Programs available locally
are shown in pink. Links to their parent/ official mirror sites are
given below:
 LookUp
- as part of GCG package only.
LookUp identifies sequence database
entries by name,
accession number, author, organism,
keyword, title,
reference, feature, definition,
length, or date. The output
is a list of sequences.
StringSearch - as part of GCG package only.
StringSearch identifies sequences
by searching for
character patterns such as "globin"
or "human" in the
sequence documentation.
 Names
- as part of GCG package only.
Names identifies GCG data files
and sequence entries by
name. It can show you what set of
sequences is implied by
any sequence specification.
Fetch - as part of GCG package only.
Fetch copies GCG sequences or data
files from the GCG
database into your directory or
displays them on your
terminal screen.
FASTA
FastA does a Pearson and Lipman
search for similarity
between a query sequence and a group
of sequences of
the same type (nucleic acid or protein).
See also:
http://www2.ebi.ac.uk/fasta3/
BLAST
BLAST searches for sequences similar
to a query sequence.
The query and the database searched
can be either peptide
or nucleic acid in any combination.
BLAST can search
databases on your own computer or
databases maintained at
the National Center for Biotechnology
Information (NCBI) in
Bethesda, Maryland, USA.
See also:
http://www.ncbi.nlm.nih.gov/BLAST/
 Protein
Sequence Search Tool [PSST 1.0]
A web-based search tool, PSST has
been developed to retrieve the user
input query from the single letter
amino acid code input file
"pdb_seqres.txt", obtained from
the Protein Data Bank. The search tool
consists of the following four modules:
(a) Amino acid
composition and molecular weight
(b) Molecular
Weight Range
(c) Pattern Matching
(Identity)
(d) Pattern Matching
(Similarity)
Depending upon the search category,
the search tool will search the
protein sequence database (updated
every week from the Protein Data
Bank , USA) resided in our Bioinformatics
Server and will display the
related search results to the client
browser. Further, developmental
work on this search tool is in progress.
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