New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	= 377420	46 (1.630)	5 (0.190)	5/274	3.0	10.2%	noncoding (86/187 nt)	REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences	REP32 (repetitive extragenic palindromic) element; contains 4 REP sequences
	?	NC_000913_3_pae_tpiA	= 4027573	NA (NA)					noncoding (252/281 nt)	REP291 (repetitive extragenic palindromic) element; contains 6 REP sequences	REP291 (repetitive extragenic palindromic) element; contains 6 REP sequences
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

GTATGCCGACTTCAAAGTGCCTGATGATTTGATGTGGTAAACATAGATAAGTCGTGCGCAGATGCCTGATGCGACGCTATGCGCGTCTTATCAGGCCTACGGTTTATGGGCGAAGTGTAGACCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCGCCATGCCTGATGCGACGCTTTGCGCGTCTTATCAGGCCTACGGCTTACGGGCGAAGTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCTATTATCAACGCATATTCAGTTTATTGGCGTGGTA  >  NC_000913_3_pae_tpiA/377272‑377564                                                                                                                                                     |                                                                                                                                                 gTATGCCGACTTCAAAGTGCCTGATGATTTGATGTGGTAAACATAGATAAGTCGTGCGCAGATGCCTGATGCGACGCTATGCGCGTCTTATCAGGCCTACGGTTTATGGGCGAAGTGTAGACCGGATAAGGCGTTCACGCCGCATCCgg                                                                                                                                                  <  1:75701/149‑1 (MQ=255)  tATGCCGACTTCAAAGTGCATGATGATTTGATGGGGTAAACATAGATAAGTCGTGCGCAGATGCCTGATGCGACGCTATGCGCGTCTTATCAGGCCTCCGGTTTATGGGCGAAGTGTAGACCGGATGCGGCGTGAACGCCTTATCCggt                                                                                                                                                 <  2:86701/149‑2 (MQ=25)     gCCGACTTCAAAGTGCCTGATGATTTGATGTGGTAAACATAGATAAGTCGTGCGCAGATGCCTGATGCGACGCTATGCGCGTCTTATCAGGCCTACGGTTTATGGGCGAAGTGTAGACCGGATAAGGCGTTCACGCCGCATCCGGCAGt                                                                                                                                              >  1:269042/1‑149 (MQ=255)      ccGACTTCAAAGGACCTGATGATTTGATGTGGTAAACATAGATAAGTCGTGCGCAGATGTCTGTTGCGACGCTATGCGCGTCTTATCAGGCCTACGGTTTATGGGCGAAGTGTAGACCGGATAAGACGTTCACGCCGCATCCGGCAGTc                                                                                                                                             <  2:458374/149‑1 (MQ=25)             cAAAGTGCCTGATGATTTGATGTGGTAAACATAGATAAGTCGTGCGCAGATGCCTGATGCGACGCTATGCGCGTCTTATCAGGCCTACGGTTTATGGGCGAAGTGTAGACCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCGcc                                                                                                                                      <  2:269042/149‑1 (MQ=255)              aaaGTGCCTGATGATTTGATGTGGTAAACATAGATAAGTCGTGCGCAGATGCCTGATGCGACGCTATGCGCGTCTTATCAGGCCTACGGTTTATGGGCGAAGTGTAGACCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCGCCa                                                                                                                                     >  2:44932/1‑149 (MQ=255)              aaaGTGCCTGATGATTTGATGTGGTAAACATAGATAAGTCGTGCGCAGATGCCTGATGCGACGCTATGCGCGTCTTATCAGGCCTACGGTTTATGGGCGAAGTGTAGACCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCGCCa                                                                                                                                     >  1:178688/1‑149 (MQ=255)                     ctaaagatTGGATGTGGTAAACTTAGATAAGTCGTGCCTACCTGCCTGATGCGACGCTATGCGAGTCTTATAAGGCCTACCGTTTATGGGCGAAGTGTAGACCAGATAAGCCCTTCACGCCGCATCCGGCAGTCGTGCGCCATGCCTGa                                                                                                                              <  2:341941/144‑1 (MQ=18)                     cTGAGGATTTGATGTGGTAAACATAGATAAGTCGTGCGCAGATGCCTGATGCGACGCTATGCGCGTCTTATCAGGCCTACGGTTTATGGGCGAAGTGTAGACCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCGCCATGCCTGa                                                                                                                              <  2:96951/149‑1 (MQ=255)                                          cATAGATAAGTCGTGCGCAGATGCCTGATGCGACGCTATGCGCGTCTTATCAGGCCTACGGTTTATGGGCGACGTGTAGACCGGATAAGGCGTTCACGCCGAATACGGCAGTCGTGCGACATGCCGGAGGCGAGGATTTGCGGGTCTTa                                                                                                         >  2:265161/1‑149 (MQ=18)                                           