New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 5618172	42 (0.760)	4 (0.070)	4/248	NT	8.3%	coding (480/1176 nt)	wzy	O‑antigen polymerase
	?	NC_002947	= 5618204	48 (0.890)					coding (448/1176 nt)	wzy	O‑antigen polymerase

CAGAACCGCACCACGGCTCTGGCTGAGCATGGCGAAGGCCCCCAGGCAAGCCAGTGCCGCCAGCCACAACAACTGCAAGCCACGTCGCCGAGGTGGCTCGTAGAGCATCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGCCTGAACAGCAAAGGCGCACGCTGCACCCCATAGAACTTGATGATGGAGACCAACGCAGCGATGGCCAGCAGCGCGCTGCCAAGCAGCAATAACTGACGAATGCGGGCTTGGCC  >  NC_002947/5618028‑5618318                                                                                                                                                 |                                                                                                                                                   cAGAACCGCACCACGGCTCTGGCTGAGCATGGCGAAGGCCCCCAGGCAAGCCAGTGCCGCCAGCCACAACAACTGCAAGCCACGTCGCCGAGGTGGCTCGTAGAGCATCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGGATgg                                                                                                                                                <  3:347472/149‑1 (MQ=255)  aGAACCGCACCACGGCTCTGGCTGAGCATGGCGAAGGCCCCCAGGCAAGCCAGTGCCGCCAGCCACTGCAACAGCAAGCCCCCTCGCCCAGGTGGCGCGTATAGCCTCAAGACCCAGGCCGCCCCCATGTCAAAAGCCCCCAGGATggg                                                                                                                                               >  1:285782/1‑149 (MQ=255)  aGAACCGCACCACGGCTCTGGCTGAGCATGGCGAAGGCCCCCAGGCAAGCCAGTGCCGCCAGCCACAACAACTGCAAGCCACGTCGCCGAGGTGGCTCGTAGAGCATCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGGATggg                                                                                                                                               >  1:272641/1‑149 (MQ=255)      ccGCACCACGGCTCTGGCTGAGCATGGCGAAGGCCCCCAGGCAAGCCAGTGCCGCCAGCCACAACAACTGCAAGCCACGTCGCCGAGGTGGCTCGTAGAGCATCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGGATGGGGTgg                                                                                                                                           <  3:74592/149‑1 (MQ=255)          accacGGCTCTGGCTGAGCATGGCGAAGGCCCCCAGGCAAGCCAGTGCCGCCAGCCACAACAACTGCAAGCCACGTCGCCGAGGTGGCTCGTAGAGCATCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGGATGGGGTGGGata                                                                                                                                       <  3:222427/149‑1 (MQ=255)            cacGGCTCTGGCTGAGCATGGCGAAGGCCCCCAGGCAAGCCAGTGCCGCCAGCCACAACAACTGCAAGCCACGTCGCCGAGGTGGCTCGTAGAGCATCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGGATGGGGTGGGATAtc                                                                                                                                     >  4:16920/1‑149 (MQ=255)            cacGGCTCTGGCTGAGCATGGCGAAGGCCCCCAGGCAAGCCAGTGCCGCCAGCCACAACAACTGCAAGCCACGTCGCCGAGGTGGCTCGTAGAGCATCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGGATGGGGTGGGATAtc                                                                                                                                     >  2:151535/1‑149 (MQ=255)                      gCTGAGCATGGCGAAGGCCCCCAGGCAAGCCAGTGCCGCCAGCCACAACAACTGCAAGCCACGTCGCCGAGGTGGCTCGTAGAGCATCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGGATGGGGTGGGATATCTCGCCGAt                                                                                                                             <  2:272641/147‑1 (MQ=255)                      gCTGAGCATGGCGAAGGCCCCCAGGCAAGCCAGTGCCGCCAGCCACAACAACTGCAAGCCACGTCGCCGAGGTGGCTCGTAGAGCATCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGGATGGGGTGGGATATCTCGCCGATAc                                                                                                                           >  3:138910/1‑149 (MQ=255)                      gCTGAGCATGGCGAAGGCCCCCAGGCAAGCCAGTGCCGCCAGCCACAACAACTGCAAGCCACGTCGCCGAGGTGGCTCGTAGAGCATCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGG                                                                                                                                                    <  8:29337‑M1/124‑1 (MQ=255)                      