New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	980791 =	53 (1.360)	4 (0.110)	4/268	5.1	7.2%	intergenic (+5/‑256)	mukB/ldtD	chromosome condensin MukBEF, ATPase and DNA‑binding subunit/murein L,D‑transpeptidase
	?	NC_000913_3_pae_tpiA	980813 =	53 (1.450)					intergenic (+27/‑234)	mukB/ldtD	chromosome condensin MukBEF, ATPase and DNA‑binding subunit/murein L,D‑transpeptidase
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

AACTGGTGCGTAAAGTCTTCCAGAATACCGAACACGTTCATGTCGTCGGCCTGCGAGGATTTGCGCCGCAACTCCCTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGTGGCACATTACGGCGCGCTTTTCTTTAAACTTCTTTACATTAGGTTATGTAAAAACGTATCGGCGTTTATATACTGAAGATAAGCCTGATGAGTAACAGGCTTGCTC  >  NC_000913_3_pae_tpiA/980665‑980956                                                                                                                                                     |                                                                                                                                                aaCTGGTGCGTAAAGTCTTCCAGAATACCGAACACGTTCATGTCGTCGGCCTGCGAGGATTTGCGCCGCAACTCCCTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCcttt                                                                                                                                                 >  1:359297/1‑149 (MQ=255)         cGTAAAGTCTTCCAGAATACCGAACACGTTCATGTCGTCGGCCTGCGAGGATTTGCGCCGCAACTCCCTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCAGCCTTTTCTTTTTc                                                                                                                                         <  1:589958/149‑1 (MQ=255)          gTAAAGTCTTCCAGAATACCGAACACGTTCATGTCGTCGGCCTGCGAGGATTTGCGCCGCAACTCCCTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTcc                                                                                                                                        >  1:662183/1‑149 (MQ=255)             aaGTCTTCCAGAATACCGAACACGTTCATGTCGTAGGCCTGCGAGGATTTGCGCCGCAACTCCCTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTATTTTTCCGaa                                                                                                                                     >  1:335791/1‑149 (MQ=255)                  ttCCAGAATACCGAACACGTTCATGTCGTCGGCCTGCGGGGATTTGCGCCGCAACTCCCTGCAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTACAATTAAGGCGGCAGAAATCCACCCTTTTCTTTTTCCGAAAAATc                                                                                                                                >  2:340954/1‑149 (MQ=255)                  ttCCAGAATACCGAACACGTTCATGTCGTCGGCCTGCGAGGATTTGCGCCGCAACTCCCTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTc                                                                                                                                >  1:345240/1‑149 (MQ=255)                      aGAATGCCGTAAACGTTCATGTCGTCGGGCTGCTAGGATTTGCGCCGCAACTCCCTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGtt                                                                                                                            <  2:262668/149‑1 (MQ=255)                       gAATACCGAACACGTTCATGTCGTCGGCCTGCGAGGATTTGCGCCGCAACTCCCTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGttt                                                                                                                           >  2:526614/1‑149 (MQ=255)                             cGAACACGTTCATGTCGTCGGCCTGCGAGGATTTGCGCCGCAACTCCCTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGaaaa                                                                                                                                   <  1:367670/135‑1 (MQ=255)                             cGAACACGTTCATGTCGTCGGCCTGCGAGGATTTGCGCCGCAACTCCCTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGaaaa                                                                                                                                   >  2:367670/1‑135 (MQ=255)                              gAACACGTTCATGTCGTCGGCCTGCGAGGATTTGCGCCGCAACTCCCTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCAAAAACTCCGTTTCTGCACt                                                                                                                    >  1:471553/1‑149 (MQ=255)                                acacGTTCATGTCGTCGGCCTGCGAGGATTTGCGCCGCAACTCCCTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTaa                                                                                                                  >  1:362532/1‑149 (MQ=255)                                    gtgcATGTCGTCGGCCTGTGAGGATTTGCTCCGCTATTCACTGACGAGACTCCAGGACCTGACGAAGAGCCTTCTCTGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTaaaaaa                                                                                                              <  1:328490/146‑1 (MQ=255)                                          gtcgtcGGCCTGCGAGGATTTGCGCCGCAACTCCCTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGTGGca                                                                                                        <  1:213837/149‑1 (MQ=255)                                                    tGCGAGGATTTGCGCCGCAACTCCCTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGTGGc                                                                                                         >  2:369907/1‑138 (MQ=255)                                                    tGCGAGGATTTGCGCCGCAACTCCCTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGTGGc                                                                                                         <  1:369907/138‑1 (MQ=255)                                                     tcGAGGAGTTGCGTCGCAATGCCATAAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGTGGCACATTACGgcgc                                                                                             <  1:239118/148‑1 (MQ=255)                                                      