New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	5575127 =	45 (0.790)	3 (0.060)	3/248	NT	6.3%	coding (167/1041 nt)	motB	flagellar motor rotation protein
	?	NC_002947	5575189 =	47 (0.870)					coding (105/1041 nt)	motB	flagellar motor rotation protein

GCCATCTCCGGGGAACCCCCCAGGTCGATGACATAAGGCGTGCCACTCTCGGAGAAACCAATAGGGTCCTGGAAGTAGCCGGCAATGGCGATCTTCTGCTCAGGCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAGCGCTTGACGCGCTTGACGATGATGGGCTGATTGTTCTCCATGACTCAGCGACCGCGAACCGCTTGTTCCAGTTCGGCGAA  >  NC_002947/5575043‑5575332                                                                                                                                                   |                                                                                                                                                atcgtcaagcgcgtcaagcgctttggcggcggccaccatggtggcgcctggaaaatcgcctttgccgacttcgccacggcgatgATGGCGATCTTCTGCTCAGGCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCcatcat                                                                                                                                               >  6:257697‑M1/85‑149 (MQ=255)  tcgtcaagcgcgtcaagcgctttggcggcggccaccatggtggcgcctggaaaatcgcctttgccgacttcgccacggcgatgATGGCGATCTTCTGCTCAGGCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCCatcatc                                                                                                                                              >  6:29447‑M1/84‑149 (MQ=255)   cATCTCCGGGGAACCCCCCAGGTCGATGACATAAGGCGTGCCACTCTCGGAGAAACCAATAGGGTCCTGGAAGTAGCCGGCAATGGCGATCTTCTGCTCAGGCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCCATCATCg                                                                                                                                             >  7:17052/1‑149 (MQ=255)    aTCTCCGGGGAACCCCCCAGGTCGATGACATAAGGCGTGCCACTCTCGGAGAAACCAATAGGGTCCTGGAAGTAGCCGGCAATGGCGATCTTCTGCTCAGGCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCCATCATCGc                                                                                                                                            >  7:54693/1‑149 (MQ=255)       tcCGGGGAACCCCCCAGGTCGATGACATAAGGCGTGCCACTCTCGGAGAAACCAATAGGGTCCTGGAAGTAGCCGGCAATGGCGATCTTCTGCTCAGGCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCCATCATCGCCGt                                                                                                                                         >  1:269132/1‑149 (MQ=255)             gAACCCCCCAGGTCGATGACATAAGGCGTGCCACTCTCGGAGAAACCAATAGGGTCCTGGAAGTAGCCGGCAATGGCGATCTTCTGCTCAGGCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGaa                                                                                                                                   <  8:54693/149‑1 (MQ=255)                   cccAGGTCGATGACATAAGGCGTGCCACTCTCGGAGAAACCAATAGGGTCCTGGAAGTAGCCGGCAATGGCGATCTTCTGCTCAGGCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCgg                                                                                                                              >  8:41358/1‑148 (MQ=255)                   cccAGGTCGATGACATAAGGCGTGCCACTCTCGGAGAAACCAATAGGGTCCTGGAAGTAGCCGGCAATGGCGATCTTCTGCTCAGGCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGc                                                                                                                             <  6:328863/149‑1 (MQ=255)                           gATGACATAAGGCGTGCCACTCTCGGAGAAACCAATAGGGTCCTGGAAGTAGCCGGCAATGGCGATCTTCTGCTCAGGCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGa                                                                                                                     >  8:58777/1‑149 (MQ=255)                           gATGACATAAGGCGTGCCACTCTCGGAGAAACCAATAGGGTCCTGGAAGTAGCCGGCAATGGCGATCTTCTGCTCAGGCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGa                                                                                                                     <  8:17052/149‑1 (MQ=255)                                 aTAAGGCGTGCCACTCTCGGAGAAACCAATAGGGTCCTGGAAGTAGCCGGCAATGGCGATCTTCTGCTCAGGCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTcc                                                                                                               >  7:181678/1‑149 (MQ=255)                                         tGCCACTCTCGGAGAAACCAATAGGGTCCTGGAAGTAGCCGGCAATGGCGATCTTCTGCTCAGGCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGcca                                                                                                       >  6:149830/1‑149 (MQ=255)                                          gCCACTCTCGGAGAAACCAATAGGGTCCTGGAAGTAGCCGGCAATGGCGATCTTCTGCTCAGGCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGccac                                                                                                      >  5:132466/1‑149 (MQ=255)                                           ccACTCTCGGAGAAACCAATAGGGTCCTGGAAGTAGCCGGCAATGGCGATCTTCTGCTCAGGCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGccac                                                                                                      <  6:132466/148‑1 (MQ=255)                                                   ggAGAAACCAATAGGGTCCTGGAAGTAGCCGGCAATGGCGATCTTCTGCTCAGGCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCAtggtg                                                                                               <  1:48533/147‑1 (MQ=255)                                                       aaaCCAATAGGGTCCTGGAAGTAGCCGGCAATGGCGATCTTCTGCTCAGGCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGgccgcc                                                                                         <  6:82016/149‑1 (MQ=255)                                                         aCCAATAGGGTCCTGGAAGTAGCCGGCAATGGCGATCTTCTGCTCAGGCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCAtggtg                                                                                               <  7:255935/141‑1 (MQ=255)                                                         aCCAATAGGGTCCTGGAAGTAGCCGGCAATGGCGATCTTCTGCTCAGGCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCAtggtg                                                                                               >  8:255935/1‑141 (MQ=255)                                                             aTAGGGTCCTGGAAGTAGCCGGCAATGGCGATCTTCTGCTCAGGCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCaaa                                                                                   <  5:149830/149‑1 (MQ=255)                                                              tAGGGTCCTGGAAGTAGCCGGCAATGGCGATCTTCTGCTCAGGCGTGGCCGTGGACAACAGCCGCAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAg                                                                                  >  8:41509/1‑149 (MQ=255)                                                                gggTCCTGGAAGTAGCCGGCAATGGCGATCTTCTGCTCAGGCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAgcg                                                                                >  3:159985/1‑149 (MQ=255)                                                                 ggTCCTGGAAGTAGCCGGCAATGGCGATCTTCTGCTCAGGCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAgcgc                                                                               <  7:41358/149‑1 (MQ=255)                                                                     cTGGAAGTAGCCGGCAATGGCGATCTTCTGCTCAGGCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAgcgcttga                                                                           <  3:247302/149‑1 (MQ=255)                                                                        gAAGTAGCCGGCAATGGCGATCTTCTGCTCAGGCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCAtg                                                                                                  >  3:236476/1‑123 (MQ=255)                                                                        gAAGTAGCCGGCAATGGCGATCTTCTGCTCAGGCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCAtg                                                                                                  <  4:236476/123‑1 (MQ=255)                                                                                 ggCAATGGCGATCTTCTGCTCAGGCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAGCGCTTAACGCGCTTGACga                                                               <  4:159985/149‑1 (MQ=255)                                                                                 gatgatggcgttcttcctggtgctgtggctgttgtccacggccacgcctgagcagaagatcgccatCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAGCGCTTGACGCGCTTGACga                                                               >  6:29447‑M2/67‑149 (MQ=255)                                                                                  atgatggcgttcttcctggtgctgtggctgttgtccacggccacgcctgagcagaagatcgccatCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAGCGCTTGACGCGCTTGACgat                                                              >  6:257697‑M2/66‑149 (MQ=255)                                                                                      TGGCGATCTTCTGCTCAGGCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAGCGCTTGACGCGCTTGACGatgatg                                                          <  6:289021‑M1/149‑1 (MQ=255)                                                                                            tcttctGCTCAGGCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAGCGCTTGACGCGCTTGACGATGATGGGCTGa                                                    >  8:62788/1‑149 (MQ=255)                                                                                               tctGCTCAGGCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAGCGCTTGACGCGCTTGACGATGATGGGCTGATTg                                                 >  4:77454/1‑149 (MQ=255)                                                                                                   cTCAGGCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAGCGCTTGACGCGCTTGACGATGATGGGCTGATTGTtct                                             >  4:192057/1‑149 (MQ=255)                                                                                                    tCAGGCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAGCGCTTGACGCGCTTGACGATGATGGGCTGATTGTtctc                                            <  8:181678/149‑1 (MQ=255)                                                                                                      aGGCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAGCGCTTGACGCGCTTGACGATGATGGGCTGATTGTTCTcc                                           <  1:269310/148‑1 (MQ=255)                                                                                                      aGGCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAGCGCTTGACGCGCTTGACGATGATGGGCTGATTGTTCTcc                                           <  2:269132/148‑1 (MQ=255)                                                                                                      aGGCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAGCGCTTGACGCGCTTGACGATGATGGGCTGATTGTTCTcc                                           <  5:289021/148‑1 (MQ=255)                                                                                                       ggCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAGCGCTTGACGCGCTTGACGATGATGGGCTGATTGTTCTCCAt                                         <  7:58777/149‑1 (MQ=255)                                                                                                       ctgtggctgttgtccacggccacgcctgagcagaagatcgccatCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAGCGCTTGACGCGCTTGACGATGATGGGCTGATTGTTCTCCAt                                         <  5:257697‑M2/105‑1 (MQ=255)                                                                                                               cGTGGACAACAGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAGCGCTTGACGCGCTTGACGATGATGGGCTGATTGTTCTCCATGACTCAGc                                 >  8:143598/1‑149 (MQ=255)                                                                                                                    acaacaGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAGCGCTTGACGCGCTTGACGATGATGGGCTGATTGTTCTCCATGACTCAGCGACcg                            <  7:334421/149‑1 (MQ=255)                                                                                                                    acaacaGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAGCGCTTGACGCGCTTGACGATGATGGGCTGATTGTTCTCCATGACTCAGCGACcg                            >  5:163902/1‑149 (MQ=255)                                                                                                                      aacaGACACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGTCCGCCGCCAAAGCGCTTGACGCGCTTGACGATGATGGGCTGATTGTTCTCCATGACTCAGCGACcgc                           >  7:230098/1‑148 (MQ=255)                                                                                                                         aGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAGCGCTTGACGCGCTTGACgat                                                              <  3:66135/110‑1 (MQ=255)                                                                                                                         aGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAGCGCTTGACGCGCTTGACgat                                                              >  4:66135/1‑110 (MQ=255)                                                                                                                          gCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAGCGCTTGACGCGCTTGACGATGATGGGCTGATTGTTCTCCATGACTCAGCGACCGCGAAcc                      <  7:62788/149‑1 (MQ=255)                                                                                                                           ccACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAGCGCTTGACGCGCTTGACgatgat                                                           <  3:159444/111‑1 (MQ=255)                                                                                                                           ccACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAGCGCTTGACGCGCTTGACgatgat                                                           >  4:159444/1‑111 (MQ=255)                                                                                                                           ccACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAGCGCTTGACGCGCTTGACGATGATggg                                                        >  8:158886/1‑114 (MQ=255)                                                                                                                           ccACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAGCGCTTGACGCGCTTGACGATGATggg                                                        <  7:158886/114‑1 (MQ=255)                                                                                                                             acaGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAGCGCTTGACGCGCTTGACGATGATGGGCTGATTGTTCTCCATGACTCAGCGACCGCGAACCGCt                   >  8:219064/1‑149 (MQ=255)                                                                                                                             acaGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAGCGCTTGACGCGCTTGACGATGATGGGCTGATTGTTCTCCATGACTCAGCGACCGCGAACCGCt                   >  7:162953/1‑149 (MQ=255)                                                                                                                                  aCCAGGAAGAACGCCATCATCGCCGTGTCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAGCGCTTGACGCGCTTGACGATGATGGGCTGATTGTTCTCCATGACTCAGCGACCGCGAACCGCTTGTTc              <  6:770/149‑1 (MQ=255)                                                                                                                                     aGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAGCGCTTGACGCGCTTGACGATGATGGGCTGATTGTTCTCCATGACTCAGCGACCGCGAACCGCTTGTTCCAg           >  6:201039/1‑149 (MQ=255)                                                                                                                                       gaagaaCGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAGCGCTTGACGCGCTTGACGATGATGGGCTGATTGTTCTCCATGACTCAGCGACCGCGAACCGCTTGTTCCAGtt         >  6:204535/1‑149 (MQ=255)                                                                                                                                          gatcgccatCATCGCCGTGGCGAAGTCGGCAATGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAGCGCTTGACGCGCTTGACGATGATGGGCTGATTGTTCTCCATGACTCAGCGACCGCGAACCGCTTGTTCCAGTTCgg      <  5:29447‑M2/140‑1 (MQ=255)                                                                                                                                              gccatCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAGCGCTTGACGCGCTTGACGATGATGGGCTGATTGTTCTCCATGACTCAGCGACCGCGAACCGCTTGTTCCAGTTCGGCGaa  <  6:163902‑M2/144‑1 (MQ=255)                                                                                                                                                   |                                                                                                                                                GCCATCTCCGGGGAACCCCCCAGGTCGATGACATAAGGCGTGCCACTCTCGGAGAAACCAATAGGGTCCTGGAAGTAGCCGGCAATGGCGATCTTCTGCTCAGGCGTGGCCGTGGACAACAGCCACAGCACCAGGAAGAACGCCATCATCGCCGTGGCGAAGTCGGCAAAGGCGATTTTCCAGGCGCCACCATGGTGGCCGCCGCCAAAGCGCTTGACGCGCTTGACGATGATGGGCTGATTGTTCTCCATGACTCAGCGACCGCGAACCGCTTGTTCCAGTTCGGCGAA  >  NC_002947/5575043‑5575332

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