New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_vch_tpiA	2549534 =	45 (1.420)	4 (0.130)	4/274	4.1	8.5%	noncoding (69/98 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
	?	NC_000913_3_vch_tpiA	2549564 =	43 (1.430)					noncoding (2549564/4641682 nt)	repeat_region	repeat region
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

CGGCGTTAAAGCAGAAGTAATAAAAAGGCCAGTCAGTAATGTTACTGGCTGGTCTGAGAGTGCTGACAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGAGCCCACAATATATTGAATTAGCACGATTTCG‑TAGGCCGGATAAGGCGTTCACGCCGCATCCGGCGTGTACAACGCGCACTTGGTCAACAATCTGAGGCCAGTCAGTAATGTTACTGCCTGGCCTTTAATCAATGAATCAGAAACGCTTACAGCGCCATCAACTTGTCCAGCGACGGTGCGAA  >  NC_000913_3_vch_tpiA/2549387‑2549681                                                                                                                                                     |                                                                                                                                                    cggcgTTAAAGCAAAAGTAATAAAAAGGCCAGTCAGTAATGTTACTGGCTGGTCTGAGAGTGCTGACAAACGCAAAACTGCCTGATGTGTTTCGCTTATCAGGCCTACGTGGAGCCCACAATATATTGAATTAGCACGATTTCG‑TAGGc                                                                                                                                                    <  1:17901/149‑1 (MQ=255)        aaaGCAGAAGTAATAAAAAGGCCAGTCAGTAATGTTACTGGCTGGTCTGAGAGTGCTGACAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGAGCCCACAATATATTGAATTAGCACGATTTCG‑TAGGCCGGATaa                                                                                                                                             <  1:535988/149‑1 (MQ=255)         aaGCAGAAGTAATAAAAAGGCCAGTCAGTAATGTTACTGGCTGGTCTGAGAGTGCTGACAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGAACCCACAATATATTGAATTAGAACAATTTCT‑TAGGACgggaaag                                                                                                                                            >  2:125250/1‑144 (MQ=37)             aGAAGTAATAAAAAGGCCAGTCAGTAATGTTACTGGCTGGACAGAGAATACAGACAAACACAAAACTGCCTGATGCGCTACGCTTATCAAGCCTACGTGGAGCCCACAATATATTGAATTAGCACGATTTCG‑TAGGCCGGAAAAGGCGt                                                                                                                                        >  1:138541/1‑149 (MQ=25)                           ggCCAGTCAGTAATGTTACTGGCTGGTCTGAGAGTGCTGACAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGAGCCCACAATATATTGAATTAGCACGATTTCG‑TAGGCCGGATAAGGCGTTCACGCCGCATCCg                                                                                                                          >  1:230971/1‑149 (MQ=255)                                 tcagtAATGTTACTGGCTGGTCTGAGAGTGCTGACAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGAGCCCACAATATATTGAATTAGCACGATTTCG‑TAGGCCGGATAAGGCGTTCACGCCGCATCCGGCgtgt                                                                                                                    >  1:304817/1‑149 (MQ=255)                                              tggctggTCTGAGAGTGCTGACAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGAGCACACAATATATTGAATTAGCACGATTTCG‑TCGGCCGCATACCGCGTTACCGCCGCATCCGCCGTGTACACCGCGCaact                                                                                                       >  2:399503/1‑146 (MQ=21)                                                 ctggTCTGAGAGTGCTGACAAACGCAAAACTGCCTGATGCGCTACACTTATCAGGCCTACGTGGAGCCCACAATATATTGAATTAGCACGATTTCG‑TAGGCCGGATAAGGCGTTCACGCCGCATCCGGCGTGTACAACGCGCACTTGGt                                                                                                    >  1:422343/1‑149 (MQ=255)                                                  tggTCTGAGAGTGCTGACAAACGCAAAAATGCCTGATGCGCTACGCTTATCAGGCCTACGTGGAGCCCACAATATATTGAATTAGCACGATTTCG‑TAGGCCGGATAAGGCGTTCACGCCGCATCCGGCGTGTACAACGCGCACTTGGTc                                                                                                   >  1:525689/1‑149 (MQ=255)                                                     