New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	= 2430968	NA (NA)	6 (0.170) +GTTCACTGTAG	6/262	4.2	10.4%	noncoding (40/84 nt)	REP169 (repetitive extragenic palindromic) element; contains 2 REP sequences	REP169 (repetitive extragenic palindromic) element; contains 2 REP sequences
	?	NC_000913_3_pae_tpiA	= 2662392	56 (1.430)					noncoding (84/266 nt)	REP184 (repetitive extragenic palindromic) element; contains 6 REP sequences	REP184 (repetitive extragenic palindromic) element; contains 6 REP sequences
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

TGATTTAGTCGGGTATTTAACCTTCAGTGCCATTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACGGTTCTGTTCACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACGGTTCTGTTCACTGT  >  NC_000913_3_pae_tpiA/2662249‑2662539                                                                                                                                                |                                                                                                                                                    tGATTTAGTCGGGTATTTAACCTTCAGTGCCATTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACgg                                                                                                                                                >  2:76354/1‑149 (MQ=255) tGATTTAGTCGGGTATTTAACCTTCAGTGCCATTTTTTTATCGTGGCGTTTGTACATGTTGTGGGATGGGGCGTGAACGCCATATCCGCCCTGGGGTTCTGTACACTGTCGGCCTGATAAGACGCATTACGCGCACCATCCGGCCACgg                                                                                                                                                >  1:544946/1‑149 (MQ=37)  gATTTAGTCGGGTATTTAACCTTCAGTGCCATTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGTTCTGTACTCTGTAGGCCTGGTAAGACGCATTACGCGGCGCATAAGGCCAGGGc                                                                                                                                               >  1:368406/1‑149 (MQ=37)   aTTTAGTCGGGTATTTAACCTTCAGTGCCATTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCt                                                                                                                                              >  1:501687/1‑149 (MQ=255)   aTTTAGTCGGGTATTTAACCTTCAGTGCCATTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCt                                                                                                                                              <  1:344975/149‑1 (MQ=255)        ggcGGGTATTTAACCAGCCGTGACATTTTTGTATCGTGGCTTTTGCAGCTGTTGTCGGATACGGCGTGAACGCCATATCCGTGATGGTGTTCTGTACACTGTAGGCCTGCTAAGACGCATTACGCGTCGCATCAGGCAACGGCTGGCgg                                                                                                                                         <  2:641165/147‑1 (MQ=18)         tCGGGTATTTAACCTTCAGTGCCATTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGTGAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGa                                                                                                                                        >  1:539608/1‑149 (MQ=255)         gcGGGTATTTAACCTTCAGTGCCATTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGa                                                                                                                                        <  1:258358/148‑1 (MQ=255)           gggTATTTAACCTTCAGTGCCATTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATg                                                                                                                                      <  2:435365/149‑1 (MQ=255)           gggTATTTAACCTTCAGTGCCATTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATg                                                                                                                                      >  1:588628/1‑149 (MQ=255)             gTATTTAACCTTCAGTGCCATTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATgcg                                                                                                                                    <  2:161147/149‑1 (MQ=255)                tttAACCTTCAGTGCCATTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATgcggcg                                                                                                                                 >  2:486645/1‑149 (MQ=255)                    aCCTTCAGTGCCATTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGaa                                                                                                                             <  1:115020/149‑1 (MQ=255)                    aCCTTCAGTGCCATTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACACCATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATACGACGCATTACGCGCCGCATCAGGCAATGGCTGTCGGATgcggcgcgta                                                                                                                             <  2:515375/149‑5 (MQ=255)                      cTTCAGTGCCATTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGt                                                                                                                                >  1:85315/1‑144 (MQ=255)                      cTTCAGTGCCATTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGt                                                                                                                                <  2:85315/144‑1 (MQ=255)                      cTTCAGTGCCATTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACg                                                                                                                           >  2:160281/1‑149 (MQ=255)                        tCAGTGCCATTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGACCGCCATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACGcc                                                                                                                         <  1:160281/149‑1 (MQ=255)                             gCCATTTTTTTATCGGGCCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCTTATc                                                                                                                    <  1:280525/149‑1 (MQ=255)                                aTTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCTTATCCGa                                                                                                                 >  1:496952/1‑149 (MQ=255)                                aTTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGATGAGGCGTGAACGCCATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCTTATCCGa                                                                                                                 >  1:423777/1‑149 (MQ=255)                                 tttttttATCGTGGCGCTTGTACCGGTTGTCGGCTGCGGCGTGAACGCCATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCTTATCCGAc                                                                                                                <  1:235949/149‑1 (MQ=255)                                  ttttttATCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCTTATCCGAcc                                                                                                               <  2:91364/149‑1 (MQ=255)                                       tATCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACgg                                                                                                          <  1:112348/149‑1 (MQ=255)                                        aTCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACGGt                                                                                                         <  1:486645/149‑1 (MQ=255)                                         tCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACGGtt                                                                                                        >  1:568109/1‑149 (MQ=255)                                           gTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACGGTTcg                                                                                                      >  1:502364/1‑148 (MQ=255)                                            tGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACGGTTCTg                                                                                                     >  1:656507/1‑149 (MQ=255)                                              gCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGAGTGAACGCCTTATCCGACCTACGGTTCTGtt                                                                                                   >  2:470161/1‑149 (MQ=255)                                                gTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGTTCTGGACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACGGTTCTGTTCa                                                                                                 <  1:508230/149‑1 (MQ=255)                                                         tgttgtCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATACGGAGGGATATCCTTATCCGACCTACGGTTCTGTTCACTGTCGGcc                                                                                        >  1:304108/1‑149 (MQ=14)                                                          gttgtCGGAGGCGGGGTAAACGCCATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGTGGCGTGAACGCCTTATCCGACCTACGGTTCTGTTCACTGTAGGCCt                                                                                       <  1:567790/149‑1 (MQ=255)                                                                ggATGCGGCGTGAACGCCATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACGGTTCTGTTCACTGTAGGCCTGATAAg                                                                                 <  1:76354/149‑1 (MQ=255)                                                                      ggcgTGAACGCCATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGGGTGAACCCCTTATCCGACCTACGGTTCTGTTTAGTGTAGGCCTGATAAGaggaat                                                                           >  1:353533/1‑144 (MQ=14)                                                                      ggcgTGAACGCCATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACGGTTCTGTTCACTGTAGGCCTGATAACACGCAt                                                                           >  2:223136/1‑149 (MQ=255)                                                                              cGCCTTATACGCCCTGCGGTTCTGTACACTGCAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACGGTTCTGTTCACTGTAGGCCTGATAAGACGCATTACGCGTc                                                                   <  2:568109/149‑1 (MQ=255)                                                                              cGCCATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACGGTTCTGTTCACTGTAGGCCTGATAAGACGCATTACGCGTc                                                                   >  1:237279/1‑149 (MQ=255)                                                                              cGCCATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACGGTTCTGTTCACTGTAGGCCTGATAAGACGCATTACGCGTc                                                                   >  1:162265/1‑149 (MQ=255)                                                                                 cATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACGGTTCTGTTCACTGTCTGCCTCATAAGACTCATTTcgcgaccgt                                                                >  1:645001/1‑144 (MQ=14)                                                                                     tCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACGGTTCTGTTCACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAg                                                            <  1:436596/149‑1 (MQ=40)                                                                                        gCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACGGTTCTGTTCACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCa                                                         >  1:343312/1‑149 (MQ=38)                                                                                           cTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTCCGCGTCGCATCAGGAAACGGCTGTCGGATGGGGCGTGAACGTCTTATCCGACCTACGGTTCTGTTCACTCTAGGCCTGATAAGCCGCATCACTCGTCGCAGCAAGCAACg                                                      >  2:476177/1‑149 (MQ=11)                                                                                            tGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACGGTTCTGTTCACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACgg                                                     >  1:463383/1‑149 (MQ=35)                                                                                              gggTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACGGTTCTGTTCACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCt                                                   <  1:104398/149‑1 (MQ=32)                                                                                                 ttCTGTACACTTTAGGCCTGATAGGACGCATTACGCGGCGCATCAGGCAACTGCTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACGGTTCTGTTCACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTc                                                <  2:134263/149‑1 (MQ=255)                                                                                                      tACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCtt                                                                                                                       <  2:567637/73‑1 (MQ=32)                                                                                                      tACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCtt                                                                                                                       >  1:567637/1‑73 (MQ=32)                                                                                                       acacTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGTGGCGTGAACGCCTTATCCGACCTACGGTTCTGTTCACTGTAGGCCTGa                                                                                     <  1:78560/106‑1 (MQ=11)                                                                                                       acacTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGTGGCGTGAACGCCTTATCCGACCTACGGTTCTGTTCACTGTAGGCCTGa                                                                                     >  2:78560/1‑106 (MQ=11)                                                                                                                gCCTGAAAAGACGCATTACGTGTGGGAGCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACGGTTCTGTTCACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAAc                                 <  2:102394/149‑1 (MQ=14)                                                                                                                        gcgcgcgTTGCGCGGCGCATGAGGGAACGGCTGGCGGATGCTGCGTGGACGCCTTATCCGACCTACGGTTCTGTTCACTGTAGGCCTGATAAGACGCATTACGCGGCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCTTATc                         <  2:29924/146‑1 (MQ=17)                                                                                                                               ttACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACGGTTCTGTTAACTGTAGGCCTGATAAGACGCATTATGTGCGCCACCAGGTAACGGCTGTTGGCTGCGGCGTGTACCCCTTATCCGACCTa                  >  1:506756/1‑149 (MQ=14)                                                                                                                                    cggcGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACGGTTCTGTTCACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACGGtt             <  1:653355/146‑1 (MQ=255)                                                                                                                                        gcagtaGGTAACGGCTGTCGGATGCGGCGTGAACGCCTAATCAGCCCTGCGGTAGGGTCAACTGTAGGCCTGATAAGACGCAGTACTCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACGGTTCTGt         <  2:494320/144‑1 (MQ=11)                                                                                                                                          aTCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACGGTTCTGTTCACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACGGTTCTGTTc       >  1:85964/1‑149 (MQ=255)                                                                                                                                               gCAACGGCTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACGGTTCTGTTCACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACGGTTCTGTTCACTGt  >  1:80555/1‑149 (MQ=255)                                                                                                                                                |                                                                                                                                                    TGATTTAGTCGGGTATTTAACCTTCAGTGCCATTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGTTCTGTACACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACGGTTCTGTTCACTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACGGTTCTGTTCACTGT  >  NC_000913_3_pae_tpiA/2662249‑2662539

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