New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	349605 =	NA (NA)	4 (0.150)	4/272	3.6	NA	noncoding (1/365 nt)	REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences	REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences
	?	NC_000913_3_pae_tpiA	349637 =	NA (NA)					noncoding (33/365 nt)	REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences	REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences
Rejected: Coverage evenness skew score above cutoff.

CGCAGAAAAGCGTCATCGACACCATGCAGACCCGCAACGAGCTGTACGAAAGCATCAACTACTACCAGTACGAAGAGAAGCTCGACAACCTGTTTGCCCGTAGCCAGGTGAAATAAAAAACGCCCGTTGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCAG‑GCCTACGAGGTGCACTGAACTGTAGGTCGGATAAGACGGATGGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGTGACTTATCAGGCCTACGGGGTGCACTG  >  NC_000913_3_pae_tpiA/349457‑349744                                                                                                                                                     |                                                                                                                                             cGCAGAAAAGCGTCATCGACACCATGCAGACCCGCAACGAGCTGTACGAAAGCATCAACTACTACCAGTACGAAGAGAAGCTCGACAACCTGTTTGCCCGTAGCCAGGTGAAAAAAAAAACGCCCGTTGACTGTATTCGACAGCCGATg                                                                                                                                              >  2:241872/1‑149 (MQ=255)  gCAGAAAAGCGTCATCGACACCATGCAGACCCGCAACGAGCTGTACGAAAGCATCAACTACTACCAGTACGAAGAGAAGCTCGACAACCTGTTTGCCCGTAGCCAGGTGAAATAAAAAACGCCCGTTGATTGTATTCGACAGCCGATGc                                                                                                                                             >  2:344702/1‑149 (MQ=255)            gTCATCGACACCATGCAGACCTGCAACGAGGTGGACGAAAGCATCAACTACTACCAGTACGAAGAGAAGCTCGACAACCTGTTTGCCCGTAGCCAGGTGAAATAAAAAACGCCCGTTGATTGTATTCGACAGCCGATGCCTGATGCGTc                                                                                                                                   <  2:92388/149‑1 (MQ=255)              cATCGACACCATGCAGACCCGCAACGAGCTGTACGAAAGCATCAACTACTACCAGTACGAAGAGAAGCTCGACAACCTGTTTGCCCGTAGCCAGGTGAAATAAAAAACGCCCGTTGATTGAATTCGCCAGCCGATGCCTCATGcgccgc                                                                                                                                 >  2:369408/1‑149 (MQ=255)                   acacCATGCAGACCCGCAACGAGCTGTACGAAAGCATCAACTACTACCAGTACGAAGAGAAGCTCGACAACCTGTTTGCCCGTAGCCAGGTGAAATAAAAAACGCCCGTTGATTGTATTCGACAGCCGATGCCTGATGCGACGCTGAcg                                                                                                                            >  1:239244/1‑149 (MQ=255)                       cATGCAGACCCGCAACGAGCTGTACGAAAGCATCAACTACTACCAGTACGAAGAGAAGCTCGACAACCTGTTTGCCCGTAGCCAGGTGAAATAAAAAACGCCCGTTGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGAcgcgcc                                                                                                                        >  2:5794/1‑147 (MQ=255)                             ggcccGCAACGGGCTGTACGAAAGCATCAACTACTACCAGTACGAAGAGAAGCTCGACAACCTGTTTGCCCGTAGCCAGGTGAAATAAAAAACGCCCGTTGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCa                                                                                                                  <  1:110232/147‑1 (MQ=255)                                ccGCAACGAGCTGTACGAAAGCATCAACTACTACCAGTACGAAGAGAAGCTCGACAACCTGTTTGCCCGTAGCCAGGTGAAATAAAAAACGCCCGTTGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCAG‑Gc                                                                                                              >  1:162534/1‑149 (MQ=255)                                ccGCAACGAGCTGTACGAAAGCATCAACTACTACCAGTACGAAGAGAAGCTCGACAACCTGTTTGCCCGTAGCCAGGTGAAATAAAAAACGCCCGTTGATTGTATTCGACAGCCGATGCCTGATGCGCCGCTGACGCGACTTATCAG‑Gc                                                                                                              >  2:164749/1‑149 (MQ=255)                                    aaCGAGCTGTACGAAAGCATCAACTACTACCAGTACGAAGAGAAGCTAGACAAGCTGTTTGCCCGTAGCCAGGTGAAATAAAAAAGGCCCGTTGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGACGCGACTTCTCAG‑GCCTAc                                                                                                          >  1:450851/1‑149 (MQ=255)                                          