hazelnut.blast.mocklerlab.org
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Submitted URL: http://hazelnut.blast.mocklerlab.org/
Effective URL: https://hazelnut.blast.mocklerlab.org/
Submission: On June 21 via api from NL — Scanned from NL
Effective URL: https://hazelnut.blast.mocklerlab.org/
Submission: On June 21 via api from NL — Scanned from NL
Form analysis 1 forms found in the DOM
Name: blastForm — POST blastresult.php
<form enctype="multipart/form-data" name="blastForm" action="blastresult.php" method="post">
<div class="box">
<div id="title">
<span><strong>Basic Search - using default BLAST parameter settings</strong></span>
</div>
<p>Enter query sequences here in <a href="docs/parameters.html#format">Fasta format</a></p>
<p><textarea name="querySeq" rows="6" cols="66"></textarea></p>
<p>Or upload sequence fasta file: <input type="file" name="queryfile"></p>
<p>
<table border="0" style="font-size: 12px">
<tbody>
<tr>
<td valign="top">
<a href="docs/blast_program.html">Program</a> <select id="programList" name="program" onchange="changeDBList(this.value, this.form.dbList, dblib[programNode.value]); changeParameters(this.value, 'adv_parameters');">
<option value="blastn" selected="">blastn </option>
<option value="blastp">blastp </option>
<option value="blastx">blastx </option>
<option value="tblastn">tblastn </option>
<option value="tblastx">tblastx </option>
</select>
</td>
<td valign="top"> <a href="docs/blast_databases.html">Database(s) </a>
</td>
<td>
<input type="hidden" name="blastpath" value=" /bin"><input id="blastn" type="hidden" name="blastdb[]"
value="C.avellana=>Corylus avellana genome database,C.avellana.transcripts=>Corylus avellana transcript database,C.avellana.CDS=>Corylus avellana CDS sequence database"><input id="blastp" type="hidden" name="blastdb[]"
value="test_aa_db=>Protein test database"><input id="blastx" type="hidden" name="blastdb[]" value="test_aa_db=>Protein test database"><input id="tblastn" type="hidden" name="blastdb[]" value="test_na_db=>Nucleotide test database"><input
id="tblastx" type="hidden" name="blastdb[]" value="test_na_db=>Nucleotide test database"><select id="dbList" size="4" multiple="multiple" name="patientIDarray[]">
<option value="C.avellana">Corylus avellana genome database</option>
<option value="C.avellana.transcripts">Corylus avellana transcript database</option>
<option value="C.avellana.CDS">Corylus avellana CDS sequence database</option>
</select>
</td>
</tr>
</tbody>
</table>
</p>
<p>And/or upload sequence fasta file: <input type="file" name="blastagainstfile"></p>
<input type="hidden" name="blast_flag" value="1">
<p><input type="button" name="bblast" value="Basic search" onclick="checkform(this.form, this.value)"> <input type="reset" value="Reset" onclick="window.location.reload();"></p>
<div id="title">
<span><strong>Advanced Search - setting your favorite parameters below</strong></span>
</div>
<div id="adv_parameters">
<div class="row"><span class="label"><a href="docs/parameters.html#expect">Expect threshold</a></span><span class="formw"><input type="text" name="expect" id="expect" size="10"></span></div>
<div class="row"><span class="label"><a href="docs/parameters.html#wordsize">Word size</a></span><span class="formw"><select name="wordSize">
<option value="7">7</option>
<option value="11">11</option>
<option value="15">15</option>
</select></span></div>
<div class="row"><span class="label"><a href="docs/parameters.html#targetseqs">Max target sequences</a></span><span class="formw"><select name="targetSeqs">
<option value="10">10</option>
<option value="50">50</option>
<option value="100">100</option>
<option value="250">250</option>
<option value="500">500</option>
<option value="1000">1000</option>
<option value="5000">5000</option>
<option value="10000">10000</option>
</select></span></div>
<div class="row"><span class="label"><a href="docs/parameters.html#mmscore">Match/Mismatch scores</a></span><span class="formw"><select name="mmScore">
