New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	3791581 =	61 (1.120)	5 (0.100)	5/270	6.0	8.4%	intergenic (+14/+18)	waaL/waaU	O‑antigen ligase/lipopolysaccharide core biosynthesis
	?	CP009273	3791609 =	54 (1.090)					coding (1064/1074 nt)	waaU	lipopolysaccharide core biosynthesis
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

GGACTCAGTGATGTGATCATATGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCGATATCTTTTACCGTATATGTTGGGGATACTATTTGTATAGATTTATGATGATTCGGGGACCAAATTAAATGCGAGGGATATTCCGGAGTACGTGAATTA  >  CP009273/3791463‑3791755                                                                                                                                                   |                                                                                                                                                   ggccTCAGTGTCGTGATCATAGGGGCACGCAGCATTCCAATTACCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCt                                                                                                                                                  <  2:585901/146‑1 (MQ=255)  gACTCAGTGATGTGATCATATGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCta                                                                                                                                                 >  1:496200/1‑149 (MQ=255)   aCTCAGTGATGTGATCATCTGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACCCACTTCTTCTCtat                                                                                                                                                >  2:496297/1‑149 (MQ=255)     tCAGTGATGTGATCATATGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATAc                                                                                                                                              >  1:539205/1‑149 (MQ=255)       aGTGATGTGATCATATGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAATAAGTGAGTTAAAACTCACTTCTTATCTATACaa                                                                                                                                            >  1:388720/1‑149 (MQ=255)       aGTGATGTGATCATATGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACaa                                                                                                                                            <  2:152815/149‑1 (MQ=255)       aGTGATGTGATCATATGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACaa                                                                                                                                            >  2:306054/1‑149 (MQ=255)       aGTGATGTGATCATATGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACaa                                                                                                                                            >  1:282117/1‑149 (MQ=255)         tgatgtgatCATATGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTCATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACt                                                                                                                                          >  1:326001/1‑149 (MQ=255)         tgatgtgatCATATGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACaagt                                                                                                                                          <  1:333087/149‑3 (MQ=255)         tgatgtgatCATATGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACt                                                                                                                                          >  2:507716/1‑149 (MQ=255)           ctgtgctCATAGGGGCGCGCAGCATTCCAATTATCGTTATATCCGAAATAGTCCTCTTACCCGTCATTAATAATCGCCACAATACAATTCATTCAGAATAAAAAAGTTGAAGTAGGGAGATAAAAAACACTTCTTATCTATACAACTTa                                                                                                                                        >  1:138779/2‑149 (MQ=255)             gtgatCATATGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAAt                                                                                                                                      >  2:188237/1‑149 (MQ=255)               gatCATATGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAAtcc                                                                                                                                    >  2:768119/1‑148 (MQ=255)               gatCATATGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGATTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAAtcc                                                                                                                                    >  2:219130/1‑148 (MQ=255)                atCATATGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAAtctc                                                                                                                                   >  2:20446/1‑149 (MQ=255)                  cATATGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCtt                                                                                                                                 <  2:851900/149‑1 (MQ=255)                       gggCACGCAGCATTCCAATTATCGTTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTg                                                                                                                            >  2:585257/1‑149 (MQ=255)                       gggCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTAAGTAAAAACGCGCTTCTTATCTATACAACTTAATCTCTTTACTg                                                                                                                            >  2:22404/1‑149 (MQ=255)                         gCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTAATGaa                                                                                                                          >  1:203294/1‑149 (MQ=255)                             gcagcaTTTCACGTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTCACAATACAATTAATCAAGAATAAACAAGTTTAAGAAGTGAGTTAAACCTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAg                                                                                                                      <  1:319119/149‑1 (MQ=255)                                   ttCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAg                                                                                                                >  2:497784/1‑149 (MQ=255)                                   ttCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAg                                                                                                                >  2:258349/1‑149 (MQ=255)                                     ccAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTGACAATACAATTAATTAAGAATAAACAGGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGACTTAGTTAAAGtt                                                                                                              >  1:207316/1‑149 (MQ=255)                                       aaTTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTc                                                                                                            >  1:76116/1‑149 (MQ=255)                                        aTTATCATTATAGCCGCTATAGTCCTCTTGCTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACAGAATTAGTTAAAGTTTCa                                                                                                           <  1:567862/149‑1 (MQ=255)                                         ttATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATATACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATAAAACTTAATATCTCTACTGAATTAGTTAAAGTTTCat                                                                                                          >  1:30326/1‑148 (MQ=255)                                             catgttctCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATc                                                                                                      <  2:808360/142‑1 (MQ=255)                                                tataTCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCGat                                                                                                   <  2:595871/149‑1 (MQ=255)                                                     ccGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGAGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCGATATCtt                                                                                              >  1:261822/1‑149 (MQ=255)                                                      cGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCGATATCttt                                                                                             >  1:450364/1‑149 (MQ=255)                                                      cGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCGATATCttt                                                                                             >  2:514387/1‑149 (MQ=255)                                                            aGTCTTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCGATATCTTTCACCGt                                                                                       <  1:626218/149‑1 (MQ=255)                                                             gTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCGATATCTTTTACCGta                                                                                      >  1:787056/1‑149 (MQ=255)                                                              tCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTGAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCGATATCTTTTACCGtat                                                                                     <  2:879031/149‑1 (MQ=255)                                                                ctctTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCGATATCTTTTACCGTatat                                                                                   >  2:613043/1‑149 (MQ=255)                                                                     aCTCGTCATTGATAAGCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTCATCTATACAACTTAATCTCGTTACGGAATTAGTTAAAGTTTCAGTATCGATATCTTTTACCGTATATGTTgg                                                                              <  2:85707/149‑1 (MQ=255)                                                                            aTTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCATTATCACTATCTTTTACCGTGAATGTTGGGGATACt                                                                       >  1:325635/1‑149 (MQ=255)                                                                             ttAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCGATATCTTTTACCGTTGATGTTTGGGATACTa                                                                      >  2:742435/1‑149 (MQ=255)                                                                                 taatCGTAACAATACAATTCATTCAGAGGAGACAGGTTTAAGAAGTCAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCGATATCTTTTACCGTATATGTTGGGGATACTATTTg                                                                  <  1:365674/149‑1 (MQ=255)                                                                                      gTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTAAAAACTGACGTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCGATATCTTTTACCGTATATGTTGGGGATACTATTTGTATAg                                                             >  1:672014/1‑149 (MQ=255)                                                                                           aatacaatTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCGATATCTTTTACCGTATATGTTGGGGATACTATTTGTATAGATTTa                                                        <  1:427658/149‑1 (MQ=255)                                                                                                aattaattAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCGATATCTTTTACCGTATATGTTGGGGATACTATTTGTATAGATTTatgtta                                                   >  1:752405/1‑146 (MQ=255)                                                                                                   taattaaGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCGATATCTTTTACCGTTTAGGGTGGGGATACTATTTGTATAGATTTATGATGAtt                                                <  2:656886/149‑1 (MQ=255)                                                                                                       gtaatctAAACAAGTTGAAGCAGTGAGATAAACCTCACTGCTTATCTCTACAACTTAATCTCTTTACTGAATTAGCTAAAGGTTCAGTATCGGTATCTTGTACCGGATATGTTGGGGATACTATTTGTATAGATTTATGATGATTCggg                                            <  1:856131/143‑1 (MQ=255)                                                                                                        aaGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCGATATCTTTTACCGTATATGTTGGGGATACTATTTGTATAGATTTATGATGATTCgggg                                           >  1:270532/1‑149 (MQ=255)                                                                                                           aaTAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCGATATCTTTTACCGTATATGTTGGGGATACTATTTGTATAGATTTATGATGATTCGGGGGcc                                        >  1:807207/1‑149 (MQ=255)                                                                                                              caaCAAGTTTTAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCGTTACTGAATTAGTTAAAGTTTCAGTATCGATACCTTTTACCGTATATGTTGGGGATACTATTTGTATAGATTTATGATGATTCGGGGACCaaa                                     <  2:430568/148‑1 (MQ=255)                                                                                                               aaCAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCGATATCTTTTACCGTATATGTTGGGGATACTATTTGTATAGATTTATGATGATTCGGGGACCAAAt                                    >  2:268883/1‑149 (MQ=255)                                                                                                                aCAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCGATATCTTTTACCGTATATGTTGGGGATACTATTTGTATAGATTTATGATGATTCGGGGACCAAAtt                                   >  1:849437/1‑149 (MQ=255)                                                                                                                    gTTTAAGAAGTTAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCGATATCTTTTACCGTATATGTTGGGGATACTATTTGTATAGATTTATGATGATTCGGGGACCAAATTAAAt                               <  2:668365/149‑1 (MQ=255)                                                                                                                       tAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCGATATCTTTTACCGTATATGTTGGGGATACTATTTGTATAGATTTATGATGATTCGGGGACCAAATTAAATGCg                            <  2:388720/149‑1 (MQ=255)                                                                                                                         agaagTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCGATATCTTTTACCGTATATGTTGGGGATACTATTTGTATAGATTTATGATGATTCGGGGACCAAATTAAATGCGAg                          <  1:507716/149‑1 (MQ=255)                                                                                                                          gaagTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCGATATCTTTTACCGTATATGTTGGGGATACTATTTGTATAGATTTATGATGATTCGGGGACCAAATTAAATGCGAgg                         >  2:173991/1‑149 (MQ=255)                                                                                                                                        cTCACTGTTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCGATATCTTTTACCGTATATGTTGGGGATACTATTTGTATAGATTTATGATGATTCGGGGACCAAATTAAATGCGAGGGATATTCCGGAGTa           <  1:768119/149‑1 (MQ=255)                                                                                                                                         tCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCGATATCTTTTACCGTGAATGTTGGGGTTATTATTTGTATAGATTTATGATGATTCGGGGGCCAAATTAGAGGCTCGGGATATTcctgtgttc          >  1:581548/1‑142 (MQ=255)                                                                                                                                           aCTTCTTATTGATACAACCTAATCTCTTTACTGAATTAGTTAACGTTTCAGTATCGATATCTTTTACCGTATATGTTGGGGATACTATTTGTATAGATTTATGATGATTCGGGGACCAAATCACATGCGAGGGATATTCCGGAGTACGt        <  1:524753/149‑1 (MQ=255)                                                                                                                                           aCTTCTTATCTATACAACTTAATCTCTGTACTTCATTAGTTAAAGTTTCAGTATCGATATCTTTTACCGTATATGTTGGTGATACTATTTGTATAGATTTATGATGATTCGGGGACCAAATTAAATGCGAGGGATATTCCGGAGTACGt        <  1:125261/149‑1 (MQ=255)                                                                                                                                            cttcttATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCGATATCTTTTACCGTATATGTTGGGGATACTATTTGTATAGATTTATGATGATTCGGGGACCAAATTAAATGCGAGGGATATTCCGGAGTACGTg       >  1:43215/1‑149 (MQ=255)                                                                                                                                                 tATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCGATATCTTTTACCGTATATGTTGGGGATACTATTTGTATAGATTTATGATGATTCGGGGACCAAATTAAATGCGAGGGATATTCCGGAGTACGTGAATTa  <  1:203918/149‑1 (MQ=255)                                                                                                                                                   |                                                                                                                                                   GGACTCAGTGATGTGATCATATGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCGATATCTTTTACCGTATATGTTGGGGATACTATTTGTATAGATTTATGATGATTCGGGGACCAAATTAAATGCGAGGGATATTCCGGAGTACGTGAATTA  >  CP009273/3791463‑3791755

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ 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.