New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	3512511 =	NA (NA)	3 (0.200)	3/234	1.7	NA	noncoding (1/90 nt)	REP250 (repetitive extragenic palindromic) element; contains 2 REP sequences	REP250 (repetitive extragenic palindromic) element; contains 2 REP sequences
	?	NC_000913_3_pae_tpiA	3512536 =	NA (NA)					noncoding (26/90 nt)	REP250 (repetitive extragenic palindromic) element; contains 2 REP sequences	REP250 (repetitive extragenic palindromic) element; contains 2 REP sequences

AAGGCGCAACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAATAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTT  >  NC_000913_3_pae_tpiA/3512394‑3512674                                                                                                                                               |                                                                                                                                           aaGGCGCAACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGTCTGATGCGCTACGCTTATCAGGCCTACAttt                                                                                                                                     >  4:73609/1‑150 (MQ=255)    gcgcAACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCt                                                                                                                                  >  3:110663/1‑150 (MQ=255)              ccgtaattcactattgctggcaaattgcgctttgttcatgccggatgcggcgtgaacgccttatccggcctacaaagtaatgcacatattgcaaggaaatgtagGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATAtgt                                                                                                                        >  3:25873‑M1/105‑150 (MQ=255)                    tgGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGTCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTa                                                                                                                  <  3:73609/150‑1 (MQ=255)                       aaaCGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACtt                                                                                                               >  4:110064/1‑150 (MQ=255)                                 gCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCgg                                                                                                     >  2:141132/1‑150 (MQ=255)                                     ttCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATaa                                                                                                 >  1:2980/1‑150 (MQ=255)                                     attgcgctttgttcatgccggatgcggcgtgaacgccttatccggcctacaaagtaatgcacatattgcaaggaaatgtagGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTg                                                                                                             >  2:106511‑M1/82‑138 (MQ=255)                                     attgcgctttgttcatgccggatgcggcgtgaacgccttatccggcctacaaagtaatgcacatattgcaaggaaatgtagGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTg                                                                                                             <  1:106511‑M1/57‑1 (MQ=255)                                        acaTTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGc                                                                                              <  3:11998/150‑1 (MQ=255)                                                    attattGCAAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCa                                                                                  >  3:96406/1‑150 (MQ=255)                                                          gCAAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGc                                                                            <  3:110064/150‑1 (MQ=255)                                                                   gATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCg                                                                                                      >  1:16050/1‑115 (MQ=255)                                                                   gATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCg                                                                                                      <  2:16050/115‑1 (MQ=255)                                                                        aaaaaCCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCa                                                              <  2:2980/150‑1 (MQ=255)                                                                         gaaaCCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCa                                                                           <  2:189122/135‑1 (MQ=255)                                                                         gaaaCCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCa                                                                           >  1:189122/2‑136 (MQ=255)                                                                         aaaaCCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCaa                                                             <  4:110663/150‑1 (MQ=255)                                                                                ggTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCa                                                      <  1:141132/150‑1 (MQ=255)                                                                                      caaagtaatgcacatattgcaaggaaatgtaggcctgataagcgtagcgcatcaggcCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAAt                                                            >  2:106511‑M2/58‑138 (MQ=255)                                                                                      caaagtaatgcacatattgcaaggaaatgtaggcctgataagcgtagcgcatcaggcCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAAt                                                            <  1:106511‑M2/81‑1 (MQ=255)                                                                                                 agTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGc                                                        >  2:90370/1‑131 (MQ=255)                                                                                                 agTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGc                                                        <  1:90370/131‑1 (MQ=255)                                                                                                 acatattgcaaggaaatgtaggcctgataagcgtagcgcatcaggcCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAATAGTGAATTACgg                                     >  3:25873‑M2/47‑150 (MQ=255)                                                                                                  gTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAATAGTGAATTACGGc                                    >  2:158/1‑150 (MQ=255)                                                                                                                                   cGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAATAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCt   >  2:61638/1‑150 (MQ=255)                                                                                                                                   cGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAATAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCt   <  1:61638/150‑1 (MQ=255)                                                                                                                                    gCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAATAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCtt  >  3:36999/1‑150 (MQ=255)                                                                                                                                               |                                                                                                                                           AAGGCGCAACAGCGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAATAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTT  >  NC_000913_3_pae_tpiA/3512394‑3512674

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ 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.