New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 4956389	52 (0.810)	4 (0.070)	4/244	NT	7.5%	coding (366/1374 nt)	fliI	flagellum‑specific ATP synthase
	?	NC_002947	= 4956435	49 (0.800)					coding (320/1374 nt)	fliI	flagellum‑specific ATP synthase

TTGCTGATAGGGTCGCGGTTGAGCGGGTTGATCACCGGGCCGTCCATCGGCACCCAGTCCTCGGCCTTCATCCCGCCCTTGCCATCCAGCGCACGGCCGGCGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGCCCACCGGCATCAGAAACACCTTGGGCCCGGCAAAGCCCATGACTTCGGCCTCGACCTGCACCGGGTGATAACTGTCATCGTTGATCACCAG  >  NC_002947/4956288‑4956580                                                                                                                                                    |                                                                                                                                                  ttGCTGATAGGGTCGCGGTTGAGCGGGTTGATCACCGGGCTGTCCATCGGCACCCAGTCCTCGGCCTTCATCCCGCCCTTGCCATCCAGCGCACGGCCGGCGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCc                                                                                                                                                  <  1:51844‑M2/149‑2 (MQ=255)     tGATAGGGTCGCGGTTGAGCGGGTTGATCACCGGGCCGTCCATCGGCACCCAGTCCTCGGCCTTCATCCCGCCCTTGCCATCCAGCGCACGGCCGGCGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCcgccg                                                                                                                                              <  3:340681‑M2/149‑6 (MQ=255)       aTAGGGTCGCGGTTGAGCGGGTTGATCACCGGGCCGTCCATCGGCACCCAGTCCTCGGCCTTCATCCCGCCCTTGCCATCCAGCGCACGGCCGGCGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGt                                                                                                                                             >  8:137487/1‑148 (MQ=255)       aTAGGGTCGCGGTTGAGCGGGTTGATCACCGGGCCGTCCATCGGCACCCAGTCCTCGGCCTTCATCCCGCCCTTGCCATCCAGCGCACGGCCGGCGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGt                                                                                                                                             >  7:9494/1‑148 (MQ=255)               gcgGTTGAGCGGGTTGATCACCGGGCCGTCCATCGGCACCCAGTCCTCGGCCTTCATCCCGCCCTTGCCATCCAGCGCACGGCCGGCGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCg                                                                                                                                    <  6:104023/149‑1 (MQ=255)                  gTTGAGCGGGTTGATCACCGGGCCATCCATCGGCACCCAGTCCTCGGCCTTCATCCCGCCCTTGCCATCCAGCGCACGGCCGGCGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCa                                                                                                                                 <  6:235210/149‑1 (MQ=255)                          ggTTGTTCTCCGGGCCGTCCATCGGCAACCTGTCCTCGGCCTTCATCCCGCCCTTGCCATCCAGCGCACGGCCGGCGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCgg                                                                                                                         <  8:256740/149‑1 (MQ=255)                          ggTTGATCACCGGGCCGTCCATCGGCACCCACTCCTCGGCCTTCATCCCGCCCTTGCCATCCAGCGCACGGCCGGCGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCgg                                                                                                                         >  1:251693/1‑149 (MQ=255)                                tCACCGGGCCGTCCATCGGCACCCAGTCCTCGGCCTTCATCCCGCCCTTGCCATCCAGCGCACGGCCGGCGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGccccc                                                                                                                   >  2:292386/1‑149 (MQ=255)                                tCACCGGGCCGTCCATCGGCACCCAGTCCTCGGCCTTCATCCAGCCCTTGCCATCCAGCGCACGGCCGGCGACGTCGAGCACCCGGCCCAGCAAGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGccccc                                                                                                                   >  2:213305/1‑149 (MQ=255)                                  aCCGGGCCGTCCATCGGCACCCAGTCCTCGGCCTTCATCCCGCCCTTGCCATCCAGCGCACGGCCGGCGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCg                                                                                                                  <  6:251246/148‑1 (MQ=255)                                    cGGGCCGTCCATCGGCACCCAGTCCTCGGCCTTCATCCCGCCCTTGCCATCCAGCGCACGGCCGGCGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGgcg                                                                                                               >  1:87825/1‑149 (MQ=255)                                     gggCCGTCCATCGGCACCCAGTCCTCGGCCTTCATCCCGCCCTTGCCATCCAGCGCACGGCCGGCGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGgcgc                                                                                                              <  8:9494/149‑1 (MQ=255)                                     gggCCGTCCATCGGCACCCAGTCCTCGGCCTTCATCCCGCCCTTGCCATCCAGCGCACGGCCGGCGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGgcgc                                                                                                              <  3:26886/149‑1 (MQ=255)                                            ccATCGGCACCCAGTCCTCGGCCTTCATCCCGCCCTTGCCATCCAGCGCACGGCCGGCGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGcc                                                                                                        >  6:62441/1‑148 (MQ=255)                                            ccATCGGCACCCAGTCCTCGGCCTTCATCCCGCCCTTGCCATCCAGCGCACGGCCGGCGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCcg                                                                                                       <  7:137487/149‑1 (MQ=255)                                              aTCGGCACCCAGTCCTCGGCCTTCATCCCGCCCTTGCCATCCAGCGCACGGCCGGCGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCcgac                                                                                                     >  2:22522/1‑149 (MQ=255)                                              aTCGGCACCCAGTCCTCGGCCTTCATCCCGCCCTTGCCATCCAGCGCACGGCCGGCGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCcgac                                                                                                     >  2:216626/1‑149 (MQ=255)                                                      ccAGTCCTCGGCCTTCATCCCGCCCTTGCCATCCAGCGCACGGCCGGCGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGc                                                                                             >  8:319421/1‑149 (MQ=255)                                                          tCCTCGGCCTTCATCCCGCCCTTGCCATCCAGCGCACGGCCGGCGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGccccc                                                                                         >  2:338287/1‑147 (MQ=255)                                                            cTCGGCCTTCATCCCGCCCTTGCCATCCAGCGCACGGCCGGCGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCTATGCCGACGATACTGCCCAcc                                                                                        <  6:326271/148‑1 (MQ=255)                                                            cTCGGCCTTCATCCCGCCCTTGCCATCCAGCGCACGGCCGGCGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGCCCACCg                                                                                       >  3:250339/1‑149 (MQ=255)                                                                 ccTTCATCCCGCCCTTGCCATCCAGCGCACGGCCGGCGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGCCCACCGGCATc                                                                                  <  4:340681/149‑1 (MQ=255)                                                                     cATCCCGCCCTTGCCATCCAGCGCACGGCCGGGGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGCCCACCg                                                                                       <  5:355476/140‑1 (MQ=255)                                                                     cATCCCGCCCTTGCCATCCAGCGCACGGCCGGCGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGCCCACCg                                                                                       >  6:355476/1‑140 (MQ=255)                                                                     cATCCCGCCCTTGCCATCCAGCGCACGGCCGGCGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGCCCACCGGCATCAGa                                                                               <  1:216626/148‑1 (MQ=255)                                                                      aTCCCGCCCTTGCCATCCAGCGCACGGCCGGCGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGCCCACCGGCATCAGaaa                                                                             <  5:62441/149‑1 (MQ=255)                                                                      aTCCCGCCCTTGCCATCCAGCGCACGGCCGGCGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGCCCACCGGCATCAGaa                                                                              <  8:353749/148‑1 (MQ=255)                                                                       tCCCGCCCTTGCCATCCAGCGCACGGCCGGCGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGCCCACCGGCATCAGAAac                                                                            <  7:319421/149‑1 (MQ=255)                                                                         ccGCCCTTGCCATCCAGCGCACGGCCGGCGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGCCCACCGGCATCAGAAacac                                                                          >  1:173742/1‑149 (MQ=255)                                                                             ccTTGCCATCCAGCGCACGGCCGGCGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGCCCACCGGCATCAGAAACACCTTg                                                                      >  5:380921/1‑149 (MQ=255)                                                                              cTTGCCATCCAGCGCACGGCCGGCGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGCCCACCGGCATCAGAAACACCTTgg                                                                     <  2:173742/149‑1 (MQ=255)                                                                                  ccATCCAGCGCACGGCCGGCGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGCCCACCGGCATCAGAAACACCTTGGGcc                                                                  <  3:33472/148‑1 (MQ=255)                                                                                           gcACGGCCGGCGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCcgccggccgtgcgctggatggcaagggcgggatgaaggccgaggactgggtgccgatggacg                                                                                     <  4:149420‑M2/120‑63 (MQ=255)                                                                                           gcACGGCCGGCGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCcgccggccgtgcgctggatggcaagggcgggatgaaggccgaggactgggtgccgatggacg                                                                                     >  3:149420‑M2/1‑58 (MQ=255)                                                                                              cggccggcGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCcgccggccgtgcgctggatggcaagggcgggatgaaggccga                                                                                                         <  6:143224‑M2/97‑43 (MQ=255)                                                                                              cggccggcGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCcgccggccgtgcgctggatggcaagggcgggatgaaggccga                                                                                                         >  5:143224‑M2/1‑55 (MQ=255)                                                                                              cggccggcGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGCCCACCGGCATCAGAAACACCTTGGGCCCGGCAAAGCCCAt                                                     <  2:87825/149‑1 (MQ=255)                                                                                              cggccggcGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGCCCACCGGCATCAGAAACACCTTGGGCCCGGCAAAGCCCAt                                                     <  4:250339/149‑1 (MQ=255)                                                                                                gccggcGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGCCCACCGGCATCAGAAACACCTTGGGCCCGGCAAAGCCCATg                                                    >  4:150279/1‑148 (MQ=255)                                                                                                                aCCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGCCCACCGGCATCAGAAACACCTTGGGCCCGGCAAAGCCCATGACTTCGGCCTCGACCTg                                   <  6:380921/149‑1 (MQ=255)                                                                                                                 cccGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGCCCACCGGCATCAGAAACACCTTGGGCCCGGCAAAGCCCATGACTTCGGCCTCGACCTGc                                  >  7:298727/1‑149 (MQ=255)                                                                                                                  ccGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGCCCACCGGCATCAg                                                                                >  7:312679/1‑102 (MQ=255)                                                                                                                  ccGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGCCCACCGGCATCAg                                                                                <  8:312679/102‑1 (MQ=255)                                                                                                                  ccGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGCCCACCGGCATCAGAAACACCTTGGGCCCGGCAAAGCCCATGACTTCGGCCTCGACCTGCa                                 >  7:205860/1‑149 (MQ=255)                                                                                                                        cAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGCCCACCGGCATCAGAAACACCTTGGGCCCGGCAAAGCCCATGACTTCGGCCTCGACCTGCACCGGGt                           >  8:85159/1‑149 (MQ=255)                                                                                                                                  aTGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGCCCACCGGCATCAGAAACACCTTGGGCCCGGCAAAGCCCATGACTTCGGCCTCGACCTGCACCgg                             >  5:175215/1‑137 (MQ=255)                                                                                                                                  aTGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGCCCACCGGCATCAGAAACACCTTGGGCCCGGCAAAGCCCATGACTTCGGCCTCGACCTGCACCgg                             <  6:175215/137‑1 (MQ=255)                                                                                                                                  aTGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGCCCACCGGCATCAGAAACACCTTGGGCCCGGCAAAGCCCATGACTTCGGCCTCGACCTGCACCGGGTGATAACTGt                  >  7:387355/1‑148 (MQ=255)                                                                                                                                  aTGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGCCCACCGGCATCAGAAACACCTTGGGCCCGGCAAAGCCCATGACTTCGGCCTCGACCTGCACCGGGTGATAACTGTc                 <  2:173566/149‑1 (MQ=255)                                                                                                                                       cATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATTCTGCCCACCGGCATCAGAAACACCTTGGGCCCGGCAAAGCCCATGACTTCGGCCTCGACCTGCACCGGGTGATAACTGTCATCGt            <  1:213305/149‑1 (MQ=255)                                                                                                                                        aTGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGCCCACCGGCAt                                                                                   <  5:345510/77‑1 (MQ=255)                                                                                                                                        aTGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGCCCACCGGCAt                                                                                   >  6:345510/1‑77 (MQ=255)                                                                                                                                        aTGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGCCCACCGGCATCAGAAACACCTTGGGCCCGGCAAAGCCCATGACTTCGGCCTCGACCTGCACCGGGTGATAACTGTCATCGtt           <  2:51844/149‑1 (MQ=255)                                                                                                                                         tGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGCCCACCGGCATCAGAAACACCTTGGGCCCGGCAAAGCCGGTGACTTCGGCCTCGACCTGCACCGGGTGATAACTGTCATCGTTg          <  1:292386/149‑1 (MQ=255)                                                                                                                                           ggCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGCCCACCGGCATCAGAAACACCTTGGGCCCGGCAAAGCCCATGACTTCGGCCTCGACCTGCACCGGGTGATAACTGTCATCGTTGa         <  2:398294/148‑1 (MQ=255)                                                                                                                                             cAGACGGCCGCCGGCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGCCCACCGGCATCAGAAACACCTTGGGCCCGGCAAAGCCCATGACTTCGGCCTCGACCTGCACCGGGTGATAACTGTCATCGTTGATCa      <  6:234753/149‑1 (MQ=255)                                                                                                                                                 cGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGCCCACCGGCATCAGAAACACCTTGGGCCCGGCAAAGCCCATGACTTCGGCCTCGACCTGCACCGGGTGATAACTGTCATCGTTGATCACCAg  <  8:205860/149‑1 (MQ=255)                                                                                                                                                    |                                                                                                                                                  TTGCTGATAGGGTCGCGGTTGAGCGGGTTGATCACCGGGCCGTCCATCGGCACCCAGTCCTCGGCCTTCATCCCGCCCTTGCCATCCAGCGCACGGCCGGCGCCGTCGAGCACCCGGCCCAGCATGCTCATGCCCATGGGCAGACGGCCGCCGTCATCCAGCGGCACGACCCGGGCCCCCGGCGCGATGCCGACGATACTGCCCACCGGCATCAGAAACACCTTGGGCCCGGCAAAGCCCATGACTTCGGCCTCGACCTGCACCGGGTGATAACTGTCATCGTTGATCACCAG  >  NC_002947/4956288‑4956580

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.