<option value="1,-1">1,-1</option>
<option value="1,-2">1,-2</option>
<option value="1,-3">1,-3</option>
<option value="1,-4">1,-4</option>
<option value="2,-3">2,-3</option>
<option value="4,-5">4,-5</option>
</select></span></div>
<div class="row"><span class="label"><a href="docs/parameters.html#gapcost">Gap costs</a></span><span class="formw"><select name="gapCost" id="gapCost">
<option value="Existence: 5, Extension: 2">Existence: 5, Extension: 2</option>
<option value="Existence: 4, Extension: 4">Existence: 4, Extension: 4</option>
<option value="Existence: 2, Extension: 4">Existence: 2, Extension: 4</option>
<option value="Existence: 0, Extension: 4">Existence: 0, Extension: 4</option>
<option value="Existence: 3, Extension: 3">Existence: 3, Extension: 3</option>
<option value="Existence: 6, Extension: 2">Existence: 6, Extension: 2</option>
<option value="Existence: 4, Extension: 2">Existence: 4, Extension: 2</option>
<option value="Existence: 2, Extension: 2">Existence: 2, Extension: 2</option>
</select></span></div>
<div class="row"><span class="label"><a href="docs/parameters.html#filter">Filter</a></span><span class="formw"><input type="checkbox" name="filter" value="T">Low complexity regions</span></div>
<div class="row"><span class="label"><a href="docs/parameters.html#lookup">Mask</a></span><span class="formw"><input type="checkbox" name="softMask" value="m">Mask for lookup table only <input type="checkbox" name="lowerCaseMask" value="L">Mask
for lower case letters</span></div>
<div class="row"><span class="label"><a href="docs/parameters.html#gapalign">Alignment</a></span><span class="formw"><input type="checkbox" name="ungapAlign" value="T">Perform ungapped alignment</span></div>
<div class="row"><span class="label"><a href="docs/parameters.html#outfmt">Alignment output format</a></span><span class="formw"><select name="outFmt">
<option value="0">pairwise</option>
<option value="1">query-anchored with identities</option>
<option value="2">query-anchored without identities</option>
<option value="3">flat query-anchored with identities</option>
<option value="4">flat query-anchored without identities</option>
<option value="5">XML BLAST output</option>
<option value="6">tabular</option>
<option value="7">tabular with comment lines</option>
</select></span></div>
<div class="row"><span class="label"><a href="docs/parameters.html#other">Other parameters</a></span><span class="formw"><input type="text" name="OTHER_ADVANCED" id="OTHER_ADVANCED" size="30"></span></div>
</div>
<p><input type="button" name="ablast" value="Advanced search" onclick="checkform(this.form, this.value)"> <input type="reset" value="Reset" onclick="window.location.reload();"></p>
</div>
</form>Text Content
C. avellana 'Jefferson' FTP and BLAST Home About ViroBLAST Help FTP Basic Search - using default BLAST parameter settings Enter query sequences here in Fasta format Or upload sequence fasta file: Program blastn blastp blastx tblastn tblastx Database(s) Corylus avellana genome databaseCorylus avellana transcript databaseCorylus avellana CDS sequence database And/or upload sequence fasta file: Advanced Search - setting your favorite parameters below Expect threshold Word size71115 Max target sequences10501002505001000500010000 Match/Mismatch scores1,-11,-21,-31,-42,-34,-5 Gap costsExistence: 5, Extension: 2Existence: 4, Extension: 4Existence: 2, Extension: 4Existence: 0, Extension: 4Existence: 3, Extension: 3Existence: 6, Extension: 2Existence: 4, Extension: 2Existence: 2, Extension: 2 FilterLow complexity regions MaskMask for lookup table only Mask for lower case letters AlignmentPerform ungapped alignment Alignment output formatpairwisequery-anchored with identitiesquery-anchored without identitiesflat query-anchored with identitiesflat query-anchored without identitiesXML BLAST outputtabulartabular with comment lines Other parameters © 2005-2010 University of Washington. All rights reserved. Terms of Service