New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	3920240 =	57 (1.220)	4 (0.090)	4/266	6.1	7.0%	coding (164/534 nt)	atpH	F1 sector of membrane‑bound ATP synthase, delta subunit
	?	NC_000913_3_pae_tpiA	3920260 =	53 (1.200)					coding (144/534 nt)	atpH	F1 sector of membrane‑bound ATP synthase, delta subunit
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

TCCAGAACATCCGGGAGCGCGTTAAGACGACCATTTTCAGCCATAACCCGAATCAGGTTCTGACCGTTTTCGTCCAGTTGCTCACCACAAACTGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCTGCCAGCGTTCTACACTTTGGTGTTCGACGGCAAAGTCAAAAGCTGCTTTGGCGTAGGGGCGAGCTACCGTAATAAATTCAGACATC  >  NC_000913_3_pae_tpiA/3920123‑3920404                                                                                                                                          |                                                                                                                                                 tCCAGAACATCCGGGAGCGCAGTAGTGCGATCATTACCCACCAAAACCCGAATCAGGTTCTGACCGTTTTCGTCCCGTTGGTCACCACAAACTACGATAAACGACTCGACGAGCGTTTCTACCGCAAGCGCGCCACAGagcagccacga                                                                                                                                       >  2:7957/1‑144 (MQ=255)                 gcgcGTTAAGACGACCATTTTCAGCCATACCCCGAATCAGGTTCTGCCCCTTTCGATCCGGTTGCTCACCACAAACTGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTg                                                                                                                       <  1:395327/149‑1 (MQ=255)                     gTTAAGACGACCATTTTCAGCCATAACCCGAATCAGGTTCTGACCGTTTTCGTCCAGTTGCTCACCACAAACTGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTa                                                                                                                   >  1:500992/1‑149 (MQ=255)                           acgacCATTTTCAGCCATAACCCGCATCCGGTTCTCACCGTTGTCGTCGAGTATCTCACCACAAACTGCGCTTGACTTATGGGCCAGCGTTTCTGCCACAAGCGCGCCAGAGATACGCTCTGCCATTTGTCCGTTTTGGCTTACCTcgg                                                                                                             >  2:393695/1‑149 (MQ=255)                            cgtccATTTTCATCCATAACCCGAATCAGGTTCTGACCGTTTTCGTCCAGTTGCTCACCACAAACTGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTcggc                                                                                                            <  2:143266/146‑1 (MQ=255)                               ccATTTTCAGCCATAACCCGAATCAGGTTCTGACCGTTTTCGTCCAGTTGCTCACCACAAACTGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCggcggc                                                                                                         >  2:574805/1‑149 (MQ=255)                               ccATTTTCAGCCATAACCCGAATCAGGTTCTGACCGTTTTCGTCCAGTTGCTCACCACAAACTGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCCGCCATTTGTTCGTTTTTGGTTACCTCggcggc                                                                                                         <  1:769178/149‑1 (MQ=255)                                          cATAACCCGAATCAGGTTCTGACCGTTTTCGTCCAGTTGCTCACCACAAACTGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCa                                                                                              >  2:231360/1‑149 (MQ=255)                                           aTAACCCGAATCAGGTTCTGACCGTTTTCGTCCAGTTGCTCACCACAAACTGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCAt                                                                                             <  1:417027/149‑1 (MQ=255)                                             aaCCCGAATCAGGTTCTGACCGTTTTCGTCCAGTTGCTCACCACAAACTGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGTCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGt                                                                                           >  2:41831/1‑149 (MQ=255)                                               cccGAATCAGGTTCTGACCGTTTTCGTCCAGTTGCTCACCACAAACTGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCCGCATGTcc                                                                                         >  1:652348/1‑149 (MQ=255)                                                ccGAATCAGGTTCTGACCGTTTTCGTCCAGTTGCTCACCACAAACTGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGCGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCCGCAAACGCCAGCATGTCCt                                                                                        >  1:775001/1‑149 (MQ=255)                                                ccGAATCAGGTTCTGACCGTTTTCGTCCAGTTGCTCACCACAAACTGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCt                                                                                        >  1:777096/1‑149 (MQ=255)                                                          ttCTGACCGTTTTCGTCCAGTTGCTCACCACAAACTGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCTGCCAGCGTTc                                                                              <  1:613655/149‑1 (MQ=255)                                                             tGACCGTTTTCGTCCAGTTGCTCACCACAAACTGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTcggc                                                                                                            >  1:405481/1‑116 (MQ=255)                                                             tGACCGTTTTCGTCCAGTTGCTCACCACAAACTGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTcggc                                                                                                            <  2:405481/116‑1 (MQ=255)                                                             tGACCGTTTTCGTCCAGTTGCTCACCACAAACTGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCTGCCAGTGTTTTac                                                                           >  2:78830/1‑149 (MQ=255)                                                              