New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 4861197	32 (1.080)	9 (0.380)	5/196	NT	23.2%	intergenic (‑103/+134)	ligA/PP_4275	DNA ligase/cell division protein ZipA
	?	NC_002947	= 4861238	34 (1.450)					intergenic (‑144/+93)	ligA/PP_4275	DNA ligase/cell division protein ZipA

ATGGGATTTGTCTTCTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTAAACCCGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGCCAGCACGCCCTCAGGCTGCTCTTTCGTCTGGATCTGTCAGCGCTTCTGGGTTAGCGCACGGCGCTCGAACTC  >  NC_002947/4861093‑4861366                                                                                                                                                   |                                                                                                                                 aTGGGATTTGTCTTCTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTAAACCCGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAggag                                                                                                                              <  2:62725‑M2/150‑5 (MQ=255)  tGGGATTTGTCTTCTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTAAACCCGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAggagc                                                                                                                             <  2:3390‑M2/150‑6 (MQ=255)  tGGGATTTGTCTTCTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTAAACCCGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAggagc                                                                                                                             <  1:282890‑M2/150‑6 (MQ=255)  tGGGATTTGTCTTCTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTAAACCCGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAggagc                                                                                                                             >  1:284188‑M2/1‑145 (MQ=255)   gggATTTGTCTTCTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTAAACCCGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAggagcg                                                                                                                            >  2:593816‑M2/1‑144 (MQ=255)    ggATTTGTCTTCTCTTGCAAAGCAAAAGGGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTAATCCCGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAggagcgg                                                                                                                           >  1:338322‑M2/1‑143 (MQ=255)    ggATTTGTCTTCTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTAAACCCGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAggagcgg                                                                                                                           >  1:62725‑M2/1‑143 (MQ=255)    ggATTTGTCTTCTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTAAACCCGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAggagcgg                                                                                                                           >  2:146186‑M2/1‑143 (MQ=255)    ggATTTGTCTTCTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTAAACCCGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAggagccg                                                                                                                           >  2:397009‑M2/1‑143 (MQ=255)       tttGTCTTCTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCTAGCATCTGCCCTGGTAAAACCACCTCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAggagcgggtt                                                                                                                        <  2:585921‑M2/150‑11 (MQ=255)           tcttctCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTAAACCCGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAggagcgggtttacc                                                                                                                    <  2:694940‑M2/150‑15 (MQ=255)                        agcaaaAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTAAACCCGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCg                                                                                                       >  1:726023/1‑150 (MQ=255)                                                       gTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTAAACCCGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAggagcgggtttacccgc                                                                                                                 >  2:59692‑M2/1‑92 (MQ=255)                                                       gTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTAAACCCGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAggagcgggtttacccgc                                                                                                                 <  1:59692‑M2/109‑18 (MQ=255)                                                       gTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTAAACCCGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGCCa                                                                        >  1:315417/1‑150 (MQ=255)                                                                 tCTGTTGACTGTGCCAGCCTCTTCGCGGGTAAACCCGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGCCAGCACGCCCTc                                                              >  1:239421/1‑150 (MQ=255)                                                                    gTTGACTGTGCCAGCCTCTTCGCGGGTAAACCCGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGCCAGCACGCCCTCAgg                                                           >  2:417648/1‑150 (MQ=255)                                                                        aCTGTGCCAGCCTCTTCGCGGGTAAACCCGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGCCAGCACGCCCTCAGgctgc                                                       >  2:668545/1‑150 (MQ=255)                                                                            