New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_bme_pgi	= 2475050	49 (1.050)	4 (0.090)	4/268	NT	7.4%	coding (67/537 nt)	yfdR	CPS‑53 (KpLE1) prophage; conserved protein
	?	NC_000913_3_bme_pgi	= 2475065	52 (1.130)					coding (82/537 nt)	yfdR	CPS‑53 (KpLE1) prophage; conserved protein

CCGGATGGTGAGGGCTTCCTTTTACCCAAACTCAGCGCGGTGCAGCGCATATACGTGGAGAACAAAATGTCATTTATTAAAACTTTTTCCGGGAAGCATTTTTATTATGACAAGATAAATAAAGACGACATCGTGATTAACGATATCGCGGTTTCCCTTTCAAATATCTGCCGCTTTGCCGGT‑CATCTTTCTCACTTCTACAGTGTCGCCCAACATGCGGTGCTTTGCAGCCAGCTGGTGCCGCAGGAATTTGCTTTTGAAGCATTAATGCATGATGCAACAGAAGCGTATTGCCA  >  NC_000913_3_bme_pgi/2474918‑2475213                                                                                                                                                    |                                                                                                                                                      ccGGATGGTGAGGGCTTCCTTTTACCCAAACTCAGCGCGGTGCAGCGCATATACGTGGAGAACAAAATGTCATTTATTAAAACTTTTTCCGGGCAGCATTTTTATTATGACAAGATAAATAAAGACAACACCGTGATAAACTATATCGc                                                                                                                                                      <  1:200431‑M2/149‑2 (MQ=255)      tGGTGAGGGCTTCCTTTTACCCAAACTCAGCGCGGTGCAGCGCATATACGTGGAGAACAAAATGTCATTTATTAAAACTTTTTCCGGGAAGCATTTTTATTATGACAAGATAAATAAAGACGCCATCGTGATTAACGCTATCGCGGttt                                                                                                                                                 >  2:659998/1‑149 (MQ=255)        gTGAGGGCTTCCTTTTACCCAAACTCAGCGCGGTGCAGCGCATATACGTGGAGAACAAAATGTCATTTATTAAAACTTTTTCCGGGAAGCATTTTTATTATGACAAGATAAATAAAGACGACATCGTGATTAACGATATCGCGGTTTcc                                                                                                                                               >  2:691687/1‑149 (MQ=255)             gggttCCTTTTAACAAAACTTAGGGCGGTGAAGCGCATATTCGTGGAGAACAAAATGTCATTTATTAAAACTTTTGCCGTGAAGCATTTTTATTATGATAATATAAATAAAGACGACATCGTGATTAACGATATCGCGGTTTCCCttag                                                                                                                                          <  2:445625/146‑3 (MQ=255)             ggCTTCCTTTTACCCAAACTCAGCGCGGTGCAGCGCATATACGTGGAGAACAAACTGTCATTTATTAAAACTTTTTCCGGGAAGCATTTTTATTATGACAAGATAAATAAAGACGACATCGTGATTAACGATATCGCGGTTTCCCTTTc                                                                                                                                          >  1:48090/1‑149 (MQ=255)             ggCTTCCTTTTACCCAAACTCAGCGCGGTGCAGCGCATATACGTGGAGAACAAAATGTCATTTATTAAAACTTTTTCCGGGAAGCATTTTTATTATGACAAGATAAATAAAGACGACATCGTGATTAACGATATCGCGGTTTCCCTTTc                                                                                                                                          <  1:808695/149‑1 (MQ=255)                ttCCTTTTACCCAAACTCAGCGCGGTGCAGCGCATATACGTGGAGAACAAAATGTCATTTATTAAAACTTTTTCCGGGAAGCATTTTTATTATGACAAGATAAATAAAGACGACATCGTGATTAACGATATCGCGGTTTCCCTTTCaaa                                                                                                                                       <  1:691687/149‑1 (MQ=255)                ttCCTTTTACCCAAACTCAGCGCGGTGCAGCGCATATACGTGGAGAACAAAATGTCATTTATTAAAACTTTTTCCGGGAAGCATTTTTATTATGACAAGATAAATAAAGACGACATCGTGATTAACGATATCGCGGTTTCCCTTTCaaa                                                                                                                                       >  1:755840/1‑149 (MQ=255)                 tCCTTTTACCCAAACTCAGCGCGGTGCAGCGCAGATACGTGGAGAACAAAATGTCATTTATTAAAACTTTTTCCGGGAAGCATTTTTATTATGACAAGATAAATAAAGACAACATCGTGATTAACAATATCGCTGTTTCACTTTCAAat                                                                                                                                      >  1:676572/1‑149 (MQ=255)                    ttttACCCAAACTCAGATCGGTGCAGCGCATATACGTGGAGAACAAAATGTCATTTATTAAAACTTTTTCCGGGAAGCATTTTTATTATGACAAGATAAATAAAGACGACATCGTGATTAACGATATCGCGGTTTCCCTTTCAAATATc                                                                                                                                   >  2:645762/1‑149 (MQ=255)                         cccAAACTCAGCGCGGTGCAGCGCATATACGTGGAGAACAAAATGTCATTTATTAAAACTTTTTCCGGGAAGCATTTTTATTATGACAAGATAAATAAAGACGACATCGTGATTAACGATATCGCGGTTTCCCTTTCAAATATCTGCCg                                                                                                                              <  1:545272/149‑1 (MQ=255)                         cccAAACTCAGCGCGGTGCAGCGCATATACGTGGAGAACAAAATGTCATTTATTAAAACTTTTTCAGGGAAGCATTTTTATTATGACAAGATAAATAAAGACGACATCGTGATTAACAATATCGCGGTTTCCCTTTCAAATATTTTCCg                                                                                                                              >  2:659983/1‑149 (MQ=255)                          ccAAACTCAGCGCGGTGCAGCGCATATACGTGGAGAACAAAATGTCATTTATTAAAACTTTTTCCGGGAAGCATTTTTATTATGACAAGATAAATAAAGACGACATCGTGATTAACGATATCGCGGTTTCCCTTTCAAATATCTGCCGc                                                                                                                             >  2:563275/1‑149 (MQ=255)                          ccAAACTCAGCGCGGTGCAGCGCATATACGTGGAGAACAAAATGTCATTTATTAAAACTCTTTCCGGGAAGCATTTTTATTATGACAAGATCAATAAAGACGACATCGTCAATAACGATATCGCGGTTTCCCACACAAATATCGGcagg                                                                                                                             >  1:628560/1‑146 (MQ=255)                            aaaCTCAGCGCGGTGCAGCGCATATACGTGGAGAACAAAATGTCATTTATTAAAACTTTTTCCGGGAAGCATTTTTATTATGACAAGATAAATAAAGACGACATCGTGATTAACGATATCGCGGTTTCCCTTTCAAATATCTGCCGCtt                                                                                                                           >  1:621736/1‑149 (MQ=255)                               cTCAGCGCGGTGCAGCGCATATACGTGGAGAACAAAATGTCATTTATTAAAACTTTTTCCGGGAAGCATTTTTATTATGACAAGATAAATAAAGACGACATCGTGATTAACGATATCGCGGTTTCCCTTTCAAATATCTGCCGCTTTGc                                                                                                                        <  1:331597/149‑1 (MQ=255)                                  aGCGCGGTTCAGCGCATATACGTGGAGAACAAAATGTCATTTATTAAAACTTTTTCCGGGAAGCATTTTTATTATGACAAGATAAATAAAGACGACATCGTGATTAACGATATCGCGGTTTCCCTTTCAAATATCTGCCTCCTTGCCgg                                                                                                                     >  2:155113/1‑149 (MQ=255)                                     gcgGTGCAGCGCATATACGTGGAGAACAAAATGTCATTTATTAAAACTTTTTCCGGGAAGCATTTTTATTATGACAAGATAAATAAAGACGACATCGTGATTAACGATATCGCGGTTTCCCTTTCAAATATCTGCCGCTTTGCCGGT‑Ca                                                                                                                 <  2:127845/149‑1 (MQ=255)                                          