blast2html: NCBI Blast reference example.html comparison

comparison NCBI Blast reference example.html @ 31:344cd76f6fd2

rename NCBI reference example

author	Jan Kanis <jan.code@jankanis.nl>
date	Thu, 15 May 2014 16:59:18 +0200
parents	Blast output page example.html@bad241dc701f
children

comparison

equal deleted inserted replaced

-:2143f62809d0
+:344cd76f6fd2
+<!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN" "http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd">
+<html xmlns="http://www.w3.org/1999/xhtml"><head>
+<meta http-equiv="Content-Type" content="text/html; charset=UTF-8">
+<meta http-equiv="X-UA-Compatible" content="IE=edge,chrome=1">
+<meta name="jig" content="ncbitoggler ncbiautocomplete ncbilocalnav ncbigrid ncbipopper">
+<meta name="ncbitoggler" content="animation:'none'">
+<meta name="ncbipopper" content="animation:'none',closeEvent: 'click',openEvent: 'click',destPosition: 'top right',triggerPosition: 'bottom right'">
+<meta name="ncbi_app" content="blast">
+<meta name="ncbi_pdid" content="blastresults">
+<meta name="ncbi_stat" content="false">
+<meta name="ncbi_sessionid" content="8A8E11EE2CABF371_0000SID">
+<meta name="ncbi_phid" content="5AAB74D7368F2C81000000000000C9C8">
+<script type="text/javascript"> var ncbi_startTime = new Date(); </script>
+<title>NCBI Blast:Nucleotide Sequence (16 letters)</title>
+<script type="text/javascript" src="NCBI%20Blast%20reference%20example_files/jig.js"></script><link rel="stylesheet" type="text/css" href="NCBI%20Blast%20reference%20example_files/jig.css"><script type="text/javascript" src="NCBI%20Blast%20reference%20example_files/jquery_002.js"></script><link type="text/css" rel="stylesheet" href="NCBI%20Blast%20reference%20example_files/jquery_005.css"><script type="text/javascript" src="NCBI%20Blast%20reference%20example_files/jquery_004.js"></script><link type="text/css" rel="stylesheet" href="NCBI%20Blast%20reference%20example_files/jquery_004.css"><script type="text/javascript" src="NCBI%20Blast%20reference%20example_files/jquery_007.js"></script><link type="text/css" rel="stylesheet" href="NCBI%20Blast%20reference%20example_files/jquery_003.css"><script type="text/javascript" src="NCBI%20Blast%20reference%20example_files/jquery.js"></script><link type="text/css" rel="stylesheet" href="NCBI%20Blast%20reference%20example_files/jquery_007.css"><script type="text/javascript" src="NCBI%20Blast%20reference%20example_files/jquery_003.js"></script><link type="text/css" rel="stylesheet" href="NCBI%20Blast%20reference%20example_files/jquery_008.css"><script type="text/javascript" src="NCBI%20Blast%20reference%20example_files/jquery_008.js"></script><script type="text/javascript" src="NCBI%20Blast%20reference%20example_files/jquery_005.js"></script><link type="text/css" rel="stylesheet" href="NCBI%20Blast%20reference%20example_files/jquery.css"><script type="text/javascript" src="NCBI%20Blast%20reference%20example_files/jquery_009.js"></script><link type="text/css" rel="stylesheet" href="NCBI%20Blast%20reference%20example_files/jquery_006.css"><script type="text/javascript" src="NCBI%20Blast%20reference%20example_files/jquery_006.js"></script><link type="text/css" rel="stylesheet" href="NCBI%20Blast%20reference%20example_files/jquery_002.css">