tCTGAGAGTGCTGACAAACGCAAAACTGCTTTATGCGCTACGCTTATCAGGCCTACGTGGAGCCCACAATATATTGAATTAGCACGATTTCG‑TAGGTCGGATAAGGCGTTCACGCCGCATCCGGCGTGTACAACGCGCACTTGGTcaac                                                                                                <  1:474019/149‑1 (MQ=255)                                                       tGAGAGTGCTGACAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGAGCCCACAATATATTGAATTAGCACGATTTCG‑TAGGCCGGATAAGGCGTTCACGCCCCATCCGGCATGTACAACGCGCACCTGGTcaacaa                                                                                              >  2:347060/1‑149 (MQ=255)                                                        gagaGTGCTGACAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGAGCCCACAATATATTGAATTAGCACGATTTCG‑TAGGCCGGATAAGGCGTTCACGCCGCATCCGGCGTGTACAACGCGCACTTGGTCAACAAt                                                                                             >  2:424739/1‑149 (MQ=255)                                                         agagTGCTGACAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGAGCCCACAATATATTGAATTAGCACGATTTCG‑TAGGCCGGATAAGGCGTTCACGCCGCATCCGGCGTGTACAACGCGCACTTGGTCAACAATc                                                                                            <  1:537161/149‑1 (MQ=255)                                                            gTGCGGACAAACGCAAAACTGCCTTATGCGCTACGCTTATCAGGCCTACGTGGAGCCCACAATATATTGAATTAGCACGATTTCG‑TAGGCCGGATAAGGCGTTCACGCCGCATCCGGCGTGTACAACGCGCACTTGGTCAACAATCTGa                                                                                         <  2:150456/149‑1 (MQ=255)                                                                tGACCAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGAAACCCACAATATAATGAATTAGCACGATTTCG‑TAGGCCGGATAAGGCGTTCACGCCGCATCCGGCGTGTACAACGCGCACTTCGTCAACAATCTGAGGcc                                                                                     >  1:415986/1‑149 (MQ=18)                                                                tGACAAACGCAAAACTACCTGATGCGCTACGCTTATCAGGCCTACGTGGAGCCCACAATATATTGAATTAGCACGATTTCG‑TAGGCCGGATAATGCGTTCAAGCCGCATCCGGCCTGTCAAACGACCCCTTCGTCAACACTCTGAGGcc                                                                                     >  2:238621/1‑149 (MQ=18)                                                                    aaaCGCAAAACTGCCTGATGCGCTACGCGTATCAGGCCTACGTAGAGCCAACAATATATTGAATTAAAAC‑ACTCCGTTATTTCTGATAAGGCGTTCCCGCCGACTCGGGGTTGTCCAACGCGCACTTTGTAAACAATCTGAGGCgagtg                                                                                 >  2:137275/1‑148 (MQ=12)                                                                      aCGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGAGCCCACAATATATTGAATTAGCACGATTTCA‑TAGACCGGATAAGGCGTTCACAAAGAAACGGAAGTGTACAACGCGCACTTGGACAACAATCTGAGGCcagtcag                                                                               >  1:349765/1‑149 (MQ=21)                                                                          aaaaCTGCTTGATGCTCTACGCTTATTAGGCCTACGTGGAGCCCACAATATATTGAATTAGCACGATTTCG‑TAGGCCGGATAAGGCGTTCACGCCGCATCCGGCGTGTACAACGCGCACTTGGTCAACAATCTGAGGCCAGTCAGTAAt                                                                           <  1:136332/149‑1 (MQ=255)                                                                             aCTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGAGCCCACAATATATTGAATTAGCACGATTTCG‑TAGGCCGGATAAGGCGTTCACGCCGCATCCGGCGTGTACAACGGGCACTTGGGCAACACTCTGAGGCCAGTCGGTCATGtt                                                                        >  2:36730/1‑149 (MQ=21)                                                                                 ccTGATGCGCTACGCTTATCAGGCCTACGTGGAGCCCACAATATATTGAATTAGCACGATTTCG‑TAGGCCGGATAAGGCGTACACGCCGGATGCGGCGTGAAc                                                                                                                  >  2:538330/1‑103 (MQ=21)                                                                                 ccTGATGCGCTACGCTTATCAGGCCTACGTGGAGCCCACAATATATTGAATTAGCACGATTTCG‑TAGGCCGGATAAGGCGTACACGCCGGATGCGGCGTGAAc                                                                                                                  <  1:538330/103‑1 (MQ=21)                                                                                     aTGCGCTACGCTTATCCGGCGTACGTGGAGCCCATAATGTATTGAATTAGCTCCATTGCG‑TAGGCCGGATAAGGCGTTCACGCCTTATCCTGCGTGTACAACGCGCACTTGGTCAACAATCTGAGGCCAGTCAGTAATGTTACTGCCTg                                                                <  2:253329/149‑1 (MQ=37)                                                                                         gcTACGCTTATCAGGCCTACGTGGAGCCGACAATATATTGAATTAGCACGATTTCG‑TAGGCCGGATAAGGCGTTCACGCCGCATCCGGCGTGTACAACGCGCACTTGGTCAATAATCTGAGGCCAGTCAGTAATGTTACTGCCTGGCCt                                                            <  2:92406/149‑1 (MQ=255)                                                                                           tACGCTTATCAGGCCTACGTGGAGCCCACAATATATTGAATTAGCACGATTTCG‑TAGGCCAGATAAGGCGTTCACGCCGCATCCGGCGTGTACAACGCGCACTTGGTCAACAATCTGAGGCAAGTCAGTAATGTTACTGCCTGGACtat                                                          >  1:68239/1‑147 (MQ=255)                                                                                             ggCTTCTCAGGTCTCACTGGAGACCACAATATCTTGATTTAGCACGATTTCG‑TAGGCCGGATAAGGCGTTCACGCCGCATTCGGCGTGTACAACGCGCACTTGGTCAACAATCTGAGGCCATTCAGTAATGTTACTGCCTGGCCTTTaa                                                        <  2:28017/148‑1 (MQ=25)                                                                                              gCTTATCAGGCCTACGTGGAGCCTACAATATATTGAATTAGCACGATTTCG‑TAGGCCGGATAAGGCGTTCACGCCGCATCCGGCGTGTACAACGCGCACTTGGTCAACAATCTGAGGCCAGTCAGTAATGTTACTGCCTGGCCTTTAAt                                                       <  1:495847/149‑1 (MQ=255)                                                                                              gCTTATCAGGCCTACGTGGAGCCCCCACTATATTGAATTAGCACGATTTCG‑TAGGCCGGATAAGGCGTTCACGCCGCATCCGGCGTGTACAACGCGCACTTGGTCAACAATCTGAGGCCAGTCAGTAATGTTACTGCCTGGCCTTTAAt                                                       >  1:92014/1‑149 (MQ=255)                                                                                              gCTTATCAGGCCTACGTGGAGCCCACAATATATTGAATTAGCACGATTTCG‑TAGGCCGGATAAAGCGTTCACGCCGCATCCGGCGTGTACAACGCGCACTTGGTCAACAATCTGAGGCCAGTCAGTAATGTTACTGCCTGGCCTTTAAt                                                       >  1:315698/1‑149 (MQ=255)                                                                                                  aTCAGGCCTACGTGGATCCCACAATATATTGAATTAGCACGATTTCG‑TAGGCCGGATAAGGCGTTCACGCCGCATCCGGCGTGTACAACGCGCACTTGGTCAACAATCTGAGGCCAGTCAGTAATGTTACTGCCTGGCCTTTAATCAAt                                                   <  2:304817/149‑1 (MQ=255)                                                                                                  aTCAGGCCTACGTGGAGCCCACAATATATTGAATTAGCACGATTTCG‑TAGGCCGGATAAGGCGTTCACGCCGCATCCGGCGTGTACAACGCGCACTTGGTCAACAATCTGAGGCCAGTCAGTAATGTTACTGCCTGGCCTTTAATCAAt                                                   <  2:525689/149‑1 (MQ=255)                                                                                                    cAGGCCTACGTGGAGCCCACAATATATTGAATTAGCACGATTTCG‑TAGGCCGGATAAGGCGTTCACGCCGCATCCGGCGTGTACAACGCGCACTTGGTCAACAATCTGAGGCCAGTCAGTAATGTTACTGCCTGGCCTTTAATCAATGa                                                 <  2:230971/149‑1 (MQ=255)                                                                                                      cgCCTACGTAGAGCCCACAATTTAGTGAATTAGCACGATTTCG‑TAGGCCGGATAAGGCGTTCACGCCGCATCCGGCGTGTACAACGCGCACTTGGTCAACAATCTGAGGCCAGTCAGTAATGTTACTGCCTGGCCTTTAATCAATGAAt                                               <  1:36730/148‑1 (MQ=255)                                                                                                         gtACTTGGAGCCCACTATATATTGCAGTACGACGATTTCG‑TAGGTCGGATAAGGTCTTCACGCCGCATCCGGCGTACACAACGCTCACTTGGTCAACAATCTGAGGCCAGTCAGTAATGTTACTGCCTGGCTTTTAATCAATGAATCAg                                            <  2:253445/148‑1 (MQ=255)                                                                                                          