New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 5609523	47 (0.830)	6 (0.110)	5/246	NT	12.0%	coding (75/1272 nt)	waaA	3‑deoxy‑D‑manno‑octulosonic acid transferase
	?	NC_002947	= 5609542	43 (0.800)					coding (56/1272 nt)	waaA	3‑deoxy‑D‑manno‑octulosonic acid transferase

CCATGGGTGCGGCCGCAATGCTCTCGCCCACCGATACCGCGTGTACCCAGATACCACCCTGGCGCATGGCCGGCAGCTTGAAAGCAAAGCGCTCGCCGATACGCTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAGGTAT‑AGAGAGTTCTGTTCATGGCGGCTAAGTCTACCCGATCGCGCGAAGGTGCACTGCAAAGCGCTCGGCCAGCCACTGCGCGGCCGGGCCCAGAGGTTCATCGCGGCGC  >  NC_002947/5609396‑5609687                                                                                                                                                    |                                                                                                                                                   ccATGGGTGCGGCCGCAATGCTCTCGCCCACCGATACCGCGTGTACCCAGATACCACCCTGGCGCATGGCCGGCAGCTTGAAAGCAAAGCGCTCGCCGATACGCTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAgc                                                                                                                                                  >  5:97390‑M2/1‑147 (MQ=255) ccATGGGTGCGGCCGCAATGCTCTCGCCCACCGATACCGCGTGTACCCAGATACCACCCTGGCGCATGGCCGGCAGCTTGAAAGCAAAGCGCTCGCCGATACGCTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAgc                                                                                                                                                  >  6:111050‑M2/1‑147 (MQ=255)  cATGGGTGCGGCCGCAATGCTCTCGCCCACCGATACCGCGTGTACCCAGATACCACCCTGGCGCATGGCCGGCAGCTTGAAAGCAAAGCGCTCGCCGATACGCTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAgcg                                                                                                                                                 <  8:222227‑M2/149‑4 (MQ=255)      ggTGCGGCCGCAATGCTCTCGCCCACCGATACCGCGTGTACCCAGATACCACCCTGGCGCATGGCCGGCAGCTTGAAAGCAAAGCGCTCGCCGATACGCTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAgcgcaa                                                                                                                                              >  7:268156‑M2/1‑142 (MQ=255)      ggTGCGGCCGCAATGCTCTCGCCCACCGATACCGCGTGTACCCAGATACCACCCTGGCGCATGGCCGGCAGCTTGAAAGCAAAGCGCTCGCCGATACGCTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAgcgcaa                                                                                                                                              >  3:8462‑M2/1‑142 (MQ=255)         gCGGCCGCAATGCTCTCGCCCACCGATACCGCGTGTACCCAGATACCACCCTGGCGCATGGCCGGCAGCTTGAAAGCAAAGCGCTCGCCGATACGCTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAg                                                                                                                                          <  1:168103/149‑1 (MQ=255)             ccGCAATGCTCTCGCTCACCGATACCGCGTGTACCCAGATACCACCCTGGCGCATGGCCGGCAGCTTGAAAGCAAAGCGCTCGCCGATACGCTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCgg                                                                                                                                       >  8:210609/1‑148 (MQ=255)                 aaTGCTCTCGCCCACCGATACCGCGTGTACCCAGATACCACCCTGGCGCATGGCCGGCAGCTTGAAAGCAAAGCGCTCGCCGATACGCTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGc                                                                                                                                  >  3:109452/1‑149 (MQ=255)                          gCCCACCGATACCGCGTGTACCCAGATACCACCCTGGCGCATGGCCGGCAGCTTGAAAGCAAAGCGCTCGCCGATACGCTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGa                                                                                                                          >  1:104807/1‑148 (MQ=255)                            ccACCGATACCGCGTGTACCCAGATACCACCCTGGCGCATGGCCGGCAGCTTGAAAGCAAAGCGCTCGCCGATACGCTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAAc                                                                                                                       <  5:243096/149‑1 (MQ=255)                                  aTACCGCGTGTACCCAGATACCACCCTGGCGCATGGCCGGCAGCTTGAAAGCAAAGCGCTCGCCGATACGCTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAg                                                                                                                 <  4:39498/149‑1 (MQ=255)                                     ccGCGTGTACCCAGATACCACCCTGGCGCATGGCCGGCAGCTTGAAAGCAAAGCGCTCGCCGATACGCTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAGGt                                                                                                               <  4:291347/148‑1 (MQ=255)                                         