my $hu_seq = $maid_dir."\\".$maid."_hu.fa";
my $hd_seq = $maid_dir."\\".$maid."_hd.fa";
my $contig = $maid_dir."\\".$maid."_fasta.contigs"; 
open(my $alignment, ">".$maid_dir."\\".$maid."_aln.out");
my $command = 'c:\\blast\bin\blastall -p blastn -d "$hu_seq $hd_seq" -i $contig -o $alignment';
print $command,"\n";
system($command);