The following URLs encode valid blast search requests. To provide a more consistent format, we break each URL into multiple lines. Concatenate the lines together before posting it.
MEGABLAST search three sequences against refseq_rna database:
http://www.ncbi.nlm.nih.gov/BLAST/Blast.cgi?ALIGNMENT_VIEW=Tabular&DATABASE=refseq_rna
&EXPECT=10&FILTER=L&FORMAT_OBJECT=Alignment&MASK_CHAR=0&MASK_COLOR=0
&MEGABLAST=true&NCBI_GI=true&NEW_VIEW=true&PROGRAM=blastn
&QUERY=F12345%0D%0AM12345%0D%0AAF123456&SHOW_LINKOUT=true
&SHOW_OVERVIEW=true&WORD_SIZE=28&CMD=Put
A shortened version of the same URL is http://tinyurl.com/3x7kw8
A protein blastp search using a FASTA sequence against human entries in refseq_protein database:
http://www.ncbi.nlm.nih.gov/BLAST/Blast.cgi?ALIGNMENT_VIEW=Pairwise
&DATABASE=refseq_protein&FILTER=L&ENTREZ_QUERY=Homo+sapiens%5BORGN%5D
&EXPECT=1&FORMAT_OBJECT=Alignment&FORMAT_TYPE=HTML&GAPCOSTS=11+1
&MASK_CHAR=0&MASK_COLOR=2&MATRIX_NAME=BLOSUM62&NCBI_GI=true&NEW_VIEW=true
&PROGRAM=blastp&SHOW_LINKOUT=true&SHOW_OVERVIEW=true&WORD_SIZE=3&CMD=Put
&QUERY=%3Ezinc+finger+protein+%5BHomo+sapiens%5D%0D%0AMDFEDDYTHSACRNTY
QGFNGMDRDYGPGSYGGMDRDYGHGSYGGQRSMDSYLNQSYGMDNHSGGGGGSR
A shorted version of the same URL is http://www.tinyurl.com/2vsnyh
A PHI-BLAST search with 4758958 and a custom pattern against nr:
http://www.ncbi.nlm.nih.gov/BLAST/Blast.cgi?ALIGNMENTS=50
&ALIGNMENT_VIEW=Pairwise&DATABASE=nr&DESCRIPTIONS=100&EXPECT=1
&FORMAT_OBJECT=Alignment&FORMAT_TYPE=HTML&GAPCOSTS=11+1&MASK_CHAR=0
&MASK_COLOR=0&MATRIX_NAME=BLOSUM62&PROGRAM=blastp&QUERY=4758958&CMD=Put
&PHI_PATTERN=%5BLIVMF%5D-G-E-x-%5BGAS%5D-%5BLIVM%5D-x(5,11)-R-%5BSTAQ%5D-A.
A shorted version of the same URL is http://www.tinyurl.com/39b95y
A translated protein BLAST (tblastn) search with NP_003451 against est_human:
http://www.ncbi.nlm.nih.gov/BLAST/Blast.cgi?ALIGNMENTS=50&EXPECT=0.1
&ALIGNMENT_VIEW=Pairwise&DATABASE=est_human&DESCRIPTIONS=100
&FILTER=L&FORMAT_OBJECT=Alignment&FORMAT_TYPE=HTML&GAPCOSTS=11+1
&GENETIC_CODE=1&GET_SEQUENCE=on&MASK_CHAR=0&MASK_COLOR=0
&MATRIX_NAME=BLOSUM62&NCBI_GI=on&NEW_FORMATTER=on&PROGRAM=tblastn
&QUERY=NP_003451&SHOW_LINKOUT=on&WORD_SIZE=3&CMD=Put
A shorted version of the same URL is http://www.tinyurl.com/2ssa7r