gtgtACCCAGATACCACCCTGGCGCATGGCCGGCAGCTTGAAAGCAAAGCGCTCGCCGATACGCTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAGGTAT‑aga                                                                                                         <  2:104807/149‑1 (MQ=255)                                         gtgtACCCAGATACCACCCTGGCGCATGGCCGGCAGCTTGAAAGCAAAGCGCTCGCCGATACGCTGGACGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACACGCGCAGCGCAACCAGCGGCAGCACCACGTGAAACAGCAAGGTAT‑aga                                                                                                         >  5:259492/1‑149 (MQ=255)                                            tACCCAGATACCACCCTGGCGCATGGCCGGCAGCTTGAAAGCAAAGCGCTCGCCGATACGCTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAGGTAT‑agaga                                                                                                       <  6:132728/148‑1 (MQ=255)                                                   aTACCACCCTGGCGCATGGCCGGCAGCTTGAAAGCAAAGCGCTCGCCGATACGCTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAGGTAT‑AGAGAGTTCTGtt                                                                                               <  4:109452/149‑1 (MQ=255)                                                      ccaccCTGGCGCATGGCCGGCAGCTTGAAAGCAAAGCGCTCGCCGATACGCTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAGGTAT‑AGAGAGTTCTGTTCAt                                                                                            >  3:173919/1‑149 (MQ=255)                                                       caccCTGGCGCATGGCCGGCAGCTTGAAAGCAAAGCGCTCGCCGATACGCTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAGGTAT‑AGAGAGTTCTGTTCATg                                                                                           >  3:307785/1‑149 (MQ=255)                                                       caccCTGGCGCATGGCCGGCAGCTTGAAAGCAAAGCGCTCGCCGATACGCTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAGGTAT‑AGAGAGTTCTGTTCATg                                                                                           <  3:114646/149‑1 (MQ=255)                                                        accCTGGCGCATGGCCGGCAGCTTGAAAGCAAAGCGCTCGCCGATACGCTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAGGTAT‑AGAGAGTTCTGTTCATgg                                                                                          >  5:180707/1‑149 (MQ=255)                                                         cccTGGCGCATGGCCGGCAGCTTGAAAGCAAAGCGCTCGCCGATACGCTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAGGTAT‑AGAGAGTTCTGTTCATggc                                                                                         <  5:76848/149‑1 (MQ=255)                                                          ccTGGCGCATGGCCGGCAGCTTGAAAGCAAAGCGCTCGCCGATACGCTGGCCGTAGGCCGGT‑GCCTTGCGCGTGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAGGTAT‑AGAGAGTTCTg                                                                                                 <  3:14513/140‑1 (MQ=255)                                                          ccTGGCGCATGGCCGGCAGCTTGAAAGCAAAGCGCTCGCCGATACGCTGGCCGTAGGCCGGT‑GCCTTGCGCGTGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAGGTAT‑AGAGAGTTCTg                                                                                                 >  4:14513/1‑140 (MQ=255)                                                                     gCCGGCAGCTTGAAAGCAAAGCGCTCGCCGATACGCTGGCCTTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAGGTAT‑AGAGAGTTCTGTTCATGGCGGCTAAGTCTa                                                                              <  3:189963/148‑1 (MQ=255)                                                                      ccGGCAGCTTGAAAGCAAAGCGCTCGCCGATACGCTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAGGTAT‑AGAGAGTTCTGTTCATGGCGGCTAAGTCTAcc                                                                            <  7:210609/149‑1 (MQ=255)                                                                           aGCTTGAAAGCAAAGCGCTCGCCGATACGCTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAGGTAT‑AGAGAGTTCTGTTCATGGCGGCTAAGTCTACCCGATc                                                                       >  6:173371/1‑149 (MQ=255)                                                                             cTTGAAAGCAAAGCGCTCGCCGATACGCTGGCCGTAGGCCGGTGGGCTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAGGTAT‑AGAGAGTTCTGTTCATGGCGGCTAAGTCTACCCGATcg                                                                      >  1:255482/1‑149 (MQ=255)                                                                              ttGAAAGCAAAGCGCTCGCCGATACGCTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAGGTAT‑AGAGAGTTCTGTTCATGGCGGCt                                                                                     >  6:214131/1‑132 (MQ=255)                                                                              