aTAGATAAGTCGTGCGCAGATGCCTGATGCGACGCTATGCGCGTCTTATCAGGCCTACGGTTTATGGGCGAAGTGTAGACCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCGCCATGCCTGATGCGACGCTTTGCGCGTCTTAt                                                                                                        >  1:146208/1‑149 (MQ=255)                                                       tGCGCAGATGCCTGATGCGACGCTATGCGCGTCTTATCAGGCCTACGGTTTATGGGCGAAGTGTAGACCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCGCCATGCCTGTAGCGACTCTTTGCGCGTCTTATCAGGCCTACGGc                                                                                            <  1:120674/149‑1 (MQ=255)                                                          gcAGATGCCTGATGCGACGCTATGCGCGTCTTATCAGGCCTACGGTTTATGGGCGAAGTGTAGACCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCGCCATGCCTGATGCGACGCTTTGCGCGTCTTATCAGGCCTACGGCTTa                                                                                         <  1:390460/149‑1 (MQ=255)                                                               ggCCTGATGCTCCGGGATGCGCGTCTTATCAGGCCTGCGGGTTATGGGCGAAGTGTAGACCGGATAAGGCGTTCACGCCGCAGCCGGCAGTCGTGCGCCATGCCTGTTGCCACGCTTGGCGCGTCTTATCAGGCCTACGGCTTACGGGc                                                                                    <  1:237043/148‑1 (MQ=21)                                                                cccTGATGCGACGCTATGCGCGTCTTATCAGGCCTACGGTTTATGGACGGAGTATAGACCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCGCCATGCCTGATGCGACGCTTTGCGCGTCTTATCAGGCCTACGGCTTACGGGCg                                                                                   <  1:265161/148‑1 (MQ=255)                                                                  cTGATGCGCCGCCATGCGCCTCATAACCGGCCAACGGTTTAAGGGCGAAGTGTAGACCGGATAAGGCGTTCACGCCGCATCCGGCACTCGCGCGACATGCCTGATGCGACGCTTTGCGCGTCTTATCAGGCCTACGGCTTACGGGCGaa                                                                                 <  2:455300/149‑1 (MQ=25)                                                                   tGATGCGACGCTATGCGCGTCTTATCAGGCCTACGGTTTATGGGCGAAGTGTAGACCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCGCCATGCCTGATGCGACGCTTTGCGCGTCTTATCAGGCCTACGGCTTACGGGCGAAg                                                                                >  1:407674/1‑149 (MQ=255)                                                                       gCGACGCTATGCGCGTCTTATCAGGCCTACGGTTTATGGGCGAAGTGTAGACCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCGCCATGCCTGATGCGACGCTTTGCGCGTCTTATCAGGCCTACGGCTTACGGGCGAAGTGTa                                                                            <  2:195774/149‑1 (MQ=255)                                                                         gACGCTATGCGCGTCTTATCAGGCCTACGGTTTATGGGCGAAGTGTAGACCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCGCCATGCCTGATGCGACGCTTTGCGCGTCTTATCAGGCCTACGGCTTACGGGCGAAGTGTAgg                                                                          >  1:320167/1‑149 (MQ=255)                                                                              tATGCGCGTCTTATCAGGCCTACGGTTTATGGGCGAAGTGTAGACCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCGCCATGCCTGATGCGACGCTTTGCGCGTCTTATCAGGCCTACGGCTTACGGGCGAAGTGTAGGCCGGa                                                                     >  1:352475/1‑149 (MQ=255)                                                                                 gcgcGTCTTATAAGGACTACGGTGTATGGGCGAAGTGTAGACCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCGCCATGCCTGATGCGACGCTTTGCGCGTCTTATCAGGCCTACGGCTTACGGGCGAAGTGGAGGACGGATaa                                                                  >  2:432512/1‑149 (MQ=37)                                                                                   gcgTCTTATCAGGCCTACGGTTTATGGGCGAAGTGTAGACCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCGCCATGcc                                                                                                                                 <  1:306181/84‑1 (MQ=255)                                                                                   gcgTCTTATCAGGCCTACGGTTTATGGGCGAAGTGTAGACCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCGCCATGcc                                                                                                                                 >  2:306181/1‑84 (MQ=255)                                                                                        