New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	5980745 =	48 (0.930)	3 (0.060)	3/248	NT	6.8%	coding (1390/5049 nt)	PP_5242	GAF domain‑containing sensor histidine kinase
	?	NC_002947	5980780 =	36 (0.730)					coding (1425/5049 nt)	PP_5242	GAF domain‑containing sensor histidine kinase

CAACTGATTCTCGGCCCCCTGCCCCAATTACCCGCCAAGCCCACGCGCCTTGCGTTGCAGAAGGAACTGCACGCGATCATTGAATTCCTGCAGGTTTTCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTGTTGGCCCAACTGCTGGCTGAAGCGCCGGCCAACCTGCTGCTGATTTTCACCCGGTGCAACGATACGCCCACCACCAGCGCACCGCTGGCCATACCCGCAGCGGTGCGCAGCACCAC  >  NC_002947/5980601‑5980887                                                                                                                                                 |                                                                                                                                               cAACTGATTCTCGGCCCCCTGCCCCAATTACCCGCCAAGCCCACGCGCCTTGCGTTGCAGAAGGAACTGCACGCGATCATTGAATTCCTGCAGGTTTTCAGTCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGc                                                                                                                                            >  2:317387/1‑149 (MQ=255)  aaCTGATTCTCGGCCCCCTGCCCCAATTACCCGCCAAGCCCACGCGCCTTGCGTTGCAGAAGGAACTGCACGCGATCATTGAATTCCTGCAGGTTTTCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGcc                                                                                                                                           <  1:226776/149‑1 (MQ=255)   caccgccccaacggccagcggccgcaggttcagcgtggtgctgcgcaccgctgcgggtatggccagcggtgcgctggtggtgggcgtatcgttgcaccgggtgaaaatcagcagcaggttggccggcgcttcagccagcagtTGGGcc                                                                                                                                           <  5:130544‑M1/6‑1 (MQ=255)    cTGATTCTCGGCCCCCTGCCCCAATTACCCGCCAAGCCCACGCGCCTTGCGTTGCAGAAGGAACTGCACGCGATCATTGAATTCCTGCAGGTTTTCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCcga                                                                                                                                         <  8:54910/149‑1 (MQ=255)       aTTCTCGGCCCCCTGCCCCAATTACCCGCCAAGCCCACGCGCCTTGCGTTGCAGAAGGAACTGCACGCGATCATTGAATTCCTGCAGGTTTTCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCcgacga                                                                                                                                      >  7:213334/1‑149 (MQ=255)         tctcGGCCCCCTGCCCCAATTACCCGCCAAGCCCACGCGCCTTGCGTTGCAGAAGGAACTGCACGCGATCATTGAATTCCTGCAGGTTTTCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGacgacg                                                                                                                                    >  6:66140/1‑149 (MQ=255)         tctcGGCCCCCTGCCCCAATTACCCGCCAAGCCCACGCGCCTTGCGTAGCATAAGGAACTGCACGCGATCATTTAATACCTGCAGGTTTTCAGCCGGCCTGGCCAAACGCTGGTGCTGTTCTTCGAGAACCTGCAATGGGCcgacgaag                                                                                                                                    >  6:323995/1‑147 (MQ=255)           tcGGCCCCCTGCCCCAATTACCCGCCAAGCCCACGCGCCTTGCGTTGCAGAAGGAACTGCACGCGATCATTGAATTCCTGCAGGTTTTCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGcc                                                                                                                                  >  3:30058/1‑149 (MQ=255)                ccccTGCCCCAATTACCCGCCAAGCCCACGCGCCTTGCGTTGCAGAAGGAACTGCACGCGATCATTGAATTCCTGCAGGTTTTCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCg                                                                                                                             >  3:260682/1‑149 (MQ=255)                  ccTGCCCCAATTACCCGCCAAGCCCACGCGCCTTGCGTTGCAGAAGGAACTGCACGCGATCATTGAATTCCTGCAGGTTTTCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCgg                                                                                                                            >  6:164934/1‑148 (MQ=255)                      ccccAATTACCCGCCAAGCCCACGCGCCTTGCGTTGCAGAAGGAACTGCACGCGATCATTGAATTCCTGCAGGTTTTCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCaa                                                                                                                         <  3:244208/147‑1 (MQ=255)                       