New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	= 1552149	NA (NA)	5 (0.140)	5/272	4.3	NA	noncoding (79/97 nt)	RIP120 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site	RIP120 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site
	?	NC_000913_3_pae_tpiA	2549473 =	NA (NA)					noncoding (8/98 nt)	RIP176 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site	RIP176 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site
Rejected: Coverage evenness skew score above cutoff.

ACTTTAAGCTGAAAATGGCGCTGTAAAAGGCGCCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCT  >  NC_000913_3_pae_tpiA/1552002‑1552289                                                                                                                                                    |                                                                                                                                             aCTTTAAGCTGAAAATGGCGCTGTAAAAGGCGCCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCCATAGATTGCAGTGAACGTGTTGGCCTGATa                                                                                                                                             >  1:495800/1‑149 (MQ=255)   tttAAGCTGAAAATGGCGCTGTAAAAGGCGCCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGACAACCCTTCTAATCCAATAGATTGCAGTGAACGTGTAGGCCTGCTAAg                                                                                                                                           >  1:282740/1‑149 (MQ=255)    ttAAGCTGAAAATGGCGCTGTAAAAGGCGCCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGc                                                                                                                                          <  1:250580/149‑1 (MQ=39)    ttAAGCTGAAAATGGCGCTGTAAAAGGCGCCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGc                                                                                                                                          <  2:53693/149‑1 (MQ=39)       aGCTGAAAATGGCGCTGTAAAAGGCGCCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTa                                                                                                                                       <  1:248075/149‑1 (MQ=37)        gCTGAAAATGGCGATGTAAAATGCGTCATTTGCATATTGTAGACCACGTAGGCTTTGTTCATGCCGGATCCGGCGTGCACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATACATTGCAGTGAACGTGTAGGCCTGATAAGCGTAg                                                                                                                                      <  2:5146/149‑1 (MQ=11)              aagggCGTTGTAAAAGGGGCCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATc                                                                                                                                <  2:1856/146‑1 (MQ=12)                    gcTGTAAAAGGCGCCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAGAATCTGGGTGATCTAATAGTTTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCaa                                                                                                                          <  2:620394/149‑1 (MQ=11)                            aGGCGCCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGATCGTGTAGTCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGt                                                                                                                  <  2:301321/149‑1 (MQ=17)                             ggCGCCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGtt                                                                                                                 <  2:626159/149‑1 (MQ=32)                                gcCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGt                                                                                                              <  1:322395/149‑1 (MQ=31)                                          tatTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGGCAGTGTAGGCCTGAGGAGCGTGGCGCCTTCGGTAATGTTGCGTTTGTCATCAGTTTc                                                                                                    >  2:427325/1‑149 (MQ=11)                                          tatTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCCATGTTGAGTTTGTCATCAGtttt                                                                                                    >  2:214882/1‑148 (MQ=11)                                             tggaGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCaaa                                                                                                 <  2:519763/146‑1 (MQ=18)                                             tGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCaaa                                                                                                 <  1:17934/149‑1 (MQ=33)                                                  aCAACGTAGGCTTTGTTCATGCCGGATGCGGCGTCAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGAAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGgcg                                                                                            >  2:511126/1‑149 (MQ=21)                                                   cAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGGTAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGgcgc                                                                                           >  2:354720/1‑149 (MQ=21)                                                    aaCGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCt                                                                                          <  1:356882/149‑1 (MQ=35)                                                            cTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAgg                                                                                  >  1:179930/1‑149 (MQ=40)                                                             tttGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGc                                                                                 <  2:482745/149‑1 (MQ=255)                                                               tGTTCCTGCCGGATGCGTCGTAAACCCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGt                                                                               <  1:398104/149‑1 (MQ=255)                                                               tGTTCATGCCGGAGGCGGCGGGAACGTCTTAGCCGGCATGAAAACCCTTCAAATCCAATAGTTTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAAGGGCGGTGTAAAAGGCGt                                                                               <  2:112739/149‑1 (MQ=14)                                                                             gcggcgTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGt                                                                 <  1:420399/149‑1 (MQ=255)                                                                                     aaCGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTTTATAAAGCGTCATTTTCATATTGTATACAACg                                                         >  2:549059/1‑149 (MQ=255)                                                                                     aaCGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTTTAAAAGGCGTCATTTTCATATAGGAGACaaag                                                         >  2:534411/1‑147 (MQ=255)                                                                                        gCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAg                                                      <  1:427325/149‑1 (MQ=255)                                                                                        gCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGGAGGCCTGATAAGCGTAGCGAATGAGGGGATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAg                                                      <  1:89416/149‑1 (MQ=18)                                                                                             aTCCGGCATGAAAACACTTCAAATCCAATAGAGGGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCttt                                                 <  1:69307/149‑1 (MQ=255)                                                                                              gtcGGAATGAAAACCCATCAGAAGCAATGGAATGCAGTGAACGTGTAGGACTGATAAGCGTAGCGCATCATGCAATGTTGCGTTGGTCATCAGTTTCAAATGGCGCGGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTg                                                <  2:192708/147‑1 (MQ=21)                                                                                               ccGGCATGAAACCCCTTCAAATTCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGCTGCTTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGt                                               <  1:253307/149‑1 (MQ=255)                                                                                               ccGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGGTAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGt                                               <  1:354720/149‑1 (MQ=255)                                                                                                cGGAATGAAAACGCTTCAAATCCAATAGATTGGAGTGAACGTTTAGGCCTTATAAGCTGAGCGCGTCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGtt                                              <  2:157199/149‑1 (MQ=21)                                                                                                  gCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGGGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGTTCa                                            <  2:260471/149‑1 (MQ=255)                                                                                                             cTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATgag                                 >  1:582940/1‑147 (MQ=255)                                                                                                               tCAAATCCAATAGAGTGGATTGAACGTGGAGTCCTGAGAAACTGAAGGCATCAGACAATGTGTCGTTTGTCATCAGTTTCGACTGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATgcggc                               <  2:24032/149‑1 (MQ=18)                                                                                                                 aaaTTCAATAGTTTGCAGTGAACGTGGAGGCCTGATAAGCGTAGGGCATCAGGCAATGTTGCGTTTGTTATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGTTCACGCCGCATccggcat                             <  2:141652/149‑3 (MQ=25)                                                                                                                       aaTAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGAAGCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGc                       <  2:493957/149‑1 (MQ=255)                                                                                                                        aTAGATTGCAGTGAATGTGTAGGCCTGAGAAACGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGcc                      <  2:375465/149‑1 (MQ=255)                                                                                                                                 aGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGc             >  1:300587/1‑149 (MQ=255)                                                                                                                                   tGAACGGGTAGGTCTGATAGGCGGAGGGCCGGATGCAATGTTGTTTTTGTCATCAGTTTAAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGTTGTGGCGTGTCCGCTTTATCCGGCAt           <  2:297069/149‑1 (MQ=17)                                                                                                                                        gtgtAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGaaaa      >  1:504852/1‑149 (MQ=255)                                                                                                                                            cggCCTGATAAGCGTAGCACAGCAGTAAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGCAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCt  <  1:99904/148‑1 (MQ=18)                                                                                                                                                    |                                                                                                                                             ACTTTAAGCTGAAAATGGCGCTGTAAAAGGCGCCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCTTCAAATCCAATAGATTGCAGTGAACGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGTTGCGTTTGTCATCAGTTTCAAATGGCGCTGTAAAAGGCGTCATTTTCATATTGTAGACAACGTAGGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCATGAAAACCCT  >  NC_000913_3_pae_tpiA/1552002‑1552289

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