+<script type="text/javascript">    jQuery.getScript("/core/alerts/alerts.js", function() {
+galert(['div#header', 'body > *:nth-child(1)'])
+});</script>
+<link rel="stylesheet" type="text/css" href="NCBI%20Blast%20reference%20example_files/main.css" media="screen">
+<link rel="stylesheet" type="text/css" href="NCBI%20Blast%20reference%20example_files/blastRes.css" media="screen">
+<!--[if IE]>
+<link rel="stylesheet" type="text/css" href="css/descriptionsIE.css" media="screen" />
+<![endif]-->
+<link rel="stylesheet" type="text/css" href="NCBI%20Blast%20reference%20example_files/print.css" media="print">
+<!--[if lte IE 6]>
+<link rel="stylesheet" type="text/css" href="css/ie6_or_less.css" />
+<![endif]-->
+<link rel="stylesheet" type="text/css" href="NCBI%20Blast%20reference%20example_files/blastReq.css" media="screen">
+<link rel="stylesheet" type="text/css" href="NCBI%20Blast%20reference%20example_files/results.css" media="screen">
+<link rel="stylesheet" type="text/css" href="NCBI%20Blast%20reference%20example_files/dynFormatRes.css" media="screen">
+<style media="print" type="text/css">.print-log { position:absolute;left:-10000px;top:auto;width:1px;height:1px;overflow:hidden; }.print-log li { list-style-image: url('/stat?jsevent=print&ncbi_app=blast&ncbi_pdid=blastresults&ncbi_phid=5AAB74D7368F2C81000000000000C9C8'); }</style><style type="text/css">.print-log { position:absolute;left:-10000px;top:auto;width:1px;height:1px;overflow:hidden; }</style></head>
+<body id="type-a" class="noToggleCheck ">
+<div id="wrap">
+			<div id="header">
+		<div id="site-name"><a id="logolink" href="http://www.ncbi.nlm.nih.gov/" title="NCBI Home Page"><img src="NCBI%20Blast%20reference%20example_files/helix.gif" alt="NCBI Logo" title="Link to NCBI Home Page"></a>BLAST <span id="trdm"> ®</span><h1 class="desc">Basic Local Alignment Search Tool</h1>
+		</div>
+		<div id="search">
+<div>
+<script language="JavaScript" type="text/javascript"><!--
+// --></script><table class="medium1" style="border:2px solid #336699;" id="myncbi_off" cellpadding="2" cellspacing="0"><tbody><tr><td align="left" bgcolor="#336699"><a href="http://www.ncbi.nlm.nih.gov/myncbi/?"><font color="#FFFFFF"><b>My NCBI</b></font></a></td><td align="right" bgcolor="#336699"><a href="http://www.ncbi.nlm.nih.gov/books/NBK3842/" title="My NCBI help"><img src="NCBI%20Blast%20reference%20example_files/myncbihelpicon.gif" alt="My NCBI help" border="0"></a></td></tr><tr><td colspan="2" nowrap="nowrap"><a