gtcgcgcATATACGTGGAGAACAAAATGGCATTTATTAAAACGGTTTCCGGGAAGCATTTTTCTTATGACAAGATAAATAAAGACGACATCGGGATTAACGATATCGCGGTTTCCCTTTCAAATATCTGCCGCTTTGCCGGT‑CATCttt                                                                                                            <  2:799875/146‑1 (MQ=255)                                                 atatACGTGGAGAACAAAATGTCATTTATTAAAACTTTTTCCGGGAAGCATTTTTATTATGACAAGATAAATAAAGACGACATCGTGATTAACGATATCGCGGTTTCCCTTTCAAATATCCGCCGCTTTGCCGGT‑CATCTTTCACACtt                                                                                                     >  2:41450/1‑149 (MQ=255)                                                      cGTGGAGAACAAAATGTCATTTATTAAAACTTTTTCCGGGAAGCATTTTTATTATGACAAGATAAATAAAGACGACATCGTGATTAACGATATCGCGGTTTCCCTTTCAAatat                                                                                                                                    >  1:229859/1‑114 (MQ=255)                                                      cGTGGAGAACAAAATGTCATTTATTAAAACTTTTTCCGGGAAGCATTTTTATTATGACAAGATAAATAAAGACGACATCGTGATTAACGATATCGCGGTTTCCCTTTCAAatat                                                                                                                                    <  2:229859/114‑1 (MQ=255)                                                       gTGGAGAACAAAATGTCATTTATTAAAACTTTTTCCGGGAAGCATTTTTATTATGACAAGATAAATAAAAACGACATCGTGATTAACGATATCGCGGTTTCCCTTTCAAATATCTGCCGCTTTGCCGTC‑CATCTTTCTCACTTCTACAg                                                                                               >  1:627544/1‑149 (MQ=255)                                                          gagaACAAAATGTCATTTATTAAAACTTTTTCCGGGAAGCATTTTTATTATGACAAGATAAATAAAGACGACATCGTGATTAACGATATCGCGGTTTCCCTTTCAAATATCTGCCGCTTTGCCGGT‑CATCTTTCTCACTTCTACAgtgt                                                                                            <  1:899049/149‑1 (MQ=255)                                                          gagaACAAAATGTCATTTATTAAAACTTTTTCCGGGAAGCATTTTTATTATGACAAGATAAATAAAGACGACATCGTGATTAACGATATCGCGGTTTCCCTTTCAAATATCTGCCGCTTTGCCGGT‑AATCTTTTTCACTTCTACAttgt                                                                                            >  1:528657/1‑149 (MQ=255)                                                           agaACAAAATGTCATTTATTAAAACTTTTTCCGGGAAGCATTTTTATTATGACAAGATAAATAAAGACGACATCGTGATTAACGATATCGCGGTTTCCCTTTCAAATATCTGCCGCTTTGCCGGT‑CATCTTTCTCACTTCTACAGTGTc                                                                                           <  1:597842/149‑1 (MQ=255)                                                             aaCAAAATGTCATTTATTAAAACTTTTTCCGGGAAGCATTTTTATTATGACAAGATAAATAAAGACGACATCGTGATTAACGATATCGCGGTTTCCCCGTCAAATATCTGCCGCTTTGCCGGT‑CATCTTTCTCACTTCTACAGTGTCGc                                                                                         >  1:882370/1‑149 (MQ=255)                                                                   aTGTCATTTATTAAAACTTTTTCCGGGAAGCATTTTTATTATGACAAGATAAATAAAGACGACATCGTGATTAACGATATCGCGGTTTCCCTTTCAAATATCTGCCGCTTTGCCGGT‑CATCTTTCTCACTTCTACAGTGTCGCCCAACa                                                                                   <  2:311066/149‑1 (MQ=255)                                                                        aTTTATTAAAACTTTTTCCGGGAAGCATTTTTATTATGACAAGATAAATAAAGACGACATCGTGATTAACGATATCGCGGTTTCCCTTTCAAATATCTGCCGCTTTGCCGGT‑CATCTTTCTCACATCTACAGTGTCGCCCAACATGCgg                                                                              >  1:527583/1‑149 (MQ=255)                                                                         