New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	= 2304902	26 (0.490)	8 (0.200) +CTACGGGGTGGAGCACTTCACAGCGGTGTAGGC	4/216	6.1	28.7%	noncoding (486/655 nt)	REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences	REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences
	?	NC_000913_3_pae_tpiA	= 2305065	NA (NA)					noncoding (649/655 nt)	REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences	REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences
Rejected: Coverage evenness skew score above cutoff.

CCACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCGAC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913_3_pae_tpiA/2304862‑2304902 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CTGATAAGACGCGCCAGCGTCGCATCAGGCAACCGGCTCGGGCGTT  <  NC_000913_3_pae_tpiA/2305065‑2305020                                          |||||||||||||||||||||||||||||||||                                               CCACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACCTACGGGGTGGAGCACTTCACAGCGGTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAACCGGCTC         >  1:447982/1‑113 CCACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACCTACGGGGTGGAGCACTTCACAGCGGTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAACCGGCTC         <  2:447982/113‑1                 ATAAGGCGGTTACGCCGCATCCGACCTACGGGGTGGAGCACTTCACAGCGGTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAG                    >  1:332276/1‑86                 ATAAGGCGGTTACGCCGCATCCGACCTACGGGGTGGAGCACTTCACAGCGGTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAG                    <  2:332276/86‑1                                    TCCGACCTACGGGGTGGAGCACTTCACAGCGGTGTAGGCCTGAT                                           <  1:379836/44‑1                                    TCCGACCTACGGGGTGGAGCACTTCACAGCGGTGTAGGCCTGAT                                           >  2:379836/1‑44                                        ACCTACGGGGTGGAGCACTTCACAGCGGTGTAGGCCTGATAAGACGCGCCAGCGTC                           <  1:41555/56‑1                                        ACCTACGGGGTGGAGCACTTCACAGCGGTGTAGGCCTGATAAGACGCGCCAGCGTC                           >  2:41555/1‑56                                            ACGGGGTGGAGCACTTCACAGCGGTGTAGGCCTGATAAGACGCGCC                                 >  2:803925/1‑46                                                          TTCACAGCGGTGTAGGCCTGATAAGACGCGCCAGCGTCGCATC                      <  1:381139/43‑1                                                          TTCACAGCGGTGTAGGCCTGATAAGACGCGCCAGCGTCGCATC                      >  2:381139/1‑43                                                              CAGCGGTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAACCGGCTCGGGCGTT  <  1:518324/59‑1                                          |||||||||||||||||||||||||||||||||                                               CCACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCGAC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913_3_pae_tpiA/2304862‑2304902 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CTGATAAGACGCGCCAGCGTCGCATCAGGCAACCGGCTCGGGCGTT  <  NC_000913_3_pae_tpiA/2305065‑2305020

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ 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.