New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	884909 =	29 (0.310)	7 (0.080)	6/182	NT	18.1%	intergenic (+4/+37)	mdfA/ybjH	multidrug efflux system protein/uncharacterized protein
	?	NC_000913	884940 =	37 (0.440)					intergenic (+35/+6)	mdfA/ybjH	multidrug efflux system protein/uncharacterized protein

AACGGACTGTTTAATCTCTTCAACCTTGTCAACGGAATTTTGTGGCTGTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGACTGCTTTGTGCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATAAGGATGCGGGCGGTAAGCCGGAGCTGGCGCAGGAGCCACATAGACGGTTTGCGGCACAGTCGCGACG  >  NC_000913/884801‑885084                                                                                                                                            |                                                                                                                                                 aaCGGACTGTTTAATCTCTTCAACCTTGTCAACGGAATTTTGTGGCTGTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGACTGCTTTGTGCGATCAGGCATTCTCGAATTa                                                                                                                                          <  3:607124/148‑1 (MQ=255)            tAATCTCTTCAACCTTGTCAACGGAATTTTGTGGCTGTCGCTGATGGTTATCTTTATAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGACTGCTTTGTGCGATCAGGCATTCTCGAATTAATGGTGATGgt                                                                                                                               <  4:469674/148‑1 (MQ=255)                ctctTCAACCTTGTCAACGGAATTTTGTGGCTGTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGACTGCTTTGTGCGATCAGGCATtct                                                                                                                                                 >  3:339510/1‑126 (MQ=255)                ctctTCAACCTTGTCAACGGAATTTTGTGGCTGTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGACTGCTTTGTGCGATCAGGCATtct                                                                                                                                                 <  4:339510/126‑1 (MQ=255)                    tCAACCTTGTCAACGGAATTTTGTGGCTGTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGACTGCTTTGTGCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAAt                                                                                                                        <  2:216627/147‑1 (MQ=255)                    tCAACCTTGTCAACGGAATTTTGTGGCTGTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGACTGCTTTGTGCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAAt                                                                                                                        >  1:216627/1‑147 (MQ=255)                                 cGGAATTTTGTGGCTGTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGACTGCTTTGTGCGATCAGGCATTCTCGAATTaa                                                                                                                                         >  4:840847/1‑117 (MQ=255)                                 cGGAATTTTGTGGCTGTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGACTGCTTTGTGCGATCAGGCATTCTCGAATTaa                                                                                                                                         <  3:840847/117‑1 (MQ=255)                                                     tGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGACTGCTTTGTGCGATCAGGCATTCTCGAATTAATGGTGATGgt                                                                                                                               >  2:274303/1‑107 (MQ=255)                                                     tGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGACTGCTTTGTGCGATCAGGCATTCTCGAATTAATGGTGATGgt                                                                                                                               <  1:274303/107‑1 (MQ=255)                                                      gATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGACTGCTTTGTGCGATCAGGCATTCTCGAATTa                                                                                                                                          <  1:761573/95‑1 (MQ=255)                                                      gATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGACTGCTTTGTGCGATCAGGCATTCTCGAATTa                                                                                                                                          >  2:761573/1‑95 (MQ=255)                                                                       aaGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGACTGCTTTGTGCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTGAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTg                                                                                      >  4:682491/1‑130 (MQ=255)                                                                       aaGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGACTGCTTTGTGCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTg                                                                                      <  3:682491/130‑1 (MQ=255)                                                                               cAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGACTGCTTTGTGCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCaa                                                                                  >  2:754325/1‑126 (MQ=255)                                                                               cAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGACTGCTTTGTGCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCaa                                                                                  <  1:754325/126‑1 (MQ=255)                                                                                 gATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGACTGCTTTGTGCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATa                                                                     <  4:942541/137‑1 (MQ=255)                                                                                 gATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGACTGCTTTGTGCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATa                                                                     >  3:942541/1‑137 (MQ=255)                                                                                           tctcACGAAGGGTAAAAAAATGCCTGACTGCTTTGTGCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCa                                                                                                       <  2:456142/93‑1 (MQ=255)                                                                                           tctcACGAAGGGTAAAAAAATGCCTGACTGCTTTGTGCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCa                                                                                                       >  1:456142/1‑93 (MQ=255)                                                                                                cGAAGGGTAAAAAAATGCCTGACTGCTTTGTGCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCt                                                                                                                      <  2:251783/73‑1 (MQ=255)                                                                                                cGAAGGGTAAAAAAATGCCTGACTGCTTTGTGCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCt                                                                                                                      >  1:251783/1‑73 (MQ=255)                                                                                                          aaaaaTGCCTGACTGCTTTGTGCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGtt                                                                                                                >  1:910119/1‑69 (MQ=255)                                                                                                          aaaaaTGCCTGACTGCTTTGTGCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGtt                                                                                                                <  2:910119/69‑1 (MQ=255)                                                                                                           aaaaTGCCTGACTGCTTTGTGCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCa                                                                                               <  4:721807/85‑1 (MQ=255)                                                                                                           aaaaTGCCTGACTGCTTTGTGCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCa                                                                                               >  3:721807/1‑85 (MQ=255)                                                                                                           aaaaTGCCTGACTGCTTTGTGCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATa                                                                     <  2:59986/111‑1 (MQ=255)                                                                                                           aaaaTGCCTGACTGCTTTGTGCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATa                                                                     >  1:59986/1‑111 (MQ=255)                                                                                                             AATGCCTGACTGCTTTGTGCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATAAGGATGCGGGCGGTAAg                                                    >  1:16594‑M1/1‑126 (MQ=255)                                                                                                             AATGCCTGACTGCTTTGTGCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATAAGGATGCGGGCGGTAAg                                                    <  2:16594‑M1/126‑1 (MQ=255)                                                                                                              atgtctgatcgcacaaagcagtcaggcattCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTa                                                                                           >  4:247432‑M2/31‑86 (MQ=255)                                                                                                              atgtctgatcgcacaaagcagtcaggcattCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTa                                                                                           <  3:247432‑M2/56‑1 (MQ=255)                                                                                                              ATGCCTGACTGCTTTGTGCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATAAGGATGCGGGCGGTAAGcc                                                  <  4:443845‑M1/127‑1 (MQ=255)                                                                                                              ATGCCTGACTGCTTTGTGCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATAAGGATGCGGGCGGTAAGcc                                                  >  3:443845‑M1/1‑127 (MQ=255)                                                                                                                 cctgatcgcacaaagcagtcaggcattCTCGAATTAATGGTGATGGTCGTCAATCTGGTGtt                                                                                                                >  3:327087‑M2/28‑62 (MQ=255)                                                                                                                 cctgatcgcacaaagcagtcaggcattCTCGAATTAATGGTGATGGTCGTCAATCTGGTGtt                                                                                                                <  4:327087‑M2/35‑1 (MQ=255)                                                                                                                 cctgatcgcacaaagcagtcaggcattCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATAAGGATGCGGGCGGTAAGCCGGAGCTGGCGCAGGAGCCACATAg                          >  1:692524‑M2/28‑148 (MQ=255)                                                                                                                  CTGACTGCTTTGTGCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATAAGGATGCGGGCGGTAAGCCGGAGCTGGCGCAGGAGCCACATAGa                         <  4:953089‑M1/148‑1 (MQ=255)                                                                                                                  CTGACTGCTTTGTGCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATAAGGATGCGGGCGGTAAGCCGGAGCTGGCGCAGGAGCCACATAGa                         <  3:672616‑M1/148‑1 (MQ=255)                                                                                                                      tcgcacaaagcagtcaggcattCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATAAGGATGCGGGCGGTAAGCCgg                                                <  1:1121028‑M2/99‑1 (MQ=255)                                                                                                                      tcgcacaaagcagtcaggcattCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATAAGGATGCGGGCGGTAAGCCgg                                                >  2:1121028‑M2/23‑121 (MQ=255)                                                                                                                       tGCTTTGTGCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCa                                                                                               <  1:939799/73‑1 (MQ=255)                                                                                                                       tGCTTTGTGCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCa                                                                                               >  2:939799/1‑73 (MQ=255)                                                                                                                        gCTTTGTGCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATAAGGATGCGGGCGGTAAGCCGGAGCTGGCGCAGGAGCCACATAGACGGtt                    <  4:683820/147‑1 (MQ=255)                                                                                                                        gCTTTGTGCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATAAGGATGCGGGCGGTAAGCCGGAGCTGGCGCAGGAGCCACATAGACGGtt                    >  3:683820/1‑147 (MQ=255)                                                                                                                          tttGTGCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATa                                                                     >  2:777553/1‑96 (MQ=255)                                                                                                                          tttGTGCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATa                                                                     <  1:777553/96‑1 (MQ=255)                                                                                                                           ttGTGCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATAAGGATGCGGGCGGTAAGCCGGAGCTGGCGCAGGAGcc                                <  4:1009526/132‑1 (MQ=255)                                                                                                                           ttGTGCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATAAGGATGCGGGCGGTAAGCCGGAGCTGGCGCAGGAGcc                                >  3:1009526/1‑132 (MQ=255)                                                                                                                           ttGTGCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATAAGGATGCGGGCGGTAAGCCGGAGCTGGCGCAGGAGCCACATAGACGGTTTGCg                >  1:786829/1‑148 (MQ=255)                                                                                                                             gtgCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATAAGGATGCGGGCGGTAAGCCGGAGCTg                                           >  1:375385/1‑119 (MQ=255)                                                                                                                             gtgCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATAAGGATGCGGGCGGTAAGCCGGAGCTg                                           <  2:375385/119‑1 (MQ=255)                                                                                                                               gCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATAAGGATGCGGGCGGTAAGCTGGAGCTGGCACAGGAGCCACATAGACGGTTTGCgg               >  4:86333/1‑145 (MQ=255)                                                                                                                               gCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATAAGGATGCGGGCGGTAAGCCGGAGCTGGCACAGGAGCCACATAGACGGTTTGCgg               <  3:86333/145‑1 (MQ=255)                                                                                                                                  aTCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATAAGGATGCGGGCGGTAAGCCGGAGCTGGCGCAGGAGCcaca                             <  4:79759/128‑1 (MQ=255)                                                                                                                                  aTCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATAAGGATGCGGGCGGTAAGCCGGAGCTGGCGCAGGAGCcaca                             >  3:79759/1‑128 (MQ=255)                                                                                                                                  aTCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATAAGGATGCGGGCGGTAAGCCGGAGCTGGCGCAGGAGCCACATAGACGGTTTGCGGcac            <  2:918958/145‑1 (MQ=255)                                                                                                                                  aTCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATAAGGATGCGGGCGGTAAGCCGGAGCTGGCGCAGGAGCCACATAGACGGTTTGCGGcac            >  1:918958/1‑145 (MQ=255)                                                                                                                                      ggcattCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATAAGGATGCGGGCGGTAAGCCGGAGCTGGCGCAGGAg                                  <  2:267317‑M2/113‑1 (MQ=255)                                                                                                                                      ggcattCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATAAGGATGCGGGCGGTAAGCCGGAGCTGGCGCAGGAg                                  >  1:267317‑M2/7‑119 (MQ=255)                                                                                                                                      ggcattCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATAAGGATGCGGGCGGTAAGCCGGAGCTGGCGCAGGAGCCACATAGACGGTTTGCGGCACAGTcgcg     <  2:786829‑M2/142‑1 (MQ=255)                                                                                                                                       gcattCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATAAGGATGCGGGCGGTAAGCCGGAGCTGGCGCAGGAGCCACATAGACGGTTTGCGGCACAGTCGCGa    >  4:352284‑M2/6‑148 (MQ=255)                                                                                                                                        cattCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATAAGGATgcgggcg                                                         >  4:205348‑M2/5‑94 (MQ=255)                                                                                                                                        cattCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATAAGGATgcgggcg                                                         <  3:205348‑M2/90‑1 (MQ=255)                                                                                                                                         attCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAAc                                                                                                         >  4:36545‑M2/4‑45 (MQ=255)                                                                                                                                         attCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAAc                                                                                                         <  3:36545‑M2/42‑1 (MQ=255)                                                                                                                                         attCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATAAGGATGCGGGCGGTAAGCCGGAGCTGGCGCAGGAGCCACATAGACGGTTTGCGGCACAGTCGCGACg  <  4:672616‑M2/145‑1 (MQ=255)                                                                                                                                          ttCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATAAGGATGCGGGCGGTAAGCCGGAGCTGGCGCAGGAGCCACATAGACGGTTTGCGGCACAGTcgcg     >  4:125761‑M2/3‑144 (MQ=255)                                                                                                                                          ttCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATAAGGATGCGGGCGGTAAGCCGGAGCTGGCGCAGGAGCCACATAGACGGTTTGCGGCACAGTcgcg     <  3:125761‑M2/142‑1 (MQ=255)                                                                                                                                            |                                                                                                                                                 AACGGACTGTTTAATCTCTTCAACCTTGTCAACGGAATTTTGTGGCTGTCGCTGATGGTTATCTTTTTAAAAGATAAACAGATGGGAAATTCTCACGAAGGGTAAAAAAATGCCTGACTGCTTTGTGCGATCAGGCATTCTCGAATTAATGGTGATGGTCGTCAATCTGGTGTTCGATAACCATCCCTTCACCTACGCTGGCAAGATGGCGAACATAAGGATGCGGGCGGTAAGCCGGAGCTGGCGCAGGAGCCACATAGACGGTTTGCGGCACAGTCGCGACG  >  NC_000913/884801‑885084

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ 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.