New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 1979489	0 (0.000)	24 (0.590)	22/284	0.9	100%	intergenic (‑274/‑264)	insA/uspC	IS1 repressor TnpA/universal stress protein
	?	NC_000913	= 2290111	NA (NA)					intergenic (‑32/+1)	insH1/yejO	IS5 transposase and trans‑activator/pseudogene, autotransporter outer membrane homology,putative transport, Not classified, putative ATP‑binding component of a transport system

TGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTAAATAATCATCTGCTATAAATAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAATTAAATACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATATTAACCA‑CTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTG  >  NC_000913/1979351‑1979624                                                                                                                                           |                                                                                                                                         aacgccttaaatggcgaagaaacggtctaaataggctgattcaaggcatttacgagagaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccCTAATTaa                                                                                                                                      <  2:373086‑M1/8‑1 (MQ=255)  acgccttaaatggcgaagaaacggtctaaataggctgattcaaggcatttacgggagaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccCTAATTaaa                                                                                                                                     >  2:696078‑M1/135‑143 (MQ=255)   cgccttaaatggcgaagaaacggtctaaataggctgattcaaggcatttacgggagaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccGTAATTAAAt                                                                                                                                    <  2:144870‑M1/10‑1 (MQ=255)         gAATACTCGAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTAAATAATCATCTGCTATAAATAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAggaaggtgcgaa                                                                                                                              <  1:271215‑M1/143‑13 (MQ=255)            tggcgaagaaacggtctaaataggctgattcaaggcatttacgggagaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccCTAATTAAATACaaagaaa                                                                                                                           >  1:145219‑M1/125‑143 (MQ=255)            taatCTAAATGGGATTTTTCGCACAGTCAAAATAACTCACCGTAAATAATCATCTGCTATAAATAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAggaaggtgcgaacaa                                                                                                                           <  1:637726‑M1/143‑16 (MQ=255)              atCGAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTACATAATCATCTGCTATAAATAATCACTTTCATGGAATAGAAGATAAGCTATTTTTCAACAGACACTTACGCCACCGCAAACTAAgcaaagtgcgaacaagt                                                                                                                         >  2:446383‑M1/1‑126 (MQ=255)              atCGAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTAAATAATCATCTGCTATAAATAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAggaaggtgcgaacaagt                                                                                                                         >  2:677541‑M1/1‑126 (MQ=255)               cgaagaaacggtctaaataggctgattcaaggcatttacgggagaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccCTAATTAAATACAAAGAAAGGc                                                                                                                        <  1:273195‑M1/22‑1 (MQ=255)               cgaagaaacggtctaaataggctgattcaaggcatttacgggagaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttcaacagctgtaaacaccagccCTAATTAAATACAAAGAAAGGc                                                                                                                        >  1:395181‑M1/122‑143 (MQ=255)                gaagaaacggtctaaataggctgattcaaggcatttacgggagaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccCTAATTAAATACAAAGAAAGGca                                                                                                                       >  2:239046‑M1/121‑143 (MQ=255)                gaagaaacggtctaaataggctgattcaaggcatttacgggagaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgctaattcgcaccttccCTAATTAAATACAAAGAAAGGca                                                                                                                       <  1:623130‑M1/23‑1 (MQ=255)                     cgggaTGTTCCGCACAGTCAACAGTACGCACCGTAAATAATCATCTGCTATAAAGAATCGCTTTCATGCAACACCAGATAAGCTATTTTTAAACAGCCCCTTACCGCACAACAAACTAAggaaggtgcgaacaagtccctgat                                                                                                                  <  1:280174‑M1/142‑25 (MQ=255)                        ggtctaaataggctgattcaaggcatttacgggagaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccCTAATTAAATACAAAGAAAGGCAACAATCaa                                                                                                               >  2:498874‑M1/113‑143 (MQ=255)                        ggtataagtaggctgattcaaggcatttacgggagaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccCTAATTAAATACAAAGAAAGGCAACAATCaa                                                                                                               >  1:476405‑M1/113‑143 (MQ=255)                         gtctaaataagctcattcaaggcatttacgggagaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccCTAATTAAATACAAAGAAAGGCAACAATCAAc                                                                                                              >  2:181023‑M1/112‑143 (MQ=255)                          tctaaataggctgattcaaggcatttacgggagaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccCTAATTAAATACAAAAAAAGGCAACAATCAACt                                                                                                             <  2:691295‑M1/33‑1 (MQ=255)                           gTTGCGCACAGTCAAAATAACTCACCGTAAATAATCATCTGCTATAAATAATAACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCACACAACAAACTAAggaaggtgcgaacaagtccctgatatgaga                                                                                                            >  2:566134‑M1/1‑113 (MQ=255)                                    ctgattcaaggcatttacgggagaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccCTAATTAAATACAAAGAAAGGCAACAATCAACttaatgttaat                                                                                                   >  2:35693‑M1/101‑143 (MQ=255)                                           aaggcatttacgggagaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccCTAATTAAATACAAAGAAAGGCAACACTCCACTTAATGTTCATGAAATGt                                                                                            <  2:52090‑M1/50‑1 (MQ=255)                                           aaggcatttacgggagaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccCTAATTAAATACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAATGt                                                                                            <  2:275991‑M1/50‑1 (MQ=255)                                            aggcatttacgggagaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccCTAATTAAATACAAAGCAAGGCAACACTCAACTTCATGTTAATGACATGtt                                                                                           <  1:475802‑M1/51‑1 (MQ=255)                                            aggcatttacgggagaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccCTAATTAAATACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAATgta                                                                                           <  2:157862‑M1/51‑2 (MQ=255)                                               catttacgggagaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccCTAATTAAATACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAATGTTTTa                                                                                        >  2:370550‑M1/90‑143 (MQ=255)                                                tCACCGTAAATAATCATCTGCTATAAATAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACCCACTAAggaaggttcgaacaagtccctgatatgacatcatgcttgtcatctggagcc                                                                                       >  2:26364‑M1/1‑92 (MQ=255)                                                       ggagaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccCTAATTAAATACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATAtt                                                                                >  1:491802‑M1/82‑143 (MQ=255)                                                         agaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccCTAATTAAAAACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAAAGTCTTACATATATTaa                                                                              <  1:208224‑M1/64‑1 (MQ=255)                                                         agaaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgaaccttccCTAATTAAAGACAAAGAAAGGCAACAATCAACTTAATAATAATGAAATGttgtacataagataa                                                                              <  1:208208‑M1/64‑7 (MQ=255)                                                           aatCATCTGCTATAAATAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAggaaggtgcgaacaagtccctgatatgatatcttttttgtcatctggagccatagaacaggg                                                                            <  1:121469‑M1/143‑63 (MQ=255)                                                           aaaaaatcggctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttcttcgcaccttccCTAATTAAATACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATATTAAcc                                                                            <  2:449383‑M1/66‑1 (MQ=255)                                                               cacccggtaaaacatgaagaaatgaaatgacttagtcatccgagaagaatttgcccgcttattcgcacctgccCTAATTAAATACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATATTAACCA‑Ctt                                                                       >  1:65909‑M1/74‑143 (MQ=255)                                                                  cggctcaaacatcaagaaatgaaatgactgagtcagccgaaaagaatttccccgcttattcgcaccttccCTAATTAAATACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATATTAACCA‑CTTGtt                                                                    >  1:570623‑M1/71‑143 (MQ=255)                                                                     tataAATAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatga                                                                  <  2:669530‑M1/143‑73 (MQ=255)                                                                     ctcaaacatgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattagcaccttccCTAATCAAATAGAAAGAAAGGAAACAATCAACTAAATGTTAATGAAATGATTTACATCTAATAACCAACTtgttca                                                                  <  1:250541‑M1/76‑3 (MQ=255)                                                                       caaacatgaagaaatgaaatgactgagtcagccgagaagactttccccgcttattcgcaccttccCTAATTAAATACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATATTAACCA‑CTTGTTTAATg                                                               >  1:35446‑M1/66‑143 (MQ=255)                                                                           catgaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccCTAATTAAATACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATATTAACCA‑CTTGTTTAATGCGga                                                           >  1:333137‑M1/62‑143 (MQ=255)                                                                              tCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatgagtcatcaac                                                         >  2:626906‑M1/1‑62 (MQ=255)                                                                              gaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccCTAATTAAATACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATATTAACCA‑CTTGTTTAATGCGGAGaa                                                        <  2:478207‑M1/85‑1 (MQ=255)                                                                              gaagaaatgaaatgactgagtcagccgagaagaatttccccgcttattcgcaccttccCTAATTAAATACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATATTAACCA‑CTTGTTTAATGCGGAGaa                                                        <  2:230394‑M1/85‑1 (MQ=255)                                                                               aagaaatgaaatgactgagtcagccgagaagaatttccccgtttattcgcaccttccCTAATTAAATACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATATTAACCA‑CTTGTTTAATGCGGAGAAt                                                       >  2:259755‑M1/58‑143 (MQ=255)                                                                                agaaatgaaatgactaagtcagccgcgaagaattgccccgcttattagcaccttccCTAATTAAATACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATATTAACCA‑CTTGTTTAATGCGGAGAATc                                                      >  1:144870‑M1/57‑143 (MQ=255)                                                                                aCTGTCGTGCCATACCAGATAAGCTATTTTTCAACAGAGACTTACCGCACAACATACTAAggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatgagtcatcaactt                                                       <  1:527513‑M1/143‑84 (MQ=255)                                                                                  tttCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagacatagaccagggttcatcatgagtcatcaaattac                                                     >  1:4641‑M1/1‑58 (MQ=255)                                                                                   