tttATTAAAACTTTTTCCGGGAAGCATTTTTATTATGCCAAGATAAATAAAGACGACATCGTGATTAACGATATCGCGGTTTCCCTTTCAAATATCTGCCGCTTTGCCGGT‑CATCTTTCGCACTTCTACAGTGTTGCCCAACATGCGGt                                                                             >  1:771916/1‑149 (MQ=255)                                                                         tttATTAAAACTTTTTCCGGGAAGCATTTTTATTATGACAAGATAAATAAAGACGACATCGTGATTAACGATATCGCGGTTTCCCTTTCCAATGT‑TTCTTCTTTATCGGTAAATCTTTCTACCTTCCACGGTATCTCCCAACATGCGGt                                                                             >  1:654611/1‑149 (MQ=255)                                                                           tagtaAAACTTTTGACGGGAAGCATATTTAGTATGACAAGAGAAATAAAGACGACATCGTGATTAACGATATCGCGGTTTCCCTTTCAAATATCTGCCGCTTTGCCGGT‑CATCTTTCTCACTTCTACAGTGTCGCCCAACATGCGGTGc                                                                           <  2:476478/146‑1 (MQ=255)                                                                             tactaaCTTTATCCGGCAAGCCTTCTGATTAGCACAACATAACGCAAGCCGACATCGTGCTTACCTATATCGCGGTTTCCCTTTCAAATATCTGCCGCTTTGCCGGT‑CATCCTTCTCACTTCTACAGTTTCGCCCAACATGCGGTGCtt                                                                         <  2:616890/145‑1 (MQ=255)                                                                             gtaAATCTTTTTCCGGGATGCATTTTTATTATGACAAGATAAATAAAGACGACATCGTGATTAACGATATCGCGGTTTCCCTTTCAAATATCTGCCGCTTTGCCGGT‑CATCTTTCTCACTTCTACAGTGTCGCCCAACATGCGGTGCtt                                                                         <  1:458954/148‑1 (MQ=255)                                                                               atagcgttttCCGGGAAGCATTTGTATTTTGAGAAGATAAATAAAGACGACATCGGGATTAACGATATCGCGGTTTCCCTTTCAAATTTCTGCCGCTTTGCCGGT‑CATCTTTCTCACTTCTACAGTGTCTCCCAACATGCGGTGCTTTg                                                                       <  2:582162/143‑1 (MQ=255)                                                                                aaaCTTTTTCCGGGAAGCATTTTTATTATGACAAGATAAATAAAGACGACATCGTGATTAACGATATCGCGGTTTCCCTTTCAAATATCTGCCGCTTTGCCGGT‑CATCTTTCTCACTTCTACATAGTCGCCCAACATGCGGTGCTTGGc                                                                      >  1:339668/1‑149 (MQ=255)                                                                                 aagtatttCCTGTAATCATTTTTATTATTATAAGATAAATAAAGACGACCTCGTGATTAACGATATCGCGGTTTTTTTTTCAAATCTCCGCCGCTTTGCCGGT‑CATCTTTCTCACTTCTACAGTTTCTCCCAACATGCGGTGCTTTgta                                                                     <  2:424410/144‑3 (MQ=255)                                                                                 aaCTTTTTCCGGGAAGCATTTTTATTATGACAAGATAAATAAAGACGACATCGTGATTAACGATATCGCGGTTTCCCTTTCAAATATCTGCCGCTTTGCCGGT‑CATCTTTCTCACTTCTACAGTGTCGCCCAACATGCGGTGCTTTGca                                                                     <  1:717558/149‑1 (MQ=255)                                                                                                gCATTTTTATTATGACAAGATAAATAAAGACGACATCGTAATCAACCAAATCACGGTTTCCCTTTCAAATACCCGACGCTTTACCGGT‑CAACTTTCCCACTTCTACAGTGTCGCCCAACACGCCGGACTTTACAACCAGCTggcacccc                                                      >  2:306697/1‑143 (MQ=255)                                                                                                   tttttATTATGACAAGATAAATAAAGACGACATCGTGATTAACGATATCGtctttatttatcttgtcataataaaaatgcttcccggaaaaagttttaataaatgacattttgttctccacgtatatgcgctgcaccgcgctga                                                         <  1:614989‑M2/144‑95 (MQ=255)                                                                                                   tttttATTATGACAAGATAAATAAAGACGACATCGTGATTAACGATATCGtctttatttatcttgtcataataaaaatgcttcccggaaaaagttttaataaatgacattttgttctccacgtatatgcgctgcaccgcgctga                                                         >  2:614989‑M2/1‑50 (MQ=255)                                                                                                   tttttATTATGACAAGATAAATAAAGACGACATCGTGATTAACGATATCGCGGTTTCCCTTTCAAATATCTGCCGCTTTACCGGT‑CATCTTTCTCACTTCTACAGTGTCGCCAAACATGCGGTGCTTTTCAGCCAGCTGGTGCCGCAgg                                                   >  1:37971/1‑149 (MQ=255)                                                                                                     tttATTATGACAAGATAAAGAAAGACGAGATCGTGATTAACGATATCGCGGTTTCCCTTTCAAATATCTGCCGCTTTGCCGGT‑CATCTTTTTCACTTCTACAGTGTCGCCCAACATGCGGTGCTTTGCAGCCAGCTGGTGCCGCAGGaa                                                 <  2:40331/149‑1 (MQ=255)                                                                                                         ttatGACAAGATAAATAAAGACGACATCGTGATTAACGATATCGCGGTTTCCCTTTCAAATATCTGCCGCTTTGCCGGT‑CATCTTTCTCACTTCTACAGTGTCGCCCAACATGCGGTGCTTTGCAGCCAGCTGGTGCCGCAGGAATTTg                                             >  2:215350/1‑149 (MQ=255)                                                                                                            tGACAAGATAAATAAAGACGACATCGTGATTAACGATATCGCGGTTTCCCTTTCAAATATCTGCCGCTTTGCCGGT‑CATCTTTCTCACTTCTACAGTGTCGCCCAACATGCGGTGCTTTGCAGCCAGCTGGTGCCGCAGGAATTTGCtt                                          >  1:855355/1‑149 (MQ=255)                                                                                                             gACAAGATAAATAAAGACGACATCGTGATTAACGATATCGCGGTTTCCCTTTCAAATATCTGCCGCTTTGCCGGT‑CATCTTTCTCACTTCTACAGTGTCGCCCAACATGCGGTGCTTTGCAGCCAGCTGGTGCCGCAGGAATTTGCttt                                         <  2:510548/149‑1 (MQ=255)                                                                                                                 agttaaataaaGACGTCGTCGTGATTAACGATATCGCGGTTTCCCTTTCATATATCTGCCGCTTTGCCGGT‑CATCTTTCTCACTTCTACAGTGTCGCCCAACATGCGGTGCTTTGCAGCCAGCTGGTGCCGCAGGAATTTGCTTTTGaa                                     <  1:414939/146‑1 (MQ=255)                                                                                                                 aGATAAATAAAGACGACATCGTGATTAACGATATCGCGGTTTCCCTTTCAAATATCTGCCGCTTTGCCGGT‑CATCTTTCTCACTTCTACAGTGTCGCCCAACATGAGGTGCTTTGCAGCCAGCTGGTGCCGCAGGAATTTGCTTTTGaa                                     >  1:532796/1‑149 (MQ=255)                                                                                                                           aGACGACATCGTGATTAACGATATCGCGGTTTCCCTTTCAAATATCTGCCGCTTTGCCGGT‑CATCTTTCTCACTTCTACAGTGTCGACCAACATGCTGTGCTTTGCAGCCAGCTGGTGCCGCAGGAATTTGCTTTTGAAGCATTAATGc                           >  2:800066/1‑149 (MQ=255)                                                                                                                             acgacATCGTGATTAACGATATCGcgatgtcgtctttatttatcttgtcataataaaaatgcttcccggaaaaagttttaataaa                                                                                          >  2:486314‑M2/1‑24 (MQ=255)                                                                                                                             