New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913_3_pae_tpiA = 1552149NA (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)
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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.