cccAATTACCCGCCAAGCCCACGCGCCTTGCGTTGCAGAAGGAACTGCACGCGATCATTGAATTCCTGCAGGTTTTCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTg                                                                                                                      >  7:120157/1‑149 (MQ=255)                        ccAATTACCCGCCAAGCCCACGCGCCTTGCGTTGCAGAAGGAACTGCACGCGATCATTGAATTCCTGCAGGTTTTCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTGt                                                                                                                     <  5:66140/149‑1 (MQ=255)                          aaTTACCCGCCAAGCCCACGCGCCTTGCGTTGCAGAAGGAACTGCACGCGATCATTGAATTCCTGCAGGTTTTCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTGTTg                                                                                                                   <  4:260682/149‑1 (MQ=255)                               cccGCCAAGCCCACGCGCCTTGCGTTGCAGAAGGAACTGCACGCGATCATTGAATTCCTGCAGGTTTTCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTGTTGGccc                                                                                                               >  3:35448/1‑148 (MQ=255)                                ccGCCAAGCCCCCGCGCCTTGCGTTGCAGAAGGAACTGCACGCGATCATTGAATTCCTGCAGGTTTTCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTGTTGGCCCaa                                                                                                             <  4:35448/149‑1 (MQ=255)                                  gCCAAGCCCACGCGCCTTGCGTTGCAGAAGGAACTGCACGCGATCATTGAATTCCTGCAGGTTTTCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTGTTGGCCCAAct                                                                                                           >  1:288263/1‑149 (MQ=255)                                  agcgtggtgctgcgcaccgctgcgggtatggccagcggtgcgctggtggtgggcgtatcgttgcaccgggtgaaaatcagcagcaggttggccggcgcttcagccagcagtTGGGCCGACGACGCCACCCGGCAACTGTTGGCCCAAc                                                                                                            >  6:130544‑M1/112‑148 (MQ=255)                                    cAAGCCCACGCGCCTTGCGTTGCAGAAGGAACTGCACGCGATCATTGAATTCCTGCAGGTTTTCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTGTTGGCCCAActgc                                                                                                         <  7:122694/149‑1 (MQ=255)                                     aaGCCCACGCGCCTTGCGTTGCAGAAGGAACTGCACGCGATCATTGAATTCCTGCAGGTTTTCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTGt                                                                                                                     <  3:223683/136‑1 (MQ=255)                                     aaGCCCACGCGCCTTGCGTTGCAGAAGGAACTGCACGCGATCATTGAATTCCTGCAGGTTTTCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTGt                                                                                                                     >  4:223683/1‑136 (MQ=255)                                     aaGCCCACGCGCCTTGCGTTGCAGAAGGAACTGCACGCGATCATTGAATTCCTGCAGGTTTTCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTGTTGGCCCAActgct                                                                                                        <  8:120157/149‑1 (MQ=255)                                              cgcCTTGCTTTGCAGAATGAACTCCTCGCGATCATTGAATTCCTGCTGTTTTTCAGCGGGGCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATTGGCCGACGACGCCACCCTGCAACTGTTGGCCCAACTGCTGGCTGAAgc                                                                                               <  6:327373/149‑1 (MQ=255)                                               gcaccgctgcgggtatggccagcggtgcgctggtggtgggcgtatcgttgcaccgggtgaaaatcagcagcaggttggccggcgcttcagccagcagtTGGGCCGACGACGCCACCCGGCAACTGTTGGCCCAActgc                                                                                                         <  8:113112‑M1/40‑1 (MQ=255)                                               gcaccgctgcgggtatggccagcggtgcgctggtggtgggcgtatcgttgcaccgggtgaaaatcagcagcaggttggccggcgcttcagccagcagtTGGGCCGACGACGCCACCCGGCAACTGTTGGCCCAActgc                                                                                                         >  7:113112‑M1/99‑138 (MQ=255)                                                  ttGCGTTGCAGAAGGAACTGCACGCGATCATTGAATTCCTGCAGGTTTTCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTGTTGGCCCAACTGCTGGCTGAAGCGCCg                                                                                           >  