New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 1299498	0 (0.000)	59 (0.900)	49/274	0.2	100%	intergenic (+253/‑33)	ychE/insH21	putative inner membrane protein/IS5 transposase and trans‑activator
	?	NC_000913	1300698 =	0 (0.000)					intergenic (+151/‑484)	insH21/oppA	IS5 transposase and trans‑activator/oligopeptide ABC transporter periplasmic binding protein

AAATTACAGTTAGTTATAAGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGA‑TATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAATTCAGCAGTAAGCGCCGTCAGACCAGAAAAGAGATTTTCTT  >  NC_000913/1299356‑1299640                                                                                                                                                |                                                                                                                                               aaaTTACAGTTAGTTATAAGGATTTCCTTCACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGA‑TATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAA                                                                                                                                                >  2:1026723‑M1/1‑143 (MQ=255) aaaTTACAGTTAGTTATAAGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGA‑TATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAA                                                                                                                                                >  1:69489‑M1/1‑143 (MQ=255)   aTTACAGTTAGTTATAAGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCAGAAGAATAATTGAAATGA‑TATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAat                                                                                                                                              >  1:1014204‑M1/1‑141 (MQ=255)     tACAGTTAGTTATAAGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGA‑TATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataa                                                                                                                                            <  1:1237599‑M1/143‑5 (MQ=255)      aCAGTTAGTTATAAGGATTTCCTTAACTGCTTCACCTAACCAGCATGTTAGGTTCGCCACATCATAATCCGGGGCTTGCTGAAGAATAATTGAAATGA‑TATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTATataat                                                                                                                                           <  1:222487‑M1/143‑6 (MQ=255)      aCAGTTAGTTATAAGGATTTCCTTAACTACTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGAGCTTGCTGAAGAATAATTGAAATGA‑TATTATTAATTCCACTGCCTTTGGTAGAAGAAATTGCTAActaat                                                                                                                                           >  2:282454‑M1/1‑138 (MQ=255)        agttagttATAAGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGA‑TATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataa                                                                                                                                         <  1:822990‑M1/143‑8 (MQ=255)              ttaTAAGGATTTCCTTAACTGCTTCTTCTTTTCTTCTTGTTATTTTCGCCACAGCATAATCCTGGGCTTGCTGAAGAATCATTGACATGC‑TATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaatt                                                                                                                                   <  1:704251‑M1/143‑14 (MQ=255)                 taAGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATCATCCTGGGCTTGCTGACGAATAATTGAAATGA‑TATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgtt                                                                                                                                >  1:294249‑M1/1‑127 (MQ=255)                 taAGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGA‑TATTATTAATTCCACTGCATTTGATAAAAGAAAGTGAGAAataacaatcaattgtt                                                                                                                                >  1:530407‑M1/1‑127 (MQ=255)                 taAGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGA‑AATTATTAATAACACTGCATTTGGTAGAGGAAAGTGCTAAataataatcaattgtt                                                                                                                                >  1:17501‑M1/1‑127 (MQ=255)                  aaGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCATAGACTTGCTAAAGAATAATTGAAATGA‑TATTATTAATTCCACTGCCTTTGGTAGAGGAAAATGCTAAataataatcaattgtta                                                                                                                               >  1:306928‑M1/1‑126 (MQ=255)                   aGGATTTCTTTCTCTTCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGA‑TATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaa                                                                                                                              <  2:1080187‑M1/143‑19 (MQ=255)                   aGGATTTCCTTAACTGTCTGCGCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGA‑TATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaa                                                                                                                              <  2:574501‑M1/143‑19 (MQ=255)                         tCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGA‑TATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattatt                                                                                                                        <  1:1084184‑M1/143‑25 (MQ=255)                           cTTAACTGCTTCTCTCCACCTTCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGA‑TATTATTAATACCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgt                                                                                                                      <  2:5008‑M1/143‑27 (MQ=255)                            ttAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGA‑TATTAATAAATACACTACCTATAGTAAAGAAAAGTGCTAAataataatcaattgttaaattattgtg                                                                                                                     >  1:20645‑M1/1‑116 (MQ=255)                             tAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATTCTTGAAATGA‑TATTATTAATTCCACTACCTTTGATAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgc                                                                                                                    >  1:401211‑M1/1‑115 (MQ=255)                             tAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGA‑TATTATTAATTCCACTGCCTTTGATAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgc                                                                                                                    >  1:1059977‑M1/1‑115 (MQ=255)                                cTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATTCTCCTCTTCTTGCTCAAGAATAATTGAAATGA‑TAATATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatt                                                                                                                 >  1:47477‑M1/1‑112 (MQ=255)                                 tGCTTTTCCTCACCATCATGTTATATTCGCCACATCAAAATCCTGGGCATGCTGAAGAATAATGGAAATGA‑TATTAGTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcattt                                                                                                                <  1:207922‑M1/143‑33 (MQ=255)                                 tGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGA‑TATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAatactaatcaattgttaaattatcgtgcattt                                                                                                                >  2:334886‑M1/1‑111 (MQ=255)                                   cTTCTCCTCACCCTCATGTTATTTTCACCACATCATAATCCTGGGCTTGCTGACGAATACAT‑ATTTAACGATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttca                                                                                                              <  2:294249‑M1/143‑35 (MQ=255)                                       tcctcACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGA‑TATTATTAATTCCACTGTCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactac                                                                                                          <  2:540258‑M1/143‑39 (MQ=255)                                         ctcACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGA‑TATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactg                                                                                                        >  1:371591‑M1/1‑103 (MQ=255)                                         ctcACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGA‑TATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactg                                                                                                        >  1:756288‑M1/1‑103 (MQ=255)                                          tcACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGA‑TATTATTAATTCCACTGCCTTTAGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactgg                                                                                                       >  1:742657‑M1/1‑102 (MQ=255)                                          tcACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAAATGAAATGA‑TATTATTAATTCCACTGCCTTTGTTAGAGGAAAGTGCTTAataataatacattgttaaatcattcagcattccactacacg                                                                                                       >  2:716794‑M1/1‑102 (MQ=255)                                          tcACCATCATGTTATTTTCGACACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGA‑TATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTACTAAataataatcaattgttaaattattgtgcatttcactactgg                                                                                                       >  2:431623‑M1/1‑102 (MQ=255)                                           cACCATCATGGTATTTTCGCCACATCATAATCCTGGGCTGGCTGAAGAATAATTGAAATGA‑TATTATTAATTCCACTGCCGTGGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactgga                                                                                                      <  2:918547‑M1/143‑43 (MQ=255)                                               atcatGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGA‑TATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCAAAataataataaattattaaattattatgcatttaactactggaactg                                                                                                  >  1:855425‑M1/1‑97 (MQ=255)                                                         tttCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGA‑TATTATTAATTCTACTGCCTTTGGTAGAGGACAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaa                                                                                        <  2:996631‑M1/143‑57 (MQ=255)                                                          ttCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGA‑TATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaa                                                                                       <  1:1154775‑M1/143‑58 (MQ=255)                                                              cctcatcctgatCCTTGTCTCTCTGTAGAATAATTGAAATGA‑TATTATTAATTCCACTGCCTTTGGTATAGGAAAATGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagata                                                                                   <  2:610136‑M1/140‑62 (MQ=255)                                                              ccACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGA‑TATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAacaataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagata                                                                                   >  2:599669‑M1/1‑82 (MQ=255)                                                                 cattatAATCCTAGGCTTGCTTAATAATATTTGAAATGA‑TATTATTAATTCCACTGCCTTTGGAAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagac                                                                                <  1:564605‑M1/143‑65 (MQ=255)                                                                     atAATCCTGGGCTTGCTGAAGAATAATTGAAATGA‑TATTATTAATTCCACTGCCTTTCGTAGACGCCAGTGCTAAataataatcaattgttaaattattgtgcatttaactacttaaactgtaatcgaaaaacaaaaacatgc                                                                            >  1:1191211‑M1/1‑75 (MQ=255)                                                                      tAACCCTGGGCTTGCTGAAGAATAATTGAAATGA‑TATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaagtattgtgcatttcactactggaactgtaatcagaaaagatagacatgct                                                                           <  1:607609‑M1/143‑70 (MQ=255)                                                                            tGGGCTTGCTGAAGAATAATTGAAATGA‑TATTATTAATTCCACTGCCTTTGGTAGTGCACAGTTCTAAatattaataaatcgttaaattattgtgcatttcactactggaactataataagaaaaaaaagaaatgcttatcca                                                                     >  1:106442‑M1/1‑68 (MQ=255)                                                                                cTTGCTGAAGAATAATTGAAATGA‑TATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatct                                                                 >  1:1198539‑M1/1‑64 (MQ=255)                                                                                  tGCCGAAGAATAATTGAAATGA‑TATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctct                                                               <  2:325785‑M1/143‑82 (MQ=255)                                                                                       aagaaTAATTGAAATGA‑TATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttg                                                          >  2:100150‑M1/1‑57 (MQ=255)                                                                                        agaaTAATTGAGATGA‑TATTATTAATTCCACTGCCTGTGTTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttga                                                         <  2:32463‑M1/143‑88 (MQ=255)                                                                                        agaaTAATTGAAATGA‑TATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttga                                                         <  2:756288‑M1/143‑88 (MQ=255)                                                                                             gattGAAATGA‑TAGTATTAATTCCACTGCCTTTGGTAGAGTAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaa                                                    <  1:999102‑M1/142‑93 (MQ=255)                                                                                                    aTGA‑TATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattaaattgaaag                                             >  2:596161‑M1/1‑44 (MQ=255)                                                                                                                  ttCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttaattgaattgaaagatgtttgttaagg                                >  1:563864‑M1/1‑31 (MQ=255)                                                                                                                   ttcacTGCTTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggc                               <  1:322801‑M1/141‑114 (MQ=255)                                                                                                                    ccACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggcactgtaatcagaaaagatagacatgcttagccaatctctatttgattgcattgagagacgtttattaaggca                              >  2:535832‑M1/1‑29 (MQ=255)                                                                                                                     cACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcaatactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcat                             <  2:1014204‑M1/143‑116 (MQ=255)                                                                                                                      aCTGTCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatg                            <  1:779082‑M1/143‑117 (MQ=255)                                                                                                                      aCTGCCTTTGGTAGAGGAAAGTGCTAAataataatcgattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatg                            >  2:200707‑M1/1‑27 (MQ=255)                                                                                                                      aCTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatg                            >  2:175017‑M1/1‑27 (MQ=255)                                                                                                                         gCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttatctacaagaactgtaataagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatggat                         <  1:99498‑M1/143‑120 (MQ=255)                                                                                                                             ttcgtagAGGAAAGTGCTATataataatcaattgttaaattattgtgcatttcactactggaactgtaattagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatggatgcaa                     <  2:379285‑M1/140‑124 (MQ=255)                                                                                                                             ttGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatggatgcaa                     <  2:1198539‑M1/143‑124 (MQ=255)                                                                                                                              tGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcttttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatggatgcaag                    <  1:431623‑M1/143‑125 (MQ=255)                                                                                                                               ggTATAGTAAAGTTCTAAataatattcaattgttaaattattttgcatttccctactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatggatgcaagc                   <  2:704020‑M1/143‑126 (MQ=255)                                                                                                                                  agtggaaaGTGCTATatattattcaattgttaaattattgtgtatttcactactggaactgtaaccagaaaagatagacatgcttagccaatctctatttgattgaattgaacgatgtntgttaaggcatggatgcaagctat                <  1:64743‑M1/140‑129 (MQ=255)                                                                                                                                    agGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgagttgatagatgtttgttaaggcatggatgcaagcgctag              >  1:214794‑M1/1‑13 (MQ=255)                                                                                                                                           tGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatggatgcaaactatagattctga       >  2:60417‑M1/1‑6 (MQ=255)                                                                                                                                                aataataatcaattgttaacttattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggaatggatgcaagctatagattctgatacag  >  2:709286‑M1/1‑1 (MQ=255)                                                                                                                                                |                                                                                                                                               AAATTACAGTTAGTTATAAGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGA‑TATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAATTCAGCAGTAAGCGCCGTCAGACCAGAAAAGAGATTTTCTT  >  NC_000913/1299356‑1299640

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 22 ≤ 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.