tgCCAGCCTCTTCGCGGGTAAACCCGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGCCAGCACGCCCTCAGGCTGCTCtt                                                   <  1:3390/150‑1 (MQ=255)                                                                             gCCAGCCTCTTCGCGGGTAAACCCGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGCCAGCACGCCCt                                                               >  2:104086/1‑137 (MQ=255)                                                                             gCCAGCCTCTTCGCGGGTAAACCCGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGCCAGCACGCCCt                                                               <  1:104086/137‑1 (MQ=255)                                                                              cctgtctctTCGCGGGTAAACCCGCTCCCACAAGGGCGTCACATGA‑CCGAGGGCGGTGATGTACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGCCAGCACGCCCTCAGGCTGCTCTTTc                                                 <  1:249767/145‑1 (MQ=255)                                                                              ccAGCCTCTTCGCGGGTAAACCCGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGCCAGCACGCCCTCAGGCTGCTCTTTc                                                 <  1:668545/150‑1 (MQ=255)                                                                                 tccTCTTCTCGGGTATCCCCGCCCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGCCAGCACGCCCTCAGGCTGCTCTTTCGTc                                              <  1:393970/149‑1 (MQ=255)                                                                                  ccTCTTCGCGGGTAAACCCGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGCCAGCACGCCCTCAGGCTGCTCTTTCGTCt                                             <  1:417648/150‑1 (MQ=255)                                                                                   ctctTCGCGGGTAAACCCGCTCCACCAAGCGCCTCCCGTGCTCGTTGCACTGGGA‑GGGCGGGTAGGAGCGTTTGTACCCTCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGCCAGCACGCCCTCAGGCTGCTCTTTCGTCTg                                            >  2:690084/1‑150 (MQ=255)                                                                                    tctTCGCGGGTAAACCCCCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGCCAGCACGCCCTCAGGCTGCTCTTTCGTCTgg                                           >  2:237950/1‑150 (MQ=255)                                                                                     ctTCGCGGGTAAACCCGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGCCAGCACGCCCTCAGGCTGCTCTTTCGTCTGGa                                          <  2:354873/150‑1 (MQ=255)                                                                                      ttCGCGGGTAAACCCGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGc                                                                          >  2:160647/1‑117 (MQ=255)                                                                                      ttCGCGGGTAAACCCGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGc                                                                          <  1:589073/117‑1 (MQ=255)                                                                                      ttCGCGGGTAAACCCGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGc                                                                          >  2:589073/1‑117 (MQ=255)                                                                                      ttCGCGGGTAAACCCGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGc                                                                          <  1:160647/117‑1 (MQ=255)                                                                                          cgGGTAAACCCGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGCCAGCACGCCCTCAGGCTGCTCTTTCGTCTGGATCTGt                                     <  1:694940/150‑1 (MQ=255)                                                                                            ggTAAACCCGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAggagcgggtttacccgcgaagaggctggcacagtcaacagacacctggaaccccacgcaccaccccaagctgctcttttgctttgcaagagaa                                     <  2:774376‑M2/148‑94 (MQ=255)                                                                                            ggTAAACCCGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAggagcgggtttacccgcgaagaggctggcacagtcaacagacacctggaaccccacgcaccaccccaagctgctcttttgctttgcaagagaa                                     >  1:774376‑M2/1‑55 (MQ=255)                                                                                                aaCCCGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGCCAGCACGCCCTCAGGCTGCTCTTTCGTCTGGATCTGTCAgcgc                               <  2:756129/150‑1 (MQ=255)                                                                                                 aCCCGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAggagcgggtttacccgcgaagaggctggcacagtcaacagacacctggaaccccacgcaccaccccaagctgctcttttgctttgcaagagaagacaaat                              <  2:193699‑M2/150‑101 (MQ=255)                                                                                                 aCCCGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAgcagagggtttacccgcgaacaggggggcgcagtcaacagacacctggaaccccacgcaccaccccaagctgctcttttgctttgcaagagaagacaaat                              <  1:495682‑M2/150‑101 (MQ=255)                                                                                                  cccGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATAGCCGCACCGGCCAGCACGCCCTCAGGCTGCTCTTTCGTCTGGATCTATCAgcgcct                             >  2:159500/1‑148 (MQ=255)                                                                                                   ccGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTGggagcgggtttacccgcgaagaggctggcacagtcaacagacacctggaaccccacgcaccaccccaagctgctcttttgcttt                                              <  1:713127‑M2/132‑85 (MQ=255)                                                                                                   ccGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTGggagcgggtttacccgcgaagaggctggcacagtcaacagacacctggaaccccacgcaccaccccaagctgctcttttgcttt                                              >  2:713127‑M2/1‑48 (MQ=255)                                                                                                   ccGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAggagcgggtttacccgcgaagaggctggcacagtcaacagacacctggaaccccacgcaccaccccaagctgctcttttgctttgcaagagaagacaaatcc                            <  1:130390‑M2/150‑103 (MQ=255)                                                                                                   ccGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAggagcgggtttacccgcgaagaggccggcacaggcaacagacacct                                                                                    >  2:351517‑M2/1‑48 (MQ=255)                                                                                                   ccGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAggagcgggtttacccgcgaagaggccggcacaggcaacagacacct                                                                                    <  1:351517‑M2/94‑47 (MQ=255)                                                                                                   ccGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGCCAGCACGCCCTCAGGCTGCTCTTTCGTCTGGATCTGTCAGCGCTTc                            >  1:691617/1‑150 (MQ=255)                                                                                                        cccACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGCCAGCACGCCCTCAGGCTGCTCTTTCGTCTGGATCTGTCAGCGCTTCTGGGt                       >  1:626638/1‑150 (MQ=255)                                                                                                          cacaAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGCCAGCACGCCCTCAGGCTGCTCTTTCGTCTGGATCTGTCAGCGCTTCTGGGTTa                     <  2:282890/150‑1 (MQ=255)                                                                                                           acaAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGCCAGCACGCCCTCAGGCTGCTCTTTAGTCTGGATCTCTCAGCGCTTCTGGGTTAg                    <  1:585921/150‑1 (MQ=255)                                                                                                                 gCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGCCAGCACGCCCTCAGGCTGCTCTTTCGTCTGGATCTGTCAGCGCTTCTgg                         <  2:301400/139‑1 (MQ=255)                                                                                                                 gCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGCCAGCACGCCCTCAGGCTGCTCTTTCGTCTGGATCTGTCAGCGCTTCTgg                         >  1:301400/1‑139 (MQ=255)                                                                                                                   gTCACATGC‑CCTAGGGCGGTGATGTACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGCCAGCACGCCCTCAGGCTGCTCTTTCGTCt                                             >  2:474994/1‑117 (MQ=255)                                                                                                                   gTCACATGC‑CCTAGGGCGGTGATGTACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGCCAGCACGCCCTCAGGCTGCTCTTTCGTCt                                             <  1:474994/117‑1 (MQ=255)                                                                                                                             ccTAGGGCGGTGATGTACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGCCAGCACGCCCTCAGGCTGCTCTTTCGTCTGGATCTGTCAGCGCTTCTGGGTTAGCGCACGGCGCTCGAACt   >  1:121430/1‑150 (MQ=255)                                                                                                                              cTAGGGCGGTGATGTACCTGTAGGCGCTGGTTTACCTGCGCAGAGGCCGGCACAGGCAACGCCGATACCCGAACCGGCCAGCACGCCCTAAGGCTGCTCTTTCGTCTGGATCTGTGCGTGCTTCTGGGTTAGCGCGCGGCGCTCGAACTc  >  2:297872/1‑150 (MQ=255)                                                                                                                              cTAGGGCGGTGATGTACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGCCAGCACGCCCTCAGGCTGCTCTTTCGTCTGGATCTGTCAGCGCTTCTGGGTTAGCGCACGGCGCTCGAACTc  >  2:437209/1‑150 (MQ=255)                                                                                                                                     ggTGATGTACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGCCAGCACGCCCTc                                                              <  1:130766/83‑1 (MQ=255)                                                                                                                                     ggTGATGTACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGCCAGCACGCCCTc                                                              >  2:130766/1‑83 (MQ=255)                                                                                                                                               cTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGCCAGCACGCCCTCAGGCTGCTCTTTCGTCTg                                            >  2:776679/1‑91 (MQ=255)                                                                                                                                               cTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGCCAGCACGCCCTCAGGCTGCTCTTTCGTCTg                                            <  1:776679/91‑1 (MQ=255)                                                                                                                                                   |                                                                                                                                 ATGGGATTTGTCTTCTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTAAACCCGCTCCCACAAGGGCGTCACATGC‑CCTAGGGCGGTGATGTACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCAACGACGATACCCGAACCGGCCAGCACGCCCTCAGGCTGCTCTTTCGTCTGGATCTGTCAGCGCTTCTGGGTTAGCGCACGGCGCTCGAACTC  >  NC_002947/4861093‑4861366

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ 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.