New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 1299498	0 (0.000)	34 (1.070)	26/412	0.3	100%	intergenic (+253/‑69)	ychE/insH21	MarC family putative inner membrane protein YchE/IS5 family transposase and trans‑activator
	?	NC_000913	1300698 =	0 (0.000)					intergenic (+151/‑484)	insH21/oppA	IS5 family transposase and trans‑activator/oligopeptide ABC transporter periplasmic binding protein

ATTAAGGGGATTTTCCCCGGCCTGCTTAATTAATTCCTTTCAAATGAAACGGAGCTGCCATGCTCCGTTTACTTCGTCATTATTTTTACTTTGTTCCCGCGCAGTTATCAAAAGCAAAAGGAATAGG‑TAAAAATATTCTTCTCAAATTACAGTTAGTTATAAGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAATTCAGCAGTAAGCGCCGTCAGACCAGAAAAGAGATTTTCTTGTCCCGCATGGAGCAGATTCTGCCATGGCAAAACATGGTGGAAGTCATCGAGCCGTTTTACCCCAAGGCTGGTAATGGCCGGCGACCTTATCCGCTGGAAACCATGCTACGCATTCACTGCATGCAGCATTGGTACAACCTGAGC  >  NC_000913/1299213‑1299785                                                                                                                                                                                                                                                                                               |                                                                                                                                                                                                                                                                                                aTTAAGGGGATTTTCCCCGGCCTGCTTAATTAATTCCTTTCAAATGAAACGGAGCTGCCATGCTCCGTTTACTTCGTCATTATTTTTACTTTGTTCCCGCGCAGTTATCAAAAGCAAAAGGAATAGG‑TAAAAATATTTTTCTCAAATTACAGTTAGTTATAAGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAa                                                                                                                                                                                                                                                                                                <  1:505996‑M1/287‑2 (MQ=255)    aaGGGGATTTTCCCCGGCCTGCTTAATTAATTCCTTTCAAATGAAACGGAGCTGCCATGCTCCGTTTACTTCGTCATTATTTTTACTTTGTTCCCGCGCAGTTATCAAAAGCAAAAGGAATAGG‑TAAAAATATTCTTCTCAAATTACAGTTAGTTATAAGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataat                                                                                                                                                                                                                                                                                            >  1:249706‑M1/1‑283 (MQ=255)          aTTTTCCCCGGCCTGCTTAATTAATTCCTTTCAAATGAAACGGAGCTGCCATGCTCCGTTTACTTCGTCATTATTTTTACTTTGTTCCCGCGCAGTTATCAAAAGCAAAAGGAATAGG‑TAAAAATATTCTTCTCACATTACAGTTAGTTATAAGGATTTCCTTAACTGCTTCTCTTCACCATCATGTTATTTTCGCCACATCATAATCCTGGCCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcat                                                                                                                                                                                                                                                                                      >  1:33974‑M1/1‑277 (MQ=255)                         cTTAATTAATTCCTTTCAAATGAAACGGAGCTGCCATGCTCCGTTTACTTCGTCATTATTTTTACTTTGTTCCCGCGCAGTTATCAAAAGCCAAAGGAACAGG‑TAAAAATATTCTTCTCAAATTACAGTTAGTTATAAGGATTTTCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAATGTGCTAAataataatcaattgataaattattg                                                                                                                                                                                                                                                                        >  1:484065‑M1/1‑262 (MQ=255)                                                              gCTTCGTTTACTTCGTCATTATTTTTACTTTGTTCCCGCGCAGTTATCAATAGCAAAAGGAATAGG‑TAAGAATATTCTTCTCAAATTACTGTTAGTTATAAGGATTTCCTTAACTGCTTCTCCTCTCCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgtgaaattattgtgcatttcactactggaactgtaatcagaaaagataga                                                                                                                                                                                                                                  <  1:457260‑M1/288‑64 (MQ=255)                                                                                                             aaaaaaaaaaaggaattggtTAAAATTATTCTTCTAAAAGTCCAGTTAGTTATAAGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaaatataatcagaaaagatagacatgcttagccaatctttatttgattgaattgaaagatgtttgtta                                                                                                                                                                                    <  2:484065‑M1/281‑110 (MQ=255)                                                                                                                           aaanataaaaattttttttCTCACATTACAGTTAGTTATAAGGTTTTCCTTAACTGCTTTTCCTCACCATAATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactggaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatggatgcaa                                                                                                                                                                      <  2:249706‑M1/281‑124 (MQ=255)                                                                                                                             nngnnncattttcccttctccaattcccgttgaTTATAAGTATTTCCTTAACTGCTTCTCCTCACCAGCATGTTAATTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGCTATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatggatgc                                                                                                                                                                        <  2:33974‑M1/270‑122 (MQ=255)                                                                                                                                   aaaaTATTCTTCTCAAATTACAGTTAGTTATAAGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatggatgcaagctataga                                                                                                                                                              <  1:196604‑M1/288‑132 (MQ=255)                                                                                                                                               tcAAATTACAGTTAGTTATAATGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTAGGCTTGATGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcacttgactactggagctgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattga                                                                                                                                                                                                 <  1:138085‑M1/241‑97 (MQ=255)                                                                                                                                                                        ttCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatggatgcaagctatagattctgatacggtcaataaaagagaattgcttaacaat                                                                                                                         >  1:344319‑M1/1‑120 (MQ=255)                                                                                                                                                                        ttCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatggatgc                                                                                                                                                                        >  1:360889‑M1/1‑120 (MQ=255)                                                                                                                                                                        ttCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatggatgc                                                                                                                                                                        <  2:360889‑M1/241‑122 (MQ=255)                                                                                                                                                                              aaCTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatggatgcaagctatagattctgatacggtcaataaaagagaattgcttaacaattttgca                                                                                                                   <  1:373873‑M1/288‑175 (MQ=255)                                                                                                                                                                               aCTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaatta                                                                                                                                                                                                                                                                           >  2:464846‑M1/1‑113 (MQ=255)                                                                                                                                                                               aCTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaatta                                                                                                                                                                                                                                                                           <  1:464846‑M1/135‑23 (MQ=255)                                                                                                                                                                                                   tGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggca                                                                                                                                                                               <  1:377033‑M1/207‑115 (MQ=255)                                                                                                                                                                                                   tGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggca                                                                                                                                                                               >  2:377033‑M1/1‑93 (MQ=255)                                                                                                                                                                                                        ttttCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatggatgcaa                                                                                                                                                                      <  1:214749‑M1/211‑124 (MQ=255)                                                                                                                                                                                                        ttttCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatggatgcaa                                                                                                                                                                      >  2:214749‑M1/1‑88 (MQ=255)                                                                                                                                                                                                                              ggCTTGCTGAAGGATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTATAGGAAAGTGCTGAataataatcacttgttaacttattttgc                                                                                                                                                                                                                                                                     >  2:189664‑M1/1‑66 (MQ=255)                                                                                                                                                                                                                              ggCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagc                                                                                                                                                                                                                        >  1:199444‑M1/1‑66 (MQ=255)                                                                                                                                                                                                                              ggCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagc                                                                                                                                                                                                                        <  2:199444‑M1/139‑74 (MQ=255)                                                                                                                                                                                                                                   gCTGACGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTACAGGAAAGTGCTAAataataatcaattgttaaattattttgcatttcactactggacctgtaatcagaaaagatagacatgcttagtcaatctctatttgattgatatgatagctgtttgttaagtcatggatgcaagctatagattctgatacggtcaataaaagagaattgcttaacaattttgcaaaatgtattggcgagtaaga                                                                                               >  1:537627‑M1/1‑61 (MQ=255)                                                                                                                                                                                                                                   gCTGAAGAATAATTTAAATGATATTATTAATGCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatggatgcaagctaaagattctgatacggtcaataaaagagaattgcttaacaattttgcaaaaagtattggcgagtaagaaccgcatttggtactttccgggcaaccgccaga                                                              <  1:410515‑M1/288‑228 (MQ=255)                                                                                                                                                                                                                                   gCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatggatg                                                                                                                                                                         <  2:517337‑M1/181‑121 (MQ=255)                                                                                                                                                                                                                                   gCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatggatg                                                                                                                                                                         >  1:517337‑M1/1‑61 (MQ=255)                                                                                                                                                                                                                                   gCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgca                                                                                                                                                                                                                                                                    >  2:210079‑M1/1‑61 (MQ=255)                                                                                                                                                                                                                                   gCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgca                                                                                                                                                                                                                                                                    <  1:210079‑M1/90‑30 (MQ=255)                                                                                                                                                                                                                                   gCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaatta                                                                                                                                                                                                                                                                           <  2:239082‑M1/83‑23 (MQ=255)                                                                                                                                                                                                                                   gCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaatta                                                                                                                                                                                                                                                                           >  1:239082‑M1/1‑61 (MQ=255)                                                                                                                                                                                                                                                    aTGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatggatgcaagctatagattctgatacggtcaataaaagagaattgcttaacaattttgcaaaatgtattggcgagtaagaaccgc                                                                                          >  1:226367‑M1/1‑44 (MQ=255)                                                                                                                                                                                                                                                                                    tcctttgttaaaataaaattaatttgttaaattattgtgcatttaactaatggaactgtaatcagaaaagttagacttgcttagccaatctctatttaattgaattgaaagatgtttgttaaggcatggatgcaagctatagattctgatacggtcaataaaagagaattgcttaacaattttgcaaaatgtattggcgagtaagaaccgcatttggtactttccgggcaaccgccagacgattctttattggtaatgagaataattaacaattaaagagcgtcgcga             <  2:132198‑M1/278‑277 (MQ=255)                                                                                                                                                                                                                                                                                     gAAAGTGCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatggatgcaagctatagattctgatacggtcaataaaagagaattgcttaacaattttgcaaaatgtattggcgagtaagaaccgcatttggtactttccgggcaaccgccagacgattctttattggtaatgagaataattaacaattaaag                       >  1:169547‑M1/1‑11 (MQ=255)                                                                                                                                                                                                                                                                                           gCTAAataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatggatgcaagctatagattctgatacggtcaataaaagagaattgcttaacaattttgcaaaatgtattggcgagtaagaaccgcatttggtactttccgggcaaccgccagacgattctttattggtaatgagaataatt                                  <  1:483726‑M1/260‑256 (MQ=255)                                                                                                                                                                                                                                                                                               aataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatggatgcaagctatagattctgatacggtcaataaaagagaattgcttaacaattttgcaaaatgtattggcgagtaagaaccgcatttggtactttccgggcaaccgccagacgattctttattggtaatgagaataattaacaattaaagagcgtcgcgaaagaataatgt  >  1:542523‑M1/1‑1 (MQ=255)                                                                                                                                                                                                                                                                                               aataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatggatgcaagctatagattctgatacggtcaataaaagagaattgcttaacaattttgcaaaatgtattggcgagtaagaaccgcatttggtactttccgggcaaccgccagacgattctttattggtaatgagaaaaanaaaatnat                           >  2:335371‑M1/1‑1 (MQ=255)                                                                                                                                                                                                                                                                                               aataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatggatgcaagctatagattctgatacggtcaa                                                                                                                                               >  1:391932‑M1/1‑1 (MQ=255)                                                                                                                                                                                                                                                                                               aataataatcaattgttaaattattgtgcatttcactactggaactgtaatcagaaaagatagacatgcttagccaatctctatttgattgaattgaaagatgtttgttaaggcatggatgcaagctatagattctgatacggtcaa                                                                                                                                               <  2:391932‑M1/147‑147 (MQ=255)                                                                                                                                                                                                                                                                                               |                                                                                                                                                                                                                                                                                                ATTAAGGGGATTTTCCCCGGCCTGCTTAATTAATTCCTTTCAAATGAAACGGAGCTGCCATGCTCCGTTTACTTCGTCATTATTTTTACTTTGTTCCCGCGCAGTTATCAAAAGCAAAAGGAATAGG‑TAAAAATATTCTTCTCAAATTACAGTTAGTTATAAGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTGAATTCAGCAGTAAGCGCCGTCAGACCAGAAAAGAGATTTTCTTGTCCCGCATGGAGCAGATTCTGCCATGGCAAAACATGGTGGAAGTCATCGAGCCGTTTTACCCCAAGGCTGGTAATGGCCGGCGACCTTATCCGCTGGAAACCATGCTACGCATTCACTGCATGCAGCATTGGTACAACCTGAGC  >  NC_000913/1299213‑1299785

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 11 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ 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.