New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 652782	52 (0.780)	16 (0.280)	15/240	4.2	41.2%	coding (1961/1962 nt)	ctpL	methyl‑accepting chemotaxis protein CtpL
	?	NC_002947	= 4808159	1 (0.020)					intergenic (‑268/‑287)	PP_4234/dsbD‑II	bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2
Rejected: Coverage evenness skew score above cutoff.

GGAACAGCATGAAAAACAGGCGGCGCATGGCGGACTCGCGAGGTGGAACGTGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGTCTTCACCC‑AGTTCGTGAATCCGCTCGCTGTGGTCACGAATCTCGCT  >  NC_002947/652636‑652924                                                                                                                                                    |                                                                                                                                                ggAACAGCATGAAAAACAGGCGGCGCATGGCGGACTCGCGAGGTGGAACGTGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑Ca                                                                                                                                                <  3:125007/148‑1 (MQ=255)    aCAGCATGAAAAACAGGCGGCGCATGGCGGACTCGCGAGGTGGAACGTGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGAcc                                                                                                                                            <  2:380016/149‑1 (MQ=255)        cATGAAAAACAGGCGGCGCATGGCGGACTCGCGAGGTGGAACGTGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTg                                                                                                                                         >  1:89358/1‑148 (MQ=255)          tGAAAAACAGGCGGCGCATGGCGGACTCGCGAGGTGGAACGTGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCt                                                                                                                                          <  3:116189/145‑1 (MQ=255)          tGAAAAACAGGCGGCGCATGGCGGACTCGCGAGGTGGAACGTGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCt                                                                                                                                          >  4:116189/1‑145 (MQ=255)          tGAAAAACAGGCGGCGCATGGCGGACTCGCGAGGTGGAACGTGCCCGGCATGATAACGCATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAAc                                                                                                                                      >  6:188749/1‑149 (MQ=255)            aaaaaCAGGCGGCGCATGGCGGACTCGCGAGGTGGAACGTGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGc                                                                                                                                    <  7:259033/149‑1 (MQ=255)             aaaaCAGGCGGCGCATGGCGGACTCGCGAGGTGGAACGTGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGc                                                                                                                                    <  2:320941/148‑1 (MQ=255)              aaaCAGGCGGCGCATGGCGGACTCGCGAGGTGGAACGTGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTc                                                                                                                                  <  2:375180/149‑1 (MQ=255)                         gcATGGCGGACTCGCGAGGTGGAACGTGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCgg                                                                                                                       <  1:392824/149‑1 (MQ=255)                         gcATGGCGGACTCGCGAGGTGGAACGTGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCgg                                                                                                                       >  2:59514/1‑149 (MQ=255)                               cGGACTCGCGAGGTGGAACGTGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGc                                                                                                                 >  8:50587/1‑149 (MQ=255)                                           gTGGAACGTGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAgg                                                                                                     <  3:289723/149‑1 (MQ=255)                                                   tGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTcagcag                                                                                             >  1:211824/1‑149 (MQ=255)                                                     cccGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCt                                                                                           >  3:378601/1‑149 (MQ=255)                                                       cGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGt                                                                                         <  7:50587/149‑1 (MQ=255)                                                         gCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTc                                                                                       <  2:81213/149‑1 (MQ=255)                                                                  cGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGtt                                                                               >  5:208124/1‑148 (MQ=255)                                                                   ggATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCCAGACCCTGAACGCTCGCACCGCCCgg                                                                                                                       <  1:4688/108‑1 (MQ=255)                                                                   ggATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCgg                                                                                                                       >  2:4688/1‑107 (MQ=255)                                                                    gATGCGCATGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGTCTCAGCAGCTGTTCACCCTGTTTAc                                                                            <  4:373880/149‑1 (MQ=255)                                                                      tGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGc                                                                          <  2:89358/149‑1 (MQ=255)                                                                      tGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGc                                                                          <  8:19422/149‑1 (MQ=255)                                                                        cgcAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGccc                                                                        >  7:365930/1‑149 (MQ=255)                                                                         gcAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGccc                                                                        >  8:158868/1‑148 (MQ=255)                                                                         gcAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTAGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGccc                                                                        >  4:279152/1‑148 (MQ=255)                                                                             gAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGTGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGc                                                                   <  5:55994/149‑1 (MQ=255)                                                                                     ggCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATgcg                                                            <  1:388382/148‑1 (MQ=255)                                                                                        ccGAAACAAACGTAGGAGCGGGGTTACGCGCGAAGCGGCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGc                                                        <  7:360016/149‑1 (MQ=255)                                                                                          gAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGt                                                                                         >  5:366977/1‑114 (MQ=255)                                                                                          gAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGt                                                                                         <  6:366977/114‑1 (MQ=255)                                                                                            aacaaacGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGt                                                    >  3:384703/1‑149 (MQ=255)                                                                                               aaacGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCACCTGTTCCCCCTGTTTACGCCCCACGCCAATGCGCTGCAGGTTGt                                                 >  1:109299/1‑149 (MQ=255)                                                                                                   gTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGTCtt                                              >  7:36127/1‑148 (MQ=255)                                                                                                      ggAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGTCTTCAcc                                          <  4:378601/149‑1 (MQ=255)                                                                                                      ggAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGTCTTCAcc                                          <  6:208124/149‑1 (MQ=255)                                                                                                       gAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGTCTTCAcc                                          >  3:351913/1‑148 (MQ=255)                                                                                                          cGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGTCTTCACCC‑AGt                                     <  8:365930/149‑1 (MQ=255)                                                                                                            ggTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGTCTTCACCC‑AGTTc                                   >  4:61133/1‑149 (MQ=255)                                                                                                            ggTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGTCTTCACCC‑AGTTc                                   <  2:211824/149‑1 (MQ=255)                                                                                                              tttACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGTCTTCACCC‑AGTTCGt                                 <  5:188749/149‑1 (MQ=255)                                                                                                                  cccGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGTCTTCACCC‑AGTTCGTGAAt                             >  4:44943/1‑149 (MQ=255)                                                                                                                   ccGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCTCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGTCTTCACCC‑AGTTCGTGAATc                            >  1:104135/1‑149 (MQ=255)                                                                                                                     gcgAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTa                                                                             <  4:294850/99‑1 (MQ=255)                                                                                                                     gcgAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTa                                                                             >  3:294850/1‑99 (MQ=255)                                                                                                                      cgAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGTCTTCACCC‑AGTTCGTGAATCcgc                         >  3:350583/1‑149 (MQ=255)                                                                                                                         aGCGCCGCCCGCGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGTCTTCACCC‑AGTTCGTGAATCcgctcg                      >  6:144995/1‑149 (MQ=255)                                                                                                                             ccgcGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGTCTTCACCC‑AGTTCGTGAATCCGCTCGCtgt                  >  8:75555/1‑149 (MQ=255)                                                                                                                                cgcgGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGTCTTCACCC‑AGTTCGTGAATCCGCTCGCTGTGGt               <  4:384703/149‑1 (MQ=255)                                                                                                                                     gcggcgCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGTCTTCACCC‑AGTTCGTGAATCCGCTCGCTGTGGTCACg           >  7:16012/1‑148 (MQ=255)                                                                                                                                           cTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGTCTTCACCCAAGTTCGTGAATCCGCTCGCTGTGGTCACGAAtctc     <  1:59514/149‑1 (MQ=255)                                                                                                                                              gATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGTCTTCACCC‑AGTTCGTGAATCCGCTCGCTGTGGTCACGAATCTCGCt  <  7:158868/148‑1 (MQ=255)                                                                                                                                                    |                                                                                                                                                GGAACAGCATGAAAAACAGGCGGCGCATGGCGGACTCGCGAGGTGGAACGTGCCCGGCATGATAACGGATGCGCAGGAATAATTGGCCCGAAACAAACGTAGGAGCGGGTTTACCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCT‑CAGACCCTGAACGCTCGCACCGCCCGGTTCAGCTCACCGCCCAGGCTCAGCAGCTGTTCACCCTGTTTACGCCCCTCGCCAATGCGCTGCAGGTTGTCTTCACCC‑AGTTCGTGAATCCGCTCGCTGTGGTCACGAATCTCGCT  >  NC_002947/652636‑652924

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.