New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_vch_tpiA	411180 =	42 (0.890)	6 (0.130)	6/272	5.5	13.3%	noncoding (103/191 nt)	REP35 (repetitive extragenic palindromic) element; contains 4 REP sequences	REP35 (repetitive extragenic palindromic) element; contains 4 REP sequences
	?	NC_000913_3_vch_tpiA	411213 =	38 (0.840)					noncoding (136/191 nt)	REP35 (repetitive extragenic palindromic) element; contains 4 REP sequences	REP35 (repetitive extragenic palindromic) element; contains 4 REP sequences
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

GCGGATACTCCGGTGCTGGCGAAACCACTGGGGTAGGTTATAGTCTCGGTGCTCATTACTTATTGCCGGATGCGGCGTGAACGCCTTATCCGCCCTACGCGGTTCTGGCACATTTTGCAGGCCTGATAAGACGCGGCAAGCGTCGCATCAGGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913_3_vch_tpiA/411332‑411180 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑atcaggcCTGCAAAATGTGCCAGAACCGCGTAGGGCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGTAATGAGCACCGAGACTATAACCTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAGCGACC  >  NC_000913_3_vch_tpiA/411213‑411356                                                                                                                                                                                                                                                                                                           GCGGATACTTCGGTGCTTGGGAAAACACTGGGGTAGGTTATAGTCTCGTGTCTCATTACTTATTGCCGGATGCGGCGTGAACGCCTTATCCGTCTTATGCGGTTCTGGCACATTTTGCAGGCCTGATAAGACGCGGCAAGCGTCGCATC                                                                                                                                                      <  1:809395/149‑1   GGATACCCCGGTGCTGGCGAAACCACCGGGGTAGGTTATAGTCTCGGTGCTCATTACTTATTGCCGGATGCGGCGTGAACGCCTTATCCGCCCTACGCGGTTCTGGCACATTTTGCAGGCCTGATAAGACGCGGCAAGCGTCGCATCAG                                                                                                                                                    <  1:260095/149‑1         TCCGGTGCTGGCGAAACCACTGGGGTAGGTTATAGTCTCGGTGCTCGTTACATCTTGCCGGATACGGCGTGAACGCCTTATCCGCCCTACGCGGTTCTGGCACATTTTGCAGGCCTGATAAGACGCGGCAAGCGTCACATCAGGCCTca                                                                                                                                              >  2:711071/1‑147                                                                                                                            TGATAAGACGCGGCAAGCGTCGCATCAGGCCTGCAAAATGTGCCAGAACCGCGTAGGGCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGTAATGAGCACCGAGACTATA                                                                >  1:246553/1‑112                                                                                                                            TGATAAGACGCGGCAAGCGTCGCATCAGGCCTGCAAAATGTGCCAGAACCGCGTAGGGCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGTAATGAGCACCGAGACTATA                                                                <  2:246553/112‑1                                                                                                                             GATAAGACGCGGCAAGCGTCGCATCAGGCCTGCAAAATGTGCCAGAACCGCGTAGGGCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGT                                                                                   >  1:675329/1‑92                                                                                                                             GATAAGACGCGGCAAGCGTCGCATCAGGCCTGCAAAATGTGCCAGAACCGCGTAGGGCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGT                                                                                   <  2:675329/92‑1                                                                                                                                  GACGCGGCAAGCGTCTTATCAGGCCTGCAAAATGTGCCAGAACCGCGTAGGGCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGTAATGAGCACCGAGACTATAACCTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTT                     >  1:263402/1‑149                                                                                                                                                     CAGGCCGGCAAAATGGGCCAGACGCGCCTAGGGCGGATAAGGCGTTCACGCCGCATCCGGAAATAAGTAATGAGCACCGAGACTCTAACCTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAGCGACC  <  1:168061/149‑1                                                                                                                                                                                                                                                                                                           GCGGATACTCCGGTGCTGGCGAAACCACTGGGGTAGGTTATAGTCTCGGTGCTCATTACTTATTGCCGGATGCGGCGTGAACGCCTTATCCGCCCTACGCGGTTCTGGCACATTTTGCAGGCCTGATAAGACGCGGCAAGCGTCGCATCAGGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913_3_vch_tpiA/411332‑411180 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑atcaggcCTGCAAAATGTGCCAGAACCGCGTAGGGCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGTAATGAGCACCGAGACTATAACCTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAGCGACC  >  NC_000913_3_vch_tpiA/411213‑411356

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ 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.