New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	4014293 =	41 (0.780)	3 (0.060)	3/236	NT	6.7%	intergenic (‑134/‑35)	PP_3541/PP_3542	MgtC family transporter/hypothetical protein
	?	NC_002947	4014323 =	44 (0.870)					intergenic (‑164/‑5)	PP_3541/PP_3542	MgtC family transporter/hypothetical protein

GCCAGATGACGTCCATCGCAGTTGTTTCCCCTGCTTGAGCTTTATGAATCCGCCTGCCACGTCAGAGGCCTGCCCTATGCAAGGTTGACCGTCACACGTACTGCAAAGTGCCGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGGTCCACCCTG‑‑TAATCACCCCGGGAGGACCCCACCATGCCCATTGAAGTCGACGAAACCACCCGCCGCTGCACGCTGATCGGCGAAGACCTGCGCATCGAGGGCGAAGGCCCAGACATCGAGATCATCACCGACGAGCAGTTGCGCATG  >  NC_002947/4014144‑4014441                                                                                                                                                      |                                                                                                                                                       gcCAGATGACGTCCATCGCCGTTGTTTCCCCTGCTTGAGCTTTATGAATCCGCCTGCCACGTCAGAGGCCTGCCCTATGCAAGGTTGACCGTCACACGTACTGCAAAGTGCCGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTg                                                                                                                                                        <  2:936775/150‑1 (MQ=255) cacgcgttggccggccagtacggccaccgacatgcgcaactgctcgtcggtgatgatctcgatgtctgggccttcgccctcgatgcgcaggtcttcgccgatcagcgtgcagcggcgggtggtttcgtcgacttcaatgggcatggtggg                                                                                                                                                        >  1:40417‑M1/150‑150 (MQ=255)  acgcgttggccggccagtacggccaccgacatgcgcaactgctcgtcggtgatgatctcgatgtctgggccttcgccctcgatgcgcaggtcttcgccgatcagcgtgcagcggcgggtggtttcgtcgacttcaatgggcatggtgggg                                                                                                                                                       >  2:879630‑M1/149‑150 (MQ=255)   cAGATGACGTCCATCGCAGTTGTTTCCCCTGCTTGAGCTTTATGAATCCGCCTGCCACGTCAGAGGCCTGCCCTATGCAAGGTTGACCGTCACACGTACTGCAAAGTGCCGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGGt                                                                                                                                                      >  1:266685/1‑150 (MQ=255)    gcgttggccggccagtacggccaccgacatgcgcaactgctcgtcggtgatgatctcgatgtctgggccttcgccctcgatgcgcaggtcttcgccgatcagcgtgcagcggcgggtggtttcgtcgacttcaatgggcatggtggGGTc                                                                                                                                                     >  1:3428‑M1/147‑150 (MQ=255)     gATGACGTCCATCGCAGTTGTTTCCCCTGCTTGAGCTTTATGAATCCGCCTGCCACGTCAGAGGCCTGCCCTATGCAAGGTTGACCGTCACACGTACTGCAAAGTGCCGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGGTcc                                                                                                                                                    >  1:208986/1‑150 (MQ=255)            tCCATCGCAGTTGTTTCCCCTGCTTGAGCTTTATGAATCCGCCTGCCACGTCAGAGGCCTGCCCTATGCAAGGTTGACCGTCACACGTACTGCAAAGTGCCGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTAGTCCACCCTG‑‑t                                                                                                                                           >  1:295247/1‑150 (MQ=255)            cggccagtacggccaccgacatgcgcaactgctcgtcggtgatgatctcgatgtctgggccttcgccctcgatgcgcaggtcttcgccgatcagcgtgcagcggcgggtggtttcgtcgacttcaatgggcatggtgggg                                                                                                                                                       >  2:1039725‑M1/139‑140 (MQ=255)            cggccagtacggccaccgacatgcgcaactgctcgtcggtgatgagctcgatgtctgggccttcgccctcgatgcgcaggtcttcgccgatcagcgtgcagcggcgggtggtttcgtcgacttcaatgggcatggtgggg                                                                                                                                                       <  1:1039725‑M1/2‑1 (MQ=255)              cATCGCAGTTGTTTCCCCTGCTTGAGCTTTATGAATCCGCCTGCCACGTCAGAGGCCTGCCCTATGCAAGGTTGACCGTCACACGTACTGCAAAGTGCCGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGGTCCACCCTG‑‑Taa                                                                                                                                         <  2:266685/150‑1 (MQ=255)                cagtacggccaccgacatgcgcaactgctcgtcggtgatgatctcgatgtctgggccttcgccctcgatgcgcaggtcttcgccgatcagcgtgcagcggcgggtggtttcgtcgacttcaatgggcatggtggg                                                                                                                                                        >  2:697222‑M1/135‑135 (MQ=255)                cagtacggccaccgacatgcgcaactgctcgtcggtgatgatctcgatgtctgggccttcgccctcgatgcgcaggtcttcgccgatcagcgtgcagcggcgggtggtttcgtcgacttcaatgggcatggtggg                                                                                                                                                        <  1:697222‑M1/1‑1 (MQ=255)                 cGCAGTTGTTTCCCCTGCTTGAGCTTTATGAATCCGCCTGCCACGTCAGAGGCCTGCCCTATGCAAGGTTGACCGTCACACGTACTGCAAAGTGCCGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTAGTCCACCCTG‑‑TAATCa                                                                                                                                      <  2:295247/150‑1 (MQ=255)                  gCAGTTGTTTCCCCTGCTTGAGCTTTATGAATCCGCCTGCCACGTCAGAGGCCTGCTCTATGCAAGGTTGACCGTCACACGTACTGCAAAGTGCCGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGGTCCACCCTg                                                                                                                                              <  1:474898/143‑1 (MQ=255)                  gCAGTTGTTTCCCCTGCTTGAGCTTTATGAATCCGCCTGCCACGTCAGAGGCCTGCTCTATGCAAGGTTGACCGTCACACGTACTGCAAAGTGCCGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGGTCCACCCTg                                                                                                                                              >  2:474898/1‑143 (MQ=255)                         tttCCCCTGCTTGAGCTTTATGAATCCGCCTGCCACGTCAGAGGCCTGCCCTATGCAAGGTTGACCGTCACACGTACTGCAAAGTGCCGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGGTCCACCCTG‑‑TAATCACCCCGgga                                                                                                                              >  2:1395149/1‑150 (MQ=255)                                  cTTGAGCTTTATGAATCCGCCTGCCACGTCAGAGGCCTGCCCTATGCAAGGTTGACCGTCACACGTACTGCAAAGTGCCGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGGTCGGGCGTG‑‑TAATCACCCCGGGAGGACCccac                                                                                                                     <  1:398060/150‑1 (MQ=255)                                            aTGAATCCGCCTGCCACGTCAGAGGCCTGCCCTATGCAAGGTTGACCGTCACACGTACTGCAAAGTGCCGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGGTCCACCCTG‑‑TAATCACCCCGGGAGGACCCCACCATGCCCAtt                                                                                                           <  2:1169516/150‑1 (MQ=255)                                             tGAATCCGCCTGCCACGTCAGAGGCCTGCCCTATGCAAGGTTGACCGTCACACGTACTGCAAAGTGCCGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGGTCCACCCTG‑‑TAATCACCCCGGGAGGACCCCACCATGCCCATTg                                                                                                          >  1:1137081/1‑150 (MQ=255)                                               aaTCCGCCTGCCACGTCAGAGGCCTGCCCTATGCAAGGTTGACCGTCACACGTACTGCAAAGTGCCGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGGTCCACCCTG‑‑TAATCACCCCGGGAGGACCCCACCATGCCCATTGaa                                                                                                        >  1:1139455/1‑150 (MQ=255)                                                tgaaagcTGCCACGTCAGAGGCCTGCCCTATGCAAGGTTGACCGTCACACGTACTGCAAAGTGCCGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGGTCCACCCTG‑‑TAATCACCCCGGGAGGACCCCACCATGCCCATTGAAg                                                                                                       >  2:741572/7‑150 (MQ=255)                                                    gCCTGCCACGTCAGAGGCCTGCCCTATGCAAGGTTGACCGTCACACGTACTGCAAAGTGCCGCTCAGCTTGCTGATGCAGCAACTGGTCCCTGACCGTGGTCCACCCTG‑‑TAATCACCCCGGGAGGACCCCACCATGCCCATTGAAGTcga                                                                                                   <  2:338860/150‑1 (MQ=255)                                                    gCCTGCCACGTCAGAGGCCTGCCCTATGCAAGGTTGACCGTCACACGTACTGCAAAGTGCCGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGGTCCACCCTG‑‑TAATCACCCCGGGAGGACCCCACCATGCCCATTGAAGTcga                                                                                                   <  2:1137081/150‑1 (MQ=255)                                                        gCCACGTCAGAGGCCTGCCCTATGCAAGGTTGACCGTCACACGTACTGCAAAGTGCCGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGGTCCACCCTG‑‑TAATCACCCCGGGAGGACCCCACCATGCCCATTGAAGTCGACGaa                                                                                               >  1:906993/1‑150 (MQ=255)                                                          cACGTCAGAGGCCTGCCCTATGCAAGGTTGACCGTCACACGTACTGCAAAGTGCCGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTgg                                                                                                                                                       <  2:304348/94‑1 (MQ=255)                                                          cACGTCAGAGGCCTGCCCTATGCAAGGTTGACCGTCACACGTACTGCAAAGTGCCGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTgg                                                                                                                                                       >  1:304348/1‑94 (MQ=255)                                                            cgatgtctgggccttcgccctcgatgcgcaggtcttcgccgatcagcgtgcagcggcgggtggtttcgtcgacttcaatgggcatggtggGGTCCACCCTG‑‑TAATCACCCCGGGAGGACCcca                                                                                                                      >  2:1054140‑M1/91‑123 (MQ=255)                                                            cgatgtctgggccttcgccctcgatgcgcaggtcttcgccgatcagcgtgcagcggcgggtggtttcgtcgacttcaatgggcatggtggGGTCCACCCTG‑‑TAATCACCCCGGGAGGACCcca                                                                                                                      <  1:1054140‑M1/33‑1 (MQ=255)                                                              tCAGAGGCCTGCCCTATGCAAGGTTGACCGTCACACGTACTGCAAAGTGCCGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGGTCCACCCTG‑‑TAATCACCCCGGGAGGACCCCACCATGCCCATTGAAGTCGACGAAaccacc                                                                                         >  2:399176/1‑150 (MQ=255)                                                                    gCCTGCCCTATGCAAGGTTGACCGTCACACGTACTGCAAAGTGCCGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGGTCCACCCTG‑‑TAATCACCCCGGGAGGACCCCACCATGCCCATTGAAGTCGACGAAACCACCcgccgc                                                                                   >  2:34694/1‑150 (MQ=255)                                                                      cTGCCCTATGCAAGGTTGACCGTCACACGTACTGCAAAGTGCCGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGGTCCACCCTG‑‑TAATCACCCCgg                                                                                                                                >  1:928388/1‑103 (MQ=255)                                                                      cTGCCCTATGCAAGGTTGACCGTCACACGTACTGCAAAGTGCCGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGGTCCACCCTG‑‑TAATCACCCCgg                                                                                                                                <  2:928388/103‑1 (MQ=255)                                                                         cccTATGCAAGGTTGACCGTCACACGTACTGCAAAGTGCCGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGGTCCACCCTG‑‑TAATCACCCCGGGAGGAccc                                                                                                                        <  1:59394/108‑1 (MQ=255)                                                                         cccTATGCAAGGTTGACCGTCACACGTACTGCAAAGTGCCGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGGTCCACCCTG‑‑TAATCACCCCGGGAGGAccc                                                                                                                        >  2:59394/1‑108 (MQ=255)                                                                                   