ttGAAAGCAAAGCGCTCGCCGATACGCTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAGGTAT‑AGAGAGTTCTGTTCATGGCGGCt                                                                                     <  5:214131/132‑1 (MQ=255)                                                                                 aaagcaaagcGCTCGCCGATACGCTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAGGTAT‑AGAGAGTTCTGTTCATGGCGGCTAAGTCTACCCGATcgcgcg                                                                  <  4:46043/148‑1 (MQ=255)                                                                                  aagcaaagcGCTCGCCGATACGCTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAGGTAT‑AGAGAGTTCTGTTCATGGCGGCTAAGTCTACCCGATcgcgcg                                                                  >  5:35917/1‑147 (MQ=255)                                                                                             tCGCCGATACGCTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAAc                                                                                                                       >  1:162104/1‑84 (MQ=255)                                                                                             tCGCCGATACGCTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAAc                                                                                                                       <  2:162104/84‑1 (MQ=255)                                                                                             tCGCCGATACGCTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAGGTAT‑AGAGAGTTCTGTTCATGGCGGCTAAGTCTACCCGATCGCGCGAAGGTGCACt                                                        <  8:53519/146‑1 (MQ=255)                                                                                             tCGCCGATACGCTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAGCGAAACCAGCGGCAGGCCCAGGTGAAACAGCAAGGTAT‑AGAGAGTTCTGTTCATGGCGGCTAAGTCTACCCGATCGCGCGAAGGTGCACt                                                        >  7:53519/1‑146 (MQ=255)                                                                                               gCCGATACGCTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAGGTAT‑AGAGAGTTCTGTTCATGGCGGCTAAGTCTACCCGATCGCGCGAAGGTGCACTGCaaa                                                   <  7:222227/149‑1 (MQ=255)                                                                                                     aCGCTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAGGTAT‑AGAGAGTTCTGTTCATGGCGGCTAAGTCTACCCGATCGCGCGAAGGTGCACTGCAAAGCGCTc                                             >  8:160594/1‑149 (MQ=255)                                                                                                       gCTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAGGGAT‑AGAGAGTTCTGTTCATGGCGGCTAAGTCTACCCGATCGCGCGAAGGTGCACTGCAAAGCGCTCgg                                           >  3:347684/1‑149 (MQ=255)                                                                                                        cTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAGGTAT‑AGAGAGTTCTGTTCATGGCGGCTAAGTCTACCCGATCGCGCGAAGGTGCACTGCAAAGCGCTCGgc                                          <  6:180707/149‑1 (MQ=255)                                                                                                                    cGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAGGTAT‑AGAGAGTTCTGTTCATGGCGGCTAAGTCTACCCGATCGCGCGAAGGTGCACTGCAAAGCGCTCGGCCAGCCACTgc                                <  2:223760/147‑1 (MQ=255)                                                                                                                    cGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAGGTAT‑AGAGAGTTCTGTTCATGGCGGCTAAGTCTACCCGATCGCGCGAAGGTGCACTGCAAAGCGCTCGGCCAGCCACTgc                                >  1:223760/1‑147 (MQ=255)                                                                                                                           cTTGCTCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAg                                                                                                                 <  3:25736/61‑1 (MQ=255)                                                                                                                           cTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAg                                                                                                                 >  4:25736/1‑61 (MQ=255)                                                                                                                           cTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAGGTAT‑AGAGAGTTCTGTTCATGGCGGCTAAGTCTACCCGATCGCGCGAAGGTGCACTGCAAAGCGCTCGGCCAGCCACTGCGCGGc                           <  7:51421/146‑1 (MQ=255)                                                                                                                           cTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAGGTAT‑AGAGAGTTCTGTTCATGGCGGCTAAGTCTACCCGATCGCGCGAAGGTGCACTGCAAAGCGCTCGGCCAGCCACTGCGCGGc                           >  8:51421/1‑146 (MQ=255)                                                                                                                            ttGCGCGCGCGCAGATACAGGCGCAgcgcaaggcaccggcctacggccagcgtatcggcgagcgctttgctttcaagctgccggccatgcgccagggtggtatctgggtacacgcggtatcggtgggcgaga                                         >  5:195854‑M2/1‑25 (MQ=255)                                                                                                                            ttGCGCGCGCGCAGATACAGGCGCAgcgcaaggcaccggcctacggccagcgtatcggcgagcgctttgctttcaagctgccggccatgcgccagggtggtatctgggtacacgcggtatcggtgggcgaga                                         <  6:195854‑M2/132‑108 (MQ=255)                                                                                                                            ttGCGCGCGCGCAGATACAGGCGCAgcgcaaggcaccggcctacggccagcgtatcggcgagcgctttgctttcaagctgccggccatgcgccagggtggtatctgg                                                                  >  2:181702‑M2/1‑25 (MQ=255)                                                                                                                            ttGCGCGCGCGCAGATACAGGCGCAgcgcaaggcaccggcctacggccagcgtatcggcgagcgctttgctttcaagctgccggccatgcgccagggtggtatctgg                                                                  <  1:181702‑M2/107‑83 (MQ=255)                                                                                                                            ttGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAGGTAT‑AGAGAGTTCTGTTCATGGCGGCTAAGTCTACCCGATCGCGCGAAGGTGCACTGCAAAGCGCTCGGCCAGCCACTGCGCGGCCggg                       >  5:371266/1‑149 (MQ=255)                                                                                                                                  gcgcgcAGATACAGGCGCAgcgcaaggcaccggcctacggccagcgtatcggcgagcgctttgctttcaagctgccggccatgcgccagg                                                                             <  8:59978‑M2/90‑72 (MQ=255)                                                                                                                                  gcgcgcAGATACAGGCGCAgcgcaaggcaccggcctacggccagcgtatcggcgagcgctttgctttcaagctgccggccatgcgccagg                                                                             >  7:59978‑M2/1‑19 (MQ=255)                                                                                                                                  gcgcgcAGATACAGGCGCAGCGCAACCACCGGCAGGCCCAGGTGAAACAGCAAGGTAT‑AGAGAGTTCTGTTCATGGCGGCTAAGTCTACCCGATCGCGCGAAGGTGCACTGCAAAGCGCTCGGCCAGCCACTGCGCGGCCGGGCCCaga                 <  4:186848/149‑1 (MQ=255)                                                                                                                                          aTACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAGGTATCAGAGAGTTCTGTTCATGGCGGCTAAGTCTACCCGATCGCGCGAAGGTGCACTGCAAAGCGCTCGGCCAGCCACTGCGCGGCCGGGCCCAGAGGTTCAt          >  1:89296/1‑149 (MQ=255)                                                                                                                                             cAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAGGTAT‑AGAGAGTTCTGTTCATGGCGGCTAAGTCTACCCGATCGCGCGAAGGTGCACTGCAAAGCGCTCGGCCAGCCACTGCGCGGCCGGGCCCAGAGGTTCATcgcg      <  5:173371/149‑1 (MQ=255)                                                                                                                                                gcgcagcgcaACCAGCGGCAGGCCCAGGTGAAACAGCAAGGTAT‑AGAGAGTTCTGTTCATGGCGGCTAAGTCTACCCGATCGCGCGAAGGTGCACTGCAAAGCGCTCGGCCAGCCACTGCGCGGCCGGGCCCAGAGGTTCATCgcggcg   <  6:35917/149‑1 (MQ=255)                                                                                                                                                 cgcagcgcaACCAGCGGCAGGCCCAGGTGAAACAGCAAGGTAT‑AGAGAGTTCTGTTCATGGCGGCTAAGTCTACCCGATCGCGCGAAGGTGCACTGCAAAGCGCTCGGCCAGCCACTGCGCGGCCGGGCCCAGAGGTTCATCGCGgcgc  <  4:173919/149‑1 (MQ=255)                                                                                                                                                    |                                                                                                                                                   CCATGGGTGCGGCCGCAATGCTCTCGCCCACCGATACCGCGTGTACCCAGATACCACCCTGGCGCATGGCCGGCAGCTTGAAAGCAAAGCGCTCGCCGATACGCTGGCCGTAGGCCGGT‑GCCTTGCGCGCGCGCAGATACAGGCGCAGCGCAACCAGCGGCAGGCCCAGGTGAAACAGCAAGGTAT‑AGAGAGTTCTGTTCATGGCGGCTAAGTCTACCCGATCGCGCGAAGGTGCACTGCAAAGCGCTCGGCCAGCCACTGCGCGGCCGGGCCCAGAGGTTCATCGCGGCGC  >  NC_002947/5609396‑5609687

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.