New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	4441393 =	NA (NA)	7 (0.090)	4/164	NT	NA	noncoding (1/98 nt)	RIP335 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site	RIP335 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site
	?	NC_000913	4441418 =	NA (NA)					noncoding (26/98 nt)	RIP335 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site	RIP335 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site

GCAAGGACTGCGTAGGCCTGATCGGCATAGCGTATCAGGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/4441432‑4441393 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑atcaggcCTACGCAGTCCTTGCAATATATTGAATTTGGACGATTTTGTAGGCCTGGTAAGTCGTTTACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACAA  >  NC_000913/4441418‑4441516                                                                                                                                             GCAAGGACTGCGTAGGCCTGATCGGCATAGCGTATCAGGCCTACGCAGTCCTTGCAATATATTGAATTTGGACGATTTTGTAGGCCTGGTAAGTCGTTTA                                         >  1:1943893/1‑100     GGACTGCGTAGGCCTGATCGGCATAGCGTATCAGGCCTACGCAGTCCTTGCAATATATTGAATTTGGACGATTTTGTAGGCCTGGTAAGTCGTTTACGCC                                     >  1:1114872/1‑100             TAGGCCTGATCGGCATAGCGTATCAGGCCTACGCAGTCCTTGCAATATATTGAATTTGGACGATTTTGTAGGCCTGGTAAGTCGTTTACGCCGCATCAGG                             >  1:1121192/1‑100             TAGGCCTGATCGGCATAGCGTATCAGGCCTACGCAGTCCTTGCAATATATTGAATTTGGACGATTTTGTAGGCCTGGTAAGTCGTTTACGCCGCATCAGG                             >  1:1351691/1‑100             TAGGCCTGATCGGCATAGCGTATCAGGCCTACGCAGTCCTTGCAATATATTGAATTTGGACGATTTTGTAGGCCTGGTAAGTCGTTTACGCCGCATCAGG                             >  1:510818/1‑100             TAGGCCTGATCGGCATAGCGTATCAGGCCTACGCAGTCCTTGCAATATATTGAATTTGGACGATTTTGTAGGCCTGGTAAGTCGTTTACGCCGCATCAGG                             >  2:415200/1‑100               GGCCTGATCGGCATAGCGTATCAGGCCTACGCAGTCCTTGCAATATATTGAATTTGGACGATTTTGTAGGCCTGGTAAGTCGTTTACGCCGCATCAGGCA                           >  1:1794435/1‑100                                    CAGGCCTACGCAGTCCTTGCAATATATTGAATTTGGACGATTTTGTAGGCCTGGTAAGTCGTTTACGCCGCATCAGGCATAGACAAAGAGCACTTTATCA      >  1:1585559/1‑100                                      GGCCTACGCAGTCCTTGCAATATATTGAATTTGGACGATTTTGTAGGCCTGGTAAGTCGTTTACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAAC    <  2:2234953/100‑1                                       GCCTACGCAGTCCTTGCAATATATTGAATTTGGACGATTTTGTAGGCCTGGTAAGTCGTTTACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACA   <  1:235470/100‑1                                        CCTACGCAGTCCTTGCAATATATTGAATTTGGACGATTTTGTAGGCCTGGTAAGTCGTTTACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACAA  >  1:40704/1‑100                                                                                                                                             GCAAGGACTGCGTAGGCCTGATCGGCATAGCGTATCAGGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/4441432‑4441393 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑atcaggcCTACGCAGTCCTTGCAATATATTGAATTTGGACGATTTTGTAGGCCTGGTAAGTCGTTTACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACAA  >  NC_000913/4441418‑4441516

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