New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 5557381	42 (0.710)	3 (0.050)	3/244	NT	6.1%	coding (249/1935 nt)	PP_4888	methyl‑accepting chemotaxis transducer
	?	NC_002947	= 5557420	53 (0.950)					coding (210/1935 nt)	PP_4888	methyl‑accepting chemotaxis transducer

GTCGTTGTCCCAGATCGCCCGCGGCGCAACCGAAGCCAGCAGCTCGGCCATGTCGTTGGCGGAATCCTTGAGGTTCTTTTCCAGGGTGCTGCGTAGTTGCTGCTGCTCGCTTTGCAGGCGCTCCGACAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGC‑GCACATCTTGCCCGGCTTGCTCCAGATCGCTTGCGAGTTGGCGGCTGTCATTACCCAGCCGTTCGCCAAGGTCGGCCTCCAGGGCGGTGACCGTGCTTCGGGTGA  >  NC_002947/5557243‑5557529                                                                                                                                           |                                                                                                                                                      gtcgtTGTCCCAGATCGCCCGCGGCGCAACCGAAGCCAGCAGCTCGGCCATGTCGTTGGCGGAATCCTTGAGGTTCTTTTCCAGGGTGCTGCGTAGTTGCTGCTGCTCGCTTTGCAGGCGCTCCGACAACCCTGCGCTCAGGCGCTGGc                                                                                                                                             >  2:43894/1‑149 (MQ=255)            aGATCGCCCGCGGCGCAACCGAAGCCAGCAGCTCGGCCATGTCGTTGGCGGAATCCTTGAGGTTCTTTTCCAGGGTGCTGCGTAGTTGCTGCTGCTCGCTTTGCAGGCGCTCCGACAACCCTGCGCTCAGGCGCTGGCGGGTa                                                                                                                                        >  8:240060/1‑143 (MQ=255)            aGATCGCCCGCGGCGCAACCGAAGCCAGCAGCTCGGCCATGTCGTTGGCGGAATCCTTGAGGTTCTTTTCCAGGGTGCTGCGTAGTTGCTGCTGCTCGCTTTGCAGGCGCTCCGACAACCCTGCGCTCAGGCGCTGGCGGGTa                                                                                                                                        <  7:240060/143‑1 (MQ=255)              aTCGCCCGCGGCGCAACCGAAGCCAGCAGCTCGGCCATGTCGTTGGCGGAATCCTTGAGGTTCTTTTCCAGGGTGCTGCGTAGTTGCTGCTGCTCGCTTTGCAGGCGCTCCGACAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGa                                                                                                                                >  1:330663/1‑149 (MQ=255)                  cccGCGGCGCAACCGAAGCCAGCAGCTCGGCCATGTCGTTGGCGGAATCCTTGAGGTTCTTTTCCAGGGTGCTGCGTAGTTGCTGCTGCTCGCTTTGCAGGCGCTCCGACAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAgg                                                                                                                            <  8:247509/149‑1 (MQ=255)                   cctcggcgCAACCGAAGCCAGCAGCTCGGCCATGTCGTTGGCGGAATCCTTGAGGTTCTTTTCCAGGGTGCTGCGTAGTTGCTGCTGCTCGCTTTGCAGGCGCTCCGACAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGc                                                                                                                           <  4:6501/146‑1 (MQ=255)                         cgcAACCGAAGCCAGCAGCTCGGCCATGTCGTTGGCGGAATCCTTGAGGTTCTTTTCCAGGGTGCTGCGTAGTTGCTGCTGCTCGCTTTGCAGGCGCTCCGACAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGa                                                                                                                     <  2:11932/149‑1 (MQ=255)                          gcAACCGAAGCCAGCAGCTCGGCCATGTCGTTGGCGGAATCCTTGAGGTTCTTTTCCAGGGTGCTGCGTAGTTGCTGCTGCTCGCTTTGCAGGCGCTCCGACAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAg                                                                                                                    <  8:156415/149‑1 (MQ=255)                                     cagcagCTCGGCCATGTCGTTGGCGGAATCCTTGAGGTTCTTTTCCAGGGTGCTGCGTAGTTGCTGCTGCTCGCTTTGCAGGCGCTCCGACAACCCTGCGCTCtgggctcgacggcctgtccagcagtacccgccagcgcctgagcgca                                                                                                         <  5:296110‑M1/149‑47 (MQ=255)                                     cagcagCTCGGCCATGTCGTTGGCGGAAACCTTGAGGTTCTTTTCCAGGGTGCTGCGTAGTTGCTGCTGCTCGCTTTGAAGGCGCTCCGACAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGa                                                                                                                     >  1:21219/1‑137 (MQ=255)                                      agcagcTCGGCCATGTCGTTGGCGGAATCCTTGAGGTTCTTTTCCAGGGTGCTGCGTAGTTGCTGCTGCTCGCTTTGCAGGCGCTCCGACAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGC‑Gcac                                                                                                       <  1:233838/149‑1 (MQ=255)                                                        