aatgaaatgactgcgtcagccgagaagaatttccccgcttattcgcaccttccCTAATTAAATACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATATTAACCA‑CTTGTTTAATGCGGAGAATCAGt                                                   >  2:155924‑M1/54‑143 (MQ=255)                                                                                    tCATGCAATACCAGATAAGCTATTTTTAAATAGACACTTACCGCACAACAAACTAAggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatgagtcatcaacttacct                                                   >  2:576390‑M1/1‑56 (MQ=255)                                                                                        gCAATACCAGATAAGCTATTTTTAAACAGACACTGACCGCACAACAAACTAAggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatgagtcatcaacttaccttcgc                                               <  2:157964‑M1/143‑92 (MQ=255)                                                                                             gccaGCTAAGCGAGTTGTAAACAGACACTTACCGCATAACAAACTAAggaaggtgcgaacaactccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatgagtcatcaacttaccttcgccgaca                                          <  1:336547‑M1/142‑97 (MQ=255)                                                                                               cAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAAggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatgagtcatcaacttaccttcgccgacagt                                        >  2:198960‑M1/1‑45 (MQ=255)                                                                                                aGATAAGCTATTTTTAAACAGACACTTACCGCACATGTAACTAAtgaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatgagtcatcaacttaccttcgccgacagtg                                       >  2:682976‑M1/1‑44 (MQ=255)                                                                                                    agctgagacgaagctccccgcttattcgcacattccCTAATTAAATACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATATTACCCA‑CTTGTTTAATGCGGAGAATCAGTACACTATTCTCTTATaa                                  >  1:530098‑M1/37‑143 (MQ=255)                                                                                                       cTATTTTTAAACAGACACTTACCGCACAACAAACTAAggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatgagtcatcaacttaccttcgccgaaagtgcattcac                                >  1:489864‑M1/1‑37 (MQ=255)                                                                                                            tttAAACAGACACTTACCGCACAACAAACTAAggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatgagtcatcaacttaccttcgccgacagtgaattcagcagta                           <  2:567714‑M1/143‑112 (MQ=255)                                                                                                                tttccccgcttattcgcaccttccCTAATTAAATACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAAGGTTTTACATATATTAACCA‑CTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGaaa                      <  2:268807‑M1/119‑1 (MQ=255)                                                                                                                aaaagacACTTGCCCCACACAAAAATAAggaatgtaccaacaagtccctgatattagatcatgtttgtcatctggagccatagaacagggttcatcatgagtcatcaacttaccttcgccgacagtgaattcagcagtaagcg                       <  1:355597‑M1/140‑116 (MQ=255)                                                                                                                  tccccgcttattcgcaccttccCTAATTAAATACACAGAAAGGCAACAATCAACTTAATGTTAATGAAATGTTTTACACATCTTTACCA‑CGTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAAtt                    >  2:451061‑M1/23‑143 (MQ=255)                                                                                                                   aGACACTTACCGCACAACAAACTAAggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatgagtcatcaacttaccttcgccgccagtgaattcagcagtaagcgccg                    >  1:305801‑M1/1‑25 (MQ=255)                                                                                                                      cgcatatacgcaccttccCTAATTAAATACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATATTAACCA‑CTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTatat                >  2:472670‑M1/19‑143 (MQ=255)                                                                                                                       acTTACCGCACAACAAACTAAggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatgagtcatcaacttaccttcgccgacagtgaattcaccggtacgcgccgccag                >  1:511468‑M1/1‑21 (MQ=255)                                                                                                                            ttcgcaccttccCTAATTAAATACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATATTAACCA‑CTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGCTCAc          >  1:478207‑M1/13‑143 (MQ=255)                                                                                                                              cgcaccttccCTAATTAAATACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATATTAACCA‑CTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAAGTATATGATCACCg        <  1:292511‑M1/133‑1 (MQ=255)                                                                                                                                 accttccCTAATTAAATACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATATTAACCA‑CTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGa     >  2:273195‑M1/8‑143 (MQ=255)                                                                                                                                  aacaaACTAAggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatgagtcatcaacttaccttcgccgacagtgaattcagcagtaagcgccgtcagaccagaaaaga     <  2:654015‑M1/143‑134 (MQ=255)                                                                                                                                    ttccCTAATTAAATACAAAGAAAGGCAACAATCAACTTAATATTAATGAAATGTTATACAGATATTAACCA‑CTTGTTTAATGCGGAGAATCAGTACACTATTATCTTATAACTACATTTGAAATTACATGaccaccgagacag  <  1:275256‑M1/139‑7 (MQ=255)                                                                                                                                    tcacctaaggaaggtgcgaacaagtccctgatatgagataatgttggtcgtatggagccatagaacagggttcatcatgagtcatcaacttaccttcgccgaccgtgaattcagcagtaggcgccgtcgagcccgaaacgaga   >  1:391951‑M1/5‑8 (MQ=255)                                                                                                                                           |                                                                                                                                         TGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTAAATAATCATCTGCTATAAATAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAATTAAATACAAAGAAAGGCAACAATCAACTTAATGTTAATGAAATGTTTTACATATATTAACCA‑CTTGTTTAATGCGGAGAATCAGTACACTATTTTCTTATAATTACATTTGAAATTATATGATCACCGGGAGTG  >  NC_000913/1979351‑1979624

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