href="http://www.ncbi.nlm.nih.gov/account/?back_url=http%3A%2F%2Fblast%2Encbi%2Enlm%2Enih%2Egov%2FBlast%2Ecgi%3FADJUSTED%5FFOR%5FSHORT%5FQUERY%3Don%26ALIGNMENTS%3D100%26ALIGNMENT%5FVIEW%3DPairwise%26BLAST%5FPROGRAMS%3Dblastn%26CLIENT%3Dweb%26CMD%3DGet%26COMPOSITION%5FBASED%5FSTATISTICS%3D0%26CONFIG%5FDESCR%3D2%2C3%2C4%2C5%2C6%2C7%2C8%26DATABASE%3Dpdb%26DBTYPE%3Dgc%26DEFAULT%5FPROG%3DmegaBlast%26DESCRIPTIONS%3D100%26DYNAMIC%5FFORMAT%3Don%26EQ%5FOP%3DAND%26EXPECT%3D1000%26FORMAT%5FNUM%5FORG%3D1%26FORMAT%5FOBJECT%3DAlignment%26FORMAT%5FTYPE%3DHTML%26FULL%5FDBNAME%3Dpdb%26GAPCOSTS%3D5%2B2%26GET%5FSEQUENCE%3Don%26HSP%5FRANGE%5FMAX%3D0%26JOB%5FTITLE%3DNucleotide%2BSequence%2B%2816%2Bletters%29%26LAYOUT%3DOneWindow%26LINE%5FLENGTH%3D60%26MASK%5FCHAR%3D2%26MASK%5FCOLOR%3D1%26MATCH%5FSCORES%3D1%2C%2D3%26MAX%5FNUM%5FSEQ%3D100%26NUCL%5FPENALTY%3D%2D2%26NUCL%5FREWARD%3D1%26NUM%5FDIFFS%3D1%26NUM%5FOPTS%5FDIFFS%3D0%26NUM%5FORG%3D1%26NUM%5FOVERVIEW%3D100%26OLD%5FBLAST%3Dfalse%26OLD%5FVIEW%3Dfalse%26PAGE%3DNucleotides%26PAGE%5FTYPE%3DBlastSearch%26PROGRAM%3Dblastn%26QUERY%5FINFO%3DNucleotide%2BSequence%2B%2816%2Bletters%29%26QUERY%5FLENGTH%3D16%26REPEATS%3Drepeat%5F9606%26RID%3DPHWP1JNZ014%26RTOE%3D42%26SEARCH%5FDB%5FSTATUS%3D42%26SELECTED%5FPROG%5FTYPE%3DmegaBlast%26SERVICE%3Dplain%26SHORT%5FQUERY%5FADJUST%3Don%26SHOW%5FLINKOUT%3Don%26SHOW%5FOVERVIEW%3Don%26USER%5FDEFAULT%5FMATCH%5FSCORES%3D0%26USER%5FDEFAULT%5FPROG%5FTYPE%3DmegaBlast%26USER%5FTYPE%3D2%26WORD%5FSIZE%3D7%26%5FPGR%3D1%26%5FPGR%3D1%26db%3Dnucleotide%26stype%3Dnucleotide" title="Click to sign in" onclick="MyNCBI_auto_submit('http://www.ncbi.nlm.nih.gov/account/?back_url=http%3A%2F%2Fblast%2Encbi%2Enlm%2Enih%2Egov%2FBlast%2Ecgi%3FADJUSTED%5FFOR%5FSHORT%5FQUERY%3Don%26ALIGNMENTS%3D100%26ALIGNMENT%5FVIEW%3DPairwise%26BLAST%5FPROGRAMS%3Dblastn%26CLIENT%3Dweb%26CMD%3DGet%26COMPOSITION%5FBASED%5FSTATISTICS%3D0%26CONFIG%5FDESCR%3D2%2C3%2C4%2C5%2C6%2C7%2C8%26DATABASE%3Dpdb%26DBTYPE%3Dgc%26DEFAULT%5FPROG%3DmegaBlast%26DESCRIPTIONS%3D100%26DYNAMIC%5FFORMAT%3Don%26EQ%5FOP%3DAND%26EXPECT%3D1000%26FORMAT%5FNUM%5FORG%3D1%26FORMAT%5FOBJECT%3DAlignment%26FORMAT%5FTYPE%3DHTML%26FULL%5FDBNAME%3Dpdb%26GAPCOSTS%3D5%2B2%26GET%5FSEQUENCE%3Don%26HSP%5FRANGE%5FMAX%3D0%26JOB%5FTITLE%3DNucleotide%2BSequence%2B%2816%2Bletters%29%26LAYOUT%3DOneWindow%26LINE%5FLENGTH%3D60%26MASK%5FCHAR%3D2%26MASK%5FCOLOR%3D1%26MATCH%5FSCORES%3D1%2C%2D3%26MAX%5FNUM%5FSEQ%3D100%26NUCL%5FPENALTY%3D%2D2%26NUCL%5FREWARD%3D1%26NUM%5FDIFFS%3D1%26NUM%5FOPTS%5FDIFFS%3D0%26NUM%5FORG%3D1%26NUM%5FOVERVIEW%3D100%26OLD%5FBLAST%3Dfalse%26OLD%5FVIEW%3Dfalse%26PAGE%3DNucleotides%26PAGE%5FTYPE%3DBlastSearch%26PROGRAM%3Dblastn%26QUERY%5FINFO%3DNucleotide%2BSequence%2B%2816%2Bletters%29%26QUERY%5FLENGTH%3D16%26REPEATS%3Drepeat%5F9606%26RID%3DPHWP1JNZ014%26RTOE%3D42%26SEARCH%5FDB%5FSTATUS%3D42%26SELECTED%5FPROG%5FTYPE%3DmegaBlast%26SERVICE%3Dplain%26SHORT%5FQUERY%5FADJUST%3Don%26SHOW%5FLINKOUT%3Don%26SHOW%5FOVERVIEW%3Don%26USER%5FDEFAULT%5FMATCH%5FSCORES%3D0%26USER%5FDEFAULT%5FPROG%5FTYPE%3DmegaBlast%26USER%5FTYPE%3D2%26WORD%5FSIZE%3D7%26%5FPGR%3D1%26%5FPGR%3D1%26db%3Dnucleotide%26stype%3Dnucleotide');return false;">[Sign In]</a> <a