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.

CGGAGAAAGGCACCACCTATAAACTGGTGCGTAAAGTCTTCCAGAATACCGAACACGTTCATGTCGTCGGCCTGCGAGGATTTGCGCCGCAACTCCCTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGTGGCACATTACGGCGCGCTTTTCTTTAAACTTCTTTACATTAGGTTATGTAAAAACGTATCGGCGTTTATATACTGAAGATAAGC  >  NC_000913_3_pae_tpiA/980644‑980934                                                                                                                                                    |                                                                                                                                                cGGAGAAAGGCACCACCTATAAACTGGTGCGTAAAGTCTTCCAGAATACCGAACACGTTCATGTCGTCGGCCTGCGAGGATTTGCGCCGCAACTCCCTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTCAAATTaa                                                                                                                                                >  2:583065/1‑149 (MQ=255) cGGAGAAAGGCACCACCTATAAACTGGTGCGTAAAGTCTTCCAGAATACCGAACACGTTCATGTCGTCGGCCTGCGAGGATTTGCGCCGCAACCCCCTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTaa                                                                                                                                                <  1:233448/149‑1 (MQ=255)        aGGCACCACCTCTAAACTGGTGCGTAAAGTCTTCCAGAATACCGAACACGTTCATGTCGTCGGCCTGCGAGGATTTGCGCCGCAACTCCCTGAAACGCTTCCAGGAACTGAAGGTGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGgca                                                                                                                                         <  1:337037/149‑1 (MQ=255)             ccaccTATAAACTGGTGCGTAAAGTCTTCCAGAATACCGAACACGTTCATGTCGTCGGCCTGCGAGGATTTGCGCCGCAACTCCCTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAAt                                                                                                                                    >  2:589958/1‑149 (MQ=255)                    taAACTGGTGCGTAAAGTCTTCCAGAATACCGAACACGTTCATGTCGTCGGCCTGCGAGGATTTGCGCCGCAACTCCCTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCct                                                                                                                             >  1:615737/1‑149 (MQ=255)                      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                                                                                   <  1:369907/138‑1 (MQ=255)                                                                         tGCGAGGATTTGCGCCGCAACTCCCTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGTGGc                                                                                   >  2:369907/1‑138 (MQ=255)                                                                          tcGAGGAGTTGCGTCGCAATGCCATAAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGTGGCACATTACGgcgc                                                                       <  1:239118/148‑1 (MQ=255)                                                                           cGAGGATTTGCGCCGCAACTCCCTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGTGGCACATTACGgcgcg                                                                      >  1:596912/1‑149 (MQ=255)                                                                              ggATTTGCGCCGCAACTCCCTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAATGCGGCAGCAATGCCGCCTTTTCTTTTTACGAAAACTCGGTTTCTGCTCTAAAAAAGTGGTACGTTACGGCGCGCtt                                                                   >  2:473451/1‑149 (MQ=255)                                                                                 tttGCGCCGCAACTCCCTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTcc                                                                                                         <  1:575127/108‑1 (MQ=255)                                                                                 tttGCGCCGCAACTCCCTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTcc                                                                                                         >  2:575127/1‑108 (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)                                                                                                                                                    |                                                                                                                                                CGGAGAAAGGCACCACCTATAAACTGGTGCGTAAAGTCTTCCAGAATACCGAACACGTTCATGTCGTCGGCCTGCGAGGATTTGCGCCGCAACTCCCTGAAACGCTTCCAGGAACTGACGAAGCGCCTTCTCAGGCGAGTTAAAATTAAGGCGGCAGCAATGCCGCCTTTTCTTTTTCCGAAAACTCCGTTTCTGCACTAAAAAAGTGGCACATTACGGCGCGCTTTTCTTTAAACTTCTTTACATTAGGTTATGTAAAAACGTATCGGCGTTTATATACTGAAGATAAGC  >  NC_000913_3_pae_tpiA/980644‑980934

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.