New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	5617548 =	60 (1.000)	3 (0.050)	3/252	NT	5.3%	coding (1104/1176 nt)	wzy	O‑antigen polymerase
	?	NC_002947	5617594 =	49 (0.850)					coding (1058/1176 nt)	wzy	O‑antigen polymerase

GGTGTTTCGGCCATTATCGAGCTCGCTGTTCAGGTTGAACCGGCAATTTTACCACAGGCGTCATTTTCGGCACGCCCCCATGGCAGCAACATGGCAAGGCCCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGACCCAGAAGCCCAGCAGGACCTTGCCGAACAGGGTGCCGCGGGCGCGCACGATTTCGCCCAGCGTGAACAGCCACACCATTACCCACAGCAACATGCCGGGCAAGC  >  NC_002947/5617447‑5617738                                                                                                                                                    |                                                                                                                                                 attctcgaaatcgtgcgcgcccgcggcaccctgttcggcaaggtcctgctgggcttctgggtctactcgaccctggccatgcagttcgatgccgccagcctCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGAg                                                                                                                                                 >  7:87733‑M1/102‑149 (MQ=255)        cGGCCATTATCGAGCTCGGTGTTCAGGTTGAACAGGCAATTTTACAACAGGCGTCATTATCGGCACTCCCCCATGGCATCAACATGGCAAGGCCCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTgga                                                                                                                                           <  8:63755/148‑2 (MQ=255)        cGGCCATTATCGAGCTCGCTGTTCAGGTTGAACCGGCAATTTTACCACAGGCGTCATTTTCGGCACGCCCCCATGGCAGCAACATGGCAAGGCCCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTggc                                                                                                                                           <  2:119492/148‑1 (MQ=255)           tcgtgcgcgcccgcggcaccctgttcgggaaggtcctgctgggcttctgggtctactcgaccctggccatgcagttcgatgccgccagcctCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGa                                                                                                                                                  <  1:216222‑M1/47‑1 (MQ=255)           tcgtgcgcgcccgcggcaccctgttcggcaaggtcctgctgggcttctgggtctactcgaccctggccatgcagttcgatgccgccagcctCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGa                                                                                                                                                  >  2:216222‑M1/92‑138 (MQ=255)                      cTCGCTGTTCAGGTTGAACCGGCAATTTTACCACAGGCGTCATTTTCGGCACGCCCCCATGGCAGCAACATGGCAAGGCCCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCAt                                                                                                                            <  3:121198/149‑1 (MQ=255)                         gCTGTTCAGGTTGAACCGGCAATTTTACCACAGGCGTCATTTTCGGCACGCCCCCATGGCAGCAACATGGCAAGGCCCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGc                                                                                                                         <  3:25662/149‑1 (MQ=255)                             ttCAGGTTGAACCGGCAATTTTACCACAGGCGTCATTTTCGGCACGCCCCCATGGCAGCAACATGGCAAGGCCCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAgg                                                                                                                     >  8:50550/1‑149 (MQ=255)                                  gTTGAACCGGCAATTTTACCACAGGCGTCATTTTCGGCACGCCCCCATGGCAGCAACATGGCAAGGCCCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTc                                                                                                                  >  7:122046/1‑147 (MQ=255)                                  gTTGAACCGGCAATTTTACCACAGGCGTCATTTTCGGCACGCCCCCATGGCAGCAACATGGCAAGGCCCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGa                                                                                                                <  3:50327/149‑1 (MQ=255)                                     gAACCGGCAATTTTACCACAGTCGTCATTTTCGGCACGCCACCATGGCAGCAACATGGCAAGGCCCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGt                                                                                                              <  2:118827/148‑1 (MQ=255)                                       agcGGAAATTTTACCACAGGCGTCAATTTCGGCACGCCCCCATGGCAGCAACAAGGAAAGGCCCACCGGCCGCCAGCAGATGAACCATTCGGCACGTGGCGTACAGGTGAGGCTGGCGGCATCGAACTGCCGTGCCAGGGTCGAGTAgc                                                                                                           >  8:236664/3‑148 (MQ=255)                                       aCCGGCAATTTTACCACAGGCGTCATTTTCGGCACGCCCCCATGGCAGCAACATGGCAAGGCCCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGa                                                                                                           >  6:195684/1‑149 (MQ=255)                                         cGGCAATTTTACCACAGGCGTCATTTTCGGCACGCCCCCATGGCAGCAACATGGCAAGGCCCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGAcc                                                                                                         >  8:45850/1‑149 (MQ=255)                                          ggCAATTTTACCACAGGCGTCATTTTCGGCACGCCCCCATGGCAGCAACATGGCAAGGCCCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGAccc                                                                                                        <  8:122046/149‑1 (MQ=255)                                             aaTTTTACCACAGGCGTCTTTTTCGGCAGGCCCCAATGGCAGCAACAGGGCAAGGCCCACCGCCAGCCTGCGTATCACCCATCCGGCACGGGCCGTACCGGGGAGTCTGGCGGCATCGAACTGCATGGCCAGGGTCGa                                                                                                                <  1:44430/138‑1 (MQ=255)                                             aaTTTTACCACAGGCGTCATTTTCGGCACGCCCCCATGGCAGCAACATGGCAAGGCCCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGa                                                                                                                >  2:44430/1‑138 (MQ=255)                                               ttttACCACAGGCGTCATTTTCGGCACGCCACCATGGCAGCAACATGGCAAGGCCCACCGGCAGCCAGCTGATGAACGATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCTACTCGAccctggcc                                                                                                   <  7:131212/149‑6 (MQ=255)                                                       caGGCGTCATTTTCGGCACGCCCCCATGGCAGCAACATGGCAAGGCCCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGACCCAGAAGCCcagcag                                                                                           >  5:114770/1‑149 (MQ=255)                                                        aGGCGTCATTTTCGGCACGCCCCCATGGCAGCAACATGGCAAGGCCCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGACCCAGAAGCCcagc                                                                                             >  8:274314/1‑146 (MQ=255)                                                        aGGCGTCATTTTCGGCACGCCCCCATGGCAGCAACATGGCAAGGCCCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGACCCAGAAGCCcagc                                                                                             <  7:274314/146‑1 (MQ=255)                                                          gCGTCATTTTCGGCACGCCCCCATGGCAGCAACATGGCAAGGCCCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGACCCAGAAGCCCAGCAGGAc                                                                                        >  2:265746/1‑149 (MQ=255)                                                            gTCATTTTCGGCACGCCCCCATGGCAGCAACATGGCAAGGCCCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGACCCAGAAGCCCAGCAGGACCt                                                                                      >  7:242931/1‑149 (MQ=255)                                                                    cGGCACGCCCCCATGGCTGCAACATGTCAAGGCCCACGGGCAGCCAGCTGATGAAGCATTCGGGACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGACCCAGAAGCCCAGCAGGACCTTGCCGaa                                                                               <  5:328384/148‑1 (MQ=255)                                                                     ggCACGCCCCCATGGCAGCAACATGGCAAGGCCCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGACCCAGAAGCCCAGCAGGACCTTGCCGAACa                                                                             <  7:45850/149‑1 (MQ=255)                                                                       cACGCCCCCATGGCAGCAACATGGCAAGGCCCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGACCCAGAAGCCCAGCAGGACCTTGCCGAACAgg                                                                           <  6:357881/149‑1 (MQ=255)                                                                          gCCCCCATGGCAGCAACATGGCAAGGCCCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGACCCAGAAGCCCAGCAGGACCTTGCCGAACAGGGTg                                                                        >  4:5403/1‑149 (MQ=255)                                                                            ccccATGGCAGCAACATGGCAAGGCCCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGACCCAGAAGCCCAGCAGGACCTTGCCGAACAGGGTGcc                                                                      >  6:130627/1‑149 (MQ=255)                                                                              ccATGGCAGCAACATGGCAAGGCCCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGACCCAGAAGCCCAGCAGGACCTTGCCGAACAGGGTGCcgc                                                                    >  3:353263/1‑149 (MQ=255)                                                                                    cagcaACATGGCAAGGCCCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGACCCAGAAGCCCAGCAGGACCTTGCCGAACAGGGTGCCGCGGgcgc                                                              <  8:242931/149‑1 (MQ=255)                                                                                     agcaACATGGCAAGGCCCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAgg                                                                                                                     >  5:55580/1‑93 (MQ=255)                                                                                     agcaACATGGCAAGGCCCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAgg                                                                                                                     <  6:55580/93‑1 (MQ=255)                                                                                      gcaACATGGCAAGGCCCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGACCCAGAAGCCCAGCAGGACCTTGCCGAACAGGGTGCCGCGGgcgcgc                                                            <  6:33938/149‑1 (MQ=255)                                                                                      gcaACATGGCAAGGCCCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGACCCAGAAGCCCAGCAGGACCTTGCCGAACAGGGTGCCGCGGgcgcgc                                                            <  4:353263/149‑1 (MQ=255)                                                                                         aCATGGCAAGGCCCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGACCCAGAAGCCCAGCAGGACCTTGCCGAACAGGGTGCCGCGGGCGCGCAc                                                          >  5:233952/1‑148 (MQ=255)                                                                                          cATGGCAAGGCCCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTAGCGGTGAGGATGGCGGCATGGAACTGCATgg                                                                                                                          <  6:7639/83‑1 (MQ=255)                                                                                          cATGGCAAGGCCCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGACCCAGAAGCCCAGCAGGACCTTGCCGAACAGGGTGCCGCGGGCGCGCACGa                                                        >  3:318386/1‑149 (MQ=255)                                                                                          cATGGCAAGGCCCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTAACGGTGAGGCTGGCGGCATCGAACTGCATgg                                                                                                                          >  5:7639/1‑83 (MQ=255)                                                                                            ttgCATGGCCCACCGGCAGCCAGGAGATGACCCATTCGGCACTTGGCGTACCGGTGAGGCTGTCGGCATCGAACTGCATGGCCAGGGTCGAGTAGACCCAGAAGCCCAGCAGGACCTTGCATAACAGGGTGCCGCGTGCGCGCACGAtt                                                      <  8:354867/147‑1 (MQ=255)                                                                                                  ggCCCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGACCCAGAAGCCCAGCAGGACCTTGCCGAACAGGGTGCCGCGGGCGCGCACGATTTCGccc                                                >  1:178718/1‑149 (MQ=255)                                                                                                   gCCCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGACCCAGAAGCCCAGCAGGACCTTGCCGAACAGGGTGCCGCGGGCGCGCACGATTTCGCCCa                                               <  7:50550/149‑1 (MQ=255)                                                                                                    ctcaccggtacgccacgtgccgaatggttcatcagctggctgccggtgAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGACCCAGAAGCCCAGCAGGACCTTGCCGAACAGGGTGCCGCGGGCGCGCACGatttcgagaat                                              >  7:87733‑M2/49‑144 (MQ=255)                                                                                                     tcaccggtacgccacgtgccgaatggttcatcagctggctgccggtgAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGACCCAGAAGCCCAGCAGGACCTTGCCGAACAGGGTGCCGCGGGCGCGCACGa                                                        >  2:216222‑M2/48‑138 (MQ=255)                                                                                                     tcaccggtacgccacgtgccgaatggttcatcagctggctgccggtgAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGACCCAGAAGCCCAGCAGGACCTTCCCGAACAGGGTGCCGCGGGCGCGCACGa                                                        <  1:216222‑M2/91‑1 (MQ=255)                                                                                                     ccACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGACCCAGAAGCCCAGCAGGACCTTGCCGAACAGGGTGCCGCGGGCGCGCACGATTTCGCCCAGc                                             >  3:82951/1‑149 (MQ=255)                                                                                                                cagcTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGACCCAGAAGCCCAGCAGGACCTTGCCGAACAGGGTGCCGCGGGCGCGCACGATTTCGcc                                                 >  7:14471/1‑134 (MQ=255)                                                                                                                cagcTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGACCCAGAAGCCCAGCAGGACCTTGCCGAACAGGGTGCCGCGGGCGCGCACGATTTCGcc                                                 <  8:14471/134‑1 (MQ=255)                                                                                                                    tgatgaACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGACCCAGAAGCCCAGCAGGACCTTGCCGAACAGGGTGCCGCGGGCGCGCACGATTTCGCCCAGCGTGAACAGc                                    <  5:172926/143‑1 (MQ=255)                                                                                                                    tgatgaACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGACCCAGAAGCCCAGCAGGACCTTGCCGAACAGGGTGCCGCGGGCGCGCACGATTTCGCCCAGCGTGAACAGc                                    >  6:172926/1‑143 (MQ=255)                                                                                                                      atgaACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGACCCAGAAGCCCAGCAGGACCTTGCCGAACAGGGTGCCGCGGGCGCGCACGATTTCGCCCAGCGTGAACAGCCACAcc                              <  6:114770/147‑1 (MQ=255)                                                                                                                        gaACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGACCCAGAAGCCCAGCAGGACCTTGCCGAACAGGGTGCCGCGGGCGCGCACGATTTCGCCCAGCGTGAACAGCCACACCATTa                          >  7:300600/1‑149 (MQ=255)                                                                                                                            cATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGACAGGGTCGAGTAGACCCAGAAGCCCAGCAGGACCTTGCCGAACAGGGTGCCGCGGGCGCGCACGATTTCGCCCAGCGTGAACAGCCACACCATTACCca                      >  1:279346/1‑149 (MQ=255)                                                                                                                                    aCGTTGCGTAACGCTGAGGCTGGACGCATCGAACTGCATCGCCAGGGTCGACTAAACCCAGAAGCCCAGCAGGACCATGACGAACACGGTGCCGCGGGCCCCCACGAATACGACAAGCCTGAACAGCAACAACATTACCCACAGCAAc               >  2:268153/1‑148 (MQ=255)                                                                                                                                    aCGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGACCCAGAAGCCCAGCAGGACCTTGCCGAACAGGGTGCCGCGGGCGCGCACGATTTCGCCCAGCGTGAACAGCCACACCATTACCCACAGCAACa              >  2:119014/1‑149 (MQ=255)                                                                                                                                      gTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGACCCAGAAGCCCAGCAGGACCTTGCCGAACAGGGTGCCGCGGGCGCGCACGATTTCGCCCAGCGTGAACAGCCACACCATTACCCACAGCAACATg            >  1:264334/1‑149 (MQ=255)                                                                                                                                          cGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGACCCAGAAGCCCAGCAGGACCTTGCCGAACAGGGTGCCGCGGGCGCGCACGATTTCGCCCAGCGTGAACAGCCACACCATTACCCACAGCAACATGCCgg        <  2:81087/149‑1 (MQ=255)                                                                                                                                                ggtgAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGACCCAGAAGCCCAGCAGGACCTTGCCGAACAGGGTGCCGCGGGCGCGCACGATTTCGCCCAGCGTGAACAGCCACACCATTACCCACAGCAACATGCCGGGCAAGc  <  8:300600‑M2/145‑1 (MQ=255)                                                                                                                                                    |                                                                                                                                                 GGTGTTTCGGCCATTATCGAGCTCGCTGTTCAGGTTGAACCGGCAATTTTACCACAGGCGTCATTTTCGGCACGCCCCCATGGCAGCAACATGGCAAGGCCCACCGGCAGCCAGCTGATGAACCATTCGGCACGTGGCGTACCGGTGAGGCTGGCGGCATCGAACTGCATGGCCAGGGTCGAGTAGACCCAGAAGCCCAGCAGGACCTTGCCGAACAGGGTGCCGCGGGCGCGCACGATTTCGCCCAGCGTGAACAGCCACACCATTACCCACAGCAACATGCCGGGCAAGC  >  NC_002947/5617447‑5617738

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ 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.