New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	566777 =	NA (NA)	2589 (43.020)	270/280	0.0	97.9%	noncoding (1/1258 nt)	IS3	repeat region
	?	NC_000913	= 572471	56 (0.920)					coding (6/456 nt)	ybcN	DLP12 prophage; DNA base‑flipping protein

AGATCGCAGAAATTAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTGAAGC  >  NC_000913/566638‑566909                                                                                                                                            |                                                                                                                                     aGATCGCAGAAATTAAAGCTAAGTGCGGACTGACAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTACTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGAt                                                                                                                                   <  2:464148/143‑1 (MQ=255)  gtgcGCAGAAATTCAAGCTAAGTTCGGAGTGACAGGAGCAAGTGTATGAGCGGCAAAGAGGCCATTATTCATTATCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATc                                                                                                                                  <  2:188277/140‑1 (MQ=255)         ggaaTTAACGCGAAGTGCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCa                                                                                                                           <  2:267464/141‑1 (MQ=255)               aaaGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATa                                                                                                                     >  2:164915/1‑143 (MQ=255)               aaaGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATa                                                                                                                     >  2:47246/1‑143 (MQ=255)                  gCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGCCAAAGAGGCAACCACCCATTACCCGGGGACGCATAAAAGCTTCTGTGCACAGGACGTTCCCGCAGTAACCGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTg                                                                                                                  <  1:21200/143‑1 (MQ=255)                    tagtgtgggACTGAATGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGa                                                                                                                <  2:1045769/136‑1 (MQ=255)                    tAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGa                                                                                                                <  2:802607/143‑1 (MQ=255)                    tAAGTGCGGACGGAAAGGAGCAAGTGTAGGACGGGCAAAGAGGCAATTATGCATTACCTGGGGACGCATAAGAGGTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGa                                                                                                                <  1:276557/143‑1 (MQ=255)                    gaaGTTCGGGCTGGAAGGGGCAAAGGGAGGGCGGGCAAAGAGGCAGTGGTTCGTGACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTGGGAGGGGGGGGGGGGGGCGGATCTTACCCAGCAATAGTGGa                                                                                                                <  2:82830/142‑1 (MQ=255)                           ggACTGAAAGGATGAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCgg                                                                                                         <  2:593530/143‑1 (MQ=255)                            gccTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATACGAGCGTCTGTGCACAGGACGTTGCCGCGGTAACAGGAGCAACCGTAATCTGATCTTCCCCAGCAATAGTGGACACGCGGc                                                                                                        >  2:43729/3‑143 (MQ=255)                               tGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGGACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTaa                                                                                                     >  1:641366/1‑143 (MQ=255)                               tGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTaa                                                                                                     >  1:645424/1‑143 (MQ=255)                                 aaaGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGt                                                                                                   <  1:920085/143‑1 (MQ=255)                                   aGGAGCAAGTGTATGACGGGCAAATAGGCAATGATTCGTTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGa                                                                                                 <  2:6394/143‑1 (MQ=255)                                      aGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTa                                                                                              <  1:236097/143‑1 (MQ=255)                                        cAAGTGGATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGTACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTaaa                                                                                            <  2:1106646/143‑1 (MQ=255)                                         gggtgtATGACGGGCAAAGAGGCAATTATTCAGTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAAc                                                                                           <  2:1106412/141‑1 (MQ=255)                                                   cGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAGCTCtcagtcag                                                                                 >  1:522315/1‑143 (MQ=255)                                                       cAACGAGGCTATTAATCACTACCTGCGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTACCAGGCGCACCCGTAATCTGGTCTTACCCAGCAATAGTGGACGCGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGt                                                                             <  2:815989/143‑1 (MQ=25)                                                          agagGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGAc                                                                          >  1:456094/1‑143 (MQ=255)                                                              gCAATTATTCATTACCTGGGGAGGCATAGGACCTGCTGTGCACAGGACGGTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTcac                                                                      <  2:838892/143‑1 (MQ=25)                                                              gCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTcac                                                                      <  2:916517/143‑1 (MQ=255)                                                              gCAATTATTCATTACCTGGGGACGCATAAGAGCTGCTGTGCACACGACGTTGCCGCGCTAACAGGCGCAACCGCAATCTGAGCATACCCCGCAATAGTGGACACGCGGCAAAGTGAGTAAACGCTCAGTCAGAGGGGAcggac                                                                      >  2:882992/1‑139 (MQ=25)                                                              ccAATTACTCATTACGTGGGGCCGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTcac                                                                      <  1:292644/142‑1 (MQ=255)                                                                         ttACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAGAAAc                                                           >  1:403813/1‑143 (MQ=255)                                                                             cTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTa                                                       <  1:946648/143‑1 (MQ=255)                                                                             cTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGCAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACACACATGACAAAAACAGTa                                                       >  1:20081/1‑143 (MQ=255)                                                                               