acgacATCGTGATTAACGATATCGcgatgtcgtctttatttatcttgtcataataaaaatgcttcccggaaaaagttttaataaa                                                                                          <  1:486314‑M2/85‑62 (MQ=255)                                                                                                                               gacATCTAGTTTAACGAGTGCGTGGTTTCCTTTGTAAATATCTGCCGCTTTGCCTGT‑CATCTTGCTCACTTCTACAGTGGCGCACAACATGCGGTGTTTTGCAGCCAGCTGGTGCCGCAGGAATTTGCTTTTGAAGCATTAATGCatga                       <  2:140388/149‑1 (MQ=255)                                                                                                                                 cATCGTGATTAACGATATCGCGGTTTCCCTTTCAAATATCTGCCGCTTTGCCGGT‑CATCTTTCTCACTTCTACAGTGTCGTCCAACAGGCGGTGCTTTGCAGCCAGCTGGTGCCGCAGGAATTTGCTTTTGAAGCATTAATGCatgatg                     <  1:249133/149‑1 (MQ=255)                                                                                                                                   tCGTGATTAACGATATCGCGGTTTCCCTTTCAAATATCTGCCGCTTTGCCGGT‑CATCTTTCTCACTTCTACAGTGTCGCCCAACATGCGGTGCTTTGAAGCCACCTGGTACCGCAAGAATTTGCTTTTAAAGCATTAATGCataatgaa                   >  1:187685/1‑147 (MQ=255)                                                                                                                                     gTGATTAACGATATCGCGGTTTCCCTTTCAAATATCTGCCGCTTTGCCGGT‑CATCTTTCTCACt                                                                                                      <  2:507054/64‑1 (MQ=255)                                                                                                                                     gTGATTAACGATATCGCGGTTTCCCTTTCAAATATCTGCCGCTTTGCCGGT‑CATCTTTCTCACt                                                                                                      >  1:507054/1‑64 (MQ=255)                                                                                                                                     gTGATTAACGATATCGCGGTTTCCCTTTCAAATATCTGCCGCTTTGCCGGT‑CATCTTTCTCACTTCTACAGTGTCGCCCAACATGAGGTGCTTTGCAGCCAGCTGGTGCCGCAGGAATTTGCTTTTGAAGCATTAATGCATGATGCCAc                 >  1:459030/1‑149 (MQ=255)                                                                                                                                      tGATTAACGATATCGCGGTTTCCCTTTCAAATATCTGCCGCTTTGCCGGT‑CATCTTTCTCACTTCTACAGTGTCGCCCAACATGCGGTGCTTTGCAGCCAGCTGGTGCCGCAGGAATTTGCTTTTGAAGCATTAATGCATGATGCAACa                >  1:84831/1‑149 (MQ=255)                                                                                                                                                    gcgGTTTCCCTTTCAAATATCGGCCGCTGTGCCGGT‑CATCTCGCTCACGTCTACAGTGTCGCCCAACATGCGGTGCTTTGCAGCCAGCTGGTGCCGCAGGAATTTGCTTTTGAAGCATTAATGCATGATGCAACAGAAGCGTATTGCCa  <  2:247040/149‑1 (MQ=255)                                                                                                                                                    |                                                                                                                                                      CCGGATGGTGAGGGCTTCCTTTTACCCAAACTCAGCGCGGTGCAGCGCATATACGTGGAGAACAAAATGTCATTTATTAAAACTTTTTCCGGGAAGCATTTTTATTATGACAAGATAAATAAAGACGACATCGTGATTAACGATATCGCGGTTTCCCTTTCAAATATCTGCCGCTTTGCCGGT‑CATCTTTCTCACTTCTACAGTGTCGCCCAACATGCGGTGCTTTGCAGCCAGCTGGTGCCGCAGGAATTTGCTTTTGAAGCATTAATGCATGATGCAACAGAAGCGTATTGCCA  >  NC_000913_3_bme_pgi/2474918‑2475213

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.