New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	= 2430968	NA (NA)	6 (0.170) +GTTCACTGTAG	6/262	4.2	15.3%	noncoding (40/84 nt)	REP169 (repetitive extragenic palindromic) element; contains 2 REP sequences	REP169 (repetitive extragenic palindromic) element; contains 2 REP sequences
	?	NC_000913_3_pae_tpiA	= 2662483	36 (0.920)					noncoding (175/266 nt)	REP184 (repetitive extragenic palindromic) element; contains 6 REP sequences	REP184 (repetitive extragenic palindromic) element; contains 6 REP sequences
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

AAACGTTTGCGTAGGGATTTCCTTCCCGCGCATCAATAAAAATGGCGCTGAAAAAATATTCAACGCCATCGACTTTTTATGCCTTTGCGGCATCGGGCAATGCGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAGCCCATTACCACGCCACTTAAGCCAGAAAGTTGCTTCAACTCACCCAGCGAACCTTTCAGCTTATCTTTCGAGGC  >  NC_000913_3_pae_tpiA/2430824‑2431111                                                                                                                                                 |                                                                                                                                                aaaCGTTTGCGTAGGGATTTCCTTCCCGCGCATCAATAAAAATGGCGCTGAAAAAATATTCAACGCCATCGACTTTTTATGCCTTTGCGGCATCGGGCAATGCGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTAccc                                                                                                                                             >  1:565408/1‑149 (MQ=255)           gTAGGGATTTCCTTCCCGCGCATCAATAAACATGGCGCTGAAAAAATATTCAACGCCATCGACTTTTTATGCCTTTGCGGCATCGGGCAATGCGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGc                                                                                                                                   <  1:434827/149‑1 (MQ=255)            tAGGGATTTCCTTCCCGCGCATCAATAAAAATGGCGCTGAAAAAATATTCAACGCCATCGACTTTTTATGCCTTTGCGGCATCGGGCAATGCGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGcc                                                                                                                                  >  1:22760/1‑149 (MQ=255)               ggATTTCCTTCCCGCGCATCAATAAAAATGGCGCTGAAAAAATATTCAACGCCATCGACTTTTTATGCCTTTGCGGCATCGGGCAATGCGTGCCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGa                                                                                                                               <  2:635172/149‑1 (MQ=255)                gATTTCATTCCCGCGCATCACTACACATGGCGCTGAAAAAATATTCAACGCCATCGGCTTTTTATGCCTTTGCGCCATCGGGCAATGCGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGAt                                                                                                                              <  2:315157/149‑1 (MQ=38)                 aTTTCCTTCCCGCGCATCAATAAAAATGGCGCTGAAAAAATATTCAACGCCATCGACTTTTTATGCCTTTGCGGCATCGGGCAATGCGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATa                                                                                                                             >  2:421700/1‑149 (MQ=255)                       ttccCGCGCATCAATAAAAATGGCGCTGAAAAAATATTCAACGCCATCGACTTTTTATGCCTTTGCGGCATCGGGCAATGCGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGAcgc                                                                                                                       <  1:470521/149‑1 (MQ=255)                       tgcccGCGCATCAATAACAATGCGTTTCAAAAAATATTCAACGCCCTCGACTTTCTATGCCTTTGGGGCACCCGGCAATGCGTGTCGTATGCCGGGGAAACGCCTTATCCGACCTACGGTTCTACCCATGCGTAGGCCTGTTAAGAcgc                                                                                                                       <  2:585868/147‑1 (MQ=255)                          ccGCGCATCAATAAAAATGGCGCTGAAAAAATATTCAACGCCATCGACTTTTTATGCCTTTGCGGCATCGGGCAATGCGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTggta                                                                                                                             >  1:73816/1‑137 (MQ=255)                          ccGCGCATCAATAAAAATGGCGCTGAAAAAATATTCAACGCCATCGACTTTTTATGCCTTTGCGGCATCGGGCAATGCGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGGTa                                                                                                                             <  2:73816/140‑1 (MQ=255)                           cgcgCATCAATAAAAATGGCGCTGAAAAAATATTCAACGCCATCGACTTTTTATGCCTTTGCGGCATCGGGCAATGCGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCa                                                                                                                   <  1:178579/149‑1 (MQ=255)                           cgcgCATCAATAAAAATGGCGCTGAAAAAATATTCAACGCCATCGACTATTTATGCCTTTGCGGCATCGGGCAATGCGTATCGGATGCGGCCTAACCGACCTCTCCCACCTACGTTTCTACCCCCGCGTAGGCCTGATCAGACGCGccc                                                                                                                   >  2:248023/1‑148 (MQ=255)                                acgaaTAAGAATGGCGCTGAAGAAACATGCAACGCCATCGACGGTGTATGCCTTCGCGGCATCGGGCAATGCGTGTCGGATGCGGCGTAAACGCCTGATGCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTc                                                                                                              <  2:386264/146‑1 (MQ=37)                                   aaTAAAAATGGCGCTGAAAAAATATTCAACGCCATCGACTTTTTATGCCTTTGCGGCATCGGGCAATGCGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCa                                                                                                           <  1:95287/149‑1 (MQ=255)                                     tAAAAATGGCGCTGAAAAAATATTCAACGCCATCGACTTTTTATGCCTTTGCGGCATCGGGCAATGCGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATc                                                                                                         >  2:534857/1‑149 (MQ=255)                                       aaaaTGGCGCTGAAAAAATATTCAACGCCATCGACTTTTTATGCCTTTGCGGCATCGGGCAATGCGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAg                                                                                                       <  2:22760/149‑1 (MQ=255)                                                cTGAAAAAATATTCAACGCCATCGACTTTTTATGCCTTTGCGGCATCGGGCAATGCGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCg                                                                                              >  2:351173/1‑149 (MQ=255)                                                   aaaaaaTATTCAACGCCATCGACTTTTTATGCCTTTGCGGCATCGGGCAATGCGTGTCGGATGCGGCGTACACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCGTAt                                                                                           >  1:396232/1‑149 (MQ=255)                                                              aaCGCCATCGACTTTTTATGCCTTTGCGGCATCGGGCAATGCGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGt                                                                                >  2:599852/1‑149 (MQ=255)                                                                  ccATCGACTTTTTATGCCTTTGCGGCATCGGGCAATGCGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAg                                                                            >  1:318035/1‑149 (MQ=255)                                                                   cATCGACTTTTTATGCCTTTGCGGCATCGGGCAATGCGTGTCGGATGCGGCGTAAACGTCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAGc                                                                           >  1:482063/1‑149 (MQ=255)                                                                     tCGACTTTTTATGCCTTTGCGGCATCGGGCAATGCGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCCTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAGccc                                                                         >  1:618520/1‑149 (MQ=255)                                                                     tCGACTTTTTAGCCCTTGGCGGCATCGGGCAATGCGGGCGGGATGCGGGGAAAACGCCTTATCCGCCCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACTCGCAAGCTTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAGccc                                                                         <  2:311726/149‑1 (MQ=255)                                                                      cGACTTTTTATGCCTTTGCGGCATCGGGCAATGCGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAGCCCa                                                                        <  1:383966/149‑1 (MQ=255)                                                                               atgctgttGCGGCATCGGGCAATGCGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAGCCCATTACCACGc                                                               <  1:337110/143‑1 (MQ=255)                                                                               aTGCCTTTGCGGCATCGGGCAATGCGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTCTACCCCATTACCACGc                                                               >  2:677048/1‑149 (MQ=255)                                                                                         ggCATCGGGCAATGCGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAGCCCATTACCACGCCACTTAAGcc                                                     >  2:549624/1‑149 (MQ=255)                                                                                              cGGCCAATGCGTGGCGGATGCGGGGTAAACGCGTTAGCCGACCGACGGTTCTTCCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCTTATTAATTCGGCGTATAGCCCATTACCACGCCACTTAAGCCAGaaa                                                <  2:76077/149‑1 (MQ=38)                                                                                               gggCAATGCGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAGCCCATTACCACGCCACTTAAGCCAGAAAg                                               >  1:63045/1‑149 (MQ=255)                                                                                                     tGCGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAGCCCATTACCACGCCACTTAAGCCAGAAAGTTGCtt                                         <  1:351173/149‑1 (MQ=255)                                                                                                             ggAGGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAGCCCATTACCACGCCACTTAAGCCAGAAAGTTGCTTCAACTCAc                                 <  2:245673/149‑1 (MQ=255)                                                                                                                     cgTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAGCCCATTACCACGCCACTTAAGCCAGAAAGTTGCTTCAACTCACCCAGCGaa                         <  2:126572/149‑1 (MQ=255)                                                                                                                         aaCGCCTTATCCGACTTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAGCCCATTACCACGCCACTTAAGCCAGAAAGTTGCTTCAACTCACCCAGCGAACCtt                     <  1:565128/149‑1 (MQ=255)                                                                                                                         aaCGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAGCCCATTACCACGCCACTTAAGCCAGAAAGTTGCTTCAACTCACCCAGCGAACCtt                     >  1:305563/1‑149 (MQ=255)                                                                                                                           cGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGAcc                                                                                               <  2:236176/73‑1 (MQ=255)                                                                                                                           cGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGAcc                                                                                               >  1:236176/1‑73 (MQ=255)                                                                                                                            gCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAGCCCATTACCACGCCACTTAAGCCAGAAAGTTGCTTCAACTCACCCAGCGAACCTTTCa                  <  1:173149/149‑1 (MQ=255)                                                                                                                               ttATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAGCCCATTACCACGCCACTTAAGCCAGAAAGTTGCTTCAACTCACCCAGCGAACCTTTCAGCt               >  2:542909/1‑149 (MQ=255)                                                                                                                                            ggTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAGCCCATTACCACGCCACTTAAGCCAGAAAGTTGCTTCAACTCACCCAGGGAACCTTTCAGCTTATCTTTCTAGGc  >  1:305381/1‑149 (MQ=255)                                                                                                                                                 |                                                                                                                                                AAACGTTTGCGTAGGGATTTCCTTCCCGCGCATCAATAAAAATGGCGCTGAAAAAATATTCAACGCCATCGACTTTTTATGCCTTTGCGGCATCGGGCAATGCGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAGCCCATTACCACGCCACTTAAGCCAGAAAGTTGCTTCAACTCACCCAGCGAACCTTTCAGCTTATCTTTCGAGGC  >  NC_000913_3_pae_tpiA/2430824‑2431111

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.