New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	= 3203173	48 (1.640)	3 (0.110)	3/268	4.0	6.2%	noncoding (30/125 nt)	REP225 (repetitive extragenic palindromic) element; contains 3 REP sequences	REP225 (repetitive extragenic palindromic) element; contains 3 REP sequences
	?	NC_000913_3_pae_tpiA	4285252 =	NA (NA)					noncoding (35/77 nt)	REP320 (repetitive extragenic palindromic) element; contains 2 REP sequences	REP320 (repetitive extragenic palindromic) element; contains 2 REP sequences
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

CGCTGATAAATAGTGCCATTCATCACAGATTCTCCAGAGGTAATGTAGGGATTGTTTTAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATTGTGGGTTACGATGGCATCGCGATAGCCTGCTTCTCTTCAAGCAGCTTCTCGACTACGCCAGGATCGGCAAGCG  >  NC_000913_3_pae_tpiA/4285107‑4285396                                                                                                                                                  |                                                                                                                                                 cGCTGATAAATAGTGCCATTCATCACAGATTCTCCAGAGGTAATGTAGGGATTGTTTTAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGcaatc                                                                                                                                               >  2:489113/1‑149 (MQ=255)     gATAAATAGTGCCATTCATCACAGATTCTCCAGAGGTAATGTAGGGATTGTTTTAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATg                                                                                                                                           >  2:433064/1‑149 (MQ=255)           tAGTGCCATTCATCACAGATTCTCCAGAGGTAATGTAGGGATTGTTTTAATTCCCGCTCCCTTATGGTGGAAGGTTAACGCTCGGGGAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCCATCAATGCCTTAt                                                                                                                                     >  2:713/1‑149 (MQ=39)                       tcaCAGATTCTCCAGAGGTAATGTAGGGATTGTTTTAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTcg                                                                                                                         >  1:395074/1‑149 (MQ=255)                         acaGATTCTCCAGAGGTAATGTAGGGATTGTTTTAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGcgaca                                                                                                                          >  1:42861/1‑142 (MQ=255)                         acaGATTCTCCAGAGGTAATGTAGGGATTGTTTTAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGcgaca                                                                                                                          <  2:42861/146‑5 (MQ=255)                           aGATTCTCCAGAGGTAATGTAGGGATTGTTTTAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAAGCCTTGCCGAATGTAGTCCTGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTc                                                                                                                     <  2:252662/149‑1 (MQ=255)                           aGACTCTCCAGAGGTAATGTACGAATTGTTTTAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTc                                                                                                                     <  1:303653/149‑1 (MQ=255)                            gATTCTCCAGATGTAATGTAGGGATTGTTTTAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCt                                                                                                                    <  1:168663/149‑1 (MQ=255)                             aTTCTCCAGAGGTAATGTAGGGATTGTTTTAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCtt                                                                                                                   >  2:105118/1‑149 (MQ=255)                                    agagGTAATGTAGGGATCGTTTTAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGc                                                                                                            <  1:241235/149‑1 (MQ=255)                                       ggTAATGTAGGGATTGTTTTAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGGTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCCCGTCTTATCAGGCCtc                                                                                                         >  1:172438/1‑148 (MQ=255)                                            tGTAGGGATTGTTTTAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAAc                                                                                                    <  1:193604/149‑1 (MQ=255)                                             gTAGGGATTGTTTTAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGt                                                                                                                      >  1:237187/1‑130 (MQ=255)                                             gTAGGGATTGTTTTAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGt                                                                                                                      <  2:237187/130‑1 (MQ=255)                                              tAGGGATTGTTTTAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTTATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCg                                                                                                  >  2:352826/1‑149 (MQ=255)                                               aGGGATTGTTTTAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGt                                                                                                 >  1:157606/1‑149 (MQ=255)                                                gggATTGTTTTAATTCCCGCCCCCTTATGGGAGAAGGTTAAAGCTTGGGTTACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCGTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGtt                                                                                                >  2:86606/1‑149 (MQ=25)                                                           aaTTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTATACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTTTCGCGTCTTATCAGGCCTACACACCGTTACCGACTCGCa                                                                                     >  1:331845/1‑149 (MQ=255)                                                            aTTCCCGCTCACTTAAGGGAGAAGGTTAACGCTCAGGTAACCCTTGCCGACTGTAGACCGGATAAGGCGATTACGCCGCATCCGGCAATCAATGCCTGACGCGAAGCTGTCGCCGCTCATCAGGCCTCCAAACCGTTACCGACTCCCaa                                                                                    >  2:240978/1‑148 (MQ=25)                                                             ttCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATc                                                                                   <  1:489113/149‑1 (MQ=255)                                                                ccGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCggg                                                                                <  1:105118/149‑1 (MQ=255)                                                                ccGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGCCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACACGCATCggg                                                                                >  2:16942/1‑149 (MQ=255)                                                                     cccTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAAtt                                                                           <  2:290858/149‑1 (MQ=255)                                                                      ccTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATtg                                                                          >  2:235234/1‑149 (MQ=255)                                                                                gaAGGTTAACGCACGGGGAACCTTTGCCGAATGTAGGCCGGATAAGGCTTTTACGCCGCATCCGGGAATCAATGCCTGATGCGACGCTGTCGCGACTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATTGTGGGTTACGa                                                                <  1:55837/149‑1 (MQ=37)                                                                                    gTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATTGTGGGTTACGATGGc                                                            >  1:448945/1‑149 (MQ=255)                                                                                        aCGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATTGTGGGTTACGATGGCATcg                                                        <  2:429482/149‑1 (MQ=255)                                                                                           cTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATTGTGGGTTACGATGGCATCGCGa                                                     >  1:179406/1‑149 (MQ=255)                                                                                           cTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATGTTGGGTTACGATGGCATCGCGa                                                     >  1:186878/1‑149 (MQ=255)                                                                                            tCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATTGTGGGTTACGATGGCATCGCGAt                                                    <  2:157606/149‑1 (MQ=255)                                                                                            tCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATTGTGGGTTACGATGGCATCGCGAt                                                    >  2:410544/1‑149 (MQ=255)                                                                                                           cGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATTGTGGGTTACGATGGCATCGCGATAGCCTGCTTCTCTTc                                     >  1:25632/1‑149 (MQ=255)                                                                                                           cGAATGTAGGACGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATTGTGGGTTACGATGGCATCGCGATAGCCTGCTTCTCTTc                                     >  1:502172/1‑149 (MQ=255)                                                                                                             aaggaaGGCCCGATAAGGCCTGTCCCCCGCATGCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGCCGCGCATCGGGCGCTTGTGGGTGACGATGGCATCGCGATAGCCTGCTTCTCTTCaa                                   <  2:241533/144‑1 (MQ=25)                                                                                                             aaTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGCCTCGCACCGGGCAATGGTGGGTTACGATGGCATCGCGATAGCCTGCTTCTCTTCaa                                   >  1:170414/1‑149 (MQ=255)                                                                                                              aTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATTGTGGGTTACGATGGCATCGCGATAGCCTGCTTCTCTTCAag                                  <  1:235234/149‑1 (MQ=255)                                                                                                                 tAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATTGTGGGTTACGATGGCATCGCGATAGCCTGCTTCTCTTCAagcag                               >  2:313959/1‑149 (MQ=255)                                                                                                                      cGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATTGTGGGTTACGATGGCATCGCGATAGCCTGCTTCTCTTCAAGCCGCTtct                          >  1:234456/1‑149 (MQ=255)                                                                                                                             ggCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCTTCGGGCAATTGTGGGTTACGATGGCATCGCGATAGCCTGCTtctc                                        <  1:408679/128‑1 (MQ=255)                                                                                                                             ggCGTTTACGCCGCATCCGGCAATCAATGCCTGACGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATTGTGGGTTACGATGGCATCGCGATAGCCTGCTtctc                                        >  2:408679/1‑128 (MQ=255)                                                                                                                              gCGTTGACGCCGCACCCGGCAATCAATGCCTGATGCGACTCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCCTCGGGCAATTGTGGGTTACGATGCCATCGCGATAGCCTGCTTCTCTTCAAGCAGCTTCTCGACTACg                  <  1:5689/149‑1 (MQ=38)                                                                                                                                       ccgcATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACCAACCGTTACCGACTTGCATCGGGCAATTGTGGGTGCAGCTGCCATCGCTATAGCCTGCTTCTCTTCAAGCAGCTTCTCGACTACGCCAGGATCg         <  2:391689/149‑1 (MQ=37)                                                                                                                                              cGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTCCCGACTCGCATCGGGCAACTGTGGGTTACGATGGCATCGCGATAGCCTGCTTCTCTTCAAGCAGCTTCTCGACTCCGCCAGGATCGGCCAGCg  >  1:154344/1‑149 (MQ=255)                                                                                                                                                  |                                                                                                                                                 CGCTGATAAATAGTGCCATTCATCACAGATTCTCCAGAGGTAATGTAGGGATTGTTTTAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATTGTGGGTTACGATGGCATCGCGATAGCCTGCTTCTCTTCAAGCAGCTTCTCGACTACGCCAGGATCGGCAAGCG  >  NC_000913_3_pae_tpiA/4285107‑4285396

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ 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.