New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	489979 =	NA (NA)	6 (0.200)	6/272	3.1	19.4%	noncoding (21/98 nt)	RIP43 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site	RIP43 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site
	?	NC_000913_3_pae_tpiA	490042 =	25 (0.840)					noncoding (84/98 nt)	RIP43 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site	RIP43 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

TAAAAACGAAAGGGGGCAACATTTAGTTGCCCCGAGATTGCTAACAAAGTGCGCGTTGTTCATGCCGGATGCGGCGTGACCGCCTTATCCGGCCTACGAAACCGCAAGAATTCAATATATTGCAGGAGCGGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTTGCGTTTGCCCGCAACCTTAGGGGACATTTAGCGACCCCATTTATTTCTCACTTTTCCGCCTCATCATCGCGCGTTAATTTCTTTTCATAATCACGCTTTACAATATCCAGCGCGCGCAGCACGG  >  NC_000913_3_pae_tpiA/489896‑490186                                                                                                                                                   |                                                                                                                                                 tAAAAACGAAAGGGGGCAACATTTAGTTGCCCCGAGATTGCTAACAAAGTGCGCGTTGTTCATGCCGGATGCGGCGTGACCGCCTTATCCGGCCTACGAAACCGCAAGAATTCAATATATTGCACGAGCGGTGTAGGCCTGATACGCGt                                                                                                                                                >  1:355447/1‑149 (MQ=255)    agaCGAAGGGGGGCAACATTTAGTTGCCCCGAGATTGCTAACAAAGTGCGCGTTGTTCATGCCGGATGCGGCGTGACCGCCTTATCCGGCCTACGTAACCGCAAGAATTCAATATATTGCAGGAGCGGTGTAGGCCTGATAAGCGTAgc                                                                                                                                             <  1:222332/147‑1 (MQ=255)          aaGGGGGCAACATTTAGTTGCCCCGCGATTGCTAACAAAGTGCGCGTTGTTCATGCCGGATGCGGCGTGTCCGCCTTATCCGGCCTACGAAACCGCAAGAAGTCAATATATTGCAGGAGCGGTGTAGGCCGGATAAGCGTAGCGCATCa                                                                                                                                       >  1:418501/1‑149 (MQ=255)               ggCAACATTTAGTTGCCCCGAGATTGCTAACAAAGTGCGCGTTGTTCATGCCGGATGCGGCGTGACCGCCTTATCCGGCCTACGAAACCGCAAGAATTCAATATATTGCAGGAGCGGTGTAGGCCTGATAAGCGTAGCGCATAAGGCAg                                                                                                                                  >  1:135606/1‑149 (MQ=255)                    cATTTAGTTGCCCCGAGATTGCTAACAAAGTGCGCGTTGTTCATGCCGGATGCGGCGTGACCGCCTTATCCGGCCTACGAAACCGCAAGAATTCAATATATTGCAGGAGCGGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTTg                                                                                                                             <  2:311283/149‑1 (MQ=255)                                       tGCTAACAAAGTGCGCGTTGTTCATGCCGGATGCGGCGTGACCGCCTTATCCGGCCTACGAAATCGCAAGAATTCAATATATTGCAGGAGCGGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTTGCGTTTGCCCGCAACCTTAg                                                                                                          <  1:490739/149‑1 (MQ=255)                                          tcaCAAAGTGCTCGTCTCTCATGCCGGATGCGGCGTGACCGCCTTATCCGGCCTACGAAACCGCAACAATTCAATATATTGCAGGAGCGGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTTGCGTTTGCCCGCAACCTTAgggg                                                                                                       <  1:275623/147‑1 (MQ=21)                                          tAACAAAGTGCGCGTTGTTCATGCCGGATGCGGCGTGACCGCCTTATCCGGCCTACGAAACCGCAAGAATTCAATATATTGCAGGAGCGGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTTGCGTTTGCCCGCAACCTTAgggg                                                                                                       >  1:135131/1‑149 (MQ=255)                                               