Repetitive element (RE) mediated DNA level recombination by non-allelic homologous recombination (NAHR) as the mechanism for disperse duplication of a.

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Repetitive element (RE) mediated DNA level recombination by non-allelic homologous recombination (NAHR) as the mechanism for disperse duplication of a gene locus in S. japonicum genome Mbanefo Eva Nagasaki University

Steps taken to show evidence of RE mediated DNA level recombination (DLR) The similar signal sequence was found in 34 contigs distributed within 18 scaffolds in the genome of S. japonicum The putative source locus was CABF (see Method section) CABF (source locus) was BLASTed against the scaffolds RepBase database was used for Repeat Masking using the CENSOR programme The result of BLAST and RepBase prediction was aligned and compared side by side

BLAST OF CABF VS SCAFFOLDS

REPBASE REPORT for CABF (1 st page)

REPBASE REPORT for CABF SHOWING RTE_SJ (SjR2)

BLAST OF CABF vs SCAFFOLDS ALIGNED TO REPBASE PREDICTION GRAPHICS FOR CABF RTE-SJ

Steps taken to assess the 3` breakpoint Homology was not terminated at the 3` end when CABF was aligned to scaffolds We adjoined 2 contigs to the 3` of CABF (source locus) to ensure at least 5kb flanking sequences on both sides The analyses was repeated using this new extended sequence (CABF extended)

BLAST OF CABF extended VS SCAFFOLDS

REPBASE REPORT OF CABF extended (Figure) RTE-SJ (SjR2) Sj PERERE

REPBASE REPORT for CABF extended (1 st page)

REPBASE REPORT of CABF extended SHOWING RTE_SJ (SjR2)

REPBASE REPORT of CABF extended SHOWING SJ PERERE

BLAST report aligned TO REPBASE report for CABF extended