New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 4049918	2 (0.040)	72 (1.330)	58/280	0.0	97.3%	noncoding (21/109 nt)	spf	Spot 42 sRNA antisense regulator of galK translation, Hfq‑dependent
	?	NC_000913	= 4499510	NA (NA)					intergenic (+9/+84)	insD1/yjgX	IS2 transposase TnpB/pseudogene fragment

TTGCAGAGGCGTTCGAGCATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATGATTACCTGTGATCAGGAAGAATAAGTGGCTGAGGTTTCAAACTGTCTGCCGGTATATTC  >  NC_000913/4499374‑4499651                                                                                                                                         |                                                                                                                                              ttctagagGCGTTCGTGCTTTCTGACTTGTGGCATCCGTGTAGTGCGCTGGGTTATCGCTCGCCACGGGCATATCTTCTGCAGCGGGCGTGTAATGGGTTAAGTGATAACTGATGTCTGGTTATATAGGTGCAAATCCACCtt                                                                                                                                         <  1:732073/139‑1 (MQ=2) ttGCAGAGGCGTTCGAGCATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCGGGTAATGGGTGAAGTGATAGCAGATGGCTGGAGATATAGGGGCGAATCCGCCtt                                                                                                                                         >  1:729470/1‑143 (MQ=11)   gCAGCGGCGTTCGAGCTTTGGAACGAAGGGCGTCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATGTCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTtgt                                                                                                                                       <  1:129489/143‑1 (MQ=11)     agagGCGTTCGAGCATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGTGCTTGTAATGGGTTAAGTGATAAAAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGc                                                                                                                                     >  2:384574/1‑143 (MQ=25)                   aatataACGAATGGCATCCGCATAGTGCGCTGGGTTTTCGCTCTCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACgg                                                                                                                       <  2:80083/141‑1 (MQ=255)                      ataACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATCTGAAGACGGatc                                                                                                                    >  2:592279/1‑142 (MQ=255)                      ataACGAATGGCATCCGCATAGTGCGATGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCATGTAAGGGGTCAAGTGATAACAGATGACTGGAAACATAGGCGAAACTCCACCGTGTGCTGATATGAACACGGcta                                                                                                                    >  1:189960/1‑143 (MQ=14)                       taACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGCATACGGatat                                                                                                                   >  1:57571/1‑143 (MQ=255)                       taACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGatat                                                                                                                   >  2:917645/1‑143 (MQ=255)                        aaCGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATAtt                                                                                                                  >  2:653993/1‑143 (MQ=255)                         acggagggCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTCGTCATGGGTTACTTGATAACAGACGTCTCGAAATATCGGGGCACATCCACCTTGTGCTGATATGAATACGGATAttt                                                                                                                 <  1:409201/137‑1 (MQ=17)                           gagtGGCATGCGCATGGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGGGGGCGTGTAATGGGTTAAGTGATAACGGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTta                                                                                                               <  1:345183/140‑1 (MQ=17)                            aaTGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGCTGTCTGGAACTATAGGGGCAAATCCACCTTGTGCTGATATGAATACGCATTTTTtat                                                                                                              >  2:191002/1‑143 (MQ=255)                             aTGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTtata                                                                                                             <  2:953705/143‑1 (MQ=255)                                gCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAg                                                                                                          >  1:430923/1‑143 (MQ=255)                                  aTCCGCCTAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATGTCATGCAGaa                                                                                                        >  1:541593/1‑143 (MQ=255)                                      gCAGAGTGCTCTGGGTTATCGCTCGCCATGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACt                                                                                                    <  2:91178/143‑1 (MQ=255)                                       cATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACtt                                                                                                   <  1:183648/143‑1 (MQ=255)                                         tAGTGCGCTTGGGTATCGCTCGCCACGGGAATATCTGCGGCAGAGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAACATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACtttt                                                                                                 <  2:837034/143‑1 (MQ=255)                                         tAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACtttt                                                                                                 <  1:270379/143‑1 (MQ=255)                                         tAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTATAATGGGTTACGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACtttt                                                                                                 <  1:828822/143‑1 (MQ=255)                                            tGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAg                                                                                              >  1:733265/1‑143 (MQ=255)                                            tGCGCT‑GGTGATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGt                                                                                             <  1:555408/143‑1 (MQ=255)                                             gcggTGGGTTATGGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGt                                                                                             <  1:258042/143‑1 (MQ=255)                                                   ggTTATCGCTCGGCCGGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGc                                                                                       <  1:597057/143‑1 (MQ=255)                                                       aTCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACt                                                                                   >  2:234679/1‑143 (MQ=255)                                                         cgctcgcCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCCGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGt                                                                                 >  2:205331/1‑143 (MQ=255)                                                              gcCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTGGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTGCCAGCgcgtgacttac                                                                            >  1:445929/1‑133 (MQ=21)                                                               ccACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACa                                                                           <  1:35908/143‑1 (MQ=255)                                                                      aaTATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGcc                                                                    <  2:322907/143‑1 (MQ=255)                                                                           gtGCGGCAGCGGACTTTTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCAACTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCatatc                                                               <  1:113460/142‑2 (MQ=255)                                                                            tGCGGCAGCGGGCGTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCatatat                                                              <  1:461271/143‑1 (MQ=255)                                                                             gCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATg                                                             >  2:758940/1‑143 (MQ=255)                                                                                     gggCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATCTGATTACCtg                                                     >  2:268899/1‑143 (MQ=255)                                                                                               tGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTGGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATGATTACCTGTGATCAGgaa                                           <  2:819515/143‑1 (MQ=255)                                                                                                  gtgaaGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATGATTACCTGCGATAAGgaagaa                                        >  1:345520/4‑143 (MQ=255)                                                                                                   ttAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCGTATATGATTACCTGTGATCAGGAAGAAt                                       >  2:836914/1‑143 (MQ=255)                                                                                                   ttAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATGATTACCTGTGATCAGGAAGAAt                                       >  2:407854/1‑143 (MQ=255)                                                                                                   ttAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATGATTACCTGTGATCAGGAAGAAt                                       >  2:211407/1‑143 (MQ=255)                                                                                                     aactGATATCAGATGTCTGGAAATATAGGGGCAAATCCATCTTGTGCTGATATGAATACGGATATTTTATAGAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATTTATGATTACCTGTGATCAGGAAGAATaa                                     <  1:704904/140‑1 (MQ=255)                                                                                                      aGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATGATTACGTGTGATCAGGAAGAGTAAg                                    >  2:9481/1‑143 (MQ=255)                                                                                                      aGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATGATTACCTGTGATCAGGAAGAATAAg                                    >  2:332546/1‑143 (MQ=255)                                                                                                       gaaaTAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGAGATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATGATTACCTGTGATCAGGAAGAATAAGt                                   >  2:548148/4‑143 (MQ=255)                                                                                                       gTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATGATTACCTGTGATCAGGAAGAATAAgc                                   >  1:249053/1‑142 (MQ=255)                                                                                                       gTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATGATTACCTGTGATCAGGAAGAATAAGt                                   <  2:751579/143‑1 (MQ=255)                                                                                                          aTAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATCTCTGATTGCTTGTGATCAGGAAGAATAAGTGGc                                >  2:174495/1‑143 (MQ=255)                                                                                                            aaCAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATGATTACCTGTGATCAGGAAGAATAAGTGGCTg                              >  1:2275/1‑143 (MQ=255)                                                                                                             aCAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATGATTACCTGTGATCAGGAAGAATAAGTGGCTGa                             >  1:466922/1‑143 (MQ=255)                                                                                                              cAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTGCAGTACAAGCGACTGTATTACAGTCTGCCATATATGATTACCTGTGATCAGGAAGAATAAGTGGCTGAg                            <  2:663542/143‑1 (MQ=255)                                                                                                                 aTGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATGATTACCTGTGATCAGGAAGAATAAGTGGCTGAGGtt                         >  2:841775/1‑143 (MQ=255)                                                                                                                    tCTGGAAATATAGGGGCAAATCAGCCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCTGTCTATAATTACCTTTGATCAGGAAGAATAAGTGGCTGAGGTTTCa                      <  1:427940/143‑1 (MQ=255)                                                                                                                      tGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATGATTACCTGTGATCAGGAAGAATAAGTGGCTGAGGTTTCaaa                    <  2:430923/143‑1 (MQ=255)                                                                                                                       ggAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATGATTACCTGTGATCAGGAAGAATAAGTGGCTGAGGTTTCAAAc                   <  2:42382/143‑1 (MQ=255)                                                                                                                                ggggCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATGATTACCTGTGATCAGGAAGAATAAGTGGCTGAGGTTTCAAACTGTCTGCCg          >  2:332722/1‑143 (MQ=255)                                                                                                                                 gggCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACGGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATGATTACCTGTGATCAGGAAGAATAAGTGGCTGAGGTTTCAAACTGTCTGCCgg         >  2:925199/1‑143 (MQ=255)                                                                                                                                   ggtaaTCCACCTTGTTCTGTTAGGAATACGGATATTTTATACAGAATACTTTTCAGGACAAGCGACTGTATTACAGTCTGCCATATATGATTACCTGTGATCAGGAAGAATAAGTGGCTGAGGTTTCAAACTGTCTGCCGGta       <  2:666711/140‑1 (MQ=255)                                                                                                                                   gCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATGATTACCTGTGATCAGGAAGAATAAGTGGCTGAGGTTGCAAACTGTCTGCCGGta       >  2:156968/1‑143 (MQ=255)                                                                                                                                        tCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATGATTACCTGTGATCAGGAAGAATAAGTGGCTGAGGTTTCAAACTGTCTGCCGGGATATTc  >  1:270975/1‑143 (MQ=255)                                                                                                                                         |                                                                                                                                              TTGCAGAGGCGTTCGAGCATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATGATTACCTGTGATCAGGAAGAATAAGTGGCTGAGGTTTCAAACTGTCTGCCGGTATATTC  >  NC_000913/4499374‑4499651

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.