New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 652786	29 (1.300)	35 (2.140)	7/194	0.5	76.7%	coding (1960/1962 nt)	ctpL	methyl‑accepting chemotaxis protein CtpL
	?	NC_002947	4813203 =	0 (0.000)					intergenic (‑318/‑237)	PP_4234/dsbD‑II	bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2

CAGGCGGCGCATGGCGGACTCGCGAGGTGGAACGTGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGTCTTCACCCAGTTCGTGAATCCGCTCGCTGTGGTCACGAA  >  NC_002947/652655‑652920                                                                                                                                    |                                                                                                                                       ctggcggcGAATGGCGGACTCGCGAGGTGGAACGTGCCCGGAATGATAACGCATGCGCTGTAATAATTGGCCCTAAACAAACGTAGGTGCGGGTTTACCCGCTAAGCGCCGCGCGGGCGGCGCTCGATCTCAGAcc                                                                                                                                    <  1:342916/134‑1 (MQ=25) ccggcgccGCAGGGCGTACCCGCGAGGTGTACCGGCCCCGGCATGATAACGGATCCCCAGTAATAATGGCCCCGAAACAAACGTAGCCGCGGGTTAACCCGCTAAGCGCCGCGCGGGCGGCGCTCGATCTCAGAcc                                                                                                                                    <  1:429448/134‑1 (MQ=16) cAGGCGGCGCATGGCGGACTCGCGAGGTGGAACGTGCCCGGCATGATAACCGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGAcc                                                                                                                                    <  1:194392/136‑1 (MQ=255)     cggcgCATGGCGGACTCGCGAGGTGGAACGTGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGa                                                                                                                                >  1:524454/1‑136 (MQ=255)     cggcgCATGGCGGACTCGCGAGGTGGAACGTGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGa                                                                                                                                <  1:516315/136‑1 (MQ=255)                ggACTCGCGAGGTGGGACGTGCCCGGCATGATAACGGATGCGCAGTAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCAcc                                                                                                                     <  1:361335/136‑1 (MQ=255)                ggACTCGCGAGGTGGAACGTGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGTGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCAcc                                                                                                                     <  1:499071/136‑1 (MQ=255)                ggACTCGCGAGGTGGAACGTGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCAcc                                                                                                                     <  1:323590/136‑1 (MQ=255)                 gACTCGCGAGGTGGAACGTGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATGACACACCCTGGACCCTCGCAccc                                                                                                                    >  1:228912/1‑135 (MQ=25)                       cgAGGTGGAACGTGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGt                                                                                                              >  1:339310/1‑136 (MQ=255)                          ggTGGAACGTGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCa                                                                                                           <  1:542582/136‑1 (MQ=255)                             ggAACGTGCCCGCCATGATAACGGATGCGCTGGAAAAATTGCCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGACGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCt                                                                                                        <  1:299339/136‑1 (MQ=37)                               aaCGTGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCCGGCGGCGCTCGATCTCAGACCCAGAACGCACCCACCGCCCCGTTCAGCTCa                                                                                                      >  2:69809/1‑136 (MQ=25)                                aCGTGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCTAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCAc                                                                                                     <  1:67647/136‑1 (MQ=255)                                   tGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGc                                                                                                  <  2:524454/136‑1 (MQ=255)                                            tGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTca                                                                                         <  2:438541/136‑1 (MQ=255)                                                      ggcgcAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTc                                                                               <  1:178247/135‑1 (MQ=255)                                                           aGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCCGGCTCAGCAGCTGTTCACCCt                                                                          >  1:459000/1‑136 (MQ=255)                                                             taatattTGGCCCGAAAAAAAGGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGt                                                                        <  1:69809/135‑1 (MQ=255)                                                             gAATAATTGGCCCGAAACAAACGTAGGAGTGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCCcagg                                                                                                                                    <  2:416786‑M1/76‑5 (MQ=255)                                                             gAATAATTGGCCCGAAACAAACGTAGGAGTGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCCcagg                                                                                                                                    >  1:416786‑M1/1‑72 (MQ=255)                                                             gAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCCcaggcgctgaaaatcctccggcaaacacctcaaaattccaacgccgtccactcaaaattccaac                                                                        >  2:129799‑M1/1‑72 (MQ=255)                                                              aataatTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCCcagg                                                                                                                                    <  2:20481‑M1/75‑5 (MQ=255)                                                              aataatTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCCcagg                                                                                                                                    >  1:20481‑M1/1‑71 (MQ=255)                                                               ataatTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCCcagg                                                                                                                                    <  2:389094‑M1/74‑5 (MQ=255)                                                               ataatTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCCcagg                                                                                                                                    >  2:369825‑M1/1‑70 (MQ=255)                                                               ataatTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCCcagg                                                                                                                                    >  2:307573‑M1/1‑70 (MQ=255)                                                               ataatTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCCcagg                                                                                                                                    >  2:205430‑M1/1‑70 (MQ=255)                                                               ataatTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCCcagg                                                                                                                                    >  2:499050‑M1/1‑70 (MQ=255)                                                               ataatTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCCcagg                                                                                                                                    <  1:307573‑M1/74‑5 (MQ=255)                                                               ataatTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCCcagg                                                                                                                                    <  1:205430‑M1/74‑5 (MQ=255)                                                               ataatTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCCcagg                                                                                                                                    <  1:499050‑M1/74‑5 (MQ=255)                                                               ataatTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCCcagg                                                                                                                                    <  1:369825‑M1/74‑5 (MQ=255)                                                               ataatTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCCcagg                                                                                                                                    >  1:389094‑M1/1‑70 (MQ=255)                                                               ataatTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAcaggcgctgaaaatcctccggcaaacacctcaaaattccaacgccgtccactcaaaattccaacgc                                                                      >  1:217405‑M1/1‑70 (MQ=255)                                                               ataatTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAcagg                                                                                                                                    <  1:498583‑M1/74‑5 (MQ=255)                                                               ataatTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAcagg                                                                                                                                    <  2:286770‑M1/74‑5 (MQ=255)                                                               ataatTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAcagg                                                                                                                                    <  2:341452‑M1/74‑5 (MQ=255)                                                               ataatTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAcagg                                                                                                                                    >  1:286770‑M1/1‑70 (MQ=255)                                                               ataatTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAcagg                                                                                                                                    <  2:119971‑M1/74‑5 (MQ=255)                                                               ataatTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAcagg                                                                                                                                    >  2:498583‑M1/1‑70 (MQ=255)                                                               ataatTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAcagg                                                                                                                                    <  1:63185‑M1/74‑5 (MQ=255)                                                               ataatTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAcagg                                                                                                                                    >  2:63185‑M1/1‑70 (MQ=255)                                                               ataatTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAcagg                                                                                                                                    >  1:119971‑M1/1‑70 (MQ=255)                                                               ataatTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAcagg                                                                                                                                    >  1:341452‑M1/1‑70 (MQ=255)                                                               ataatTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAca                                                                                                                                      >  2:122842‑M1/1‑70 (MQ=255)                                                               ataatTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAca                                                                                                                                      <  1:122842‑M1/72‑3 (MQ=255)                                                                  atTAGCCCTAAACAACCGTAGTTCGTGGTTTACCGGCTAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACg                                                                   <  1:484360/136‑1 (MQ=37)                                                                     tggccgaaACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAcaggcgctgaaaatcctccggcaaacacctcaaaattcccacgccgtccactcaaaatttaaacgccgcccc                                                                >  1:95903‑M1/4‑64 (MQ=255)                                                                     tggccgaaACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAcaggcgctgaaaatcctccggcaaacacctcaaaattccaacgccgtccactcaaaattccaacgccgcccc                                                                >  2:37490‑M1/4‑64 (MQ=255)                                                                      ggccgaAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGCTCTCAcacgcgctgaaaatcctccggccaaccccacaaaattacaacgccgtccacgcaaaaatcccacgcccccccc                                                               >  1:354452‑M1/3‑63 (MQ=255)                                                                      ggccgaAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAcaggcgctgaaaatcctccggcaaacacctcaaaattccaacgccgtccactcaaaattccaacgc                                                                      <  2:133133‑M1/127‑67 (MQ=255)                                                                      ggccgaAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAcaggcgctgaaaatcctccggcaaacacctcaaaattccaacgccgtccactcaaaattccaacgc                                                                      >  1:133133‑M1/3‑63 (MQ=255)                                                                      ggccgaAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCCGGCGGCGCTCGATCTCAcaggcgcagaaaatccaccggcaaacccctcaaaattccaaacccgtccacacaaaattacaacgccgccccc                                                               >  1:68013‑M1/3‑63 (MQ=255)                                                                          caaacaaacGTAGGCGCGGGTTTACCGGCTAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGc                                                           <  1:96982/135‑1 (MQ=255)                                                                                         gCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGt                                            >  1:449313/1‑136 (MQ=255)                                                                                               ttACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAcaggcgctgaaaatcctccggcaaacacctcaaaattccaacgccgtccactcaaaattccaacgccgccccctcaaaattccaacgccgcctcccct                                      >  2:519529‑M1/1‑38 (MQ=255)                                                                                                tACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGTCTTc                                     <  2:383077/136‑1 (MQ=255)                                                                                                         aGCGCCGCGCGGGCGGCGCTCGATCTCAcaggcgctgaaaatcctccggcaaacacctcaaaattccaacgccgtccactcaaaattccaacgccgccccctcaaaattccaacgccgcctcccctcgaaaatcca                            >  1:243633‑M1/1‑28 (MQ=255)                                                                                                         aGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGTCTTCACCCAGttg                            >  1:285946/1‑135 (MQ=255)                                                                                                          gcgcCGCGCGGGCGGCGCTCGGTCTGAGCCCCTGAACGCTCGCACCGCCCGGTTCAGCTGACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGGCAATGCGCTGCAGGTTGTATTAACCCAGttag                           >  2:27779/1‑134 (MQ=255)                                                                                                                   gggcggCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGTCTTCACCCAGTTCGTGAATCcgc                  <  1:100047/136‑1 (MQ=255)                                                                                                                     gcggcgCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGTCTTCACCCAGTTCGTGAATCcgctc                <  2:400589/136‑1 (MQ=255)                                                                                                                      cggcgCTCGATCTCAcaggcgctgaaaatcctccggcaaacacctcaaaattccaacgccgtccactcaaaattccaacgccgccccctcaaaattccaacgccgcctcccctcgaaaatccaacaacaaagaccc               <  2:217405‑M1/136‑122 (MQ=255)                                                                                                                       ggcgCTCGATCTCAcaggcgctgaaaatcctccggcaaacacctcaaaattccaacgccgtccactcaaaattccaacgccgccccctcaaaattccaacgccgcctcccctcgaaaatccaacaacaaagaccct              <  1:519529‑M1/136‑123 (MQ=255)                                                                                                                             cGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGTCTTCACCCAGTTCGTGAATCCGCTCGCTGTGGt        <  2:228912/136‑1 (MQ=255)                                                                                                                                  tcAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGTCTTCACCCAGTTCGTGAATCCGCTCGCTGTGGTCACGa   >  1:577854/1‑136 (MQ=255)                                                                                                                                   cacaggcgctgaaaatcctccggcaaacacctcaaaattccaacgccgtccactcaaaattccaacgccgccccctcaaaattccaacgccgcctcccctcgaaaatccaacaacaaagaccctgcaaacccagaa  <  1:37490‑M1/136‑135 (MQ=255)                                                                                                                                    |                                                                                                                                       CAGGCGGCGCATGGCGGACTCGCGAGGTGGAACGTGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGTCTTCACCCAGTTCGTGAATCCGCTCGCTGTGGTCACGAA  >  NC_002947/652655‑652920

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.