New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	566777 =	NA (NA)	2491 (55.190)	255/262	NT	98.4%	noncoding (1/1258 nt)	IS3	repeat region
	?	NC_000913	= 572471	40 (0.880)					coding (6/456 nt)	ybcN	DLP12 prophage; DNA base‑flipping protein

AGATCGCAGAAATTAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCG‑TAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTGAAGCC  >  NC_000913/566638‑566910                                                                                                                                             |                                                                                                                                      aGATCGCAGAAAATAAGGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGAGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGAACAGGACGTTGCCGCGGTAACAGGCGCAACCG‑TAATCTGAt                                                                                                                                    <  2:604244/143‑1 (MQ=255)                  gCTAAGTTCTGAGTGCACGGAGCAAGTGCATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTTCACAGGACGTTGCCGCGGTAACAGGCGCAACCG‑TAATCTGATCTTACCCAGCAATAGTg                                                                                                                   <  2:19461/143‑1 (MQ=255)                   cTAAGTTCCGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCG‑TAATCTGATCTTACCCAGCAATAGTgg                                                                                                                  <  1:577670/143‑1 (MQ=255)                       gTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGAGACGCATAAGAGCTTAAGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCG‑TAATCTGATCTTACACAGCAATAGTGGacac                                                                                                              >  2:105982/1‑143 (MQ=255)                        ttCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCG‑TAATCAGATCTTACACAGCAATAGTGGAGAcg                                                                                                             >  2:293726/1‑143 (MQ=255)                           ggACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCG‑TAATCTGATCTTACCCAGCAATAGTGGACACGCgg                                                                                                          <  1:490856/143‑1 (MQ=255)                            gACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGTGACGCATAATAGCTTCTGTTCACAGGACGGTGCCGCGGTAACAGGCGCAACCG‑TAATCTGATCTTACCCAGCAATAGTGGACACGCGGc                                                                                                         <  1:317156/143‑1 (MQ=255)                               tGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTACCAGGCGCAACCG‑TAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTaa                                                                                                      >  1:37171/1‑143 (MQ=255)                               gggaaGGAGTAAGTCTACGACGGGCACGGAGGCAATTATTCAGTCCCTGGGGACGCATAAGAGCTTCTGGTCACAGGCCGTTGCCGCGGTAACAGGCGTAACCG‑TAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTaa                                                                                                      <  1:174948/140‑1 (MQ=37)                                 aaaGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCG‑TAATCTGATCTTACCCAGCACTAGTGGACACGCGGCTAAGt                                                                                                    >  1:848867/1‑143 (MQ=255)                                 aaaGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCG‑TAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGt                                                                                                    >  2:162479/1‑143 (MQ=255)                                   cggAGCAAGGGTAGGACGGGCAAAGAGGCCATTATTCACTCCCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCG‑TAATCTGAGCTTACCCAGCAATAGTGGACACGCGGCTAAGTGa                                                                                                  <  2:491534/142‑1 (MQ=38)                                        cAAGTGTATCACGGGCAAAGACGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCG‑TAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTaaa                                                                                             <  2:876170/143‑1 (MQ=255)                                           gtgtATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCG‑TAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAActc                                                                                          >  2:615380/1‑143 (MQ=255)                                             gtATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCG‑TAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACtctc                                                                                        <  1:526463/143‑1 (MQ=255)                                              tATGACGGGCAAAGAGGCAATTATTCATTGGCTGGGGACGCAGAAGAGCGTCTGTGCACAGGACGTTGCCGCGGTAACAGGCACAACCG‑TAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCtca                                                                                       <  2:865335/143‑1 (MQ=37)                                              gaTGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCG‑TAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCtca                                                                                       <  1:511150/142‑1 (MQ=255)                                                 gACGGGCAAAGAGGCAATTATTAATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCG‑TAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTACACTCtcagtc                                                                                    >  1:848496/1‑143 (MQ=255)                                                      gCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCG‑TACTCTGCTCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAgg                                                                               >  2:434884/1‑143 (MQ=255)                                                               cAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCG‑TAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTcaca                                                                      <  1:1595/143‑1 (MQ=255)                                                                    attCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCACGGTCCCGGCTTGAACCG‑TAATTTGATCCAACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACa                                                                 >  1:891564/1‑143 (MQ=18)                                                                          tcccTGGGGACGCATAAGAGCTTCTCTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCG‑TAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACa                                                           <  1:222683/141‑1 (MQ=255)                                                                          tACCTGGGGACGCATAAGAGCGTCTGTGCACAGGACGGTGCCGCGGTAACAGGCGCAACCG‑TAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACa                                                           <  2:797673/143‑1 (MQ=255)                                                                                 ggACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCG‑TAATCTGATCTTAACCTGCCCGAGTGGGTTGGGGGGCAAACAAACAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCaa                                                    >  2:633556/1‑143 (MQ=21)                                                                                 ggACGACTATGAGCTGCCGGGCACAGGACGTTGCCGCGGTAACAGGCGCAACCG‑TAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCaa                                                    <  1:117283/143‑1 (MQ=18)                                                                                 cgACGCCTAAGGGCTTCTGTCCACAGGACGGTGCCGCGGTAACAGGCGCAACCG‑TAATCTGATCTTACCCATCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCaa                                                    <  2:667662/142‑1 (MQ=18)                                                                                  gACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGCAACAGGCGCAACCG‑TAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGCCAAAAACAGTATCAAc                                                   >  1:361177/1‑143 (MQ=255)                                                                                            agCGTCTGGGCACAGGACGTTGCCGAGGTAGCATGCCCAGCCT‑TAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTaaaaaa                                         <  1:162479/143‑1 (MQ=14)                                                                                                tcggtgCACGGGACGTTGCCGCGGTAGCAGGCGCAACCG‑TAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAAcccc                                     <  2:60935/140‑1 (MQ=255)                                                                                                    tgCACAGGACGTTGCCGCGGTAACAGGCGCAACCG‑TAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGAGAGTAATATAACCAACCAGTAAAAAACCCCGTaa                                 >  1:556988/1‑143 (MQ=18)                                                                                                     gCACAGGACGTTGCCGCGGTAACAGGCGCAACCG‑TAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACGAAAAGAGTATCAACCAGTAAAAAACCCCGTaaa                                >  1:691777/1‑143 (MQ=255)                                                                                                     gCACAGGACGTTGCCGCGGTAACAGGCGCAACCG‑TAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTaaa                                <  1:664889/143‑1 (MQ=255)                                                                                                       gcaGGACGTTGCCGAGGGAAGAGGCGTGACGG‑TAATCTGATCGTGCGCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACa                              <  2:573192/142‑1 (MQ=14)                                                                                                         aGGACGTTGCCGCGGTAACAGGCGAAAAAGCGAAACTGA‑CGTACCCAGCAATAGAGGACACGCGGCTAAGTAAGTAAACTCTCAGTCAGAGGTGACTCACATGAAAAAAACAGTATCAACAAATAAAAAACACAGTaaaaaac                            >  2:66015/1‑139 (MQ=14)                                                                                                                  ccGCGGTAACAGGCGCAACCG‑TAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTg                   >  1:481734/1‑143 (MQ=255)                                                                                                                       gTAATAGGCGCAACCG‑TAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAAttt              >  2:494937/1‑143 (MQ=255)                                                                                                                               cgcAACCG‑TAATCTGATCTTACCCAGCAATAGCGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTGa      <  1:41662/143‑1 (MQ=25)                                                                                                                                    acggtgaTCTGATCTTCCCCACTCATAGTGGACACGCGTCTAAGTTAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGGATCAACCAGTAAAAACCCCCGTAAACAGCATTCGCCTTAATTTCGCAGTGAAGcc  <  2:544866/137‑1 (MQ=1)                                                                                                                                             |                                                                                                                                      AGATCGCAGAAATTAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCG‑TAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTGAAGCC  >  NC_000913/566638‑566910

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.