New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 275148	NA (NA)	40 (1.040)	31/282	0.2	93.1%	intergenic (‑31/‑177)	insH1/mmuP	IS5 transposase and trans‑activator/CP4‑6 prophage, putative S‑methylmethionine transporter
	?	NC_000913	= 618517	3 (0.080)					coding (264/1134 nt)	fepE	regulator of length of O‑antigen component of lipopolysaccharide chains

GAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCTTTTTGTATCTGATTATTAATCCCCACCCGCTATTAAGCGCCCGGCGCGGGCATCTGCGTCTGGTGCAGGGTTGACTTTGCATTCTGTTAACAAACGCGGTATAACAAACCTTCTT  >  NC_000913/275010‑275289                                                                                                                                           |                                                                                                                                              gAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTACGGa                                                                                                                                           >  1:601685/1‑143 (MQ=14)    agtctcTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACGTGATCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGc                                                                                                                                        <  1:493445/141‑1 (MQ=21)       ctctTTTCTGGTCTGACGGCGATTACGGCTGATTTCACTGTCGGCGAAGGTCGGTGGGCGACCCAAGATCACACCTGGGCTGCGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGCGtt                                                                                                                                     >  1:477514/1‑143 (MQ=11)        tctTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGAATCATGATGAACAGTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTGCGCACCTTCCGGCGGCGtca                                                                                                                                    >  1:519278/1‑141 (MQ=11)        tctGTTGTGGTCTGGCGGCGCTTACTGCCGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGCGTTa                                                                                                                                    <  1:129590/143‑1 (MQ=255)        tctGTTCTGGTCTGAGGGCGCGGACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGCGTTa                                                                                                                                    <  1:500844/143‑1 (MQ=255)          ttttCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACTTGATCTCATCTCAGGTCCTTGTTCGCACCTTCCGGCGGCGTTacg                                                                                                                                  >  1:431930/1‑141 (MQ=11)          ttttCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACTTGATCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGCGTTATg                                                                                                                                  >  1:274468/1‑143 (MQ=255)                  tCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGCGTTATGAGCTggcg                                                                                                                          >  2:474191/1‑143 (MQ=255)                          cgcTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGCGTTATGAGATGGCGGCCCtttt                                                                                                                  >  1:650173/1‑143 (MQ=255)                             ttACTGCTCAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCTTTTTGt                                                                                                               <  2:656927/143‑1 (MQ=255)                               aCTGCTGTATTCACTGTCGGGGAAGGTATGTTCATGTCTCATGATGAGCCCTCTTCTATGGCTCCAGATGACAAACAGGTTCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCTTTTTGTAt                                                                                                             <  2:469639/143‑1 (MQ=18)                                 tgctgAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCTTTTTGTATCt                                                                                                           >  2:71543/1‑143 (MQ=255)                                 tgctgAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCTTTTTGTATCt                                                                                                           >  1:512634/1‑143 (MQ=255)                                   ctgAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCTTTTTGTATCTGa                                                                                                         <  2:185212/143‑1 (MQ=255)                                   ctgAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCTCTTTGTATCTGa                                                                                                         >  1:487130/1‑143 (MQ=255)                                             tGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCTTTTTGTATCTGATTATTAATcc                                                                                               >  1:27170/1‑143 (MQ=255)                                               tCGGCGAAGGTAAGTTGATGACTCATGATGATCCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCTTTTTGTATCTGATTATTAATcccc                                                                                             <  1:53094/143‑1 (MQ=255)                                               tCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGCGTTATGAGCTGGTGGCCCTTTTTGTATCTGATTATTAATcccc                                                                                             <  2:65973/143‑1 (MQ=255)                                                 