ttGGCGGAATCCTTGAGGTTCTTTTCCAGGGTGCTGCGTAGTTGCTGCTGCTCGCTTTGCAGGCGCTCCGACAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGC‑GCACATCTTGCCCGGCTTGCTc                                                                                     >  6:94674/1‑149 (MQ=255)                                                           gCGGAATCCTTGAGGTTCTTTTCCAGGGTGCTGCGTAGTTGCTGCTGCTCGCTTTGCAGGCGCTCCGACAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGccc                                                                                                                 <  4:199904/119‑1 (MQ=255)                                                             ggAATCCTTGAGGTTCTTTTCCAGGGTGCTGCGTAGTTGCTGCTGCTCGCTTTGCAGGCGCTCCGACAACCCTGCGCTCtgggctcgacggcctgtccagcagtacccgccagcgcctgagcgcagg                                                                                                       <  3:370605‑M1/127‑49 (MQ=255)                                                             ggAATCCTTGAGGTTCTTTTCCAGGGTGCTGCGTAGTTGCTGCTGCTCGCTTTGCAGGCGCTCCGACAACCCTGCGCTCtgggctcgacggcctgtccagcagtacccgccagcgcctgagcgcagg                                                                                                       >  4:370605‑M1/1‑79 (MQ=255)                                                                   cTTGAGGTTCTTTTCCAGGGTGCTGCGTAGTTGCTGCTGCTCGCTTTGCAGGCGCTCCGACAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGCGGCACATCTTGCCCGGCTTGCTCCAGATCGCtt                                                                           <  1:43894/149‑1 (MQ=255)                                                                    ttGAGGTTCTTTTCCAGGGTGCTGCATAGTTGCTGCTGCTCGCTTTGCAGGCGCTCCGACAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGC‑GCACATCTTGCCCGGCTTGCTCCAGATCGCTTGc                                                                         >  6:157810/1‑149 (MQ=255)                                                                      gAGGTTCTTTTCCAGGGTGCTGCGTAGTTGCTGCTGCTCGCTTTGCAGGCGCTCCGACAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGC‑GCACATCTTGCCCGGCTTGCTCCAGATCGCTTGc                                                                         >  1:175713/1‑147 (MQ=255)                                                                      gAGGTTCTTTTCCAGGGTGCTGCGTAGTTGCTGCTGCTCGCTTTGCAGGCGCTCCGACAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGC‑GCACATCTTGCCCGGCTTGCTCCAGATCGCTTGCGa                                                                       >  8:299990/1‑149 (MQ=255)                                                                       aGGTTCTTTTCCAGGGTGCTGCGTAGTTGCTGCTGCTCGCTTTGCAGGCGCTCCGACAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGC‑GCACATCTTGCCCGGCTTGCTCCAGATCGCTTGCGa                                                                       <  1:347390/148‑1 (MQ=255)                                                                         gTTCTTTTCCAGGGTGCTGCGTAGTTGCTGCTGCTCGCTTTGCAGGCGCTCCGACAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGC‑GCACATCTTGCCCGGCTTGCTCCAg                                                                                  <  3:193521/135‑1 (MQ=255)                                                                         gTTCTTTTCCAGGGTGCTGCGTAGTTGCTGCTGCTCGCTTTGCAGGCGCTCCGACAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGC‑GCACATCTTGCCCGGCTTGCTCCAg                                                                                  >  4:193521/1‑135 (MQ=255)                                                                          ttCTTTTCCAGGGTGCTGCGTAGTTGCTGCTGCTCGCTCTGCAGGCGCTCCGACAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGC‑GCACATCTTGCCCGGCTTGCTCCAGATCGCTTGCGAGTTg                                                                   >  3:227583/1‑149 (MQ=255)                                                                                 ccAGGGTGCTGCGTAGTTACTGCTGCTCGCTTTGCAGGCGCTCCGACAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGC‑GCACATCTTGCCCGGCTTGc                                                                                       >  2:132806/1‑122 (MQ=255)                                                                                          tgcGTAGTTGCTGCTGCTCGCTTTGCAGGCGCTCCGACAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGC‑GCACATCTTGCCCGGCTTGCTCCAGATCGCTTGCGAGTTGGCGGCTGTCATTAcc                                                    >  5:379907/1‑148 (MQ=255)                                                                                                    ctgctgctCGCTTTGCAGGCGCTCCGACAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGC‑GCACATCTTGCCCGGCTTGCTCCAGATCGCTTGCGAGTTGGCGGCTGTCATTACCCAGCCGTTCg                                          <  7:299990/148‑1 (MQ=255)                                                                                                    ctgctgctCGCTTTGCAGGCGCTCCGACAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGC‑GCACATCTTGCCCGGCTTGCTCCAGATCGCTTGCGAGTTGGCGGCTGTCATTACCCAGCCGTTCGc                                         >  8:228637/1‑149 (MQ=255)                                                                                                     tgctgctCGCTTTGCAGGCGCTCCGACAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGC‑GCACATCTTGCCCGGCTTGCTCCAGATCGCTTGCGAGTTGGCGGCTGTCATTACCCAGCCGTTCGc                                         >  8:124024/1‑148 (MQ=255)                                                                                                             gCTTTGCAGGCGCTCCGACAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGC‑GCACATCTTGCCCGGCTTGCTCCAGATCGCTTGCGAGTTGGCGGCTGTCATTACCCAGCCGTTCGCCAAGGTCgg                                >  6:6757/1‑149 (MQ=255)                                                                                                             gCTTTGCAGGCGCTCCGACAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGC‑GCACATCTTGCCCGGCTTGCTCCAGATCGCTTGCGAGTTGGCGGCTGTCATTACCCAGCCGTTCGCCAAGGTCgg                                >  3:183404/1‑149 (MQ=255)                                                                                                             gCTTTGCAGGCGCTCCGACAACCCTGAGCTCAGGCGCTGGAGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGC‑GCACATCTTGCCCGGCTTGCTCCAGATCGCTTTCGAGTTGGCGGCTGTCATTACACAGCCGTTAGACAAGGTCgg                                >  2:284166/1‑149 (MQ=255)                                                                                                              cTTTGCAGGCGCTCCGACAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGC‑GCACATCTTGCCCGGCTTGCTCCAGATCGCTTGCGAGTTGGCGGCTGTCATTACCCAGCCGTTCGCCAAGGTCGGc                               <  4:183404/149‑1 (MQ=255)                                                                                                                 tGCAGGCGCTCCGACAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGC‑GCACATCTTGCATGGAGTGATCCTGTTCGCTTGCGAGTTGGCGGCTGTCATTACCCAGCCGTTCGCCAAGGTCGGcc                              <  5:258908/147‑1 (MQ=255)                                                                                                                   cAGGCGCTCCGACAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGC‑GCACATCTTGCCCGGCTTGCTCCAGATCGCTTGCGAGTTGGCGGCTGTCATTACCCAGCCGTTCGCCAAGGTCGGCCTcc                           <  5:157810/148‑1 (MQ=255)                                                                                                                   cAGGCGCTCCGACAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGC‑GCACATCTTGCCCGGCTTGCTCCAGATCGCTTGCGAGTTGGCGGCTGTCATTACCCAGCCGTTCGCCAAGGTCGGCCTCCa                          <  2:175713/149‑1 (MQ=255)                                                                                                                        gcTCCGACAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGC‑GCACATCTTGCCCGGCTTGCTCCAGATCGCTTGCGAGTTGGCGGCTGTCATTACCCAGCCGTTCGCCAAGGTCGGCCTCCAGGGCg                     >  5:253826/1‑149 (MQ=255)                                                                                                                        gcTCCGACAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGC‑GCACATCTTGCCCGGCTTGCTCCAGATCGCTTGCGAGTTGGCGGCTGTCATTACCCAGCCGTTCGCCAAGGTCGGCCTCCAGGGCg                     <  4:209856/149‑1 (MQ=255)                                                                                                                           ccGACAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGC‑GCACATCTTGCCCGGCTTGCTCCAGATCGCTTGCGAGTTGGCGGCTGTCATTACCCAGCCGTTCGCCAAGGTCg                                 >  7:343681/1‑134 (MQ=255)                                                                                                                           ccGACAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGC‑GCACATCTTGCCCGGCTTGCTCCAGATCGCTTGCGAGTTGGCGGCTGTCATTACCCAGCCGTTCGCCAAGGTCg                                 <  8:343681/134‑1 (MQ=255)                                                                                                                              aCAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGC‑GCACATCTTGCCCGGCTTGCTCCAGATCGCTTGCGAGTTGGCGGCTGTCATTACCCAGCCGTTCg                                          >  6:13286/1‑122 (MQ=255)                                                                                                                              aCAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGC‑GCACATCTTGCCCGGCTTGCTCCAGATCGCTTGCGAGTTGGCGGCTGTCATTACCCAGCCGTTCg                                          <  5:13286/122‑1 (MQ=255)                                                                                                                               cAAGCCTGCGCTCAGGCGCTGGCGGGTACTTCTTGACAGGCCGTCGAGCCCAGAGC‑GCACATCTTGCCCGGCTTGCTCCAGATCGCTTGCGAGTTGGCGGCTGTCATTACCCAGCCGTTCGCCAAGGTCGGCCTCCAGGGCGGTGAcc               <  2:330663/148‑1 (MQ=255)                                                                                                                                 aCCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGC‑GCACATCTTGCCCGGCTTGCTCCAGATCGCTTGCGAGTTGGCGGCTGTCATTACCCAGCCGTTCGCCAAGGTCGGCCTCCAGGGCGGTGACCGTg            <  6:379907/149‑1 (MQ=255)                                                                                                                                 aCCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGC‑GCACATCTTGCCCGGCTTGCTCCAGATCGCTTGCGAGTTGGCGGCTGTCATTACCCAGCCGTTCGCCAAGGTCGGCCTCCAGGGCGGTGACCGTg            <  5:94674/149‑1 (MQ=255)                                                                                                                                   ccTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAgagcgcagggttgtcggagcgcctgcaaagcgagcagcagcaactacgcagcaccctggaaaagaacctcaaggattcc                                 >  4:370605‑M2/1‑48 (MQ=255)                                                                                                                                   ccTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAgagcgcagggttgtcggagcgcctgcaaagcgagcagcagcaactacgcagcaccctggaaaagaacctcaaggattcc                                 <  3:370605‑M2/127‑80 (MQ=255)                                                                                                                                     tGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAgagcgcagggttgtcggagcgcctgcaaagcgagcagcagcaactacgcagcaccctggaaaagaacctcaaggattccgccaacgacatggccgagctgctg         <  5:296110‑M2/149‑104 (MQ=255)                                                                                                                                     tGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGC‑GCACATCTTGCCCGGCTTGCTCCAGATCGCTTGCGAGTTGGCGGCTGTCATTACCCAGCCGTTCGCCAAGGTCGGCCTCCAGGGCGGTGACCGTGCTTc        >  3:193666/1‑149 (MQ=255)                                                                                                                                        gcgcAGGCGCTGGCGGGTACTCCTGGACAGGCCGTCTAGCCCAGAGC‑GCACATCTTGCCCGGCTTGCTCCAGATCGCTTGCGAGTTGGCGGCTGTCATTACCCAGCCGTTCGCCAAGGTCGGCCTCCAGGGCGGTGACCGTGCTTCggg     <  8:327615/146‑1 (MQ=255)                                                                                                                                          tCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGC‑GCACATCTTGCCCGGCTTGCTCCAGATCGCTTGCGAGTTGGCGGCTGTCATTACCCAGCCGTTCGCCAAGGTCGGCCTCCAGGGCGGTGACCGTGCTTCGGGt    >  5:311644/1‑148 (MQ=255)                                                                                                                                          tCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGC‑GCACATCTTGCCCGGCTTGCTCCAGATCGCTTGCGAGTTGGCGGCTGTCATTACCCAGCCGTTCGCCAAGGTCGGCCTCCAGGGCGGTGACCGTGCTTCGGGt    >  4:130658/1‑148 (MQ=255)                                                                                                                                           cAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGC‑GCACATCTTGCCCGGCTTGCTCCAGATCGCTTGCGAGTTGGCGGCTGTCATTACCCAGCCGTTCGCCAAGGTCGGCCTCCAGGGCGGTGACCGTGCTTCGGGTGa  <  7:228637/149‑1 (MQ=255)                                                                                                                                           |                                                                                                                                                      GTCGTTGTCCCAGATCGCCCGCGGCGCAACCGAAGCCAGCAGCTCGGCCATGTCGTTGGCGGAATCCTTGAGGTTCTTTTCCAGGGTGCTGCGTAGTTGCTGCTGCTCGCTTTGCAGGCGCTCCGACAACCCTGCGCTCAGGCGCTGGCGGGTACTGCTGGACAGGCCGTCGAGCCCAGAGC‑GCACATCTTGCCCGGCTTGCTCCAGATCGCTTGCGAGTTGGCGGCTGTCATTACCCAGCCGTTCGCCAAGGTCGGCCTCCAGGGCGGTGACCGTGCTTCGGGTGA  >  NC_002947/5557243‑5557529

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.