New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	566777 =	NA (NA)	2060 (32.690)	269/280	0.0	97.8%	noncoding (1/1258 nt)	IS3	repeat region
	?	NC_000913	= 572471	47 (0.740)					coding (6/456 nt)	ybcN	DLP12 prophage; DNA base‑flipping protein

CGAAGATCGCAGAAATTAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTGAAGCCC  >  NC_000913/566635‑566911                                                                                                                                               |                                                                                                                                       cGAAGATCGCAGAAATTAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCt                                                                                                                                        <  1:1127777/143‑1 (MQ=255)  gAAGATCGCAGAAATTAAAGCTAAGTTAGGACTGAACGGAGCAAGGGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGCCACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCTGTAACAGGCGCAACCGTAATCTg                                                                                                                                       >  2:466363/1‑143 (MQ=255)    agacagCAGAAATGAAAGCTAAGTGCCGACTGAAAGGAGCAAGGGCATGACGGGCAAAGATGCAATCATGCATTACCTGGGGACGCAGAACAGCGGCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGAt                                                                                                                                     <  1:679069/138‑1 (MQ=255)      aTCGCAGAAATTAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTTTTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCt                                                                                                                                   >  1:644128/1‑143 (MQ=255)      aTCGCAGAAATTAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCt                                                                                                                                   >  1:980706/1‑143 (MQ=255)        cgcgGAAATCAAGGCTAAGTTCGGACTGCAAGGAGCAAGTGTATGAGGGGCAAAGAGGCAATGATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTa                                                                                                                                 <  2:221530/143‑1 (MQ=255)          cAGAAATTAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTAcc                                                                                                                               <  1:306486/143‑1 (MQ=255)                  gcaGCTAAGGTGGGACTGAGAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATa                                                                                                                       <  2:100143/141‑1 (MQ=255)                           ttCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACAcg                                                                                                              >  2:1156293/1‑143 (MQ=255)                              ggACTGAAAGGAGCAAGTGTATGACGGGCAAGGAGGCAATTATTCGTTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCgg                                                                                                           <  2:600786/143‑1 (MQ=255)                              ggACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTACCAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCgg                                                                                                           <  1:597423/143‑1 (MQ=255)                                  tGAAAGGAGTAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTaa                                                                                                       >  1:229397/1‑143 (MQ=255)                                  tGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTaa                                                                                                       <  1:182492/143‑1 (MQ=255)                                  tGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACCTTGCCGCGGTAAGAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTaa                                                                                                       <  2:245442/143‑1 (MQ=255)                                   gAAATGTGCAAGTGTATTACTGGCAAAGATGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCTCAGCACGTTGCCGCGGTAACATGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAg                                                                                                      <  2:138828/143‑1 (MQ=38)                                    aaaaGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGAAGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTACCAGGCGCAACCGTAATCTGATCGTACCAAGACATAGTGGACACGCGGCTAAga                                                                                                     >  2:429016/1‑142 (MQ=255)                                    aaaGGAGCAAGTGTATGACGGGCAAAGAGACAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGGGGACACGCGGCTAAGt                                                                                                     >  2:106782/1‑143 (MQ=255)                                         tgctaGTGGATGCCTGGGAGAGAGGCAATTCTTCGATACCTGGTGACGCATAAGGGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTa                                                                                                <  2:1053979/139‑1 (MQ=25)                                              gtgtATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAActc                                                                                           <  1:640969/143‑1 (MQ=255)                                                 gaggACGGGCAAAGGGGCAGTTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGCAACAGGCGCAACCGGAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCtca                                                                                        <  2:24243/140‑1 (MQ=37)                                                          cAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGt                                                                               <  1:1156293/143‑1 (MQ=255)                                                          cAAAGAGGCAATTATTCAGTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGTACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGt                                                                               <  1:752294/143‑1 (MQ=255)                                                           aaaGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAATGACTAAACACTCAGTAAGAGGTg                                                                              >  2:144351/1‑143 (MQ=255)                                                               agGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTCACAGGAGCAGCCGGAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACCCTCAGTCAGAGGTAACTc                                                                          >  1:8583/1‑143 (MQ=25)                                                                 gCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGAACAGGACGTTGCCGCGGTAACAGGCGCAACGGTAATATGATCTTACTCAGCAATAGTGGACACGGGGCTAACTGAGTAAACTCTCAGTCAGAGGTGACTcac                                                                        >  2:876054/1‑143 (MQ=37)                                                                   aaTTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCCCAt                                                                      >  1:711440/1‑143 (MQ=255)                                                                   aaTTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGGAAACTCGCAGTCAGAGGTGACGCACAt                                                                      >  1:1079655/1‑143 (MQ=255)                                                                          cATTACCTGGGGACGCATAAGAGCTGCTGTGCACACGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACaaaa                                                               <  1:335299/143‑1 (MQ=255)                                                                           aTTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACaagaa                                                              >  1:138580/1‑143 (MQ=255)                                                                           aTTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACaaaaa                                                              <  1:177189/143‑1 (MQ=255)                                                                             tACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGAGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACa                                                            <  2:1011220/143‑1 (MQ=255)                                                                               ccTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGt                                                          <  1:1081588/143‑1 (MQ=255)                                                                                cTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGGCTCACATGACCAAAACAGTa                                                         >  1:318188/1‑143 (MQ=255)                                                                                cTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTa                                                         >  1:624962/1‑143 (MQ=255)                                                                                   gggACGCATAAGAGCGTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGGAATCTGATCTTACCCAGCAAGAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCa                                                      <  1:247732/143‑1 (MQ=255)                                                                                     gACCCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAAc                                                    <  1:940404/143‑1 (MQ=255)                                                                                       cGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCCGCAATAGTTTACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCa                                                  <  1:162186/143‑1 (MQ=255)                                                                                          aTAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGGAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCGACCAGTa                                               >  1:958516/1‑143 (MQ=255)                                                                                            aaGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTaaa                                             >  1:834699/1‑143 (MQ=255)                                                                                            aaGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTaaa                                             >  2:877605/1‑143 (MQ=255)                                                                                             agagCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTaaaa                                            <  2:889576/143‑1 (MQ=255)                                                                                               agCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTaaaaaa                                          <  2:980706/143‑1 (MQ=255)                                                                                                gCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAAc                                         >  1:911025/1‑143 (MQ=255)                                                                                                   tCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACATGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAAcccc                                      <  1:539697/143‑1 (MQ=255)                                                                                                    cTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCg                                     >  2:564115/1‑143 (MQ=255)                                                                                                       tgCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTaa                                  >  1:679814/1‑143 (MQ=255)                                                                                                               aCGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAACTGAGTAAACTCTCAGACAGAGGTGACTCACATGACAAAACAAGTCTCAACCAGAAGAAACCCCCGTAGACAGCAta                          >  2:685809/1‑142 (MQ=17)                                                                                                                      cgcgGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACCAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCATGa                   >  1:299699/1‑143 (MQ=255)                                                                                                                      cgcgGTAACAGGCGCAACCATAATCTGATATTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGCATCAACCAGTAAAAAACCCCGCAAACAGCATCCGcccca                   >  2:673568/1‑140 (MQ=14)                                                                                                                       gcgGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGaa                  <  1:870433/143‑1 (MQ=255)                                                                                                                       gcgGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAAGAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCAGTCGCCTGaa                  <  1:870046/143‑1 (MQ=255)                                                                                                                        cgGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCATAAACAGCATTCGCCTGaag                 >  2:179191/1‑142 (MQ=255)                                                                                                                            aaCAGGCGCACCCGCAATCTCATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCg             <  2:843636/143‑1 (MQ=255)                                                                                                                              cgggCGCAACCGTGCTCTGATCTTACCCAGCAGTAGTGGACACGCGGCTAAGAGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCa           <  2:786125/141‑1 (MQ=255)                                                                                                                               aGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGATAAACACACAAGCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAg          >  1:1148634/1‑143 (MQ=11)                                                                                                                                gacgcAACCGTAATCTTATCTTACCCAGCAATAGTGTACACGCGGCTAAGTAAGTAAACTCTCAGGCAGAGTTGACGCACATGACAAGAACAGTATCAACCAGTAAAAAACGCCGTAAACAGCATTCGCCTGAATTTCGCAgg         <  2:154752/141‑2 (MQ=11)                                                                                                                                 gcgcAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTg        <  2:1022122/143‑1 (MQ=35)                                                                                                                                  cgtacccGTAATCTGATATTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTGa       <  1:907821/138‑1 (MQ=9)                                                                                                                                     aaCCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCAATCGCCTGAATTTCGCAGTGAAGc    >  2:131592/1‑143 (MQ=17)                                                                                                                                       ccGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTGAAGccc  >  1:242943/1‑143 (MQ=31)                                                                                                                                               |                                                                                                                                       CGAAGATCGCAGAAATTAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTGAAGCCC  >  NC_000913/566635‑566911

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.