GenomeDB/mydata/themes/hardwood/templates/blast/blast_protein_user_menupage.tpl.php

<p>In bioinformatics, BLAST (Basic Local Alignment Search Tool) is an algorithm
    for comparing primary biological sequence information, such as the
    amino-acid
    sequences of different proteins or the nucleotides of DNA sequences. A BLAST
    search enables a researcher to compare a query sequence with a library or
    database of sequences, and identify library sequences that resemble the
    query
    sequence above a certain threshold. Different types of BLASTs are available
    according to the query sequences. For example, following the discovery of a
    previously unknown gene in the mouse, a scientist will typically perform a
    BLAST search of the human genome to see if humans carry a similar gene;
    BLAST will identify sequences in the human genome that resemble the mouse
    gene based on similarity of sequence.</p>

<blockquote>Altschul,S.F., Gish,W., Miller,W., Myers,E.W. and Lipman,D.J. (1990)
    Basic
    local alignment search tool. J. Mol. Biol., 215, 403–410.
</blockquote>

<h3> BLAST Search </h3>
<p>
    Search for one or more of your sequences (using BLAST). First pick
    a query type (nucleotide or protein). You will be able to set search
    parameters on the next page. Choose the appropriate program based on the
    Query type and Target
    database type. Please click on the program name to view the search form.
<p>

<table class="table table-bordered">
    <tr>
        <th>Query Type</th>
        <th>Database Type</th>
        <th>BLAST Program</th>
        <th>Action</th>
    </tr>
    <tr>
        <td rowspan="2">Nucleotide</td>
        <td>Nucleotide</td>
        <td><?php print l('blastn', './blast/nucleotide/nucleotide'); ?>:
            Search a nucleotide database using a nucleotide query.
        </td>
        <td>
          <?php print l('Launch blastn', './blast/nucleotide/nucleotide', [
            'attributes' => [
              'class' => ['btn btn-primary btn-block'],
            ],
          ]); ?>
        </td>
    </tr>
    <tr>
        <td>Protein</td>
        <td><?php print l('blastx', './blast/nucleotide/protein'); ?>:
            Search protein database using a translated nucleotide query.
        </td>
        <td>
          <?php print l('Launch blastx', './blast/nucleotide/protein', [
            'attributes' => [
              'class' => ['btn btn-primary btn-block'],
            ],
          ]); ?>
        </td>
    </tr>
    <tr>
        <td rowspan="2">Protein</td>
        <td>Nucleotide</td>
        <td><?php print l('tblastn', './blast/protein/nucleotide'); ?>:
            Search translated nucleotide database using a protein query.
        </td>
        <td>
          <?php print l('Launch tblastn', './blast/protein/nucleotide', [
            'attributes' => [
              'class' => ['btn btn-primary btn-block'],
            ],
          ]); ?>
        </td>
    </tr>
    <tr>
        <td>Protein</td>
        <td><?php print l('blastp', './blast/protein/protein'); ?>:
            Search protein database using a protein query.
        </td>
        <td>
          <?php print l('Launch blastp', './blast/protein/protein', [
            'attributes' => [
              'class' => ['btn btn-primary btn-block'],
            ],
          ]); ?>
        </td>
    </tr>
</table>

<?php print theme('blast_recent_jobs', ['tblastn', 'blastp']); ?>