href="http://www.ncbi.nlm.nih.gov/account/register/?back_url=http%3A%2F%2Fblast%2Encbi%2Enlm%2Enih%2Egov%2FBlast%2Ecgi%3FADJUSTED%5FFOR%5FSHORT%5FQUERY%3Don%26ALIGNMENTS%3D100%26ALIGNMENT%5FVIEW%3DPairwise%26BLAST%5FPROGRAMS%3Dblastn%26CLIENT%3Dweb%26CMD%3DGet%26COMPOSITION%5FBASED%5FSTATISTICS%3D0%26CONFIG%5FDESCR%3D2%2C3%2C4%2C5%2C6%2C7%2C8%26DATABASE%3Dpdb%26DBTYPE%3Dgc%26DEFAULT%5FPROG%3DmegaBlast%26DESCRIPTIONS%3D100%26DYNAMIC%5FFORMAT%3Don%26EQ%5FOP%3DAND%26EXPECT%3D1000%26FORMAT%5FNUM%5FORG%3D1%26FORMAT%5FOBJECT%3DAlignment%26FORMAT%5FTYPE%3DHTML%26FULL%5FDBNAME%3Dpdb%26GAPCOSTS%3D5%2B2%26GET%5FSEQUENCE%3Don%26HSP%5FRANGE%5FMAX%3D0%26JOB%5FTITLE%3DNucleotide%2BSequence%2B%2816%2Bletters%29%26LAYOUT%3DOneWindow%26LINE%5FLENGTH%3D60%26MASK%5FCHAR%3D2%26MASK%5FCOLOR%3D1%26MATCH%5FSCORES%3D1%2C%2D3%26MAX%5FNUM%5FSEQ%3D100%26NUCL%5FPENALTY%3D%2D2%26NUCL%5FREWARD%3D1%26NUM%5FDIFFS%3D1%26NUM%5FOPTS%5FDIFFS%3D0%26NUM%5FORG%3D1%26NUM%5FOVERVIEW%3D100%26OLD%5FBLAST%3Dfalse%26OLD%5FVIEW%3Dfalse%26PAGE%3DNucleotides%26PAGE%5FTYPE%3DBlastSearch%26PROGRAM%3Dblastn%26QUERY%5FINFO%3DNucleotide%2BSequence%2B%2816%2Bletters%29%26QUERY%5FLENGTH%3D16%26REPEATS%3Drepeat%5F9606%26RID%3DPHWP1JNZ014%26RTOE%3D42%26SEARCH%5FDB%5FSTATUS%3D42%26SELECTED%5FPROG%5FTYPE%3DmegaBlast%26SERVICE%3Dplain%26SHORT%5FQUERY%5FADJUST%3Don%26SHOW%5FLINKOUT%3Don%26SHOW%5FOVERVIEW%3Don%26USER%5FDEFAULT%5FMATCH%5FSCORES%3D0%26USER%5FDEFAULT%5FPROG%5FTYPE%3DmegaBlast%26USER%5FTYPE%3D2%26WORD%5FSIZE%3D7%26%5FPGR%3D1%26%5FPGR%3D1%26db%3Dnucleotide%26stype%3Dnucleotide" title="Click to register for an account" onclick="MyNCBI_auto_submit('http://www.ncbi.nlm.nih.gov/account/register/?back_url=http%3A%2F%2Fblast%2Encbi%2Enlm%2Enih%2Egov%2FBlast%2Ecgi%3FADJUSTED%5FFOR%5FSHORT%5FQUERY%3Don%26ALIGNMENTS%3D100%26ALIGNMENT%5FVIEW%3DPairwise%26BLAST%5FPROGRAMS%3Dblastn%26CLIENT%3Dweb%26CMD%3DGet%26COMPOSITION%5FBASED%5FSTATISTICS%3D0%26CONFIG%5FDESCR%3D2%2C3%2C4%2C5%2C6%2C7%2C8%26DATABASE%3Dpdb%26DBTYPE%3Dgc%26DEFAULT%5FPROG%3DmegaBlast%26DESCRIPTIONS%3D100%26DYNAMIC%5FFORMAT%3Don%26EQ%5FOP%3DAND%26EXPECT%3D1000%26FORMAT%5FNUM%5FORG%3D1%26FORMAT%5FOBJECT%3DAlignment%26FORMAT%5FTYPE%3DHTML%26FULL%5FDBNAME%3Dpdb%26GAPCOSTS%3D5%2B2%26GET%5FSEQUENCE%3Don%26HSP%5FRANGE%5FMAX%3D0%26JOB%5FTITLE%3DNucleotide%2BSequence%2B%2816%2Bletters%29%26LAYOUT%3DOneWindow%26LINE%5FLENGTH%3D60%26MASK%5FCHAR%3D2%26MASK%5FCOLOR%3D1%26MATCH%5FSCORES%3D1%2C%2D3%26MAX%5FNUM%5FSEQ%3D100%26NUCL%5FPENALTY%3D%2D2%26NUCL%5FREWARD%3D1%26NUM%5FDIFFS%3D1%26NUM%5FOPTS%5FDIFFS%3D0%26NUM%5FORG%3D1%26NUM%5FOVERVIEW%3D100%26OLD%5FBLAST%3Dfalse%26OLD%5FVIEW%3Dfalse%26PAGE%3DNucleotides%26PAGE%5FTYPE%3DBlastSearch%26PROGRAM%3Dblastn%26QUERY%5FINFO%3DNucleotide%2BSequence%2B%2816%2Bletters%29%26QUERY%5FLENGTH%3D16%26REPEATS%3Drepeat%5F9606%26RID%3DPHWP1JNZ014%26RTOE%3D42%26SEARCH%5FDB%5FSTATUS%3D42%26SELECTED%5FPROG%5FTYPE%3DmegaBlast%26SERVICE%3Dplain%26SHORT%5FQUERY%5FADJUST%3Don%26SHOW%5FLINKOUT%3Don%26SHOW%5FOVERVIEW%3Don%26USER%5FDEFAULT%5FMATCH%5FSCORES%3D0%26USER%5FDEFAULT%5FPROG%5FTYPE%3DmegaBlast%26USER%5FTYPE%3D2%26WORD%5FSIZE%3D7%26%5FPGR%3D1%26%5FPGR%3D1%26db%3Dnucleotide%26stype%3Dnucleotide');return false;">[Register]</a></td></tr></tbody></table></div>