ggTTGACCGTCACACGTACTGCAAAGTGCCGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGCTCTACCCTG‑‑TAATCACCCCGGGAGGACCCCACCATGCCCAATGATCTCGACGAAACCACCCGCCGCTGCACGCTGAGCGGc                                                                    <  1:473451/150‑1 (MQ=255)                                                                                    gTTGACCGTCACACGTACTGCAAAGTGCCGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGGTCCACCCTG‑‑TAATCACCCCGGGAGGACCCCACCATGCCCATTGAAGTCGACGAAACCACCCGCCGCTGCACGCTGATCGGCg                                                                   >  2:1212580/1‑150 (MQ=255)                                                                                      tGACCGTCACACGTACTGCAAAGTGCCGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGGTCCACCCTG‑‑TAATCACCCCGGGAGGACCCCACCATGCCCATTGAAGTCGACGAAACCACCCGCCGCTGCACGCTGATCGGCgca                                                                 <  1:1395149/150‑3 (MQ=255)                                                                                                acGTACTGCAAAGTGCCGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGGTCCACCCTG‑‑TAATCACCCCGGGAGGACCCCACCATGCCCATTGAAGTCGACGAAACCACCCGCCGCTGCACGCTGATCGGCGAAGACCTGCGCa                                                       >  1:150536/1‑150 (MQ=255)                                                                                                  gTACTGCAAAGTGCCGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGGTCCACCCTG‑‑TAATCACCCCGGGAGGACCCCACCATGCCCATTGAAGTCGACGAAACCACCCGCCGCTGCACGCTGATCGGCGAAGACCTGCGCATc                                                     >  2:798970/1‑150 (MQ=255)                                                                                                    aCTGCAAAGTGCCGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGGTCCACCCTG‑‑TAATCACCCCGGGAGGACCCCACCATGCCCATTGAAGTCGACGAAACCACCCGCCGCTGCACGCTGATCGGCGAAGACCTGCGCATCGa                                                   <  2:906993/150‑1 (MQ=255)                                                                                                       gCAAAGTGCCGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGGTCCACCCTG‑‑TAATCACCCCGGGAGGACCCCACCATGCCCATTGAAGTCGACGAAACCACCCGCCGCTGCACGCTAATCGGCGAAGACCTGCGCATCGAggg                                                <  1:399176/150‑1 (MQ=255)                                                                                                            gTGCCTCTCAGCTCGCTGATGCACCAACTGGCCCCTGACCGTGGTCCACCCTG‑‑TAATCACCCCGGGAGGACCCCACCATGCCCATTGAAGTCGACGAAACCACCCGCCGCTCCACGCTGATCGGCGAAGACCTGCGCATCGAGGGCGAAg                                           <  2:444821/150‑1 (MQ=255)                                                                                                               ccGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGGTCCACCCTG‑‑TAATCACCCCGGGAGGACCCCACCATGCCCATTGAAGTCGACGAAACCACCCGCCGCTGCACGCTGATCGGCGAAGAc                                                              <  2:214193/128‑1 (MQ=255)                                                                                                               ccGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGGTCCACCCTG‑‑TAATCACCCCGGGAGGACCCCACCATGCCCATTGAAGTCGACGAAACCACCCGCCGCTGCACGCTGATCGGCGAAGAc                                                              >  1:214193/1‑128 (MQ=255)                                                                                                               ccGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGGTCCACCCTG‑‑TAATCACCCCGGGAGGACCCCACCATGCCCATTGAAGTCGACGAAACCACCCGCCGCTGCACGCTGATCGGCGAAGACCTGCGCATCGAGGGCGAAGGcc                                        <  2:208986/150‑1 (MQ=255)                                                                                                                 gCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGGTCCACCCTG‑‑TAATCACCCCGGGAGGACCCCACCATGCCCATTGAAGTCGACGAAACCACCCGCCGCTGCACGCTGATCGGCGAAGACCTgc                                                          <  1:579253/130‑1 (MQ=255)                                                                                                                 gCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGGTCCACCCTG‑‑TAATCACCCCGGGAGGACCCCACCATGCCCATTGAAGTCGACGAAACCACCCGCCGCTGCACGCTGATCGGCGAAGACCTgc                                                          >  2:579253/1‑130 (MQ=255)                                                                                                                  cTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGGTCCACCCTG‑‑TAATCACCCCGGGAGGACCCCACCATGCCCATTGAAGTCGACGAAACCACCCGCCGCTGCACGCTGATCGGCGAAGACCTGCGCATCGAGGGCGAAGCCCCAg                                     >  2:1011731/1‑150 (MQ=255)                                                                                                                     aGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGGTCCACCCTG‑‑TAATCACCCCGGGAGGACCCCACCATGCCCATTGAAGTc                                                                                                     <  2:648826/83‑1 (MQ=255)                                                                                                                     aGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGGTCCACCCTG‑‑TAATCACCCCGGGAGGACCCCACCATGCCCATTGAAGTc                                                                                                     >  1:648826/1‑83 (MQ=255)                                                                                                                                   gcaACTGGCCCCTGACCGTGGTCCACCCTG‑‑TAATCACCCCGGGAGGACCCCACCATGCCCATTGAAGTCGACGAAACCACCCGCCGCTGCACGCTGATCGGCGAAGACCTGCGCATCGAGGGCGAAGGCCCAGACATCGAGATCATCAcc                    <  1:368374/150‑1 (MQ=255)                                                                                                                                     ttcaatgggcatggtggGGTCCTCCCGGGGTGATTACA‑‑GGGTGGACCCCACCATGCCCATTGAAGTCGACGAAACCACCCGCCGCTGCACGCTGATCGGCGAAGACCTGCGCATCGAGGGCGAAGGCCCAGACATCGAGATCATCACcga                  <  1:1222756‑M1/133‑1 (MQ=255)                                                                                                                                        tGGCCCCTGACCGTGGTCCACCCTG‑‑TAATCACCCCGGGAGGACCCCACCATGCCCATTGAAGTCGACGAAACCACCCGCCGCTGCACGCTGATCGGCGAAGACCTGCGCATCGAGGGCGAAGGCCCAGACATCGAGATCATCACcgacga               >  2:554725/1‑150 (MQ=255)                                                                                                                                         ggCCCCTGACCGTGGTCCACCCTG‑‑TAATCACCCCGGGAGGACCCCACCATGCCCATTGAAGTCGACGAAACCACCCGCCGCTGCACGCTGATCGGCGAAGACCTGCGCATCGAGGGCGAAGGCCCAGACATCGAGATCATCACCGACGAg              <  1:34694/150‑1 (MQ=255)                                                                                                                                            cccTGACCGTCGTCCACCCTG‑‑TAATCACCCCGGGACGACCCCACCATGCCCATTGAAGCCGACGAAACCACCCGCCGCTGCACGCTGATCGGCGAAGTCCTGCGCATCGAGGGCGAAGGCCCAGACATCGAGATCATCACCGACGAGCAg           <  1:589794/150‑1 (MQ=255)                                                                                                                                                gACCGTGGTCCACCCTG‑‑TAATCACCCCGGGAGGACCCCACCATGCCCATTGAAGTCGACGAAACCACCCGCCGCTGCACGCTGATCGGCGAAGACCTGCGCATCGAGGGCGAAGGCCCAGACATCGAGATCATCACCGACGAGCAGTTgc       <  2:150536/150‑1 (MQ=255)                                                                                                                                                     tGGTCCACCCTG‑‑TAATCACCCCGGGAGGACCCCACCATGCCCATTGAAGTCGACGAAACCACCCGCCGCTGCACGCTGATCGGCGAAGACCTGCGCATCGAGGGCGAAGGCCCAGACATCGAGATCATCACCGACGAGCAGTTGCGCATg  >  2:340256/1‑150 (MQ=255)                                                                                                                                                      |                                                                                                                                                       GCCAGATGACGTCCATCGCAGTTGTTTCCCCTGCTTGAGCTTTATGAATCCGCCTGCCACGTCAGAGGCCTGCCCTATGCAAGGTTGACCGTCACACGTACTGCAAAGTGCCGCTCAGCTTGCTGATGCAGCAACTGGCCCCTGACCGTGGTCCACCCTG‑‑TAATCACCCCGGGAGGACCCCACCATGCCCATTGAAGTCGACGAAACCACCCGCCGCTGCACGCTGATCGGCGAAGACCTGCGCATCGAGGGCGAAGGCCCAGACATCGAGATCATCACCGACGAGCAGTTGCGCATG  >  NC_002947/4014144‑4014441

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ 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.