4:50607/1‑149 (MQ=255)                                                        tGCAGAAGGAACTGCACGCGATCATTGAATTCCTGCAGGTTTTCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTGTTGGCCCAACTGCTGGCTGAAGCGCCGGCCAAc                                                                                     >  4:96078/1‑149 (MQ=255)                                                         gCAGAAGGAACTGCACGCGATCATTGAATTCCTGCAGGTTTTCAGTCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTGTTGGCCCAACTGCTGGCTGAAGCGCCGGCCAAc                                                                                     <  1:317387/148‑1 (MQ=255)                                                          cAGAAGGAACTGCACGCGATCATTGAATTCCTGCAGGTTTTCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTGTTg                                                                                                                   >  3:190744/1‑117 (MQ=255)                                                            gAAGGAACTGCACGCGATCATTGAATTCCTGCAGGTTTTCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTGTTGGCCCAACTGCTGGCTGAAGCGCCGGCCAACctgc                                                                                 >  4:153270/1‑149 (MQ=255)                                                             aaGGAACTGCACGCGATCATTGAATTCCTGCAGGTTTTCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTGTTGGCCCAACTGCTGGCTGAAGCGCCGGCCAACctgct                                                                                <  2:7485/149‑1 (MQ=255)                                                                  aCTGCACGCGATCATTGAATTCCTGCAGGTTTTCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTGTTGGCCCAACTGCTGGCTGAAGCGCCGGCCAACCTGCTGCTGa                                                                           >  1:138529/1‑149 (MQ=255)                                                                  aCTGCACGCGATCATTGAATTCCTGCAGGTTTTCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTGTTGGCCCAACTGCTGGCTGAAGCGCCGGCCAACCTGCTGCTGa                                                                           <  1:42037/149‑1 (MQ=255)                                                                      cACGCGATCATTGAATTCCTGCAGGTTTTCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTGTTGGCCCAACTGCTGGCTGAAGCGCCGGCCAACCTGCTGCTGAtttt                                                                       <  5:164934/149‑1 (MQ=255)                                                                      cACGCGATCATTGAATTCCTGCAGGTTTTCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTGTTGGCCCAACTGCTGGCTGAAGCGCCGGCCAACCTGCTGCTGAttt                                                                        <  3:322085/148‑1 (MQ=255)                                                                         gcgATCATTGAATTCCTGCAGGTTTTCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTGTTGGCCCAACTGCTGGCTGAAGCGCCGGCCAACCTGCTGCTGATTTTCAc                                                                    <  8:213334/149‑1 (MQ=255)                                                                          cgATCATTGAATTCCTGCAGGTTTTCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTGTTGGCCCAACTGCTGGCTGAAGCGCCGGCCAACCTGCTGCTGATTTTCAcc                                                                   <  4:30058/149‑1 (MQ=255)                                                                           gATCATTGAATTCCTGCAGGTTTTCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTGTTGGCCCAACTGCTGGCTGaa                                                                                                 <  2:274156/118‑1 (MQ=255)                                                                           gATCATTGAATTCCTGCAGGTTTTCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTGTTGGCCCAACTGCTGGCTGaa                                                                                                 >  1:274156/1‑118 (MQ=255)                                                                                ttGAATTCCTGCAGGTTTTCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTGTTGGCCCAACTGCTGGCTGAAGCGCCGGCCAACCTGCTGCTGATTTTCACCCGGTg                                                              >  6:91096/1‑148 (MQ=255)                                                                                              gTTTTCAGCGTGCCTGGCCAACCGCTGGTGCTGTTGTTCGTCATCCTGCAATGGGCCGACGACGCCAGCCGGCAACTGTTGGCCCAACTGCTGGCTGAAGCTCCGGCCAACCTGCTTCTGATTTTCACCCGGTGCAACGATACGCcca                                                <  5:323995/148‑1 (MQ=255)                                                                                              gTTTTCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTGTTGTCCCAACTGCTGGCTGAAGCGCCGGCCAACCTGCTGATGATTTTCACCCGGTGCAACGATACGCccac                                               >  5:281281/1‑149 (MQ=255)                                                                                                  tCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTGTTGGCCCAACTGCTGGCTGAAGCGCCGGCCAACCTGCTGCTGATTTTCACCCGGTGCAACGATACGCccaccac                                            <  3:153270/148‑1 (MQ=255)                                                                                                     gCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTGTTGGCCCAACTGCTGGCTGAAGCGGCGGCCAACCTGCTGCTGATTTTCACCCGGTGCAACg                                                         >  1:268591/1‑132 (MQ=255)                                                                                                     gCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTGTTGGCCCAACTGCTGGCTGAAGCGCCGGCCAACCTGCTGCTGATTTTCACCCGGTGCAACg                                                         <  2:268591/132‑1 (MQ=255)                                                                                                       cGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTGTTGGCCCAACTGCTGGCTGAAGCGCCGGCCAACCTGCTGCTGATTTTCCCCCGGTGCAACGATACGCCCCCCACCAgcgc                                      >  8:221403/1‑149 (MQ=255)                                                                                                         gCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTGTTGGCCCAACTGCTGGCTGAAGCGCCGGCCAACCTGCTGCTGATTTTCACCCGGTGCAACGATACGCCCACCACCAGCGCAc                                    <  2:267948/149‑1 (MQ=255)                                                                                                                cAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTGTTGGCCCAACTGCTGGCTGAAGCGCCGGCCAACCTGCTGCTGATTTTCACCCGGTGCAACGATACGCCCACCACCAGCGCACCGCTGGc                             <  5:91096/149‑1 (MQ=255)                                                                                                                  aCCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTGTTGGCCCAACTGCTGGCTGAAGCGCCGGCCAACCTGCTGCTGATTTTCACCCGGTGCAACGATACGCCCACCACCAGCGCACCGCTGGCCa                           <  3:50607/149‑1 (MQ=255)                                                                                                                              gTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTGTTGGCCCAACTGCTGGCTGAAGCGCCGGCCAACCTGCTGCTGATTTTCACCCGGTGCAACGATACGCCCACCACCAGCGCACCGCTGGCCATACCCGCAGCgg               >  6:185750/1‑149 (MQ=255)                                                                                                                                          ccTGCAATGGGCCGACGACGCCACCCGGCAACTGTTGGCCCAACTGCTGGCTGAAGCGCCGGCCAACCTGCTGCTGATTTTCACCCGGTGCAACGATACGCCCACCACCAGCGCACCGCTGGCCATACCCGCAGCGGTGCGCAGcacca   >  1:237022/1‑149 (MQ=255)                                                                                                                                           cTGCAATGGGCCGACGACGCCACCCGGCAACTGTTGGCCCAACTGCTGGCTGAAGCGCCGGCCAACCTGCTGCTGATTTTCACCCGGTGCAACGATACGCCCACCACCAGCGCACCGCTGGCCATACCCGCAGCGGTGCGCAGcaccac  >  4:237038/1‑149 (MQ=255)                                                                                                                                           cTGCAATGGGCCGACGACGCCACCCGGCAACTGTTGGCCCAACTGCTGGCTGAAGCGCCGGCCAACCTGCTGCTGATTTTCACCCGGTGCAACGATACGCCCACCACCAGCGCACCGCTGGCCATACCCGCAGCGGTGCGCAGcaccac  >  3:33726/1‑149 (MQ=255)                                                                                                                                                 |                                                                                                                                               CAACTGATTCTCGGCCCCCTGCCCCAATTACCCGCCAAGCCCACGCGCCTTGCGTTGCAGAAGGAACTGCACGCGATCATTGAATTCCTGCAGGTTTTCAGCCGGCCTGGCCAACCGCTGGTGCTGTTCTTCGACGACCTGCAATGGGCCGACGACGCCACCCGGCAACTGTTGGCCCAACTGCTGGCTGAAGCGCCGGCCAACCTGCTGCTGATTTTCACCCGGTGCAACGATACGCCCACCACCAGCGCACCGCTGGCCATACCCGCAGCGGTGCGCAGCACCAC  >  NC_002947/5980601‑5980887

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.