#---------------------------- BLASTN (DNA)-----------------------------------
item:blastn
itemmethod:(sed "s/[#%]/>/" <in1 > in1.f; /usr/local/biotools/blast/blastall -p blastn -d $BLASTDBDNA -i in1.f -W $WORDLEN -M $MATCH  > in1.tmp; gedit in1.tmp; rm in1*)&

in:in1
informat:flat
insave:

arg:BLASTDBDNA
argtype:choice_list
arglabel:Which Database
argchoice:HIV-1 Seq. Db.:$DATABASE/hiv17-08-01.fasta2


arg:WORDLEN
argtype:slider
arglabel:Word Size
argmin:4
argmax:18
argvalue:12

arg:MATCH
argtype:slider
arglabel:Match Score
argmin:1
argmax:10
argvalue:5

arg:MMSCORE
argtype:slider
arglabel:Mismatch Score
argmin:-10
argmax:-1
argvalue:-5