New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	4963796 =	43 (0.990)	3 (0.070)	3/240	NT	6.7%	intergenic (‑97/+131)	fleS/fleQ	two‑component system sensor histidine kinase FleS/transcriptional regulator FleQ
	?	NC_002947	4963899 =	43 (1.050)					intergenic (‑200/+28)	fleS/fleQ	two‑component system sensor histidine kinase FleS/transcriptional regulator FleQ

GGGTTTGCCCCTGCTGATCGGGGGCTCGGGATACGTGGGCGGCCTGGGGCATCGTGCTCTCTCGCGTGGCTGACCGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCGGAGATCGAGCGCCGCCCAAACAAAAACCTCAAGGCGAACAC‑CCCGCCCAAACGCAACCCCCAAGGCGAACACCCAGCCCAAACATCAATCCTCCGCCTGGTC  >  NC_002947/4963648‑4963944                                                                                                                                                     |                                                                                                                                                      gccaacggtatcgttgcgcgcgcggctgaacgtttgcgtattcgccgtaccaccctggtcgagaaaatgcgcaagtacggcatgagccgccagggcggtgaggaccaggcggaggattgatgtttgggctgggtgttcgccttgggggtt                                                                                                                                                      >  2:750015‑M1/149‑150 (MQ=255)  ccaacggtatcgttgcgcgcgcggctgaacgtttgcgtattcgccgtaccaccctggtcgagaaaatgcgcaagtacggcatgagccgccagggcggtgaggaccaggcggaggattgatgtttgggctgggtgttcgccttgggggTTg                                                                                                                                                     <  2:1037702‑M1/3‑1 (MQ=255)    aacggtatcgttgcgcgcgcggctgaacgtttgcgtattcgccgtaccaccctggtcgagaaaatgcgcaagtacggcatgagccgccagggcggtgaggaccaggcggaggattgatgtttgggctgggtgttcgccttgggggTTGCg                                                                                                                                                   <  2:1083902‑M1/5‑1 (MQ=255)         cccTGCTGCTCGGGGGCTCGGGATACGTGGGCGGCCTGGGGCATCGTGCTCTCTCGCGTGGCTGACCGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAg                                                                                                                                              >  1:705512/1‑150 (MQ=255)           ctgctgATCGGGGGCTCGGGATACGTGGGCGGCCTGGGGCATCGTGCTCTCTCGCGTGGCTGACCGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGAc                                                                                                                                            <  1:260772/150‑1 (MQ=255)                 aTCGGGGGCTCGGGATACGTGGGCGGCCTGGGGCATCGTGCTCTCTCGCGTGGCTGACCGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTTGGTTTGACGTAGGATTGCGTTAAGACCGATaa                                                                                                                                      <  1:641342/150‑1 (MQ=255)                  tCGGGGGCTCGGGATACGTGGGCGGCCTGGGGCATCGTGCTCTCTCGCGTGGCTGACCGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAg                                                                                                                                     >  1:676056/1‑150 (MQ=255)                    gggggCTCGGGATACGTGGAAGACATGGAGAATCGTCAACTCTCACAGGGCTGCGCGGCATAAAACGGTTGGCTGCCGGCGGGAGAGCAAGAGCCGTGCCGGAGATGGGGGCTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAagg                                                                                                                                   >  2:126781/1‑150 (MQ=255)                     ggggCTCGGGATACGTGGGCGGCCTGGGGCATCGTGCTCTCTCGCGTGGCTGACCGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGt                                                                                                                                  >  1:698853/1‑150 (MQ=255)                      gggCTCGGGCTACGTGGGCGGCCTGGGGCATCGTGCTCTCTCGCGTGGCTGCCCGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGCTTGGGTTTGACGTAGGATTGCGTTAAGACCGCGAAggggt                                                                                                                                 >  2:447768/1‑148 (MQ=255)                            gggATACGTGGGCGACCTGGGGCATCGTGCTCTCTCGCGTGGCTGACCGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGt                                                                                                                           <  1:1076581/150‑1 (MQ=255)                              gATACGTGGGCGGCCTGGGGCATCGTGCTCTCTCGCGTGGCTGACCGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGa                                                                                                                         <  1:134109/150‑1 (MQ=255)                              gATACGTGGGCGGCCTGGGGCATCGTGCTCTCTCGCGTGGCTGACCGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGa                                                                                                                         <  1:772192/150‑1 (MQ=255)                                     gggCGGCCTGGGGCATCGTGCTCTCTCGCGTGGCTGACCGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTttgt                                                                                                                  <  2:676056/150‑1 (MQ=255)                                                ggCATCGTGCTCTCTCGCGTGGCTGACCGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGNGga                                                                                                       <  2:698853/150‑1 (MQ=255)                                                     cGTGCTCTCTCGCGTGGCTGACCGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCGga                                                                                                       <  2:76114/145‑1 (MQ=255)                                                     cGTGCTCTCTCGCGTGGCTGACCGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCGga                                                                                                       >  1:76114/1‑145 (MQ=255)                                                      gTGCTCTCTCGCGTGGCTGACCGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGt                                                                                                                           <  1:36034/124‑1 (MQ=255)                                                      gTGCTCTCTCGCGTGGCTGACCGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGt                                                                                                                           >  2:36034/1‑124 (MQ=255)                                                             gagaaaatgcgcaagtacggcatgagccgccagggcggtgaggaccaggcggaggattgatgtttgggctgggtgttcgccttgggggTTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCGGAGATCGAGcgccgc                                                                                          <  1:188543‑M1/62‑1 (MQ=255)                                                              ccgcgTGGCTGACCGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATACCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCCCCGTGAGTTTTGTTGTGCCGCGGAGATCGAGCgccgcc                                                                                         <  2:131305/149‑1 (MQ=255)                                                                gcgTGGCTGACCGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCGGAGATCGAGCGCCGCCca                                                                                       >  1:1014192/1‑150 (MQ=255)                                                                  gTGGCTGACCGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCGGAGATCGAGCGCCGCCcaaa                                                                                     <  1:761380/150‑1 (MQ=255)                                                                  gTGGCTGACCGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCCGTGATCGATGTCCTCCcaaa                                                                                     <  2:1122983/150‑1 (MQ=255)                                                                       tGACCGTCATAAAACGCTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTAACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCGGAGATCGATCGCCGCCCGAACaaaa                                                                                >  2:570142/1‑150 (MQ=255)                                                                        gACCGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCGGAGATCGAGCGCCGCCCAAACaaaaa                                                                               >  1:179763/1‑150 (MQ=255)                                                                         aCCGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAAAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCGGAGATCGAGCGCCGCCCAAACAAAAAc                                                                              <  2:705512/150‑1 (MQ=255)                                                                             tCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCGGAGATCGAGCGCCGCCCAAACAAAAACCTCa                                                                          >  1:454011/1‑150 (MQ=255)                                                                              cATAAAACGGTGTGTTGCCCGCGGTGAAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTCCCGCCTATTTAATCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCGGAGATCGAGCGCCGCCCAAACAAAAACCTCaa                                                                         <  1:569993/150‑1 (MQ=255)                                                                               aTAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCGGAGATCGAGCGCCGCCCAAACAAAAACCTCAAg                                                                        <  2:150046/150‑1 (MQ=255)                                                                               aTAAAACGGTGTATTGCAAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTCTGTGTTGTTGTGCCGCGGAGATGGAGCGCCGCCCAAACAAAAACCTCaaa                                                                        >  1:346095/1‑149 (MQ=255)                                                                                tAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCGGAGATCGAGCGCCGCCCAAACAAAAACCTCAAgg                                                                       <  1:589597/150‑1 (MQ=255)                                                                                tAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCGGAGATCGAGCGCCGCCCAAACAAAAACCTCAAgg                                                                       >  1:1083902/1‑150 (MQ=255)                                                                                              gCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCGGAGATCGAGCGCCGCCCAAACAAAAACCTCAAg                                                                        >  2:359206/1‑135 (MQ=255)                                                                                              gCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCGGAGATCGAGCGCCGCCCAAACAAAAACCTCAAg                                                                        <  1:359206/135‑1 (MQ=255)                                                                                                cAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCGGAGATCGAGCGCCGCCCAAACAAAAACCTCAAGGCGAAAACACCCGccaa                                                       >  1:326068/1‑148 (MQ=255)                                                                                                  gCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCGGAGATCGAGCGCCGCCCAAACAAAAACCTCAAGGCGAACAC‑CCCGCCCAAAc                                                    >  1:167020/1‑150 (MQ=255)                                                                                                  gCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCGGAGATCGAGCGCCGCCCAAACAAAAACCTCAAGGCGAACAC‑CCCGCCCAAAc                                                    <  2:750922/150‑1 (MQ=255)                                                                                                       gaccaggcggaggattgatgtttgggctgggtgttcgccttgggggTTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCGGAGATCGAGCGCCGCCCAAACAAAAACCTCAAGGCGAACAC‑CCCGCCCAAACGCAAc                                               >  2:188543‑M1/47‑150 (MQ=255)                                                                                                        tAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCGGAGATCGAGcgccg                                                                                           >  1:675219/1‑106 (MQ=255)                                                                                                        tAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCGGAGATCGAGcgccg                                                                                           <  2:675219/106‑1 (MQ=255)                                                                                                        tAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCGGAGATCGAGCGCCGCCCAAACAAAAACCTCAAGGCGAacac                                                                >  2:787866/1‑133 (MQ=255)                                                                                                        tAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCGGAGATCGAGCGCCGCCCAAACAAAAACCTCAAGGCGAacac                                                                <  1:787866/133‑1 (MQ=255)                                                                                                        accaggcggaggattgatgtttgggctgggtgttcgccttgggggTTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCGGAGATCGAGCGCCGCCCAAACAAAAACCTCAAGGCGAACAC‑CCCGCCCAAACGCAAcc                                              >  1:969309‑M1/46‑150 (MQ=255)                                                                                                                  cGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCGga                                                                                                       <  2:275788/84‑1 (MQ=255)                                                                                                                  cGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCGga                                                                                                       >  1:275788/1‑84 (MQ=255)                                                                                                                     gCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCGGAGATCGAGCGCCGCCCAAACAAAAACCTCAAGGCGAACAC‑CCCGCCCAAACGCAACCCCCAAGGCGAaca                                 <  2:167020/150‑1 (MQ=255)                                                                                                                               ggggTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCGGAGATCGAGCGCCGCCCAAACAAAAACCTCAAGGCGAACAC‑CCCGCCCAAACGCAACCCCCAAGGCGAACACCCAGCCCaa                       >  1:489756/1‑150 (MQ=255)                                                                                                                                        gtttgACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCGGAGATCGAGCGCCGCCCAAACAAAAACCTCAAGGCGAACAC‑CCCGCCCAAACGCAACCCCCAAGGCGAACACCCAGCCCAAACATCAAtc              <  1:288999/150‑1 (MQ=255)                                                                                                                                                  ggATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCGGAGATCGAGCGCCGCCCAAACAAAAACCTCAAGGCGAACAC‑CCCGCCCAAACGCAACCCCCAAGGCGAACACCCAGCCCAAACATCAATCCTCCGCCTgg    <  2:489756/150‑1 (MQ=255)                                                                                                                                                   gATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCGGAGATCGAGCGCCGCCCAAACAAAAACCTCAAGGCGAACAC‑CCCGCCCAAACGCAACCCCCAAGGCGAACACCCAGCCCAAACATCAATCCTCCGCCTGGt   >  2:840664/1‑150 (MQ=255)                                                                                                                                                    aTTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCGGAGATCGAGCGCCGCCCAAACAAAAACCTCAAGGCGAACAC‑CCCGCCCAAACGCAACCCCCAAGGCGAACACCCAGCCCAAACATCAATCCTCCGCCTGGTc  <  2:764946/150‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                                      GGGTTTGCCCCTGCTGATCGGGGGCTCGGGATACGTGGGCGGCCTGGGGCATCGTGCTCTCTCGCGTGGCTGACCGTCATAAAACGGTGTGTTGCCAGCGGTGTAGCAATAGCCGTGCCGGAGATGGGGGTTTGGGTTTGACGTAGGATTGCGTTAAGACCGAGAAGGGTTCGCCGTGAGTTTTGTTGTGCCGCGGAGATCGAGCGCCGCCCAAACAAAAACCTCAAGGCGAACAC‑CCCGCCCAAACGCAACCCCCAAGGCGAACACCCAGCCCAAACATCAATCCTCCGCCTGGTC  >  NC_002947/4963648‑4963944

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ 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.