New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	566777 =	NA (NA)	2580 (46.110)	258/262	NT	98.0%	noncoding (1/1258 nt)	IS3	repeat region
	?	NC_000913	= 572471	54 (0.960)					coding (6/456 nt)	ybcN	DLP12 prophage; DNA base‑flipping protein

CGAAGATCGCAGAAATTAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACG‑CGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTGAAGCC  >  NC_000913/566635‑566910                                                                                                                                               |                                                                                                                                       cGAAGAGCGCAGAAATTAAAGCGAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCt                                                                                                                                        <  1:529590/143‑1 (MQ=255)  gAAGATCGCAGAAATTAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTg                                                                                                                                       >  1:1008231/1‑143 (MQ=255)   aaGATCGCAGAAATTAAAGCTAGGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAATAGGCGCAACCGTAATCTGa                                                                                                                                      <  1:160921/143‑1 (MQ=255)   aaGATCGCAGAAATTAAAGCCAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATCATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGa                                                                                                                                      <  1:1065605/143‑1 (MQ=255)    aGATCGCAGAAATTAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGAt                                                                                                                                     <  1:18874/143‑1 (MQ=255)         gCAGAAATTAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTAc                                                                                                                                >  2:209237/1‑143 (MQ=255)           aGAAATTAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTAccc                                                                                                                              <  1:108849/143‑1 (MQ=255)             aaaTTAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGTCGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAg                                                                                                                            <  1:491427/143‑1 (MQ=255)                    aGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGt                                                                                                                     >  1:944828/1‑143 (MQ=255)                    aGCTAAGGTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATGCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGt                                                                                                                     <  1:424645/143‑1 (MQ=255)                              ggACTGAACGGAGCACGTGTATGCGGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACG‑Cgg                                                                                                          <  2:55573/143‑1 (MQ=255)                              ggACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACG‑Cgg                                                                                                          <  1:1008909/143‑1 (MQ=255)                                  tGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACCGGCGCAACCGTAATCTGATCTTACCCCGCAATACTGGACACG‑CGGCGaa                                                                                                      >  2:221348/1‑143 (MQ=255)                                  tGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACG‑CGGCTaa                                                                                                      >  1:877495/1‑143 (MQ=255)                                  tGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGAACAGCACGCTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGGCACG‑CGGCTaa                                                                                                      >  2:333647/1‑143 (MQ=255)                                  tGAAAGGAGCAAGTGGATGACGGGCAAAGAGGCAATTATACATTACCTGGGGACGCATAAGAGCTGCTGTGCAGAGGACGTTGCCGCGGTAACAGGCGCAACCGTAAGCGGATCTTGCCCAGCAATAGTGGACGGG‑CGGCTaa                                                                                                      >  2:323087/1‑143 (MQ=255)                                    aaaGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTAACTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTAGCCGCGGTAACAGGCGCAACCGTAATCTGACCTTACCCAGCAATAAGGGA‑ACGCCGGCTAAGt                                                                                                    >  2:1051143/1‑143 (MQ=255)                                      aGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACG‑CGGCTAAGTGa                                                                                                  >  1:493859/1‑143 (MQ=255)                                       ggAGCAAGTGTATGACGGGCAAAGAGGCAATTAATCATTACCTTGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACG‑CGGCTAAGTGAg                                                                                                 >  1:262755/1‑143 (MQ=255)                                        gAGCGAGTGTATGAGGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTGCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACG‑CGGCTAAGTGAGt                                                                                                <  2:700192/143‑1 (MQ=255)                                               gggtgtaCGGGCAGTGAGGCGATGGTCCGTTACCTGGGGAGGCACAAGCGGTTCTGTGAACAGGACGTTGCCGCGGTAGCAGGGGCAACCGTAAGCTGATCTTACCCAGCAATAGTGGACAGG‑TGGCTAAGTGAGTAAActct                                                                                         <  2:1028959/137‑1 (MQ=16)                                                   tGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACG‑CGGCTAAGTGAGTAAACTGtcagt                                                                                     >  2:518905/1‑143 (MQ=255)                                                   tGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTGCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGAAACG‑CGGCACAGTGAGTAACCTCccagt                                                                                     >  2:857716/1‑143 (MQ=38)                                                        ggCAAAGAGGCAATTATGCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACG‑CGGCTAAGTGAGTAAACTCTCAGTCagag                                                                                <  1:809169/143‑1 (MQ=255)                                                         gCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACG‑CGGCTAAGTGAGTAAACTCACAGTCAGAgg                                                                               >  2:318009/1‑143 (MQ=255)                                                                      tattCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACG‑CGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGAc                                                                  >  2:425534/1‑143 (MQ=255)                                                                         tCATTACCTGGGGACGCAGAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACG‑CGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACaaa                                                               <  1:401640/143‑1 (MQ=255)                                                                           aTTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACG‑CGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACaaaaa                                                             >  2:468771/1‑143 (MQ=255)                                                                             tACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGGCACG‑CGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACa                                                           <  1:209237/143‑1 (MQ=255)                                                                              aCCTGGGGACGAATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGGAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACG‑CGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAg                                                          <  2:627585/143‑1 (MQ=255)                                                                                