+		</div>
+		<a class="skp" href="#content-wrap">Jump to Page Content</a>
+		<ul id="nav">
+<li class="first "><a href="http://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Web&amp;PAGE_TYPE=BlastHome" title="BLAST Home">Home</a></li>
+<li class="recent "><a href="http://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=GetSaved&amp;RECENT_RESULTS=on" title="Unexpired BLAST jobs">Recent Results</a></li>
+<li class="saved "><a href="http://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=GetSaved" title="Saved sets of BLAST search parameters">Saved Strategies</a></li>
+<li class="last documentation "> <a href="http://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Web&amp;PAGE_TYPE=BlastDocs" title="BLAST documentation">Help</a></li>
+</ul>
+</div>
+<div id="content-wrap">
+<div id="breadcrumb" class="inlineDiv">
+<a href="http://www.ncbi.nlm.nih.gov/">NCBI</a>/
+<a href="http://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Web&amp;PAGE_TYPE=BlastHome">BLAST</a>/
+<a href="http://blast.ncbi.nlm.nih.gov/Blast.cgi?PAGE=Nucleotides&amp;PROGRAM=blastn&amp;PAGE_TYPE=BlastSearch&amp;BLAST_SPEC=">blastn suite</a>/
+<strong>Formatting Results - PHWP1JNZ014</strong>
+</div>
+<div class="inlineDiv resHeader resPage">
+</div>
+<ul class="print-log-res"><li></li></ul>
+<!-- CDD info for old design -->
+<div id="content">
+<!--<ul id="msg" class="msg"><li class="info"><p class=""></p><p class=""></p><p class=""></p></li></ul>-->
+<ul id="msg" class="msg"><li class="info"><p class="info">Your search parameters were adjusted to search for a short input sequence.</p></li></ul>
+<a href="#" class="resLink resPage" id="searchOptions" submitform="setSavedOptions">Edit and Resubmit</a>
+<a href="#" class="resLink resPage hidden" id="saveSearchOptions" submitform="saveOptions">Save Search Strategies</a>
+<span class="reslink  resPage">[Sign in above to save your search strategy]</span>
+<a aria-expanded="false" role="button" aria-disabled="false" id="showFormat" class="resLink resPage resArrowLinkB ui-ncbitoggler jig-ncbitoggler ui-widget" data-ncbitoggler-toggles="FormatForm" href="#">
+<span class="ui-ncbitoggler-master-text">Formatting options </span>
+<span class="ui-icon ui-icon-triangle-1-e"></span>
+</a>
+<a aria-expanded="false" role="button" aria-disabled="false" id="showDownload" class="resLink resPage resArrowLinkB jig-ncbitoggler ui-ncbitoggler ui-widget" data-ncbitoggler-toggles="FormatDownload" href="#">
+<span class="ui-ncbitoggler-master-text">Download</span>
+<span class="ui-icon ui-icon-triangle-1-e"></span>
+</a>
+<span id="hnr">
+<a id="ytb" class="ytb " title="External link to YouTube" href="http://www.youtube.com/playlist?list=PLH-TjWpFfWrtjzMCIvUe-YbrlIeFQlKMq" target="lnkPHWP1JNZ014">How to read this page</a>
+<a id="brFtp" class="" title="Blast report description" href="ftp://ftp.ncbi.nlm.nih.gov/pub/factsheets/HowTo_NewBLAST.pdf" target="lnkPHWP1JNZ014">Blast report description</a>