gatggcgcGTTGTACATGCCGGATGCGGCGTGACCGCCTTATCCGGCCTACGAAACCGCAAGAATTCAATATATTGCAGGAGCGGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTTGCGTTTGCCCGCAACCTGAGGGGACAtt                                                                                                  <  1:535338/145‑1 (MQ=255)                                                       gttgttCATGCCGGATGCGGCGTGACCGCCTTATCCGGCCTACGAAACCGCAAGAATTCAATATATTGCAGGAGCGGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTTGCGTTTGCCCGCAACCTTAGGGGACATTTAGCGAcc                                                                                          >  2:54103/1‑149 (MQ=255)                                                              aTGCCGGATGCGGCGTGACCGCCTTATCCGGCCTACGAAACCGCAAGAATTCAATATATTGCAGGAGCGGTCTAGGCCTGATAAGCGCACCCAACCAGTCAGTTTTGCGTTTGCCCGCAACCGTAGGGGACATTTAGCGCCCCCattca                                                                                   >  1:265854/1‑147 (MQ=25)                                                               tGCCGGATGCGGCGTGACCGCCTTATCCGGCCTACGAAACCGCAAGAATTCAATATATTGCAGGAGCGGTGTAGGCCTGATAAGCGTAGCGCATACGGCAGTTTTGCGTTTGCCCGCAACCTTAAGGGCCATTTAGCGACCCCatttat                                                                                  >  1:114423/1‑149 (MQ=255)                                                                     aTGCGGCGTGACCGCGTTATCCGGCCTACGAAACCGCAAGAATTCAATATATTGCAGGAGCGGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTTGCGTTTGCCCGCAACCTTAGGGGACATTTAGCGACCCCATTTATTTCTCa                                                                            <  2:538049/149‑1 (MQ=255)                                                                                ccGGCTTATCCGGCCTACGAAACCGCAAGAATTGAATATATTGCAGGAGCTGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTTGCGTTTGCCCGCAACCTTAGGGGACATTTAGCGACCCCATTTATTTCTCACTTTTCCGCCt                                                                 <  2:547110/149‑1 (MQ=255)                                                                                 cggcTTATCCGGCCTACGAAACCGCAAGAATTCAATATATTGCAGGAGCGGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTTGCGTTTGCCCGCAACCTTAGGGGACATTTAGCGACCCCATTTATTTCTCACTTTTCCGCCtc                                                                <  1:245103/146‑1 (MQ=255)                                                                                 cGCCTTATCCGGCCTACGAAACCGCAAGAATTCAATATATTGCAGGAGCGGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTTGCGTTTGCCCGCAACCTTAGGGGACATTTAGCGACCCCATTTATTTCTCACTTTTCCGCCtc                                                                >  1:287931/1‑149 (MQ=255)                                                                                          cGGCCTACGAAACCGCAAGAATTCAATATATTGCAGGAGCGGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTTGCGTTTGCCCGCAACCTTAGGGGACATTTAGCGACCCCATTTATTTCTCACTTTTCCGCCTCctcatccct                                                       >  2:122272/1‑146 (MQ=255)                                                                                                       cGCAAGAATTCAATATATTGCAGGAGCGGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTTGCGTTTGCCCGCAACCTTAGGGGACATTTAGCGACCCCatttattt                                                                                <  2:104075/111‑1 (MQ=255)                                                                                                       cGCAAGAATTCAATATATTGCAGGAGCGGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTTGCGTTTGCCCGCAACCTTAGGGGACATTTAGCGACCCCatttattt                                                                                >  1:104075/1‑111 (MQ=255)                                                                                                       cGCAAGAATTCAATATATTGCAGGAGCGGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTTGCGTTTGCCCGCAACCTTAGGGGACATTTAGCGACCCCATTTATTTCTCACTTTTCCGCCTCATCATCGCGCGTAAATTTCttt                                          >  1:93086/1‑149 (MQ=255)                                                                                                        gCAAGAATTCAATATATTGCAGGAGCGGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTTGCGTTTGCCCGCAACCTTAGGGGACATTTAGCGACCCCATTTATTTCTCACTTTTCCGCCTCATCATCGCGCGTTAATTTCtttt                                         <  1:280063/149‑1 (MQ=255)                                                                                                               ttCAATATATTGCAGGAGCGGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTTGGGTTTGCCAGCAACCTTAGGGGACATTTAGGGACCCCATTTATTTGTCAATTTTCCGCCTCCTCATCGCACGTTAATTTCTTTTCATAAta                                  >  2:344300/1‑148 (MQ=37)                                                                                                               ttCAATATATTGCAGGAGCGGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTTGCGTTTGCCCGCAACCTTAGGGGACATTTAGCGACCCCATTTATTTCTCACTTTTCCGCCTCATCATCGCGCGTTAATTTCTTTTCATAATc                                  <  2:117872/149‑1 (MQ=255)                                                                                                                       atTGCAGGAGCGGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTTGCGTTTGCCCGCAACCTTAGGGGACATTTAGCGACCCCATTTATTTCTCACTTTTCCGCCTCATCATCGCGCGTTAATTTCTTTTCATAATCACGCTTTa                          <  1:316255/149‑1 (MQ=255)                                                                                                                           cAGGAGCGGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTTGCGTTTGCCCGCAACCTTAGGGGACATTTAGCGACCCCATTTATTTCTCACTTTTCCGCCTCATCATCGCGCGTTAATTTCTTTTCATAATCACGCTTTACAat                      >  1:332163/1‑149 (MQ=255)                                                                                                                                gCGGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTTGCGTTTGCCCGCAACCTTAGGGGACATTTAGCGACCCCATTTATTTCTCACTTTTCCGCCTCATCATCGCGCGTTAATTTCTTTTCATAATCACGCTTTACAATATCCa                 <  1:505689/149‑1 (MQ=255)                                                                                                                                gCGGTGTAGGCCGGATAAGCGTAGCGCATCAGGCAGTTTTGCGTTTGCCCGCAACCTTAGGGGACATTTAGCGACCCCATTTATTTCTCACTTATCACCTTCAGCATCGCGCGTTAATTTCTTTTCATAATCACGCTTTACAATATCCa                 <  1:383118/149‑1 (MQ=38)                                                                                                                                              aTAAGCGTAGCGCATCAGGCAGTCTTGCGTTTGCCCGCAACCTTAGGGGACATTTAGCGACCCCATTTATTTCTCACTTTTCCGCCTCATCATCGCGCGTTAATTTCTTTTCATAATCACGCTTTACAATATCCAGCGCGCGCAGCACg   <  1:490440/149‑1 (MQ=255)                                                                                                                                               tAAGCGTAGCGCATCAGGCAGTTTTGCGTTTGCCCGCAACCTTAGGGGACATTTAGCGACCCCATTTATTTCTCACTTTTCCGCCTCATCATCGCGCGTTAATTTCTTTTCATAATCACGCTTTACAATATCCAGCGCGCGCAGCACgg  <  1:158077/149‑1 (MQ=255)                                                                                                                                                   |                                                                                                                                                 TAAAAACGAAAGGGGGCAACATTTAGTTGCCCCGAGATTGCTAACAAAGTGCGCGTTGTTCATGCCGGATGCGGCGTGACCGCCTTATCCGGCCTACGAAACCGCAAGAATTCAATATATTGCAGGAGCGGTGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTTGCGTTTGCCCGCAACCTTAGGGGACATTTAGCGACCCCATTTATTTCTCACTTTTCCGCCTCATCATCGCGCGTTAATTTCTTTTCATAATCACGCTTTACAATATCCAGCGCGCGCAGCACGG  >  NC_000913_3_pae_tpiA/489896‑490186

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ 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.