New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	4137789 =	NA (NA)	4 (0.040)	3/164	NT	NA	noncoding (1/98 nt)	RIP307 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site	RIP307 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site
	?	NC_000913	4409183 =	NA (NA)					noncoding (31/98 nt)	RIP331 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site	RIP331 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site

TGCGTGCTTTTGTAGGCCGGATAAGGCGTTCACTCCGCATCCGGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/4137833‑4137789 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑atccggcCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTAGTGCATCAGGCAAAACGTAAACAACGAGTACATTAATGAGC  >  NC_000913/4409183‑4409280                                                                                                                                                 TGCGTGATTATGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACG                                             >  1:2841919/1‑100    gtgattaTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTAG                                          >  1:3622/8‑100            GTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTAGTGCATCAG                                  >  2:76461/1‑100                   GGATAAGGCGTTCACGCCGCATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTAGTGCATCAGGCAAAAC                           >  1:2032700/1‑100                                          CGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTAGTGCATCAGGCAAAACGTAAACAACGAGTACATTAATGA    >  1:2563021/1‑100                                          CGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTAGTGCATCAGGCAAAACGTAAACAACGAGTACATTAATGA    <  1:859814/100‑1                                            GCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGTATAAACGTAGTGCATCAGGCAAAACGTAAACAACGAGTACATTAATGAGC  <  1:984305/100‑1                                            GCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTAGTGCATCAGGCAAAACGTAAACAACGAGTACATTAATGAGC  <  2:2186884/100‑1                                            GCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTAGTGCATCAGGCAAAACGTAAACAACGAGTACATTAATGAGC  <  2:35875/100‑1                                                                                                                                                 TGCGTGCTTTTGTAGGCCGGATAAGGCGTTCACTCCGCATCCGGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/4137833‑4137789 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑atccggcCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTAGTGCATCAGGCAAAACGTAAACAACGAGTACATTAATGAGC  >  NC_000913/4409183‑4409280

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