCGCGCCAATCGCGAAGCCGAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGccacc                                                                                                                   <  6:104064/119‑1 (MQ=255)                                                                ccGTGATGCCGCCCACGCCTGGAGCCTTGAGCGCGCCAATCGCGAAGCCGAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGccacc                                                                                                                   >  5:104064/1‑119 (MQ=255)                                                                ccGTAATGCCGCCCACGCCTGGAGCCTTGAGCGCGCCAATCGCGAAGCCGAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGACCTGCAGGAGGccc                                                                                     <  8:204747/149‑1 (MQ=255)                                                                  gTGATGCCGCCCACGCCTGGAGCCTTGAGCGCGCCAATCGCGAAGCCGAACTG‑‑TGTCGCCTGGAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGACCTGCAGGAGGCCCGt                                                                                   <  5:307034/149‑1 (MQ=255)                                                                  gTGATGCCGCCCACGCCTGGAGCCTTGAGCGCGCCAATCGCGAAGCCGAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGACCTGCAGGAGGCCCGt                                                                                   >  4:42869/1‑149 (MQ=255)                                                                     aTGCCGCCCATGCCTGGAGCCTTGAGCGCGCCAATCGCGAAGCCGAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGACCTGCAGGAGGCCCGTGa                                                                                 <  2:256662/148‑1 (MQ=255)                                                                        ccgccCACGCCTGGAGCCTTGAGCGCGCCAATCGCGAAGCCGAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGACCt                                                                                                >  4:165245/1‑130 (MQ=255)                                                                        ccgccCACGCCTGGAGCCTTGAGCGCGCCAATCGCGAAGCCGAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGACCt                                                                                                <  3:165245/130‑1 (MQ=255)                                                                        ccgccCACGCCTGGAGCCTTGAGCGCGCCAATCGCGAAGCCGAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGACCTGCAGGAGGCCCGTGACAcc                                                                             >  8:83480/1‑149 (MQ=255)                                                                          gccCACGCCTGGAGCCTTGAGCGCGCCAATCGCGAAGCCGAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGACCTGCAGGAGGCCCGTGACACCtt                                                                           >  2:278659/1‑149 (MQ=255)                                                                            ccACGCCTGGAGCCTTGAGCGCGCCAATCGCGAAGCCGAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGACCTGCAGGAGGCCCGTGACACCTTgc                                                                         <  7:83480/149‑1 (MQ=255)                                                                                         cTTGAGCGCGCCAATCGCGAAGCCGAACTG‑‑CGTCGCCTGGAGGCGCAAACCTCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGACCTGCAGGAGGCCCGTGACACCTTGCGCGCCCAGTTCGc                                                            <  4:179681/149‑1 (MQ=255)                                                                                          ttGAGCGCGCCAATCGCGAAGCCGAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGACCTGCAGGAGGCCCGTGACACCTTGCGCGCCCAGTTCGcc                                                           >  2:35302/1‑149 (MQ=255)                                                                                                gcgcCAATCGCGAAGCCGAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGACCTGCAGGAGGCCCGTGACACCTTGCGCGCCCAGTTCGCCGACATg                                                     <  6:64359/149‑1 (MQ=255)                                                                                                  gcCAATCGCGAAGCCGAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGACCTGCAGGAGGCCCGTGACACCTTgcgc                                                                       >  7:122949/1‑129 (MQ=255)                                                                                                  gcCAATCGCGAAGCCGAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGACCTGCAGGAGGCCCGTGACACCTTgcgc                                                                       <  8:122949/129‑1 (MQ=255)                                                                                                   ccAATCGCGAAGCCGAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCATCAGCAACGCCTGGAAGACCTGCAGGAGGCCCGTGACACCTTGCGCGCCCAGTTCGCCGACATGGcc                                                  <  8:279033/149‑1 (MQ=255)                                                                                                      aTCGCGAAGCCGAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGACCTGCAGGAGGCCCGTGACACCTTGCGCGCCCAGTTCGCCGACATGGccac                                                >  6:94479/1‑148 (MQ=255)                                                                                                         gcgAAGCCGAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGACCTGCAGGAGGCCCGTGACACCTTGCGCGCCCAGTTCGCCGACATGGCCACCAAg                                            <  2:95674/149‑1 (MQ=255)                                                                                                           gAAGCCGAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGACCTGCAGGAGGCCCGTGACACCTTGCGCGCCCAGTTCGCCGCCATGGCCACCAAGAt                                          >  8:85793/1‑149 (MQ=255)                                                                                                                cGAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGACCTGCAGGAGGCCCGTGACACCTTGCGCGCCCAGTTCGCCGACATGGCCACCAAGATTTTc                                      >  8:217106/1‑148 (MQ=255)                                                                                                                 gAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGgacgcagttcggcttcgcgattggcgcgctcaaggctccaggcgtgggcggcatcacgggcgttgtcgcgatcgatctgcagcagctccagctcacggctttg                                              <  1:295651‑M2/139‑104 (MQ=255)                                                                                                                 gAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGgacgcagttcggcttcgcgattggcgcgctcaaggctccaggcgtgggcggcatcacgggcgttgtcgcgatcgatctgcagcagctccagctcacggctttg                                              >  2:295651‑M2/1‑36 (MQ=255)                                                                                                                 gAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGACCTGCAGGAGGCCCGTGACACCTTGCGCGCCCAGTTCGCCGACATGGCCACCAAGATTTTcga                                    <  7:217106/149‑1 (MQ=255)                                                                                                                 gAACTG‑‑CGTCGCCTGGAGGCGCAAACCGAGCGCCTGgacgcagttcggcttcgcgattggcgcgctcaaggctccaggcgtgggcggcatcacgggcgttgtcgcgatcgatctgcagcagctccagctcacggctttgggcggcaaac                                    <  5:301745‑M2/149‑114 (MQ=255)                                                                                                                  aaCTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGgacgcagttcggcttcgcgattggcgcgctcaaggctccaggcgtgggcggcatcacgggcgttgtcgcgatcgatctgcagcagctccagctcacggctttgggcggccaact                                   <  7:249497‑M2/149‑115 (MQ=255)                                                                                                                     tG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGACCTGCAGGAGGCCCGTGACACCTTGCGCGCCCAGTTCGCCGACATGGCCACCAAGATTTTCGACGaa                                >  1:269177/1‑149 (MQ=255)                                                                                                                           tCGCCTGTAGGCGAAAACCGCGCGCCTGGACGCAGATATTAGTGAACATCAGGAAAGACACAAGCAACGCATGGAAGACCTGCAGGAGGCACGTGAAACATTGAGCGCCAAGTTAGCCTACATGGCCACCAAGATATTCGACTAActc                             >  4:197188/1‑146 (MQ=255)                                                                                                                           tCGCCTGGAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGACCTGCAGGAGGCCCGTGACACCTTGCGCGCCCAGTTCGCCGACATGGCCACCAAGATTTTCGACGAAcgc                             >  5:140026/1‑148 (MQ=255)                                                                                                                             gCCTGGAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGACCTGCAGGAGGCCCGTGACACCTTGCGCGCCCAGTTCGCCGACATGGCCACCAAGATTTTCGACGAACGCGag                          <  3:42869/149‑1 (MQ=255)                                                                                                                                  gAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGACCTGCAGGAGGCCCGTGACACCTTGCGCGCCCAGTTCGCCGACATGGCCACCAAGATTTTCGACGAACGCGAGCAgcg                     >  4:131871/1‑149 (MQ=255)                                                                                                                                  gAGGCGCAAAACGCTCTCCTGGAAGCAGAGCTGAGTGAACAGCATGAAAGCAACCACCAACGCCTTGAAGACCTGCAGGAGGCCCTTGAAACCTTGCGCGCCCAGTTCGCCGACATGGCCACAAAGATTTTCGACGAACGCGagcagc                      <  3:197188/148‑1 (MQ=255)                                                                                                                                       gcAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGACCTGCAGGAGGCCCGTGACACCTTGCGCGCCCAGTTCGCCGACATGGCCACCAAGATTTTCGACGAACGCGAGCAGCGCTTCg                <  5:7461/149‑1 (MQ=255)                                                                                                                                       gcAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGACCTGCAGGAGGCCCGTGACAACTTGCGCGCCCAGTTCGCCGa                                                         >  6:25990/1‑108 (MQ=255)                                                                                                                                       gcAAACAGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGACCTGCAGGAGGCCCGTGACACCTTGCGCGCCCAGTTCGCCGa                                                         <  5:25990/108‑1 (MQ=255)                                                                                                                                        cAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGACCTGCAGGAGGCCCGTGACACCTTGCGCGCCCAGTTCGCCGACATGGCCACCAAGATTTTCGACGAACGCGAGCAGCGCTTCGc               <  6:140026/149‑1 (MQ=255)                                                                                                                                         aacccGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGACCTGCAGGAGGCCCGTGACACCTTGCGCGCCCAGTTCGCCGACATGGCCACCAAGATTTTCGACGAACGCGAGCAGCGCTTCGcc              >  5:259280/4‑149 (MQ=255)                                                                                                                                          aaCCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGACCTGCAGGAGGCCCGTGACACCTTGCGCGCCCAGTTCGCCGACATGGCCACCAAGATTTTCGACGAACGCGAGCAGCGCTTCGcc              <  4:226427/148‑1 (MQ=255)                                                                                                                                          aaCCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGACCTGCAGGAGGCCCGTGACACCTTGCGCGCCCAGTTCGCCGACATGGCCACCAAGATTTTCGACGAACGCGAGCAGCGCTTCGcc              >  3:226427/1‑148 (MQ=255)                                                                                                                                                  gcCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGACCTGCAGGAGGCCCGTGACACCTTGCGCGCCCAGTTCGCCGACATGGCCACCAAGATTTTCGACGAACGCGAGCAGCGCTTCGCCCAGAccagc     <  3:131871/149‑1 (MQ=255)                                                                                                                                                    cTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGACCTGCAGGAGGCCCGTGACACCTTGCGCGCCCAGTTCGCCGACATGGCCACCAAGATTTTCGACGAACGCGAGCAGCGCTTCGCCCAGAccagc     >  3:119220/1‑147 (MQ=255)                                                                                                                                                     tGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGACCTGCAGGAGGCCCGTGACACCTTGCGCGCCCAGTTCGCCGACATGGCCACCAAGATTTTCGACGAACGCGAGCAGCGCTTCGCCCAGAccagccag  <  6:259280/149‑1 (MQ=255)                                                                                                                                                      |                                                                                                                                                    GCAGGCCCAGTTGGCCGCCCAAAGCCGTGAGCTGGAGCTGCTGCAGATCGATCGCGACAACGCCCGTGATGCCGCCCACGCCTGGAGCCTTGAGCGCGCCAATCGCGAAGCCGAACTG‑‑CGTCGCCTGGAGGCGCAAACCGCGCGCCTGGACGCAGAGCTGCGTGAACAGCAGGAAAGCCACCAGCAACGCCTGGAAGACCTGCAGGAGGCCCGTGACACCTTGCGCGCCCAGTTCGCCGACATGGCCACCAAGATTTTCGACGAACGCGAGCAGCGCTTCGCCCAGACCAGCCAG  >  NC_002947/1885558‑1885852

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.