ggCGAGGGCAGGTTGATGCCTCCTCATGAAGCCTGTTATAGGGCTCCAGATGACAAACATGATCTCATATCAGGGACTGGTTCGCACCTTCCTGAGGCGTTATGAGCTGGCGGCCCTTTTTGTATCTGATTATTAATCCCCAc                                                                                           <  1:189867/143‑1 (MQ=21)                                                 ggCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCCGGGACCTGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCTGCCCTATTCGTATCCGCTTATGAATcccccc                                                                                           >  1:564064/1‑141 (MQ=17)                                                      aGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGTGACTTGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCTTTTTGTATCTGATTATTAATCCCCACCCGCt                                                                                      <  2:406016/143‑1 (MQ=255)                                                      aGGGAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGAGACTTGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCTTTTTGTATCTGATTATTAATCCCCACCCGCt                                                                                      <  2:491716/143‑1 (MQ=255)                                                        gTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCTTTTTGTATCTGATTATTAATCCCCACCCGCTAt                                                                                    >  2:9939/1‑143 (MQ=255)                                                         tAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTAGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCCTTTTGTATCTGATTATTAATCCCCACCCGCTAtt                                                                                   >  1:411047/1‑143 (MQ=255)                                                           aGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCTTTTTGTATCTGATTATTAATCCCCACCCGCTATTaa                                                                                 <  2:199812/143‑1 (MQ=255)                                                             ttGATGACTCATGATTAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCGACCCTTTTCGTATCTGATTATTAATACCCAACCGCGATTaaac                                                                               >  1:437351/1‑141 (MQ=21)                                                             ttGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCTTTTTGTATCTGATTATTAATCCCGCCCCGCTATTAAgc                                                                               >  2:595969/1‑143 (MQ=255)                                                                     tCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCTTTTTGTATCTGATTATTAATCCCCACCCGCTCTTAAGCGCCCGgcg                                                                       >  2:344213/1‑143 (MQ=255)                                                                         gatgaACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCTTTTTGTATCTGATTATTAATCCCCACCCGCTATTAAGCGCCCGGCGCggg                                                                   >  2:609485/1‑143 (MQ=255)                                                                          atgaACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCTTTTTGTATCCGATTATTAATCCACACCCGCCATTACGCGCCCGGCGCAGGc                                                                  >  1:255351/1‑143 (MQ=25)                                                                               cccTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCTTTTTGTATCTGATTATTAATCCCCACCCGCTATTAAGCGCCCGGCGCGGGCATCTg                                                             >  2:591355/1‑143 (MQ=255)                                                                                ccTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGAATTGTTGGCACCTTCCGGAGGCGTTATGAGATGGCGTCCCTTTTTGTATGTGATTTTTAGTCCCCACCCGCTATTAAGCGCCCGGCGCGGGCATCTGc                                                            >  2:419755/1‑143 (MQ=37)                                                                                  tGTTCTATGGCTGCATATGACAAACATGAGCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCTTTTTGTATCTGATTATTAATCCCCACCCGCTATTAAGCGCCCGGCGCGGGCATCTGCGt                                                          <  2:430389/143‑1 (MQ=255)                                                                                  tGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCTTTTTGTATCTGATTATTAATCCCCACCCGCTATTAAGCGCCCGGCGCGGGCATCTGCGt                                                          <  2:93549/143‑1 (MQ=255)                                                                                      cTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCGGACGCGTTATAAGCTGGCGGCCCTTTTTGTATCTGATTATTAATCCCCACCCGCTATTAAGCGCCCGGCGCGGGCATCTGCGTCTgg                                                      >  2:252823/1‑143 (MQ=255)                                                                                        aTGGCTCCAGATGACAAACATGCTCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCTTTTTGTATCTGATTATTAATCCCCACCCGCTATTAAGCGCCCGGCGCGGGCATCTGCGTCTGGTg                                                    <  2:576317/143‑1 (MQ=255)                                                                                        aTGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGTGTTATGAGCTGGCGGCCCTTTTTGTATCTGATGACTAATCCCCACCCGCTATTACGCGCCCGGCGCGGCCAGCCGCGCCTgggg                                                    >  1:205755/1‑141 (MQ=25)                                                                                        aTGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCGAAGGCGTTATGCGCTGGCGGCCCTTTTTGTATCTGATTATTCCTCCCCACCCGCTATTAAGCGCCCGGCGCCGGCCTCTCCGCCCGGtc                                                    >  1:468968/1‑142 (MQ=25)                                                                                           