cGAGGATTTGCGCCGCAACTCCCTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGTGGCACATTACGgcgcg                                                                                            >  1:596912/1‑149 (MQ=255)                                                         ggATTTGCGCCGCAACTCCCTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAATGCGGCAGCAATGCCGCCTTTTCTTTTTACGAAAACTCGGTTTCTGCTCTAAAAAAGTGGTACGTTACGGCGCGCtt                                                                                         >  2:473451/1‑149 (MQ=255)                                                            tttGCGCCGCAACTCCCTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTcc                                                                                                                               >  2:575127/1‑108 (MQ=255)                                                            tttGCGCCGCAACTCCCTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTcc                                                                                                                               <  1:575127/108‑1 (MQ=255)                                                                 gccgcAACTCCCTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGCATTAAAATTAAGGCGGAAGCAATGCCGCCTTTTCTTTTTCCGAAAACTACGTTTCTACACTAACAAAGTAGCACATTACGGCGCGCTTTTCTTTaa                                                                                 >  2:19596/1‑149 (MQ=255)                                                                  ccgcAACTCCCTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGTGGCACATTACGGCGCGCTTTTCTTTaaa                                                                                <  1:597042/149‑1 (MQ=255)                                                                     cAACTCCCTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGTGGCACATTACGGCGCGCTTTTCTTTAAActt                                                                             >  2:304670/1‑149 (MQ=255)                                                                       aCTCCCTGAAACGCTTTCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAACTCACGGCGGAAGCACTGCCGCCTTTGCTCTTTACGTAAAATCCGTATAAGAACTAAATAAGTGGCACTTTACGGCGCGCTTTTCTTTAAActtct                                                                           <  2:674380/149‑1 (MQ=255)                                                                         tCCCTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGAGGCAACAAAGCCGCCTTTTCTTTTTCCGAAAAATCCGTTTCTACACTCAAAAAGTGGCACAATAAGACCACCTTTTCCTTACACCTCttt                                                                         >  2:32075/1‑149 (MQ=255)                                                                          cccTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAACAAGTGGCACATTACGGCGCGCTTTTCTTTAAACTTCTTTa                                                                        >  1:637443/1‑149 (MQ=255)                                                                           ccTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGTGGCACATTACGGCGCGCTTTTCTTTAAACTTCTTTAc                                                                       >  1:259430/1‑149 (MQ=255)                                                                            cTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGTGGCACATTACGGCGCGCTTTTCTTTAAACTTCTTTACa                                                                      <  2:615737/149‑1 (MQ=255)                                                                                aaCGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGt                                                                                                            >  1:500056/1‑107 (MQ=255)                                                                                aaCGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGt                                                                                                            <  2:500056/107‑1 (MQ=255)                                                                                    cTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGTCGCACATTACGGCGCGCTTTTCTTTAAACTTCTTTACATTAGGTTa                                                              <  1:541543/149‑1 (MQ=255)                                                                                     ttCCAGGAACTGACGAAGCGTCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGTGGCACATTTCGGCGCGCTTTTCTTTAAACTTCTTTACATTAGGTTAt                                                             <  2:600342/149‑1 (MQ=255)                                                                                     ttCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGTGGCACATTACGGCGCGCTTTTCTTTAAACTTCTTTACATTAGGTTAt                                                             >  1:426467/1‑149 (MQ=255)                                                                                        cAGGAACTGACGAAGCGCCTTCTCAGGCTAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGt                                                                                                                             <  1:265061/82‑1 (MQ=255)                                                                                        cAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGt                                                                                                                             >  2:265061/1‑82 (MQ=255)                                                                                        cAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGTGGCACATTACGTCGCGCTTTTCTTTAAACTTCTTTACATTAGTTTATGTa                                                          >  1:403014/1‑149 (MQ=255)                                                                                         aGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGTGGCACATTACGGCGCGCTTTTCTTTAAACTTCTTTACATTAGGTTATGTaa                                                         >  1:494198/1‑149 (MQ=255)                                                                                             ccTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAATGCGTCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGTGGCACATTACGGCGCGCTTTTCTTTAAACTTCTTTACATTAGGTTATGTAAAAAc                                                     <  1:473451/148‑1 (MQ=255)                                                                                                 aCGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGTGGCACATTACGGCGCGCTTTTCTTTAAACTTCTTTACATGAGGTTATGTAAAAACTTAt                                                 >  1:60447/1‑149 (MQ=255)                                                                                                      gcgcCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGTGGCACATTACGGCGCGCTTTTCTTTAAACTTCTTTACATTAGGTTATGTAAAACAGTATCGGCg                                            >  2:187508/1‑149 (MQ=255)                                                                                                        gcCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTTTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGTGGCACATTACGGCGCGCTTTTCTTTAAACTTCTTTACATTAGGTTATGTAAAAACGTATCGGCGtt                                          <  1:19596/149‑1 (MQ=255)                                                                                                            tctcAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGTGGCACATTACGGCGCGCTTTTCTTTAAACTTCTTTACATTAGGTTATGTAAAAACGTATCGGCGTTtata                                      <  1:483373/149‑1 (MQ=255)                                                                                                                  gCGAGTTAAAATTACGGCGGCAGCAATGCCGCCTTGTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGTGGCACATTACGGCGCGCTTTTCTTTAAACTTCTTTACATTAGGTTATGTAAAACACTATCGGCGTTTATATCCTgg                                >  2:63628/1‑148 (MQ=255)                                                                                                                  gCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGTGGCACATTACGGCGCGCTTTTCTTTAAACTTCTTTACATTAGGTTATGTAAAAACGTATCGGCGTTTATATACTGa                                >  1:215523/1‑149 (MQ=255)                                                                                                                   cGAGGTAAAATGAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGTGGCACATTACGGCGCGCTTTTCTTTAAACTTCTTTACATTAGGTTATGTAAAAACGTATCGGCGTTTATATACTGac                               <  2:182268/149‑2 (MQ=255)                                                                                                                   cGAGCTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGTACTAAAAAAGTGGCACATTACGGCGCGCTTTTCTTTAAACTTCTTTACATTAGGTTATGTAAAAACGTATCGGCGTTTATATACTGaa                               <  1:633163/149‑1 (MQ=255)                                                                                                                          aaaTTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGTGGCACATTACGGCGCGCTTTTCTTTAAACTTCTTTACATTAGGTTATGTAAAAACGTATCGGCGTTTATATACTGAAGATAAGc                        <  1:583065/149‑1 (MQ=255)                                                                                                                                 ggcggcAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGTGGCACATTACGGCGCGCTTTTCTTTAAACTTCTTTACATTAGGTTATGTAAAAACGTATCGGCGTTTATATACTGCAGATACGCCtgatga                 <  2:559185/149‑1 (MQ=255)                                                                                                                                   cggtAGCAATGACGCTTTTTCTTTTTCCGAAAGCTCCGTTTCTGCACTAAAAAAGTGGAACATTACGACGCGTTTTCCTTTAGATTTCTTTACATTAGGTTATGTAAAAACGTATCGGCGTTTATATACTGAAGATAAGCCTGATGAGt               <  2:418180/149‑1 (MQ=255)                                                                                                                                    ggcAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGTGGCACATTACGGCGCGCTTTTCTTTAAACTTCTTTACATTAGGTTATGTAAAAAc                                                     >  2:499007/1‑110 (MQ=255)                                                                                                                                    ggcAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGTGGCACATTACGGCGCGCTTTTCTTTAAACTTCTTTACATTAGGTTATGTAAAAAc                                                     <  1:499007/110‑1 (MQ=255)                                                                                                                                     gcagcaATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGTGGCACATTACGGCGCGCTTTTCTTTAAACTTCTTTACATTAGGTTATGTAAAAACGTATCGGCGTTTATATACTGAAGATAAGCCTGATGAGTaa             <  2:637443/149‑1 (MQ=255)                                                                                                                                              ccgccTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGTGGCACATTACGGCGCGCTTTTCTTTAAACTTCTTTACATTAGGTTATGTAAAAACGTATCGGAGTTTATATACTGAAGATAAGCATAATGAGTAACAGGCtttc    >  2:495388/1‑147 (MQ=255)                                                                                                                                                gtcttttcttttTCCGAAAACTCCGTTTCTTCACTAAAAAAGTGGCACATTACGGCGCGCTTTTCTTTAAACTTCTTTACATTAGGTTATGTAAAAACGTATCGGCGTTTATATACTGAAGATAAGCCTGATGAGTAACAGGCTTGCTc  <  1:415960/147‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                                AACTGGTGCGTAAAGTCTTCCAGAATACCGAACACGTTCATGTCGTCGGCCTGCGAGGATTTGCGCCGCAACTCCCTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGTGGCACATTACGGCGCGCTTTTCTTTAAACTTCTTTACATTAGGTTATGTAAAAACGTATCGGCGTTTATATACTGAAGATAAGCCTGATGAGTAACAGGCTTGCTC  >  NC_000913_3_pae_tpiA/980665‑980956

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ 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.