scripts/splitter_ablast_commands.txt

Version 1

# @ibis2

splitter -sequence JHBP-like_dsRNA_region.txt -outseq JHBP-like_dsRNA_region_splitter.fasta -size 21 -overlap 20

ablastplus -mail marko.petek@nib.si -use 'blastn' -cpu 8 -db '../blast/non_targetinsects_cds' -besthits '1' -expect '0.1' -remark '' -log 'JHBP-like_dsRNA_region_splitter.log' 'JHBP-like_dsRNA_region_splitter.fasta' 'JHBP-like_dsRNA_region_splitter.output' -exec 'sumablastplus -maxhits 1 JHBP-like_dsRNA_region_splitter.output JHBP-like_dsRNA_region_splitter.tsv'


splitter -sequence Alas_dsRNA_region.txt -outseq Alas_dsRNA_region_splitter.fasta -size 21 -overlap 20

ablastplus -mail marko.petek@nib.si -use 'blastn' -cpu 8 -db '../blast/non_targetinsects_cds' -besthits '1' -expect '0.1' -remark '' -log 'Alas_dsRNA_region_splitter.log' 'Alas_dsRNA_region_splitter.fasta' 'Alas_dsRNA_region_splitter.output' -exec 'sumablastplus -maxhits 1 Alas_dsRNA_region_splitter.output Alas_dsRNA_region_splitter.tsv'


splitter -sequence Mesh_mRNA.txt -outseq Mesh_mRNA_splitter.fasta -size 21 -overlap 20

ablastplus -mail marko.petek@nib.si -use 'blastn' -cpu 8 -db '../blast/non_targetinsects_cds' -besthits '1' -expect '0.1' -remark '' -log 'Mesh_mRNA_splitter.log' 'Mesh_mRNA_splitter.fasta' 'Mesh_mRNA_splitter.output' -exec 'sumablastplus -maxhits 1 Mesh_mRNA_splitter.output Mesh_mRNA_splitter.tsv'


splitter -sequence Egfp_dsRNA_region.txt -outseq Egfp_dsRNA_region_splitter.fasta -size 21 -overlap 20

ablastplus -mail marko.petek@nib.si -use 'blastn' -cpu 8 -db '../blast/CPB_genome_nucl' -besthits '1' -expect '0.1' -remark '' -log 'Egfp_dsRNA_region_splitter.log' 'Egfp_dsRNA_region_splitter.fasta' 'Egfp_dsRNA_region_splitter.output' -exec 'sumablastplus -maxhits 1 Egfp_dsRNA_region_splitter.output Egfp_dsRNA_region_splitter.tsv'