+</span>
+<form action="Blast.cgi" enctype="application/x-www-form-urlencoded" method="POST" id="results">
+<input name="ADJUSTED_FOR_SHORT_QUERY" value="on" type="hidden"><input name="ALIGNMENTS" value="100" type="hidden"><input name="ALIGNMENT_VIEW" value="Pairwise" type="hidden"><input name="BLAST_PROGRAMS" value="blastn" type="hidden"><input name="CLIENT" value="web" type="hidden"><input name="COMPOSITION_BASED_STATISTICS" value="0" type="hidden"><input name="CONFIG_DESCR" value="2,3,4,5,6,7,8" type="hidden"><input name="DATABASE" value="pdb" type="hidden"><input name="DBTYPE" value="gc" type="hidden"><input name="DEFAULT_PROG" value="megaBlast" type="hidden"><input name="DESCRIPTIONS" value="100" type="hidden"><input name="DYNAMIC_FORMAT" value="on" type="hidden"><input name="EQ_OP" value="AND" type="hidden"><input name="EXPECT" value="1000" type="hidden"><input name="FORMAT_NUM_ORG" value="1" type="hidden"><input name="FORMAT_OBJECT" value="Alignment" type="hidden"><input name="FORMAT_TYPE" value="HTML" type="hidden"><input name="FULL_DBNAME" value="pdb" type="hidden"><input name="GAPCOSTS" value="5 2" type="hidden"><input name="GET_SEQUENCE" value="on" type="hidden"><input name="HSP_RANGE_MAX" value="0" type="hidden"><input name="JOB_TITLE" value="Nucleotide Sequence (16 letters)" type="hidden"><input name="LAYOUT" value="OneWindow" type="hidden"><input name="LINE_LENGTH" value="60" type="hidden"><input name="MASK_CHAR" value="2" type="hidden"><input name="MASK_COLOR" value="1" type="hidden"><input name="MATCH_SCORES" value="1,-3" type="hidden"><input name="MAX_NUM_SEQ" value="100" type="hidden"><input name="NUCL_PENALTY" value="-2" type="hidden"><input name="NUCL_REWARD" value="1" type="hidden"><input name="NUM_DIFFS" value="1" type="hidden"><input name="NUM_OPTS_DIFFS" value="0" type="hidden"><input name="NUM_ORG" value="1" type="hidden"><input name="NUM_OVERVIEW" value="100" type="hidden"><input name="OLD_BLAST" value="false" type="hidden"><input name="OLD_VIEW" value="false" type="hidden"><input name="PAGE" value="Nucleotides" type="hidden"><input name="PAGE_TYPE" value="BlastSearch" type="hidden"><input name="PROGRAM" value="blastn" type="hidden"><input name="QUERY_INFO" value="Nucleotide Sequence (16 letters)" type="hidden"><input name="QUERY_LENGTH" value="16" type="hidden"><input name="REPEATS" value="repeat_9606" type="hidden"><input name="RID" value="PHWP1JNZ014" type="hidden"><input name="RTOE" value="42" type="hidden"><input name="SEARCH_DB_STATUS" value="43" type="hidden"><input name="SELECTED_PROG_TYPE" value="megaBlast" type="hidden"><input name="SERVICE" value="plain" type="hidden"><input name="SHORT_QUERY_ADJUST" value="on" type="hidden"><input name="SHOW_LINKOUT" value="on" type="hidden"><input name="SHOW_OVERVIEW" value="on" type="hidden"><input name="USER_DEFAULT_MATCH_SCORES" value="0" type="hidden"><input name="USER_DEFAULT_PROG_TYPE" value="megaBlast" type="hidden"><input name="USER_TYPE" value="2" type="hidden"><input name="WORD_SIZE" value="7" type="hidden"><input name="_PGR" value="2" type="hidden"><input name="db" value="nucleotide" type="hidden"><input name="stype" value="nucleotide" type="hidden">