cTGGAGACGCATAAGAGCTTCTGTGCACAGAACATTGCCGCGGTAACAAGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACCCC‑CGCCTAAAAGAGAAAACTCACAGTCAGAGGTGACTCAACCGACAAAAAccgaa                                                        >  2:194604/1‑139 (MQ=21)                                                                                 tGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACG‑CGGCTAAGTGAGTAAGGTGTGCAACAGAACTGCATCACATGACAAAAACAGTAt                                                       <  2:1083849/143‑1 (MQ=25)                                                                                  ggggACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACG‑CGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAACACAGTATc                                                      >  1:826947/1‑143 (MQ=255)                                                                                     gACGCATAAGGGCCTCTGTGCACAGGACGTTGCGGCGCTAACGGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACG‑CGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAAc                                                   <  2:228440/143‑1 (MQ=18)                                                                                              gcgCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGGAATCTGATCTTACGCAGCAATAAGGGACACG‑CGGCTAATTGACTAAACCCTCCGGCCGCGGTGACACACATGACAAAAACCCTACCAACCAGTcaaaa                                          >  2:549556/3‑143 (MQ=255)                                                                                                 caacagagCACAGGACGTTGCCCCGGTAACAGGCGCCACCGTAATCTGATCCTACCCAGCAATAGTGGACACG‑CGGCTAAGTGAGTAGACTCCCAGTCAGAGGTGAAAAAAAAAAAAAAAACAGTATCAACCAGTAAAAAAcc                                       <  2:65976/136‑1 (MQ=17)                                                                                                 cTTCTGTGCGCGGGGAGTTGCCGCGGTAACAGGCGCAAACGTAATATGATCTTACCCAGCAATAGTGGACACG‑CGGCTAAGAGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAAcc                                       <  2:242204/143‑1 (MQ=17)                                                                                                 cTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACG‑CGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACCTCACCAACACAGCATCAACCACTAAAAAAcc                                       >  2:1107003/1‑143 (MQ=18)                                                                                                   gcggtgCACAGGACGTGGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAACAGTGGACACG‑CGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAAcccc                                     <  1:835370/140‑1 (MQ=255)                                                                                                    cTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACCCG‑CGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAAAAGTACAAACCATTAAAAAAccccc                                    >  2:822700/1‑142 (MQ=18)                                                                                                       tgCACAGGACGTTGCCGCGACAAAAGTCGCAGCGGTAATCTGATCTTACGCAGCAATAGTGGACACG‑CGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAAACCCGGaa                                 >  2:396062/1‑143 (MQ=14)                                                                                                        tcacaGGCGGTAGCCACAGTAACAGGCGCAACAGTAATCTGATATTACCCAGCAATATTGGACACG‑CGGCTAAAGGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTaaa                                <  2:293917/142‑1 (MQ=14)                                                                                                          agaGGACGTTGTCGAGATAACAGGCGCAACCGTAATCTGATCTTACCTAGCAATAGTGGACACG‑CGGCTAAGTGAGTAAACTCTCAGTCAGAGGTAACACACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACa                              <  2:766486/141‑1 (MQ=14)                                                                                                          acaGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACG‑CGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACa                                                           <  2:398569/114‑1 (MQ=255)                                                                                                          acaGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACG‑CGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACa                                                           >  1:398569/1‑114 (MQ=255)                                                                                                             ggtcGTTGCCGCGGAACCCGACGCAACCTTAATCTGATCTTACCCAGCAATAGTGGACACG‑CGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCa                           <  1:744266/140‑1 (MQ=14)                                                                                                              ggcgctGCCGCGGGAACAGGCGCAACCGTAATCTGATCGTACCCAGCAATAGTGGACACG‑CGGCCAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCAt                          <  1:1066669/138‑1 (MQ=255)                                                                                                              gACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACG‑CGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCa                                                 >  2:287593/1‑120 (MQ=255)                                                                                                              gACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACG‑CGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCa                                                 <  1:287593/120‑1 (MQ=255)                                                                                                                gggggCCGCGGGAACAGGCGTAACCGTAGTCTGAGCTTACCCAGCAATAGTGGACACG‑CGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTc                        <  1:1024846/139‑1 (MQ=14)                                                                                                                    gCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACG‑CGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCt                    >  1:752534/1‑143 (MQ=255)                                                                                                                      cgcgGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACG‑CGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGa                  >  2:186152/1‑143 (MQ=255)                                                                                                                           tAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACG‑CGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTc             >  1:325262/1‑143 (MQ=40)                                                                                                                             aCAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACG‑CGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAACAACAGTATCAACCAGTCAAAAACCCCGTAAACAGCATTCGCCTGAATCTCGc           >  1:161513/1‑143 (MQ=255)                                                                                                                              cAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACG‑CGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTAGCa          >  1:814216/1‑143 (MQ=38)                                                                                                                                 gcgcAACCGTAATCTGATCTTACCCAGCAATAGTGGACACG‑CGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTg       >  1:641443/1‑143 (MQ=35)                                                                                                                                 gcgcAACCGTAATCTGATCTTACCCAGCAATAGTGGACACG‑CGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTg       >  1:967152/1‑143 (MQ=35)                                                                                                                                     aaCCGTAATCTGATCTTACCCAGCAATAGTGGACACG‑CGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTGAAGc   >  2:85353/1‑143 (MQ=32)                                                                                                                                      aCCGTATTTTGATCTTATCCTGCAATAGTGGTCACG‑TGTCTAAGTAAGTAAACTCTCAGTCAGTGTTGACTCACATGACAAAAACAGTATCAACCAGTAAAATACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTGAAGcc  <  2:982869/143‑1 (MQ=11)                                                                                                                                               |                                                                                                                                       CGAAGATCGCAGAAATTAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACG‑CGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTGAAGCC  >  NC_000913/566635‑566910

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.