New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	566777 =	NA (NA)	2117 (43.680)	266/278	0.0	97.8%	noncoding (1/1258 nt)	IS3	repeat region
	?	NC_000913	= 572471	49 (1.000)					coding (6/456 nt)	ybcN	DLP12 prophage; DNA base‑flipping protein

ATCGCAGAAATTAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTG  >  NC_000913/566640‑566905                                                                                                                                          |                                                                                                                                 aTCGCAGAAATTAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCt                                                                                                                             >  1:612523/1‑143 (MQ=255)      aGAAATTAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCATCCGTCATCTGATCTGAccc                                                                                                                        >  2:768239/1‑143 (MQ=255)          aTTAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTGCCCAGCa                                                                                                                    >  1:101457/1‑143 (MQ=255)           ttAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCACAACCGGAATCTGACCTTGCCCAGCaa                                                                                                                   >  2:330039/1‑143 (MQ=255)              aaGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAg                                                                                                                <  1:450453/143‑1 (MQ=255)               aGCTAAGTTCGGACAGAAAGGAGGAAGTGTATGACGGGCAAAGAGGCAATTATCCATTACCGGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGt                                                                                                               <  1:51150/143‑1 (MQ=255)                ggtacgTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTg                                                                                                              <  2:373485/138‑1 (MQ=255)                         gggcTGAAAGGGGCACGCGTGGGACGGCGGAAGAGGCGATGCCTCAGTGCCTGGGGACGCATAAGAGCTTCTGTGGACAGGGCGGTGCCGCGGTAACGGGCGCAACCGTAATCTGCTCTTACCCAGCAATAGTGGACACGCgg                                                                                                     <  2:618388/140‑1 (MQ=255)                         ggACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCgg                                                                                                     <  1:880661/143‑1 (MQ=255)                               taaGGAGTAAGTGTATTACGGGCAAAGATGAAATTATTCATTACCTGGGGACGCAGAAGAGCTTCTGTGCACAGGACGGTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGt                                                                                               <  1:517361/142‑1 (MQ=38)                               aggggaggaAGTGTGCGAGGGGCAAAGAGGGAAGGGTGCATCACCCAGGGACGCATAAGAGCTTCGGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGt                                                                                               <  1:852371/140‑1 (MQ=25)                               aaaGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGt                                                                                               >  1:759860/1‑143 (MQ=255)                               aaaGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACATGGGGACGAATAAGAGCTTCTGTGCACAAGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGGTCTTACGCAGCAATAGTGGACACGCGGCTAAGt                                                                                               >  1:300687/1‑143 (MQ=39)                                            tATGTCGTGCAAAGAGGCAATTATTCATTGCCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCtca                                                                                  <  2:461727/143‑1 (MQ=255)                                            cattaCGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCTCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCtca                                                                                  <  1:422112/139‑1 (MQ=255)                                             aTGACGCGCAAAGAGGCAATTATTCCTTACCTGGCGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCtcag                                                                                 <  2:276357/143‑1 (MQ=255)                                              tGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACTGGCTCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCtcagt                                                                                <  1:809917/143‑1 (MQ=255)                                                  ggtcAAAGAGTCAGTGATTCAGTACCTGGTGATGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCaga                                                                            <  2:75442/140‑1 (MQ=25)                                                  gggCAAAGAGGCAATTTCTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCCTAATCTGATCTTACCCAGCAAGAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCaga                                                                            <  1:807301/143‑1 (MQ=255)                                                   ggCACAGAGGCAATTATTCAGTACCGGGGGACGCATGAGAGCTTCTGTGGACAGGACGTTGCCGCGGTACCAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGGGGACACGCGGCTAAGTGAGTAAACTCTCAGTCagag                                                                           <  1:126635/143‑1 (MQ=25)                                                    gCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAgg                                                                          <  1:828056/143‑1 (MQ=255)                                                            gCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTcac                                                                  >  1:808642/1‑143 (MQ=255)                                                             cAATTATTCATTACCTGGGGCCGCATACGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTcaca                                                                 <  2:40931/143‑1 (MQ=255)                                                                ttatgCGTTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGa                                                              <  2:849665/143‑1 (MQ=255)                                                                cgatctaTTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGa                                                              <  1:590516/137‑1 (MQ=255)                                                                 tattCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGCGGTGACTCACATGAc                                                             >  2:246835/1‑143 (MQ=255)                                                                       ttACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGAGAAGCGGCGAAGTGAGTCAAATCTCAGTCAGAGGTGACTCACAGGACagatcg                                                       >  2:590516/1‑138 (MQ=25)                                                                        tACCTGTGCACGCATTAGAGCTTCTGTGCACTGGACGTGGCTGCGGTAACAGGCGCACCCGTAATCTGAGCTAACCTAGCAAGAGTGGAGAAGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACa                                                      <  2:65508/143‑1 (MQ=18)                                                                           cTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCtcagt                                                                                >  2:852821/1‑114 (MQ=255)                                                                           cTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCtcagt                                                                                <  1:852821/114‑1 (MQ=255)                                                                            tGGCGACGCATAAGAGCTTCTGTGTACAGTATATTGCCGCGTTAACAGGCTCAACCGTAATCTGATCTTTCTCTGTATTAGGGAACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTAt                                                  <  1:809940/143‑1 (MQ=18)                                                                                gACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACCTGACAAAAACAGAATCaag                                              >  2:178747/1‑142 (MQ=255)                                                                                gACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAAc                                              <  2:553054/143‑1 (MQ=255)                                                                                  cGCATAAGGGCTGCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAACCTGATCTTACCCAGCAATCGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCa                                            <  1:802540/143‑1 (MQ=255)                                                                                      tAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTaa                                        >  2:362682/1‑143 (MQ=255)                                                                                      tAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTAACCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTaa                                        <  1:806191/143‑1 (MQ=255)                                                                                            catccgtgCACAGGATGGTGCCCCGGTAACAGGCTCAACCGTAATCTGATCTTACCCATCAATAGTGGACACGCGACTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAAcc                                  <  2:393556/138‑1 (MQ=17)                                                                                              acggtgCACAGGACGTGGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAAcccc                                <  1:713844/140‑1 (MQ=255)                                                                                                 gtgCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCAACAAAGTGAGTAAACACTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACACCGTa                             >  1:481654/1‑143 (MQ=18)                                                                                                   gCACAGGACGTTGCCGCGGTAACAGGCGCCACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGTCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTaaa                           <  1:822480/143‑1 (MQ=255)                                                                                                    cacaGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGCATGACATGACCAACACAGTATCGACCCGTCAAAAACCCCGTAAAc                          >  2:576076/1‑143 (MQ=17)                                                                                                     acaGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGa                                                                                                                                <  2:314798/40‑1 (MQ=255)                                                                                                     acaGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGa                                                                                                                                >  1:314798/1‑40 (MQ=255)                                                                                                     acaGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACa                         <  1:706487/143‑1 (MQ=255)                                                                                                     acaGGACGTTGCCGCGGTAACAGGCGCAACAGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACCAAAACAGTATCAACCAGTAAAAAACCCCGTAAACa                         >  2:125473/1‑143 (MQ=255)                                                                                                      caGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAg                        <  1:444600/143‑1 (MQ=255)                                                                                                               gCCGCGGTACCAGGCGCAGCCGTAATCTGATCGTACCCAGCAATAGTGGACACGCGGCTAAGTAAGTAAACTCTCAGGCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCt               <  2:159100/143‑1 (MQ=14)                                                                                                                 cgcgGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAGCAGCATTCGCCTGa             >  1:148042/1‑143 (MQ=255)                                                                                                                       aaCAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCg       <  2:759860/143‑1 (MQ=40)                                                                                                                         cAGGCGCAACCGTAATCTGATCTTACCCAGCAGTGGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCa     <  1:700137/143‑1 (MQ=255)                                                                                                                          aGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAg    >  1:797383/1‑143 (MQ=38)                                                                                                                           ggCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCGAAGTGCGTCAACTCTCCGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCGGTGCACAGCAGTCGACTGCATTgcgccgc   >  2:83833/1‑140 (MQ=11)                                                                                                                            gcgcAACAGTACTCTGATCGTACCCAGCAATAGTGGACACGCGCCTAAGCCAGTAACCACTTATTGATGAGACACTCACATGACAAAAACATTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTg  <  1:416416/143‑1 (MQ=11)                                                                                                                                          |                                                                                                                                 ATCGCAGAAATTAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTG  >  NC_000913/566640‑566905

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.