ggggCCGCATAAGACCTTCTGTCAACAGGACGTTGCCGCGGTCACAGGCGCAACCGTAATCTTATCTTACTCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATc                                                     <  1:428242/143‑1 (MQ=18)                                                                                cggACGCATAAGGGCTGCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGGAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCa                                                    <  2:12244/142‑1 (MQ=255)                                                                                  gACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAAc                                                  <  1:194648/143‑1 (MQ=255)                                                                                  gACCCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAAc                                                  <  1:785832/143‑1 (MQ=255)                                                                                         aaGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTaaa                                           >  1:1083663/1‑143 (MQ=255)                                                                                              cTTCTGCGCACAGGACGTTGCCGCGCTCACAGTCGCAACCGTAATCTGATCTTACCCAGCACTAGTGGACACGCGCCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAAcc                                      <  1:402357/143‑1 (MQ=17)                                                                                               gcctctgCACAGGTCGTTGCTGTAGTAACAGGCGCAATCGTAATCTGATCTTACCCATGAATTGTGGACACGCCGCTAAGTGATTAAACACTCAGTCATAGGTGACTCACATGACAAAAACAGTATCAACCAGGAAAAAAccc                                     <  2:619675/138‑1 (MQ=14)                                                                                                tCTGGGCACACGCCGTGGCGGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAAcccc                                    <  2:536682/143‑1 (MQ=17)                                                                                                     tcacaGGACGATGTCGCGGTAACAGGCGCAACCGTAATCTCATCTTACCAAGCAATAATGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTaaa                               <  2:376922/142‑1 (MQ=17)                                                                                                         aGGACGTTGCCGCGGTAAAAGGCGCAACCGTAATCGGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGc                           <  1:1115377/143‑1 (MQ=255)                                                                                                           gACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCACGTAAACAGcct                         >  2:94270/1‑141 (MQ=255)                                                                                                            aCGTCGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACGCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCAtt                        <  1:603119/143‑1 (MQ=255)                                                                                                              cttGCCGCGGTAACAGGCGCCACCGGAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAACCAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCg                      <  1:1013831/142‑1 (MQ=255)                                                                                                               ttcccGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTAGACACGCGGCTAAGTGAGTAATCTCTCAGTCAGACGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGc                     <  2:75009/140‑1 (MQ=255)                                                                                                                   cgcgGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATCGTGGACACGCGGCTAAGTGAGTAGACTCTCAGTCAGAGGTGACAAACATGACAAAGACAGTATCAACCAGTAAAAAACCCCGTAAACAGCAGTCACCAGa                 >  2:212593/1‑143 (MQ=14)                                                                                                                   cgcgGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTACACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCAGTCGCCTGa                 >  2:808864/1‑143 (MQ=255)                                                                                                                   cgcgGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGa                 >  1:939013/1‑143 (MQ=255)                                                                                                                   cgcgGTAACAGGCGCAACCGTAATCTGAACTTACCCCGCAATAGTGGACACGCGGCTAAGTGAGCAGGCTCTACGTCAGAGGAGACTCACAGGACAAAAACAGTATCAAGCAGTAAGAAACCCCACAAACAGCATCCACCTGa                 >  2:597592/1‑143 (MQ=14)                                                                                                                    gcgGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGACTTCGCCAGaa                >  2:848441/1‑143 (MQ=255)                                                                                                                    gcgGTAACAGGCGCAACCGTAATCTGATCACACCGAGCAATAGTGGACGCGCGGCGACGTGAGTAAACGCGCAGTCAGAGGTGACTCACACGACAAAAACAGCATCAACCAGAAAAAAACCCCGTAACCAGCATTCGCCTGaa                >  2:960133/1‑143 (MQ=255)                                                                                                                     cgGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACGAAAACAGTATCAAACAGGTATAAACCCCGTAAACAGCATTCGCCTGAAt               >  2:10441/1‑143 (MQ=14)                                                                                                                      ggTAACAGGCGCAACCGTAATCTGATCGTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAAtt              <  1:580504/143‑1 (MQ=255)                                                                                                                      cgTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGTACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAAtt              <  1:364404/142‑1 (MQ=255)                                                                                                                       gTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAACCACAGCCTCAACGCGTGATAAACCACGATAAAATCGTTCGCCTGagata             >  1:152090/1‑139 (MQ=14)                                                                                                                        tAACAGGCGCACTCGTCATCTGATCTTACCCAGCAATATTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAGAACTAGCAACCATTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTc            <  2:499217/143‑1 (MQ=11)                                                                                                                          aCAGGCGCAACCGTAATCTAGACTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGAGAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGc          <  2:925774/143‑1 (MQ=255)                                                                                                                           cAGGCGCAACCGTAATCTGATCTTACCCAGCGATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCa         <  2:1071147/143‑1 (MQ=38)                                                                                                                              gcgcAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTg      >  1:906563/1‑143 (MQ=35)                                                                                                                                  aaCCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAAGCCCGTACCGAACAGGCGCCTGAATTTCGCAGTGAAGc  >  1:697479/1‑143 (MQ=11)                                                                                                                                            |                                                                                                                                     AGATCGCAGAAATTAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTGAAGC  >  NC_000913/566638‑566909

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ 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.