New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	566777 =	NA (NA)	2112 (44.970)	251/262	NT	97.7%	noncoding (1/1258 nt)	IS3	repeat region
	?	NC_000913	= 572471	49 (1.040)					coding (6/456 nt)	ybcN	DLP12 prophage; DNA base‑flipping protein

AAGATCGCAGAAATTAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTGAAGCCCTGAAGCTT  >  NC_000913/566637‑566919                                                                                                                                             |                                                                                                                                               aaGATCGCAGAAATTAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGa                                                                                                                                              <  1:928044/143‑1 (MQ=255)   gagcGCAGAAACTAAAGGGAAGTGCGGACTGAGAGGAGCGAGTGTATGACGGGGAAAGCGGCGCGTATTCATGACCTGGGGAGGCATAAGAGCGTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATc                                                                                                                                            <  2:232172/140‑1 (MQ=255)       gCAGAAATTAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTAc                                                                                                                                        >  1:320571/1‑143 (MQ=255)              ttAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCACCCGTAATCTGATCTTACCCAGCaa                                                                                                                                 >  2:538685/1‑143 (MQ=255)                     tgaGTGCGGACTGAAAGGAGCGAGTGTATGACGGGCGAAGAGGCAATTATTCATTGCCTGGGGACGCATAAGAGCTTCTCTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGa                                                                                                                          <  2:426942/141‑1 (MQ=255)                     gaaGGTCGGACTGAAGGGAGTTAGTGTAGGACCGGCAAAGAGGCAATTATTCATGACCTGGGGACGCAGAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGGGCAACCGTAATCTGATCTTACCCAGCAATAGTGGa                                                                                                                          <  2:445209/142‑1 (MQ=255)                              aCTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCCAAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCt                                                                                                                 >  1:353266/1‑143 (MQ=255)                                tGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTaa                                                                                                               <  1:904908/143‑1 (MQ=255)                                tGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTaa                                                                                                               >  1:751729/1‑143 (MQ=255)                                tGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGCACACGCGGCtgc                                                                                                               >  2:328051/1‑141 (MQ=255)                                  aaaGGCGCAAGGGTAGGACGGGCAAAGCGCCAATTATTCCATCCATGGAGTGGTAGTATAGCTTCTCTACACTTGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGt                                                                                                             <  2:666959/143‑1 (MQ=16)                                     ggAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCAGTGCACATTACTTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAg                                                                                                          >  1:591988/1‑143 (MQ=255)                                        gCAAGTGTATGACGGGCAAAGAGGCAATTATTCATGACCTGGGGACGCATCAGAGCTGCAGTGCACAGGACGTTGGCGCGGTAACAGGCGCAACCGGACGCTGATCTTACCGAGCAATGGTGGACACGCGCCCAAGTGAGTag                                                                                                       >  2:689978/1‑142 (MQ=255)                                           aGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAggagacg                                                                                                    >  1:376670/1‑137 (MQ=255)                                               tATGACGGGCAAAGCGGCCATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCtca                                                                                                <  1:28653/143‑1 (MQ=255)                                               tATGACGGCCAAAGAAGCAATTATTCATTACCTGGGGACGCATAAGAGCATCAGTGCAAAGGACGTTGCCGCGGTAACAGGCGAAACCGTGAGCTGATCTTACCCAGCCATACAGGCTCATCGGCTAAGTGAGCaacgacaca                                                                                                >  2:794268/1‑136 (MQ=255)                                               caTGGCGGCCAAAGAGGCAATTATTCATTACCGGGGCGCGCATAACAGCTTCTGCGCACAGGCCGTTGCCGCGGTACCAGGCGCAACCGTAATCTGATCGTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCtca                                                                                                <  1:943031/142‑1 (MQ=25)                                                gggACGGGGAACGTGGTATTTATTTACTTGCTGGGGACCAATAAGATCGTGTGTGCACAGGACGTTGCCGACGTTACACGCGCCACCTTAATCTGATCTTACCCAGCAATAGTGGATCCTCGGCTAAGTGAGTACACTCtcag                                                                                               <  2:509270/141‑1 (MQ=12)                                                      ggCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCACCCGTAAGCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCagag                                                                                         <  1:593014/143‑1 (MQ=255)                                                          aaGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGa                                                                                     <  1:93417/143‑1 (MQ=255)                                                              ggCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGACGCGGTAACAGGCGCAACCGGCATCTGATCGTACCCAGCAATAGTGGACACGCGGATAAGTGAGTAAACTACAAGTCAGAGGTGAcgga                                                                                 >  2:836349/1‑140 (MQ=37)                                                               gCAATTATTCATTACCTGGGGACGCATAAGCGCTTTTGAACAGATGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTcac                                                                                <  1:890250/143‑1 (MQ=21)                                                                 gattctgcATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACAt                                                                              <  2:254827/136‑1 (MQ=255)                                                                  attattCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCGCATg                                                                             >  1:692175/1‑143 (MQ=255)                                                                   ttattCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAGTAGTGGATAAGCGTCAAAGAGAGTAAACACACAGTCAGAGGTGACTCACATGa                                                                            >  1:127666/1‑143 (MQ=37)                                                                   ttattCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGa                                                                            >  1:717139/1‑143 (MQ=255)                                                                     attCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACa                                                                          >  2:589440/1‑143 (MQ=255)                                                                         agtgccTGGGGATGAATAAGGTCTTCTGCGCACAGGACGTTGCCGGGGTAACAGGCGCAACCGTAATCTGCTCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACaaaaa                                                                      <  2:647984/139‑1 (MQ=18)                                                                          ttACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAAc                                                                     <  1:201479/143‑1 (MQ=255)                                                                               tGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCaga                                                                                          >  1:341907/1‑117 (MQ=255)                                                                               tGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCaga                                                                                          <  2:341907/117‑1 (MQ=255)                                                                               tGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGGAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTAt                                                                >  1:57415/1‑143 (MQ=255)                                                                                ggggACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGGGGACACGCGGCTAAGTGAGAACACTAACAGTCAGATGTGACTCCCATGACAAAAACAGTATc                                                               >  1:474835/1‑143 (MQ=25)                                                                                     cgaaTACGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCa                                                          <  2:133347/140‑1 (MQ=255)                                                                                     cGCATAAGAGCGTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCa                                                          <  1:934041/143‑1 (MQ=255)                                                                                      gCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAg                                                         >  2:599012/1‑143 (MQ=255)                                                                                        aTAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTCCCTCACATGCCAACCACACTATCCACAAGTa                                                       >  1:647476/1‑143 (MQ=21)                                                                                               cttgcatgCACACGACGTTGCCGCCGCAACATGCCCAACCGTAATCTGATCTTACAGAGCAATAGTCAAAACGCGGCTAAGTGAGTAAACTCTCAGTCAGAAATTACTCACATGACAAAAACAGTATCAACCAGTAAAAAAcc                                                <  2:714878/137‑1 (MQ=14)                                                                                                ttCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACAAGTAAAAAAccc                                               >  1:834209/1‑143 (MQ=255)                                                                                                  cTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCg                                             >  1:120538/1‑143 (MQ=255)                                                                                                      gCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTaaa                                         <  1:320909/143‑1 (MQ=255)                                                                                                        acaGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACa                                       >  1:419674/1‑143 (MQ=255)                                                                                                        acaGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGAGGCAAATTGAGCAAACTCTCAGTCAGAGGTGACTCACATAACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACa                                       >  2:668839/1‑143 (MQ=17)                                                                                                        acaGGACGTTGCCGCGGTAACAGGCGCAACCGTAAGCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCGCAGTCAGAGGTGAATCACATGGCAAACACAGTAACAAACAGCAACAAACACCGTAcaca                                       >  2:476667/1‑143 (MQ=17)                                                                                                          aGGACCTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGc                                     <  2:135484/143‑1 (MQ=255)                                                                                                             aCGTTGCCCGGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGGAAACTCTCAGGCAGAGGTGACGCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCAtt                                  <  2:594151/143‑1 (MQ=14)                                                                                                                ttGCCGCGGTAACAGGCGCAACCTGAAGCGGATCTTACCCAGCAATAGTGGACTCGCGGCTAAGTGAGTAAACCGTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGc                               <  2:241974/143‑1 (MQ=14)                                                                                                                ttGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGc                               <  2:320571/143‑1 (MQ=255)                                                                                                                ttGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGc                               <  2:244039/143‑1 (MQ=255)                                                                                                                    cgcgGTAACAGGCGCAAGCGTAATCTGATCTTACCCAGCAATCGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGGGGTGACGAAGATGACAAAAACAGTATCAACCAGTAGGAAACAGCGTCAACAGCATTGGGCTGa                           >  2:731573/1‑143 (MQ=14)                                                                                                                          aaCAGGCGCAACCGTAATCTGATCTTGCCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCg                     <  1:642953/143‑1 (MQ=255)                                                                                                                          aaCAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAACCTCTCAGTAAGAGTTTACTCAGATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCg                     <  1:592158/143‑1 (MQ=14)                                                                                                                          aaCAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCg                     <  1:264672/143‑1 (MQ=40)                                                                                                                          aaCAGGCGCAACCGTAATCTGATCTAACCTAGTAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCCACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCg                     <  1:251569/143‑1 (MQ=255)                                                                                                                           aCAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGc                    >  1:305913/1‑143 (MQ=39)                                                                                                                            cAGGCGCAACCGGAAGCGGAGCGTAGCGAGCAGTAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTAGCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCa                   <  2:929865/143‑1 (MQ=11)                                                                                                                               gcgcAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTg                <  2:400170/143‑1 (MQ=35)                                                                                                                                 tcatccGTAATGTGATCTTACCCAGCAATAGTGGACACGCGGCGAAGTGAGTAAGTTCTCAGTCAGAGGTGACTCACATGACAAATACAGTATCAACCAGGAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTGaa              <  2:316392/139‑1 (MQ=11)                                                                                                                                             tGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACttagccgcgtgtccactattgctgggtaagatcagttcacgcttcccctccgcagaggtcaaacgctagatgccaaga  >  1:166917‑M1/1‑65 (MQ=255)                                                                                                                                             |                                                                                                                                               AAGATCGCAGAAATTAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTGAAGCCCTGAAGCTT  >  NC_000913/566637‑566919

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ 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.