New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	2001998 =	NA (NA)	3 (0.030)	3/164	NT	NA	noncoding (31/99 nt)	RIP141 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site	RIP141 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site
	?	NC_000913	= 4254030	NA (NA)					noncoding (130/130 nt)	RIP317 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site	RIP317 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site

ATTAACTGAGACTGACGGCAACGCCAAATTGCCTGATGCGCTGCGCTTATCAGGCCTACAAGTTGAATTGCAATTTATTGAATTTGCACATTTTTGTAGgccggat‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/2002096‑2001998 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GCCGGATGCGGCGAAAACGCCTTATCCGGCC  <  NC_000913/4254030‑4254000                                                                                                                                    ATTAACTGAGACTGACGGCAACGCCAAATTGCCTGATGCGCTGCGCTTATCAGGCCTACAAGTTGAATTGCAATTTATTGAATTTGCACATTTTTGTAGG                                <  2:2597097/100‑1  TTAACTGAGACTGACGGCAACGCCAAATTGCCTGATGCGCTGCGCTTATCAGGCCTACAAGTTGAATTGCAATTTATTGAATTTGCACATTTTTGTAGGC                               <  1:509021/100‑1   TAACTGAGACTGACGGCAACGCCAAATTGCCTGATGCGCTGCGCTTATCAGGCCTACAAGTTGAATTGCAATTTATTGAATTTGCACATTTTTGTAGGCC                              >  1:844857/1‑100    AACTGAGACTGACGGCAACGCCAAATTGCCTGATGCGCTGCGCTTATCAGGCCTACAAGTTGAATTGCAATTTATTGAATTTGCACATTTTTGTAGGCCG                             <  1:2424129/100‑1    AACTGAGACTGACGGCAACGCCAAATTGCCTGATGCGCTGCGCTTATCAGGCCTACAAGTTGAATTGCAATTTATTGAATTTGCACATTTTTGTAGGCCG                             <  1:367831/100‑1     ACTGAGACTGACGGCAACGCCAAATTGCCTGATGCGCTGCGCTTATCAGGCCTACAAGTTGAATTGCAATTTATTGAATTTGCACATTTTTGTAGGCCGG                            <  1:28464/100‑1                 GGCAACGCCAAATGTCCTGATGCGCTGCTCTTATCAGGCCGACAAGTTGAATTGCAATTTATTGAATTTGCACATTTTTGTAGGCCGGATGCGGCGTAAA                <  2:2631796/100‑1                          AAATTGCCTGATGCGCTGCGCTTATCAGGCCTACAAGTTGAATTGCAATTTATTGAATTTGCACATTTTTGTAGGCCGGATGCGGCGTAAACGCCTTATC       <  2:706172/100‑1                                 CTGATGCGCTGCGCTTATCAGGCCTACAAGTTGAATTGCAATTTATTGAATTTGCACATTTTTGTAGGCCGGATGCGGCGTAAACGCCTTATCCGGCC  <  2:657163/98‑1                                                                                                                                    ATTAACTGAGACTGACGGCAACGCCAAATTGCCTGATGCGCTGCGCTTATCAGGCCTACAAGTTGAATTGCAATTTATTGAATTTGCACATTTTTGTAGgccggat‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/2002096‑2001998 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GCCGGATGCGGCGAAAACGCCTTATCCGGCC  <  NC_000913/4254030‑4254000

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