gACCGTTTTCGTCCAGTTGCTCACCACAAACTGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCCCTAACGAGCATGTCCTGCCAGCGTTCTacc                                                                          >  2:376618/1‑148 (MQ=255)                                                                 cGTTTTCGTCCAGTTGCTCACCACAAACTGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCCTGTCCTGCCAGCGTTCTACACtt                                                                       >  1:125057/1‑149 (MQ=255)                                                                   ttttCGTCCTGTTGCTCACCACAATCTGCGAGCAAGGAATTGTCGAGCGTTGCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAAAGCGAGAATGTGATCCCAGCGTTCTACACTTTg                                                                     <  2:658784/149‑1 (MQ=255)                                                                   ttttCGTCCAGTTGCTCACCACAAACTGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCTGCCAGCGTTCTACACTTTg                                                                     <  1:81586/149‑1 (MQ=255)                                                                         tCCAGTTGCTCACCACAAACTGCGATAAACGACTCGGCGAGCGTTTCTGGCGCACGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCTGCCAGCGTTCTACACTTTGGTGTTc                                                               >  2:9311/1‑149 (MQ=255)                                                                             gTTGCTCACCACAAACTGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCTGCCAGCGTTCTACACTTTGGTGTTCGACg                                                           >  1:28487/1‑149 (MQ=255)                                                                             gTTGCTCACCACAAACTGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCTGCCAGCGCTCTACACTTTGGTGTTGGACg                                                           >  2:371552/1‑149 (MQ=255)                                                                              ttGCTCACCACAAACTGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCAGTTGTTCGTTTTTGGTTACCTCGGCGGCAACAGCGCGCAAGAGCTGCCAGCGTTCTACACTTTGGTGTTCGACgg                                                          >  1:431163/1‑149 (MQ=255)                                                                                  tCACCACAAACTGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCTGCCAGCGTTCTACACTTTGGTGTTc                                                               <  2:552823/140‑1 (MQ=255)                                                                                  tCACCACAAACTGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCTGCCAGCGTTCTACACTTTGGTGTTc                                                               >  1:552823/1‑140 (MQ=255)                                                                                   caccacAAACTGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGACCTGCCATTGGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCGGCCAGCGTTCTACACTTTGGTGTTCGACGGCAAAg                                                     >  1:156524/1‑149 (MQ=255)                                                                                    accacAAACTGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCTGc                                                                                      <  2:463298/115‑1 (MQ=255)                                                                                    accacAAACTGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCTGc                                                                                      >  1:463298/1‑115 (MQ=255)                                                                                    accacAAACTGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCTGCCAGCGTTCTACACTTTGGTGTTCGACGGCAAAgg                                                    >  1:237283/1‑148 (MQ=255)                                                                                    accacAAACTGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCTGCCAGCGTTCTACACTTTGGTGTTCGACGGCAAAGt                                                    <  1:663794/149‑1 (MQ=255)                                                                                    accacAAACTGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCTGCCAGCGTTCTACACTTTGGTGTTCGACGGCAAAGt                                                    >  2:663794/1‑149 (MQ=255)                                                                                      cacaAACTGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCTGCCAGCGTTCTACACTTTGGTGTTCGACGGCAAAGTCa                                                  >  1:202387/1‑149 (MQ=255)                                                                                           aCTGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCTGCCAGCGTTCTACACTTTGGTGTTCGACGGCAAAGTCAAAAgc                                             <  2:353531/149‑1 (MQ=255)                                                                                           aCTGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCTGCCAGCGTTCTACACTTTGGTGTTCGACGGCAAAGTCAAAAgc                                             >  1:353531/1‑149 (MQ=255)                                                                                             tGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCTGCCAGCGTTCTACACTTTGGTGTTCGACGGCAAAGTCAAAAgctg                                           <  2:28487/149‑1 (MQ=255)                                                                                             tGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCTGCCAGCGTTCTACACTTTGGTGTTCGACGGCAAAGTCAAAAgctg                                           >  2:627380/1‑149 (MQ=255)                                                                                               cGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCTTGCCAGCGTTCTACACTTTGGTGTTCGACGGCAAAGTCAAAAgctgct                                         >  1:629267/1‑149 (MQ=255)                                                                                                gATAAACGACTGCGCGAGGGTTTTTCCACCAAGCGCGCTAGTGTTAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCTTCTTTCATGATCATGCCACCCCAGCGTTCTACACTTTGGTGTTCGACGGCAAAGTCAAAAGCTGCtt                                        <  2:42673/149‑1 (MQ=255)                                                                                                gATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCTGCCAGCGTTCTACACTTTGGTGTTCGACGGCAAAGTCAAAAGCTGCtt                                        >  2:500146/1‑149 (MQ=255)                                                                                                    aaCGACTCGGCGAGCGTTTCTGGCGCAAGCGCGTCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCTGCCAGCGTTCTACACTTTGGTGTTCGACGGCAAAGTCAAAAGCTGCTTTGGc                                    <  1:41831/149‑1 (MQ=255)                                                                                                     aCGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCTGCCAGCGTTCTACACTTTGGTGTTCGACGGCAAAGTCAAAAGCTGCTTTGGCg                                   >  2:10003/1‑149 (MQ=255)                                                                                                        attCGGCGAGCGTTGCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTGCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCTGCCAGCGTTCTACACTTTGGTGTTCGACGGCAAAGTCAAAAGCTGCTTTGGCGTAg                                <  2:59118/147‑1 (MQ=255)                                                                                                         cTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCTGCCAGCGTTCTACACTTTGGTGTTCGACGGCAAAGTCAAAAGCTGCTTTGGCGTAgg                               <  1:231360/149‑1 (MQ=255)                                                                                                          tCGGCGAGCGTTTCTGGCGCAAGCGCACCAGAGAGAAGCTCTGCCATTTGTTCGATTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCTGCCAGCGTTCTACACTTTGGTGTTCGCCGACACATTCGAAAGCTGCTTTGGCGGAggg                              >  2:157667/1‑149 (MQ=255)                                                                                                          tCGGCGAGCGTATCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCTGCCAGCGTTCTACACTTTGGTGTTCGACGGCAAAGTCAAAAGCTGCTTTGGCGTAggg                              >  1:501847/1‑149 (MQ=255)                                                                                                                    tttCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCTGCCAGCGTTCTACACTTTGGTGTTCGACGGCAAAGTCAAAAGCTGCTTTGGCGTAGGGGCGAGCTAcc                    >  1:336822/1‑149 (MQ=255)                                                                                                                       cTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCTGCCAGCGTTCTACACTTTGGTGTTCGACGGCAAAGTCAAAAGCTGCTTTGGCGTAGGGGCGAGCTACCGta                 >  2:452206/1‑149 (MQ=255)                                                                                                                        tGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTACGTTTATGCTGACCGCGGGGACAAAGGCCAGCATGTCCTGCCAGCGTTCTACACTTTGGTGTTCGACGGCAAAGTCAAAAGCTGCTTTGGCGTGGGGCGGACCTACCGtag                >  2:343524/1‑148 (MQ=255)                                                                                                                            gcAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCTGCCAGCGTTCTACACTTTGGTGTTCGACGGCAAAGTCAAAAGCTGCTTTGGCGTAGGGGCGAGCTACCGTAATaaa            <  2:530178/149‑1 (MQ=255)                                                                                                                              aaGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCTGCCAGCGTTCTACCCTTTGCAATCCCCCGGCAAAGTCAAAAGCTGCTTTGGCGTAGGGGCGAGCTACCGTAATAAAtt          <  1:643285/149‑1 (MQ=255)                                                                                                                               aGCGCGCCAGAGAGAAGCCCTTCCATGTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCTGCCATCGTTCTACACTTTGGTGTTCGTCGGCAAAGTCAAAAGCTGCTTTGGCGTAGGGGCGAGCTACCGTAATAAATTc         <  1:78830/149‑1 (MQ=255)                                                                                                                                  gcgcCAGAGAGAAGCTCTGCCATTTGCTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCTGCCAGCGTTCTACACTTTGGTGTTCGACGGCAAAGTCAAAAGCTGCTTTGGCGTAGGGGCGAGCTACCGTAATAAATTCAGa      <  1:13334/149‑1 (MQ=255)                                                                                                                                      cAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCTGCCAGCGTTCTACACTTTGGTGTTCGACGGCAAAGTCAAAAGCTGCTTTGGCGTAGGGGCGAGCTACCGTAATAAATTCAGACATc  <  1:500146/149‑1 (MQ=255)                                                                                                                                      cAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATATCCTGCCAGCGTTCTACACTTTGGTGTTCGACGGCAAAGTCAAAAGCTGCTTTGGCGTAGGGGCGAGCTACCGTAATAAATTCAGACATc  <  2:712324/149‑1 (MQ=255)                                                                                                                                          |                                                                                                                                                 TCCAGAACATCCGGGAGCGCGTTAAGACGACCATTTTCAGCCATAACCCGAATCAGGTTCTGACCGTTTTCGTCCAGTTGCTCACCACAAACTGCGATAAACGACTCGGCGAGCGTTTCTGGCGCAAGCGCGCCAGAGAGAAGCTCTGCCATTTGTTCGTTTTTGGTTACCTCGGCGGCAAACGCCAGCATGTCCTGCCAGCGTTCTACACTTTGGTGTTCGACGGCAAAGTCAAAAGCTGCTTTGGCGTAGGGGCGAGCTACCGTAATAAATTCAGACATC  >  NC_000913_3_pae_tpiA/3920123‑3920404

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.