#PBS -N Sacc_cerevisiae_dec_bac_ymj
#PBS -l nodes=1:ppn=48
#PBS -r y
#PBS -q master_431

cd /home/Data_01/yizhenzhen06/public_share/Saccharomyces_cerevisiae_DNA/3_decontamination/

echo Start Time is `date`

blastn -db /home/Data_01/share_databases/ncbi_genome_refseq_bac_old/ncbi_genome_refseq_bac_old \
-query /home/Data_01/yizhenzhen06/public_share/Saccharomyces_cerevisiae_DNA/2_assembly/spades/scaffolds.fasta \
-out Sacc_cerevisiae_dec_bac.tab \
-outfmt "6 qseqid qlen sseqid slen pident qcovs qstart qend sstart send mismatch gapopen evalue bitscore" \
-evalue 1e-5 -max_target_seqs 1 -num_threads 48

sed -i '1i\tquery ID\tquery sequence length\tsubject ID\tsubject qequence length\tpercent identities\tcoverage\tqstart\tqend\tsstart\tsend\tmismatch\tgapopen\tevalue\tbitscores ' Sacc_cerevisiae_dec_bac.tab

echo End Time is `date`