New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_pgi	59616 =	39 (1.330)	5 (0.180)	5/264	3.1	11.8%	intergenic (+337/+71)	yabP/rluA	pseudogene, pentapeptide repeats‑containing/dual specificity 23S rRNA pseudouridine(746), tRNA pseudouridine(32) synthase, SAM‑dependent
	?	NC_000913_3_pae_pgi	59638 =	38 (1.380)					intergenic (+359/+49)	yabP/rluA	pseudogene, pentapeptide repeats‑containing/dual specificity 23S rRNA pseudouridine(746), tRNA pseudouridine(32) synthase, SAM‑dependent
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

TGTTGCTACATGCAGAGATGTTGACGATTACCCATCCGGCGTATGGCAATAGTATGACGTTTAAAGCGCCAGCGGATTTTTAACCTTTCCTGTACGTTTATACCCTCATCCTAAGGGCTGCCTCTTGTACATAAATCCCCGAGTCCGGGGATTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913_3_pae_pgi/59769‑59616 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cggggatttATGTACAAGAGGCAGCCCTTAGGATGAGGGTATAAACGTACAGGAAAGGTTAAAAATCCGCTGGCGCTTTAAACGTCATACTATTGCCATACGCCGGATGGGTAATCGTCAACATCTCTGCATGTAGCAACAAACGTGGT  >  NC_000913_3_pae_pgi/59638‑59777                                                                                                                                                                                                                                                                                                        TGTTGCTACATGCAGAGATGTTGACGATTACCCATCCGGCGTATGGCAATAGTATGACGTTTAAAGCGCCAGCGGATTTTTAACCTTTCCTGTACGTTTATACCCTCATCCTAAGGGCTGCCTCTTGTACATAAATCCCCGAGTCCGGG                                                                                                                                                   <  1:144879/149‑1                AGATGTTGACGATTACCCATCCGGCGTATGGCAATAGTATGACGTTTAAAGCGCCAGCGGATTTTTAACCTTTCCTGTACGTTTATACCCTCATCCTAAGGGCTGCCTCTTGTACATAAATCCCCGAGTCCGGG                                                                                                                                                   >  1:421023/1‑134                AGATGTTGACGATTACCCATCCGGCGTATGGCAATAGTATGACGTTTAAAGCGCCAGCGGATTTTTAACCTTTCCTGTACGTTTATACCCTCATCCTAAGGGCTGCCTCTTGTACATAAATCCCCGAGTCCGGG                                                                                                                                                   <  2:421023/134‑1                                      GGCGTATGGCAATAGTATGACGTTTAAAGCGCCAGCGGATTTTTGACCTTTCCTGTACGTCTATACCCTCATCCTAAGGGCTGCCTCTTGTACATAAATTCCCGGGTCAGGGGATTTATGTACAAGAGGCAGCCCTTAGGATGAGGGaa                                                                                                              >  1:2028/1‑147                                                              TAAAGCGCCAGCGGATTTTTAACCGTTCCTGTACGTTTATTCCCTGATCCTAAGGGCTGCCTCTTGTACATAAATCCCTGAGTACGGGGATTTATGTAGAAGAGGCAGCCCTTAGGATGAGGGTATAAACGTACAGGAAAGGTTAAAAA                                                                                      <  2:2028/149‑1                                                                                                                                  CATAAATCCCCGAGTCCGGGGATTTATGTACAAGAGGCAGCCCTTAGGATGAGGGTATAAACGTACAGGAAAGGTTAAAAATCCGCTGGCGCTTTAAACGTCATACTATTGCCATACGCCGGATGGGTAATCGTCAACATCTCTGCATG                  >  1:332988/1‑149                                                                                                                                               GTCCGGGGATTTATGTACAAGAGGCAGCCCTTAGGATGAGGGTATAAACGTACAGGAAAGGTTAAAAATCCGCTGGCGCTTTAAACGTCATACTATTGCCATACGCCGGAT                                           <  1:256826/111‑1                                                                                                                                               GTCCGGGGATTTATGTACAAGAGGCAGCCCTTAGGATGAGGGTATAAACGTACAGGAAAGGTTAAAAATCCGCTGGCGCTTTAAACGTCATACTATTGCCATACGCCGGAT                                           >  2:256826/1‑111                                                                                                                                                  CGGGGATTTATGTACAAGAGGCAGCCCTTAGGATGAGGGTATAAACGTACAGGAAAGGTTAAAAATCCGCTGGCGCTTTAAACGTCATACTATTGCCGTACTCCGGATGGGTAATCGTCAACATCTCTGCATGTAGCAACAAACGTGGT  >  1:146066/1‑149                                                                                                                                                  CGGGGATTTATGTACAAGAGGCAGCCCTTAGGATGAGGGTATAAACGTACAGGAAAGGTTAAAAATCCGCTGGCGCTTTAAACGTCATACTATTGCCATACGCCGGATGGGTAATCGTCAACATCTCTGCATGTAGCAACAAACGTGGT  <  2:59939/149‑1                                                                                                                                                                                                                                                                                                        TGTTGCTACATGCAGAGATGTTGACGATTACCCATCCGGCGTATGGCAATAGTATGACGTTTAAAGCGCCAGCGGATTTTTAACCTTTCCTGTACGTTTATACCCTCATCCTAAGGGCTGCCTCTTGTACATAAATCCCCGAGTCCGGGGATTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913_3_pae_pgi/59769‑59616 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cggggatttATGTACAAGAGGCAGCCCTTAGGATGAGGGTATAAACGTACAGGAAAGGTTAAAAATCCGCTGGCGCTTTAAACGTCATACTATTGCCATACGCCGGATGGGTAATCGTCAACATCTCTGCATGTAGCAACAAACGTGGT  >  NC_000913_3_pae_pgi/59638‑59777

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