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.

AACGAGCTGTACGAAAGCATCAACTACTACCAGTACGAAGAGAAGCTCGACAACCTGTTTGCCCGTAGCCAGGTGAAATAAAAAACGCCCGTTGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCAG‑GCCTACGAGGTGCACTGAACTGTAGGTCGGATAAGACGGATGGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGTGACTTATCAGGCCTACGGGGTGCACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGACAA  >  NC_000913_3_pae_tpiA/349492‑349785                                                                                                                                                   |                                                                                                                                                     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                                                                                                                                      >  1:271797/1‑149 (MQ=255)              aaaGCATCAACTACTACCAGTACGAAGAGAAGCTCGACAACCTGTTTGCCCGTAGCCAGGTGAAATAAAAAACGCCCGTTGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCAG‑GCCTACGAGGTGCACTGaa                                                                                                                                      <  1:298123/149‑1 (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)                                                                                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)                                                                                                                     tGATGCGTCGCTGACGCGACTTATCAG‑GCCTACGAGGTGCACTGAACTGTAGGTCGGATAAGACGGATGGCGTCGCATCCGACAACCGATGCCTGATGGGCCGCTGACGTGACTTATCAGCCCTACGGGGTGGACAGAACTGTAGGTCg                               >  1:57374/1‑149 (MQ=255)                                                                                                                                                   cTACGAGGTGCACTGAACTGTAGGTCGGATAAGACGGATGGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGTGACGTATCAGGCCTACGGGGTGCACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGACaa  <  1:238730/149‑1 (MQ=255)                                                                                                                                                   |                                                                                                                                                     AACGAGCTGTACGAAAGCATCAACTACTACCAGTACGAAGAGAAGCTCGACAACCTGTTTGCCCGTAGCCAGGTGAAATAAAAAACGCCCGTTGATTGTATTCGACAGCCGATGCCTGATGCGTCGCTGACGCGACTTATCAG‑GCCTACGAGGTGCACTGAACTGTAGGTCGGATAAGACGGATGGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGTGACTTATCAGGCCTACGGGGTGCACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGACAA  >  NC_000913_3_pae_tpiA/349492‑349785

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.