New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 652786	46 (0.870)	11 (0.210)	7/264	2.5	31.4%	coding (1960/1962 nt)	ctpL	methyl‑accepting chemotaxis protein CtpL
	?	NC_002947	= 4810125	2 (0.040)					intergenic (‑267/‑288)	PP_4234/dsbD‑II	bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2

CAGGCGGCGCATGGCGGACTCGCGAGGTGGAACGTGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGTCTTCACCCAGTTCGTGAATCCGCTCG  >  NC_002947/652655‑652907                                                                                                                                    |                                                                                                                          ctggcggcGCTTGGCGGACTCGCTAGGTGGAACGTGCCCGGCATGATAACGGATCCGCAGGAAAAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGAcc                                                                                                                       <  2:1150054/134‑1 (MQ=25) cAGGCGGCGCAGGGGGGACTCGCGAGGTGGAACGTGCCCGGCATGATAACGGATGCTCAGTAATAATTGGCCCTAAACAAACGTCGGAGCGGGTTTACCCGCTAAGCGCCGCGCGGGCGGCGCTCGATCTCAGAcc                                                                                                                       <  2:1299458/136‑1 (MQ=25) cAGGCGGCGAAGGGCGGACTCGCGAGGTGGAACGTGCCCGGAATGAAAACGGATGCGCAGTAATAATTGGCCCTAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGAcc                                                                                                                       <  2:1312432/136‑1 (MQ=25)     cggcgCATGGCGGACTCGCGAGGTGGAACGTGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGa                                                                                                                   >  2:949432/1‑136 (MQ=255)       gcgcATGGCGGACTCGCGAGGTGGAACGTGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGCCCCTGAAc                                                                                                                 >  2:453526/1‑136 (MQ=255)              gCGGACTCGCGAGGTGGAACGTGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCa                                                                                                          <  2:829176/136‑1 (MQ=255)                ggACTCGCGAGGTGGAACGTGCCCGGCATGATACCGGATGCGCAGCAATAATTGCCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCAcc                                                                                                        <  2:1008296/136‑1 (MQ=255)                     cgcgAGGTGGAACGTGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCg                                                                                                   >  1:909917/1‑136 (MQ=255)                     cgcgAGGTGGAACGTGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCg                                                                                                   >  1:349924/1‑136 (MQ=255)                     cgcgAGGTGGAACGTGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTAAGACCCAGAACGCTCGCACCGcccc                                                                                                   >  1:76216/1‑135 (MQ=255)                       cgAGGTGGAACGTGCCCGGCATGATAACGGATGCGCAGGAAAAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCTAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGt                                                                                                 <  2:29895/136‑1 (MQ=255)                          ggTGGAACGTGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCCGCGCTCGCTCTCAGACCCTGAACGCTCGCACCGCCCGGTTCa                                                                                              >  2:1154024/1‑136 (MQ=255)                                  gTGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCg                                                                                      <  2:54353/136‑1 (MQ=255)                                    gCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCAAGATCTCAGACCCAGAACCCTCGCACCGCCCGGGTCAGCTAACCGcc                                                                                    >  2:979169/1‑136 (MQ=25)                                        ggaattaTAAGGCATGCGCAGGAATAATTGGCCCTAAACAAACGTTGGAGGGGGTTTACCCGCTAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAgg                                                                                <  1:1042703/130‑1 (MQ=25)                                        ggCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGAAGTCAGACCCTGAACGCTCGCCCCCCCCCGTTAAGCAAACCGcccccc                                                                                >  2:471082/1‑133 (MQ=21)                                            ttaTAAGGGATGCGGAGGAATATTTGGCCCTAAACAATGGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTca                                                                            <  2:959539/134‑1 (MQ=37)                                            tGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTca                                                                            >  1:835907/1‑136 (MQ=255)                                            tGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTca                                                                            <  2:1260043/136‑1 (MQ=255)                                                aaCGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTcagcag                                                                        >  2:338417/1‑136 (MQ=255)                                                  cGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCt                                                                      <  2:498642/136‑1 (MQ=255)                                                      tGCGCAGGATTAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTc                                                                  <  2:3137/136‑1 (MQ=255)                                                      tGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTc                                                                  <  1:106172/136‑1 (MQ=255)                                                      tGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTc                                                                  <  1:26388/136‑1 (MQ=255)                                                      ggcgcTGGAATAATTGGCCCCAAACAATCGTCGGTGGGGGTTTACCGGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTc                                                                  <  2:624756/135‑1 (MQ=37)                                                      cgcgcTGTAATAATTGCCCCGAAACAACCGTAGGACCGGGTTTACCCGCGACGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCGGTTc                                                                  <  1:634284/135‑1 (MQ=37)                                                             gAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGt                                                           <  2:349924/136‑1 (MQ=255)                                                               ataatTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAcaggc                                                                                                                      >  2:853800‑M1/1‑70 (MQ=255)                                                               ataatTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAcaggc                                                                                                                      <  1:853800‑M1/75‑6 (MQ=255)                                                               ataatTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAcagg                                                                                                                       >  2:643370‑M1/1‑70 (MQ=255)                                                               ataatTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAcagg                                                                                                                       >  2:1200510‑M1/1‑70 (MQ=255)                                                               ataatTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAcagg                                                                                                                       <  1:1200510‑M1/74‑5 (MQ=255)                                                               ataatTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAcagg                                                                                                                       <  1:643370‑M1/74‑5 (MQ=255)                                                               ataatTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAcag                                                                                                                        <  1:1173921‑M1/73‑4 (MQ=255)                                                               ataatTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAcag                                                                                                                        >  2:1173921‑M1/1‑70 (MQ=255)                                                                         cGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCGCCCTGTTTACGCCCCTCg                                               <  2:1272404/136‑1 (MQ=255)                                                                         cGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCg                                               <  2:908891/136‑1 (MQ=255)                                                                          gAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGc                                              >  2:69124/1‑136 (MQ=255)                                                                          gAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCACGCTCAGCACCTGTTCACCCTGTTTACGCCCCTCGc                                              >  1:400879/1‑136 (MQ=255)                                                                           aaacaaacGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCAACCTGTTTACGCCCCTCGcc                                             >  2:1296948/1‑136 (MQ=255)                                                                              caaacGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAcaggcgctgaaactctcccggcgaacacctcccaggcgctgaaaatcccccggcgaa                                                                  >  1:123890‑M1/1‑55 (MQ=255)                                                                              caaacGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAcaggcgctgaaactctcccggcgaacacctcccaggcgctgaaaatcccccggcgaa                                                                  <  2:123890‑M1/112‑58 (MQ=255)                                                                               aaacGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTAACCCTGTTTACGCCCCTCGCCAAtt                                         >  1:836311/1‑135 (MQ=255)                                                                                     aGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGc                                   <  1:682414/136‑1 (MQ=255)                                                                                     aGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGc                                   <  2:1253955/136‑1 (MQ=255)                                                                                         gCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGt                               >  1:1199393/1‑136 (MQ=255)                                                                                           gggTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTg                             <  2:963989/136‑1 (MQ=255)                                                                                             gTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTGGATCTCAGACCCTGAACGCTCGCACCGCCCGGGTCAGCTCACCGCCCCGGCGCAGCAGCGGTTAACCCGGTTTACGCCCCACGGCAAATCGCGGCAGGTTGtt                           >  2:471212/1‑135 (MQ=37)                                                                                             gTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGtg                           >  1:552408/1‑135 (MQ=255)                                                                                               ttACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCACACCGCCCAGGCTCAGCAGCAGTTGACCCTGTTTAAGCCCCACCCCAAAGCGCAGCAGGTTGTCtt                         >  2:482265/1‑136 (MQ=38)                                                                                                tACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCGTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGTCTTc                        <  2:1372897/136‑1 (MQ=255)                                                                                                aaCCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGTCTTc                        <  1:990996/135‑1 (MQ=255)                                                                                                 ccccGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGTCTTCa                       <  1:482265/135‑1 (MQ=255)                                                                                                          gcgcCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGTCTTCACCCAGTTCg              >  1:485841/1‑136 (MQ=255)                                                                                                                   gggcggCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGTCTTCACCCAGTTCGTGAATCcgc     >  2:851681/1‑136 (MQ=255)                                                                                                                     gcggcgCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGTCTTCACCCAGTTCGTGAATCcgctc   <  1:1246351/136‑1 (MQ=255)                                                                                                                      gggcgcTCGATCTCAcaggcgctgaaactctccgggcgaacacctccctggcgctgaaaatcccccggcgaacacctcacaggcgctgaaaacctcccgccaaacacctacccgccaaagcgcgaattccgcccat  <  2:1048269‑M1/135‑122 (MQ=255)                                                                                                                                    |                                                                                                                          CAGGCGGCGCATGGCGGACTCGCGAGGTGGAACGTGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGTCTTCACCCAGTTCGTGAATCCGCTCG  >  NC_002947/652655‑652907

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ 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.