tACGTGGATCCTACAATATATTGAATTAGCACGATTTCG‑TAGGCCGGATAAGGCGTTCACGCCGCATCCGGCGTGTACAACGCGCACTTGGTCAACAATCTGAGGCCAGTCAGTAATGTTACTGACTGGCCTTTACTCAATGAATCAGa                                           >  2:50844/1‑149 (MQ=255)                                                                                                             gTGGAGCCCACAATATATTGAATTAGCACGATTTCG‑TAGGCCGGATAAGGCGTTCACGCCGCATCCGGCGTGTACAACGCGCACTTGGTCAACAATCTGAGGCCAGTCAGTAATGTTACTGCCTGGCCTTTAATCAATGAATCAGAAAc                                        <  1:424739/149‑1 (MQ=255)                                                                                                                     cacaATATATTGAATTAGCACGATTTCG‑TAGGCCGGATAAGGCGTTCACGCCGCATCCGGCGTGTACAACGCGCACTTGGTCAACAATCTGAGGCCAGTCAGTAATGTTACTGCCTGGCCTTTAATCAATGAATCAGAAACGCTTACAg                                <  2:203509/149‑1 (MQ=255)                                                                                                                             atTGAATTAGCACGATTTCG‑TAGGCCGGATAAGGCGTTCACGCCGCATCCGGCGTGTACAACGCGCACTTGGTCAACAATCTGAGGCCAGTCAGTAATGTTACTGCCTGGCCTTTAATCAATGAATCAGAAACGCTTACAGCGCCATCa                        >  1:536304/1‑149 (MQ=255)                                                                                                                              ttGAATTAGCACGAGTGCG‑TAGGCCGGATAAGGCGTTCACGCCGCATCCGGCGTGTACAACGCGCACTTGGTCAACAATCTGAGGCCAGTCAGTAATGTTACTGCCTGGCCTTTAATCAATGAATCAGAAACGCTTACAGCGCCATCaa                       <  2:339968/149‑1 (MQ=255)                                                                                                                                       cACGATTTCG‑TAGGCCGGATAAGGCGTTCACGCCGCATCCGGCGTGTACAACGCGCACTTGGTCAACAATCTGAGGCCAGTCAGTAATGTTACTGCCTGGCCTTTAATCAATGAATCAGAAACGCTTACAGCGCCAt                          <  2:295468/137‑1 (MQ=255)                                                                                                                                       cACGATTTCG‑TAGGCCGGATAAGGCGTTCACGCCGCATCCGGCGTGTACAACGCGCACTTGGTCAACAATCTGAGGCCAGTCAGTAATGTTACTGCCTGGCCTTTAATCAATGAATCAGAAACGCTTACAGCGCCAt                          >  1:295468/1‑137 (MQ=255)                                                                                                                                        aCGATTTCG‑TAGGCCGGATAAGGCGTTCACGTTGCATCTGGTGTGTAAAAAGAGAATTTGGTAAAAAATTTGAGGAAAGTAAGTAATGTTAATGAATGGCATTTAATCAATGAATAAGAAACGCTTAAAGCGCAATCAACTTGTACAGc             >  1:200269/1‑149 (MQ=255)                                                                                                                                                g‑TAGGCCGGATAAGGCGTTCACGCCGCATCCGGCGTGTACAACGCGCACTTGGTCAACAATCTGAGGCCAGTCAGTAATGTTACTGCCTGGCCTTTAATCAATGAATCAGAAACGCTTACAGCGCCATCAACTTGTCCAGCGCCGGTGc     >  1:424314/1‑149 (MQ=255)                                                                                                                                                  tAGGCCGGATAAGGCGTTCACGCCGCATCCGGCGTGTACAACGCGCACTTGGTCAACAAGCTGAGGCCAGTCAGTAATGTTACTGCCTGGCCTTTAATCAATGAATCAGAAACGCTTACAACGCCATCAACTTGTCCAGCGACAGTGCg    >  2:17413/1‑149 (MQ=255)                                                                                                                                                    ggCCGGATAAGGCGTTCACGCCGCATCCGGCGTGTACAACGCGCACTTGGTAAACAATCTGAGGCCAGTCAGTAATGTTACTGCCTGGCCTTTAATCAATGAATCAGAAACGCTTACAGCGCCATCAACTTGTCCAGCGACGGTGCGaa  >  1:274271/1‑149 (MQ=255)                                                                                                                                                     |                                                                                                                                                    CGGCGTTAAAGCAGAAGTAATAAAAAGGCCAGTCAGTAATGTTACTGGCTGGTCTGAGAGTGCTGACAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACGTGGAGCCCACAATATATTGAATTAGCACGATTTCG‑TAGGCCGGATAAGGCGTTCACGCCGCATCCGGCGTGTACAACGCGCACTTGGTCAACAATCTGAGGCCAGTCAGTAATGTTACTGCCTGGCCTTTAATCAATGAATCAGAAACGCTTACAGCGCCATCAACTTGTCCAGCGACGGTGCGAA  >  NC_000913_3_vch_tpiA/2549387‑2549681

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.