cTGTACGAAAGCATCAACTACTACCAGTACGAAGAGAAGCTCGACAACCTGTTTGCCCGTAACCAGGTGAAATAAAAAACGCCCGTTGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGACGCGCGATATCAG‑GCCTACGAGATg                                                                                                    >  1:100848/1‑149 (MQ=255)                                             tACGAAATCATCAACTACTACCAGTACGAAAAGAAGCTCGACAACCTGTTTGCCCGTAGCCAGGTGAAATAAAAAACGCCCGTTGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCAG‑GCCTACGAGGTGCAc                                                                                                 <  1:52496/149‑1 (MQ=255)                                              aCGAAAGCATCAACTACTACCAGTACGAAGAGAAAACCGTCATTGTGTTTTCGCGTAGCCAGGTGAAATAAAAAACGCCCGTTGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCAG‑GCCTACGAGGTGCaat                                                                                                <  2:358444/149‑3 (MQ=37)                                               cGAAAGCATCAACTACTACCAGTACGAAGAGAAGCTCGACAACCTGTTTGCCCGTAGCCAGGTGAAATAAAAAACGCCCGTTGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCAG‑GCCTACGAGGGGCACTg                                                                                               >  1:219727/1‑149 (MQ=255)                                                 aaaGCATCAACTACTACCAGTACGAAGAGAAGCTCGACAACCTGTTTGCCCGTAGCCAGGTGAAATAAAAAACGCCCGTTGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCAG‑GCCTACGAGGTGCACTGaa                                                                                             <  1:298123/149‑1 (MQ=255)                                                 aaaGCATCAACTACTACCAGTACGAAGAGAAGCTCGACAACCTGTTTGCCCGTAGCCAGGTGAAATAAAAAACGCCCGTTGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCAG‑GCCTACGAGGTGCACTGaa                                                                                             >  1:271797/1‑149 (MQ=255)                                                  aaGCATCAACTACTACCAGTACGAAGAGAAGCTCGACAACCTGTTTGCCCGTAGCCAGGTGAAATAAAAAACGCCCGTTGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCAG‑GCCTACGAGGTGCACTGAAc                                                                                            >  2:418327/1‑149 (MQ=255)                                                       tCAACTACTACCAGTACGAAGAGAAGCTCGACAACCTGTTTGCCCGTAGCCAGGTGAAATAAAAAACGCCCGTTGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCAG‑GCCTACGAGGTGCCATGAACTGTAg                                                                                       >  2:68917/1‑149 (MQ=255)                                                              ctacCAGTACGAAGAGAAGCTCGACAACCTGTTTTCCCGTAGCCAGGTGAAATAAAAAACGCCCGTTGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCAG‑GCCTACGAGGTGCACTGAACTGtcggtcgggt                                                                                >  2:487795/1‑147 (MQ=255)                                                              ctacCAGTACGAAGAGAAGCTCGACAACCTGTTTGCCCGTAGCCAGGTGAAATAAAAAACGCCCGTTGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCAG‑GCCTACGAGGTGCACTGAACTGTAGGTCGGAt                                                                                >  1:318056/1‑149 (MQ=255)                                                                  cAGTACGAAGAGAAGCTCGACAACCTGTTTGCCCGTAGCCAGGTGAAATAAAAAACGCCCGTTGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCAG‑GCCTACGAGGTGCACTGAACTGTAGGTCGGATAAGa                                                                            >  1:322412/1‑149 (MQ=255)                                                                       cGAAGAGAAGCTCGACAACCTGTTTGCCCGTAGCCAGGTGAAATAAAAAACGCCCGTTGATTGTATTCGACAGCCGATGCCTGATGCTTCGCTGACGCGACTTATCAG‑GCCTACGAGGTGCACTGAACTGTAGGTCGGATAAGACGGAt                                                                       <  1:426469/149‑1 (MQ=255)                                                                       cGAAGAGAAGCTCGACAACCTGTTTGCCCGTAGCCAGGTGAAATAAAAAACGCCCGTTGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCCGAACCCTCAATGT‑CACGGAACTGTAGGTCGGATAAGACGGAt                                                                       <  1:500061/149‑1 (MQ=38)                                                                       cGAAGAGAAGCCCGACAACCTGTTTGCGCGTAGCCAGGTGAAATAAAAAACGCCCGTTGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCAG‑GACAACCAGGTGCACTGAACTGTAGGTCGGATAAGACGGAt                                                                       <  1:248279/149‑1 (MQ=37)                                                                          agagAAGCTCGACAACCTGTTTGCCCGTAGCCAGGTGAAATAAAAAACGCCCGTTGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCAG‑GCCTACGAGGTGCACTGAACTGTAGGTCGGATAAGACGGATGGc                                                                    >  1:336337/1‑149 (MQ=255)                                                                             ggaGCTCGACAACCTGTTTGCCCGCAGCCATGTGAGATGAAAAGCGGCCGTTGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCAG‑GTCTACGAGGTGCACTGAACTGTAGGTCGGATAAGACGGATGGCGTc                                                                 <  1:220880/147‑1 (MQ=25)                                                                             gaagtacGACAACCTTTTTGACCGTAGGTCGGTGAAATAGACACCGCTCGTTGATTGTATTCGTCCGCGGAAGTTGGATTCGTCGCTGACGCGATTTATCAG‑GCCTACGAGGTGCACTGAACTGTAGGTCGGATAAGACGGATGGCGTc                                                                 <  2:56345/143‑1 (MQ=16)                                                                                    gACAACCTGTTTGCCCGTAGCCAGGTGAAATAAAAAACGCCCGTTGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCAG‑GCCTACGAGGTGCACTGAACTGTAGGTCGGATAAGACGGATGGCGTCGCATCCg                                                          <  1:344702/149‑1 (MQ=255)                                                                                    gACAACCTGTTTGCCCGTAGCCAGGTGAAAGAAAAAACGCCCGTTGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCAG‑GCCTACGAGGTGCACTGAACTGTAGGTCGGATAAGACGGATGGCGTCGCATCCg                                                          >  2:254680/1‑149 (MQ=255)                                                                                          cTGTTTGCCCGTAGCCAGGTGAAATAAAAAACGCCCGTTGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCAG‑GCCTACGAGGTGCACTGAACTGTAGGTCGGATAAGCCGGATGGCGTCGACTACGACAAcc                                                    >  1:49210/1‑149 (MQ=255)                                                                                                                aaTAAAAAACGCCCGTTGATTGTATTCGACAGCCGATg                                                                                                                                              <  1:77365/38‑1 (MQ=255)                                                                                                                aaTAAAAAACGCCCGTTGATTGTATTCGACAGCCGATg                                                                                                                                              >  2:77365/1‑38 (MQ=255)                                                                                                                   aaaaaaCGCCCGTTGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCAG‑GCCTACGAGGTGCACTGAACTGTAGGTCGGATAAGACGGATGGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGTGa                           <  2:322412/149‑1 (MQ=255)                                                                                                                    aaaaaCGCCCGTTGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCAG‑GCCTACGAGGTGCACTGAACTGTAGGTCGGATAAGACGGATGGCGTCGCATCCGCCAACCGATGCCTGATGCGCCGCTGACGCGAc                          >  2:398143/1‑149 (MQ=255)                                                                                                                      aaaCGCCCGTTGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCAG‑GCCTACGAGGTGCACTGAACTGTAGGTCGGATAAGACGGATGGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGGGAttt                        >  2:416962/1‑149 (MQ=255)                                                                                                                        aCGCCCGTGGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGCCGCGACTTATCAG‑GCCTACGAGGTGCACTGAACTGTAGGTCGGATAAGACGGATGGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGTGACTTAt                      <  1:434095/149‑1 (MQ=255)                                                                                                                          gCCCGTTGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCAG‑GCCTACGAGGTGCACTGAACTGTAGGTCGGATAAGACGGATGGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGTGACTTATCa                    <  2:318056/149‑1 (MQ=255)                                                                                                                           cccGTTGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGACGCGACTTAGCAG‑GCCTACGAGGTGCACTGAACTGTAGGTCGGATAAGACGGATGGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGTGACTTATCAg                   <  1:223266/149‑1 (MQ=255)                                                                                                                            ccGTTGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCAG‑GCCTACGAGGTGCACTGAACTGTAGGTCGGATAAGACGGATGGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGTGACTTATCAgg                  >  1:364289/1‑149 (MQ=255)                                                                                                                            ccGTTGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCAG‑GCCTACGAGGTGCACTGAACTGTAGGTCGGATAAGACGGATAGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGTGACTTATCAgg                  >  2:379887/1‑149 (MQ=255)                                                                                                                            ccGTTGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCAG‑GCATACGCGGTGGACTGAACTGTAGGTCGGATAAGACGGATGGCGTCGCATCCGACAACCAATGCCTGATGCGCCGCTGACGGGCCTTAtgcgg                  >  2:304742/1‑145 (MQ=17)                                                                                                                              gTTGAGTGTATTCGACAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCAG‑GCCTACGAGGTGCACTGAACTGTAGGTCGGATAAAACGGATGGCGTCGCATCCGACAACCGATGCCTGATGCCCCGCTGACGTAACTTATCacgac                >  2:438371/1‑145 (MQ=17)                                                                                                                                      tATTCGACAGTCGATGCCTGATGCTTCGCTTAGTCAACTTATCAT‑GCCTACGATGTGCACTGAACTGTAGGTCGGATAAGACGTATGGCGTCGCATCCGACAACCGATTCCTGATGCGCCGCTGACGTGACTTATCAGGCCTACGGGGt        <  1:78163/149‑1 (MQ=14)                                                                                                                                       aTTCGACAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCAG‑GCCTACGAGGGGCACTGAACTGTAGGTCGGATAAGACGGATAGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGAGACTTATCAGGCCTACGGGGTg       >  2:388743/1‑149 (MQ=255)                                                                                                                                            aCAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCAG‑GCCTACGAGGTGCACTGAACTGTAGGTCGGATAAGACGGATGGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGTGACTTATCAGGCCTACggg          >  2:232109/1‑141 (MQ=255)                                                                                                                                            aCAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCAG‑GCCTACGAGGTGCACTGAACTGTAGGTCGGATAAGACGGATGGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGTGACTTATCAGGCCTACggg          <  1:232109/141‑1 (MQ=255)                                                                                                                                            aCAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCAG‑GCCTACGAGGTGCACTGAACTGTAGGTCGGATAAGACGGATGGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGGGACTTATCAGGCCTACGGGGTGCCCTg  >  1:25916/1‑149 (MQ=255)                                                                                                                                              aGCCGATGCCTGATGCGTCGCTGACGCGACTTATCAG‑GCCTACGAGGTGCACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATcc                                                           >  2:8958/1‑90 (MQ=12)                                                                                                                                                     |                                                                                                                                             CGCAGAAAAGCGTCATCGACACCATGCAGACCCGCAACGAGCTGTACGAAAGCATCAACTACTACCAGTACGAAGAGAAGCTCGACAACCTGTTTGCCCGTAGCCAGGTGAAATAAAAAACGCCCGTTGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCAG‑GCCTACGAGGTGCACTGAACTGTAGGTCGGATAAGACGGATGGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGTGACTTATCAGGCCTACGGGGTGCACTG  >  NC_000913_3_pae_tpiA/349457‑349744

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.