gCTGAGCATGGCGAAGGCCCCCAGGCAAGCCAGTGCCGCCAGCCACAACAACTGCAAGCCACGTCGCCGAGGTGGCTCGTAGAGCATCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGG                                                                                                                                                    >  7:29337‑M1/1‑124 (MQ=255)                        tGAGCATGGCGAAGGCCCCCAGGCAAGCCAGTGCCGCCAGCCACAACAACTGCAAGCCACGTCGCCGAGGTGGCTCGTAGAGCATCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGGATGGGGt                                                                                                                                             <  8:310071/129‑1 (MQ=255)                        tGAGCATGGCGAAGGCCCCCAGGCAAGCCAGTGCCGCCAGCCACAACAACTGCAAGCCACGTCGCCGAGGTGGCTCGTAGAGCATCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGGATGGGGt                                                                                                                                             >  7:310071/1‑129 (MQ=255)                            cATGGCGAAGGCCCCCAGGCAAGCCAGTGCCGCCAGCCACAACAACTGCAAGTCACGTCGCCGAGGTGGCTCGTAGAGCATCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGGATGGGGTGGGATATCTCGCCGATACCCGCCa                                                                                                                     <  7:171750/149‑1 (MQ=255)                            cATGGCGAAGGCCCCCAGGCAAGCCAGTGCCGCCAGCCACAACAACTGCAAGCCACGTCGCCGAGGTGGCTCGTAGAGCATCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGGATGGGGTGGGATATCTCGCCGATACCCGCCa                                                                                                                     <  4:138910/149‑1 (MQ=255)                                gCGAAGGCCCCCAGGCAAGCCAGTGCCGCCAGCCACAACAACTGCAAGCCACGTCGCCGAGGTGGCTCGTAGAGCATCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGcct                                                                                                                 <  7:82732‑M2/149‑4 (MQ=255)                                        ccccAGGCAAGCCAGTGCCGCCAGCCACAACAACTGCAAGCCACGTCGCCGAGGTGGCTCGTAGAGCATCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGCCTGAACAGCa                                                                                                         <  6:91301/149‑1 (MQ=255)                                                aaGCCAGTGCCGCCAGCCACAACAACTGCAAGCCACGTCGCCGAGGTGGCTCGTAGAGCATCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGGctggcgggtatcggcgagatatcccaccccatcctgggg                                                                                                             >  3:5589‑M1/1‑98 (MQ=255)                                                aaGCCAGTGCCGCCAGCCACAACAACTGCAAGCCACGTCGCCGAGGTGGCTCGTAGAGCATCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGGctggcgggtatcggcgagatatcccaccccatcctgggg                                                                                                             <  4:5589‑M1/137‑40 (MQ=255)                                                   ccAGTGCCGCCAGCCACAACAACTGCAAGCCACGTCGCCGAGGTGGCTCGTAGAGCATCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGGctggcgggtatcggcgagatatcccaccccatcctgg                                                                                                               <  6:245635‑M1/132‑38 (MQ=255)                                                   ccAGTGCCGCCAGCCACAACAACTGCAAGCCACGTCGCCGAGGTGGCTCGTAGAGCATCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGGctggcgggtatcggcgagatatcccaccccatcctgg                                                                                                               >  5:245635‑M1/1‑95 (MQ=255)                                                   ccAGTGCCGCCAGCCACAACAACTGCAAGCCACGTCGCCGAGGTGGCTCGTAGAGCATCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGCCTGAACAGCAAAGGCGCACGc                                                                                              >  4:137821/1‑149 (MQ=255)                                                            ccagccaCAACAACTGCAAGCCACGTCGCCGAGGTGGCTCGTAGAGCATCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGCCTGAACAGCAAAGGCGCACGCTGCACCCCa                                                                                     <  3:16920/149‑1 (MQ=255)                                                                  acaacaACTGCAAGCCACGTCGCCGAGGTGGCTCGTAGAGCATCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGCCTGAACAGCAAAGGCGCACGCTGCACCCCATAGAAc                                                                               >  4:203655/1‑149 (MQ=255)                                                                  acaacaACTGCAAGCCACGTCGCCGAGGTGGCTCGTAGAGCATCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGCCTGAACAGCAAAGGCGCACGCTGCACCCCATAGAAc                                                                               >  4:337003/1‑149 (MQ=255)                                                                   caacaaCTGCAAGCCACGTCGCCGAGGTGGCTCGTAGAGCATCAAGAGCAAGGCCGAACCAATGAAATAAGCCCCCAGGATGGGGTGGGATATCTCGCCCATACACGCCAGCCTGAACAGCAAACTCGCACGCTGCTCACCATAGAACt                                                                              >  1:303638/1‑149 (MQ=255)                                                                      caacTGCAAGCCACGTCGCCGAGGTGGCTCGTAGAGCATCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGCCTGAACAGCAAAGGCGCACGCTGCACCCCATAGAACTtga                                                                           >  3:136777/1‑149 (MQ=255)                                                                       aacTGCAAGCCACGTCGCCGAGGTGGCTCGTAGAGCATCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGCCTGAACAGCAAAgg                                                                                                     >  1:156426/1‑122 (MQ=255)                                                                       aacTGCAAGCCACGTCGCCGAGGTGGCTCGTAGAGCATCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGCCTGAACAGCAAAgg                                                                                                     <  2:156426/122‑1 (MQ=255)                                                                            cAAGCCACGTCGCCGAGGTGGCTCGTAGAGCATCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGCCTGAACAGCAAAGGCGCACGCTGCACCCCATAGAACTTGatgatg                                                                      <  8:82732/148‑1 (MQ=255)                                                                             aaGCCACGTCGCCGAGGTGGCTCGTAGAGCATCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGCCTGAACAGCAAAGGCGCACGCTGCACCCCATAGAACTTGATGATGga                                                                    <  3:203655/149‑1 (MQ=255)                                                                                         cGAGGTGGCTCGTAGAGCATCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGCCTGAACAGCAAAGGCGCACGCTGCACCCCATAGAACTTGATGATGGAGACCAACGCAGc                                                        >  3:235355/1‑149 (MQ=255)                                                                                                  tCGTAGAGCATCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGCCTGAACAGCAAAGGCGCACGCTGCACCCCATAGAACTTGATGATGGAGACCAACGCAGCGATGGCcag                                               >  5:290056/1‑149 (MQ=255)                                                                                                  tCGTAGAGCATCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCACGATGGGGTGGGATATCTCGCCGATACCCGCCAGCCTGAACAGCAAAGGCGCACGCTGCACCCCATAGAACTTGATGATGGAGACCAACGCAGCGATGGCcag                                               >  8:325585/1‑149 (MQ=255)                                                                                                     tAGAGCATCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGCCTGAACAGCAAAGGCGCACGCTGCACCCCATAGAACTTGATGATGGAGACCAACGCAGCGATGGCcagcag                                            >  2:67836/1‑149 (MQ=255)                                                                                                            tCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGCCTGAACAGCAAAGGCGCACGCTGCACCCCATAGAACTTGATGATGGAGACCAACGCAGCGATGGCCAGCAGCGCGCTg                                     <  4:235355/149‑1 (MQ=255)                                                                                                             cAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGCCTGAACAGCAAAGGCGCACGCTGCACCCCATAGAACTTGATGATGGAGACCAACGCAGCGATGGCCAGCAGCGCGCTGc                                    >  1:318839/1‑149 (MQ=255)                                                                                                               agagCAAGGCCGAACCAATGACATAAGCCCCCAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGCCTGAACAGCAAAGGCGCACGCTGCACCCCATAGAACTTGATGATGGAGACCAACGCAGCGATGGCCAGCAGCGCGCTGcc                                   >  8:63013/1‑148 (MQ=255)                                                                                                                gagCAAGGCCGAACCAATGACATAAGCCCCCAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGCCTGAACAGCAAAGGCGCACGCTGCACCCCATAGAACTTGATGATGGAGACCAACGCAGCGATGGCCAGCAGCGCGCTGCCaa                                 <  1:151535/149‑1 (MQ=255)                                                                                                                  gCAAGGCCGAACCAATGACATAAGCCCCCAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGCCTGAACAGCAAAGGCGCACGCTGCACCCCATAGAACTTGATGATGGAGACCAACGCAGCGATGGCCAGCAGCGCGCTGCCAagc                               <  3:337003/149‑1 (MQ=255)                                                                                                                   cAAGGCCGAACCAATGACATAAGCCCCCAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGCCTGAACAGCAAAGGCGCACGCTGCACCCCATAGAACTTGATGATGGAGACCAACGCAGCGATGGCCAGCAGCGCGCTGCCAagca                              <  1:67836/149‑1 (MQ=255)                                                                                                                   cAAGGCCGAACCAATGACATAAGCCCCCAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGCCTGAACAGCAAAGGCGCACGCTGCACCCCATAGAACTTGATGATGGAGACCAACGCAGCGATGGCCAGCAGCGCGCTGCCAag                                >  6:29293/1‑147 (MQ=255)                                                                                                                   cAAGGCCGAACCAATGACATAAGCCCCCAGGATGGGGTGGGATATCTCCCCGATACCCGCCAGCCTGAACAGCAAAGGCGCACGCTGCACCCCATAGAACTTGATGATGGAGACCAACGCAGCGATGGCCAGCAGCGCGCTGCCAagca                              >  5:96660/1‑149 (MQ=255)                                                                                                                      ggCCGAACCAATGACATAAGCCCCCAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGCCTGAACAGCAAAGGCGCACGCTGCACCCCATAGAACTTGATGATGGAGACCAACGCAGCGATGGCCAGCAGCGCGCTGCCAAgcagca                           <  3:137821/149‑1 (MQ=255)                                                                                                                         cGAACCAATGACATAAGCCCCCAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGCCTGAACAGCAAAGGCGCACGCTGCACCCCATAGAACTTGATGATGGAGACCAACGCAGCGATGGCCAGCAGCGCGCTGCCAAGCAGCAAt                         >  4:215042/1‑148 (MQ=255)                                                                                                                           aaCCAATGACATAAGCCCCCAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGCCTGAACAGCAAAGGCGCACGCTGCACCCCATAGAACTTGATGATGGAGACCAACGCAGCGATGGCCAGCAgcgcg                                        <  4:352055/131‑1 (MQ=255)                                                                                                                           aaCCAATGACATAAGCCCCCAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGCCTGAACAGCAAAGGCGCACGCTGCACCCCATAGAACTTGATGATGGAGACCAACGCAGCGATGGCCAGCAgcgcg                                        >  3:352055/1‑131 (MQ=255)                                                                                                                               aaTGACATAAGCCCCCAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGCCTGAACAGCAAAGGCGCACGCTGCACCCCATAGAACTTGATGATGGAGACCAACGCAGCGATGGCCAGCAGCGCGCTGCCAAGCAGCAATAACTGAc                  >  3:5325/1‑149 (MQ=255)                                                                                                                               aaTGACATAAGCCCCCAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGCCTGAACAGCAAAGGCGCACGCTGCACCCCATAGAACTTGATGATGGAGACCAACGCAGCGATGGCCAGCAGCGCGCTGCCAAGCAGCAATAACTGAc                  >  5:188475/1‑149 (MQ=255)                                                                                                                                       aaGCCCCCAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGCCTGAACAGCAAAGGCGCACGCTGCACCCCATAGAACTTGATGATGGAGACCAACGCAGCGATGGCCAGCAGCGCGCTGCCAAGCAGCAAt                         <  6:181143/134‑1 (MQ=255)                                                                                                                                       aaGCCCCCAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGCCTGAACAGCAAAGGCGCACGCTGCACCCCATAGAACTTGATGATGGAGACCAACGCAGCGATGGCCAGCAGCGCGCTGCCAAGCAGCAAt                         >  5:181143/1‑134 (MQ=255)                                                                                                                                           ccccAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGcctgggggcttatgtcattggttcggccttgctcttgatgctctacgagccacctcggcgacgtggcttgcagttgttgtggctggcggcactggctt                  <  4:5589‑M2/137‑99 (MQ=255)                                                                                                                                           ccccAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGcctgggggcttatgtcattggttcggccttgctcttgatgctctacgagccacctcggcgacgtggcttgcagttgttgtggctggcggcactggctt                  >  3:5589‑M2/1‑39 (MQ=255)                                                                                                                                           ccccAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGCCTGAACAGCAAAGGCGCACGCTGCACCCCATAGAACTTGATGATGGAGACCAACGCAGCGATGGCCAGCAGCGCGCTGCCAAGCAGCAATAACTGACGAATGCGGGCtt      >  3:23331/1‑149 (MQ=255)                                                                                                                                             ccAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGcctgggggcttatgtcattggttcggccttgctcttgatgctctacgagccacctcggcgacgtggcttgcagttgttgtggctggcggcactgg                     <  6:245635‑M2/132‑96 (MQ=255)                                                                                                                                             ccAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGcctgggggcttatgtcattggttcggccttgctcttgatgctctacgagccacctcggcgacgtggcttgcagttgttgtggctggcggcactgg                     >  5:245635‑M2/1‑37 (MQ=255)                                                                                                                                             ccAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGCCTGAACAGCAAAGGCGCACGCTGCACCCCATAGAACTTGATGATGGAGACCAACGCAGCGATGGCCAGCAGCGCGCTGCCAAGCAGCAATAACTGACGAATGCGGGCTTgg    <  3:215042/149‑1 (MQ=255)                                                                                                                                               aGGctggcgggtatcggcgagatatcccaccccatcctgggggcttatgtcattggttcggccttgctcttgatgctctacgagccacctcggcgacgtggcttgcagttgttgtggctggcggcactggcttgcctgggggccttcgc  <  7:82732‑M1/149‑147 (MQ=255)                                                                                                                                                 gATGGGGTGGGATATCTCGCCGATACCCGCCAGCCTGAACAGCAAAGGCGCACGCTGCACCCCATAGAACTTGATGATGGAGACCAACGCAGCGATGGCCAGCAGCGCGCTGCCAAGCAGCAATAACTGACGAATGCGGGCtt      >  6:220178/1‑143 (MQ=255)                                                                                                                                                 gATGGGGTGGGATATCTCGCCGATACCCGCCAGCCTGAACAGCAAAGGCGCACGCTGCACCCCATAGAACTTGATGATGGAGACCAACGCAGCGATGGCCAGCAGCGCGCTGCCAAGCAGCAATAACTGACGAATGCGGGCtt      <  5:220178/143‑1 (MQ=255)                                                                                                                                                 |                                                                                                                                                   CAGAACCGCACCACGGCTCTGGCTGAGCATGGCGAAGGCCCCCAGGCAAGCCAGTGCCGCCAGCCACAACAACTGCAAGCCACGTCGCCGAGGTGGCTCGTAGAGCATCAAGAGCAAGGCCGAACCAATGACATAAGCCCCCAGGATGGGGTGGGATATCTCGCCGATACCCGCCAGCCTGAACAGCAAAGGCGCACGCTGCACCCCATAGAACTTGATGATGGAGACCAACGCAGCGATGGCCAGCAGCGCGCTGCCAAGCAGCAATAACTGACGAATGCGGGCTTGGCC  >  NC_002947/5618028‑5618318

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.