ttATCAGGCCTACGGTTTATGGGCGAAGTGTAGACCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCGCCATGCCTGATGCGGCGCTTTGCGCGGCTTATCAGGCCTACGGCTTACGGGCCAAGGGTGGGCCGGATAAGTCggag                                                           >  1:113222/1‑146 (MQ=25)                                                                                          aTCAGGCCTACGGTTTATGGGCGAAGTGTAGACCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCGCCATGCCTGATGCGACGCTTTGCGCGTCTTATCAGGCCTACGGCTTACGGGCGaa                                                                                 <  1:55473/125‑1 (MQ=255)                                                                                          aTCAGGCCTACGGTTTATGGGCGAAGTGTAGACCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCGCCATGCCTGATGCGACGCTTTGCGCGTCTTATCAGGCCTACGGCTTACGGGCGaa                                                                                 >  2:55473/1‑125 (MQ=255)                                                                                          aTCAGGCCTACGGTTTATGGGCGAAGTGTAGACCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCGCCATGCCTGATGCGACGCTTTGCGCGTCTTATCAGGCCTACGGCTTACGGGCGaa                                                                                 >  2:54141/1‑125 (MQ=255)                                                                                          aTCAGGCCTACGGTTTATGGGCGAAGTGTAGACCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCGCCATGCCTGATGCGACGCTTTGCGCGTCTTATCAGGCCTACGGCTTACGGGCGaa                                                                                 <  1:54141/125‑1 (MQ=255)                                                                                             aGGCCGACGGTTTAGGGCGGAAGTGTAGCCGTGATAATGCGTTCACGCCGCATCCGGCGGTCGTGCGCCATGCCTGATGCGACGCTTTGCGCGTCTTATCAGGCCTACGGCTTACGGGCGAAGTGTAGGCCGGATAAGGCGTTCAcgcc                                                      <  2:339515/149‑1 (MQ=21)                                                                                                catACGGTTTATGGGCGAAGTGTAGACCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCGCCATGCCTGATGCGACGCTTTGCGCGTCTTATCAGGCCTACGGCTTACGGGCGAAGTGTAGGCCGGATAAGGCGTTCACGCCGCa                                                   >  2:374103/3‑149 (MQ=255)                                                                                                      gTTTATGGGCGAAGTGTAGACCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCGCCATGCCTGATGCGACGCTTTGCGCGTCTTATCAGGCCTACGGCTTACGGGCGAAGTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGc                                             >  1:152156/1‑149 (MQ=255)                                                                                                           tGGGCGAAGTGTAGACCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCGCCATGCCTGATGCGACGCTTTGCGCGTCTTATCAGGCCTACGGCTTACGGGCGAAGTGTAGGCCGGCTAAGGCGTTCACGCCGCATCCGGCAGTCg                                        >  1:438965/1‑149 (MQ=255)                                                                                                            gggCGAAGTGTAGACCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCGCCATGCCTGATGCGACGCTTTGCGCGTCTTATCAGGCCTACGGCTTACGGGCGAAGTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGt                                       <  1:374103/149‑1 (MQ=255)                                                                                                            gggCGAAGTGTAGACCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCGCCATGCCTGATGCGACGCTTTGCGCGTCTTATCAGGCCTACGGCTTACGGACGCACTTTGGTGCGGTTAAGGCGTTCACGCCGCATCCGGCAGTCGt                                       >  1:11934/1‑149 (MQ=25)                                                                                                              gCGAAGTGTAGACCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCGCCATGCCTGATGCGACGCTTTGCGCGTCTTATCAGGCCTACGGc                                                                                            >  1:10066/1‑94 (MQ=255)                                                                                                              gCGAAGTGTAGACCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCGCCATGCCTGATGCGACGCTTTGCGCGTCTTATCAGGCCTACGGc                                                                                            <  2:10066/94‑1 (MQ=255)                                                                                                                gAAGTGTAGACCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCGCCATGCCTGATGCGACGCTTTGCGCGTCTTATCAGGCCTACGGCTTACGGGCGAAGTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCta                                   >  2:312999/1‑149 (MQ=255)                                                                                                                  aGTGTAGACCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCGCCATGCCTGATGCGACGCTTTGCGCGTCTTATCAGGCCTACGGCTTACGGGCGAAGTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCtatt                                 <  2:146208/149‑1 (MQ=255)                                                                                                                   ctgtAGACCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCGCCATGCCTGATGCGACGCTTTGCGCGTCTTATCAGGCCTACGGCTTACGGGCGAAGTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCtatta                                <  1:144565/148‑1 (MQ=255)                                                                                                                        gcccGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCGCCATGCCTGATGCGACGCTTTGCGCGTCTTATCAGGCCTACGGCTTACGGGCGAAGTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCTATTATCAAc                           <  1:75052/147‑1 (MQ=255)                                                                                                                        gACCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCGCCATGCCTGATGCGACGCTTTGCGCGTCTTATCAGGCCTACGGCTTACGGGCGAAGTGTAGGCCGGATAAGGCGTTCACGCCGCATTTGGCAGTCGTGCTATTATCAAc                           <  2:407674/149‑1 (MQ=255)                                                                                                                              aTAAGGCGTTCACGCCGCATCCGGCAGTCGTGCGCCATGCCTGATGCGACGCTTTGCGCGTCTTATCAGGCCTACGGCTTACGGGCGAAGTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCTATTATCAACGCatat                     >  1:141741/1‑149 (MQ=255)                                                                                                                                 aGGCGTTCACGCCGCATCCGGCAGTCGTGCGCCATGCCTGATGCGACGCTTTGCGCGTCTTATCAGGCCTACGGCTTACGGGCGAAGTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCTATTATCAACGCCTATTCa                  >  1:302987/1‑149 (MQ=255)                                                                                                                                   gCGTTCACGCCGCATCCGGCAGTCGTGCGCCATGCCTGATGCGACGCTTTGCGCGTCTTATCAGGCCTACGGCTTACGGGCGAAGTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCTATTATCAACGCATATTCAGt                <  1:457387/149‑1 (MQ=255)                                                                                                                                       tCACGCCGCATCCGGCAGTCGTGCGCCATGCCTGATGCGACGCTTTGCGCGTCTTATCAGGCCTACGGCTTACGGGCGAAGTGTAGGCCGGATAAGGCGTTCACGCCCCATCCGGCAGTCGTGCTATTTTTAACGCATATTCAGTTTAt            >  2:23826/1‑149 (MQ=255)                                                                                                                                           gccgcATCCGGCAGTCGTGCGCCATGCCTGATGCGACGCTTTGCGCGTCTTATCAGGCCTACGGCTTACGGGCGAAGTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCTATTATCAACGCATATTCAGTTTATTGGc        <  1:139331/149‑1 (MQ=255)                                                                                                                                               cATTCGGCAGTCGTGCGATAATTGAGACGCGACGCTTTGCGCGTCTTATCAGGCCTACGGCTTACGGGCGAAGTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCTATTATCAACGCATATTCAGTTTATTGGCGtcg    >  2:110553/1‑147 (MQ=21)                                                                                                                                                 tCCGGCAGTCGTGCGCCATGCCTGATGCGACGCTTTGCGCGTCTTATCAGGCCTACGGATTACGGGCGAAGTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGATATTATCAACACAAATTCAGCTTATTGGCGTGATa  >  2:14170/1‑149 (MQ=21)                                                                                                                                                     |                                                                                                                                                 GTATGCCGACTTCAAAGTGCCTGATGATTTGATGTGGTAAACATAGATAAGTCGTGCGCAGATGCCTGATGCGACGCTATGCGCGTCTTATCAGGCCTACGGTTTATGGGCGAAGTGTAGACCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCGCCATGCCTGATGCGACGCTTTGCGCGTCTTATCAGGCCTACGGCTTACGGGCGAAGTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGTGCTATTATCAACGCATATTCAGTTTATTGGCGTGGTA  >  NC_000913_3_pae_tpiA/377272‑377564

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.