# ---------------------- TBLASTN (Protein/DNA) -----------------------------
item:tblastn
itemmethod:(sed "s/[#%]/>/" <in1 > in1.f; cp /usr/local/biotools/db/PAM??? .; tblastn $BLASTDB in1.f W=$WORDLEN M=$Matrix C=$CODE > in1.tmp; gedit in1.tmp; rm in1* PAM???)&

in:in1
informat:flat
insave:

arg:BLASTDB
argtype:choice_list
arglabel:Which Database
argchoice:genbank:$GDE_HELP_DIR/BLAST/genbank
argchoice:genbank update:$GDE_HELP_DIR/BLAST/genupdate

arg:Matrix
arglabel:Substitution Matrix:
argtype:choice_list
argchoice:PAM30:PAM30
argchoice:PAM70:PAM70

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

arg:CODE
argtype:choice_list
arglabel:Genetic Code
argchoice:Standard or Universal:0
argchoice:Vertebrate Mitochondrial:1
argchoice:Yeast Mitochondrial:2
argchoice:Mold Mitochondrial and Mycoplasma:3
argchoice:Invertebrate Mitochondrial:4
argchoice:Ciliate Macronuclear:5
argchoice:Protozoan Mitochondrial:6
argchoice:Plant Mitochondrial:7
argchoice:Echinodermate Mitochondrial:8