gCTCCAGCTGACAAACATGATCTCATATCAGGGACTTGTTCGCAGGTTCCGGAGGCGTTATGAGCTGGCGGCCCTTTTTGTATCTGATTATTAATCCCCACCCGCTATTAAGCGCCCGGCGCGGGCATCTGCGTCTGGTGCAg                                                 <  1:474191/143‑1 (MQ=255)                                                                                           gCTCCAGATGACAAACATGATCTCATATCAGGGACTTGGTCGCACCTTCCGGAGCGGCAGTTAGCTGGCGGCCCTTTTTGTATCTGATTATTAATCCCCACCCGCTATTAAGCGCCCGGCGCGGGCATCTGCGTCTGGTGCAg                                                 <  2:668026/143‑1 (MQ=37)                                                                                             tCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCTTTTTGTATCTGACTCTTACTCCCCACCCGCTATTAAGCACCCGGCACGGGCCTCTGCGCCTCGTGCCggc                                               >  1:289821/1‑142 (MQ=37)                                                                                                aGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCTTTTTGTATCTGATTATTAATCCACACCCGCTATTAAGCGCCCGGCGCGGGCATCTGCGTCTGGTGCAGGGTTg                                            >  1:494378/1‑143 (MQ=255)                                                                                                   tGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCTTTTTGTATCTGATTATTAATCCCCACCCGCTATTAAGCGCCCGGCGCGGGCATCTGCGTCTGGTGCAGGGTTGACt                                         >  2:659898/1‑143 (MQ=255)                                                                                                   tGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCTTTTTGTATCTGATTATTAATCCCCACCCGCTATTAAGCGCCCGGCGCGGGCATCTGCGTCTGGTGCAGGGTTGACt                                         <  2:53121/143‑1 (MQ=255)                                                                                                    gACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCTTTTTGTATCTGATTATTAATCCCCACCCGCTATTAAGCGCCCGGCGCGGGCATCTGCGTCTGGTGCAGGGTTGACtt                                        <  2:236930/143‑1 (MQ=255)                                                                                                              aTCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCTTTTTGTATCTGATTATTAATCCCCACCCGCTATTAAGCGCCCGGCGCGCGCATCTGCGTCTGGTGCAGGGTTGCCTTTgacgtctgt                              >  1:576522/1‑135 (MQ=255)                                                                                                                   atatCAGGGACTTGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCTTTTTGTATATGATAATTTTTACTCGCCCGCTATTAAGCGCCCGGCGCGGGCATCTGCGTCTGGTGCAGGGTTGACTTTGCATTCTGTTAACa                         >  2:422543/1‑143 (MQ=255)                                                                                                                     atCAGGGACTTGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCTTTTTGTATCTGATTATTAATCCCCACCCGCTATTAAGCGCCCGGCGCGGGCATCTGCGTCTGGTGCAGGGTTGACTTTGCATTCTGTTAACaaa                       <  2:233938/143‑1 (MQ=255)                                                                                                                     atCAGGGACTTGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCTGTTTGTATCTGATTATTAATCCCCACCCGCAATTTGTCACCCGTCGCGGGCATCTGCGTCTGGTGCAGGGTTGACTTGGCATCGTGTTatccaa                       >  1:583383/1‑138 (MQ=255)                                                                                                                        gtgacgagcagcGCACCTTCCGGGGCCGCTATTAGCTGGCGGCCCTTTTTGTATCTGATTATTAATCCCCACCCGCTATTAAGCGCCCGGCGCGGGCATCTGCGTCTGGTGCAGGGTTGACTTTGCATTCTGTTAACAAAcgc                    <  2:487130/132‑1 (MQ=255)                                                                                                                            aCTTGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCTTTTTGTAACTGATTAGGAATACACAACAGCTCGTAGGCGCCCGGCGCGGGCATCTGCGTATGGTGCAGGGGGGACTTTGCATGCTGTTGACAGAAGCGGta                >  1:80373/1‑143 (MQ=255)                                                                                                                              ttGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCTTTTTGTATCTGATTATTAATCCCCACCCGCTATTAAGCGCCCGGCGCGGGCATCTGCGTCTGGTGCAGGGTTGACTTTGCATTCTGTTAACAAACGCGGtata              >  2:267900/1‑143 (MQ=255)                                                                                                                                   cGCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCTTTTTGTATCTGATTATTAATCCCCACCCGCTATTAAGCGCCCGGCGCGGGCATCTGCGTCTGGTGCAGGGTTGACTTTGCATTCTGTTAACAAACGCGGTATAACaaa         <  1:378567/143‑1 (MQ=255)                                                                                                                                    gCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCTTTTTGTATCTGATTATTAATCCCCACCCGCTATTAAGCGCCCGGCGCGGGCATCTGCGTCTGGTGCAGGGTTGACTTTGCATTCTGTTAACAAACGCGGTATAACAAAc        <  2:477514/143‑1 (MQ=255)                                                                                                                                          gccGGCGGCGTTATGAGCTGGCGGCCCTTTTTGTATCTGATTATTAATCCCCACCCGCTATTAAGCGCCCGGCGCGGGCATCTGCGTCTGGTGCAGGGTTGACTTTGCATTCTGTTAACAAACGCGGTATAACAAACcttctt  <  2:95742/142‑1 (MQ=255)                                                                                                                                           |                                                                                                                                              GAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCGGAGGCGTTATGAGCTGGCGGCCCTTTTTGTATCTGATTATTAATCCCCACCCGCTATTAAGCGCCCGGCGCGGGCATCTGCGTCTGGTGCAGGGTTGACTTTGCATTCTGTTAACAAACGCGGTATAACAAACCTTCTT  >  NC_000913/275010‑275289

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ 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.