+<input name="QUERY_INDEX" value="0" type="hidden">
+<input name="_PGR" value="2" type="hidden">
+<input id="seqViewUrl" value="http://www.ncbi.nlm.nih.gov/projects/sviewer" type="hidden">
+<input name="CMD" value="Get" type="hidden">
+</form>
+<!-- Reformat and downlaod for new design -->
+<div class="ui-helper-reset" aria-live="assertive">
+<form aria-hidden="true" action="Blast.cgi" enctype="application/x-www-form-urlencoded" method="post" name="FormatForm" id="FormatForm" class="resbox ui-ncbitoggler-slave  ui-ncbitoggler">
+<table class="options blastn ">
+<tbody><tr>
+<td class="frh" colspan="2">
+<div class="fi">
+<div class="tb">Formatting options</div>
+<input id="onPageReformat" src="NCBI%20Blast%20reference%20example_files/reformat.jpg" class="blastbutton" alt="Reformat" mouseovimg="css/images/reformatOver.jpg" mouseoutimg="css/images/reformat.jpg" mousedownimg="css/images/reformatDown.jpg" mouseupimg="css/images/reformatOver.jpg" border="0" type="image">
+</div>
+</td></tr>
+<tr class="paramSet xgl">
+<td class="hd"><label for="FORMAT_OBJECT">Show</label></td>
+<td>
+<div class="fi">
+<input id="FORMAT_OBJECT" value="Alignment" name="FORMAT_OBJECT" type="hidden">
+<label for="FORMAT_TYPE" id="nft">Alignment as</label>
+<select name="FORMAT_TYPE" id="FORMAT_TYPE" class="reset" defval="HTML">
+<option value="HTML" selected="selected">HTML</option>
+<option value="Text">Plain text</option>
+</select>
+<span id="advView" class="">
+<span class=""><input name="OLD_VIEW" id="OLD_VIEW" class="cb reset" defval="unchecked" false="" type="checkbox">
+<label for="OLD_VIEW">Old View</label></span>
+</span>
+<a class="resetAll" id="resetAll">Reset form to defaults</a>
+<a aria-expanded="false" role="button" aria-disabled="false" class="helplink  jig-ncbitoggler ui-ncbitoggler ui-widget" title="Alignments object formatting help" id="formatHelp" href="#"><span class="ui-ncbitoggler-master-text"><span>[?]</span></span>
+<span class="ui-icon ui-icon-triangle-1-e"></span></a>
+<div class="ui-helper-reset" aria-live="assertive">
+<p aria-hidden="true" class="helpbox ui-ncbitoggler-slave ui-ncbitoggler" id="hlp1">
+These options control formatting of alignments in results pages. The
+default is HTML, but other formats (including plain text) are available.
+PSSM and PssmWithParameters are representations of Position Specific Scoring Matrices and are only available for PSI-BLAST.
+The Advanced view option allows the database descriptions to be sorted by various indices in a table.
+<a href="http://www.ncbi.nlm.nih.gov/BLAST/blastcgihelp.shtml#format_object" target="helpWin" title="Additional alignments object formatting help">more...</a>
+</p>
+</div><!-- ARIA -->
+</div>
+</td>
+</tr>
+<tr class="odd paramSet">
+<td class="hd"><label for="ALIGNMENT_VIEW">Alignment View</label></td>
+<td>
+<div class="fi">
+<select name="ALIGNMENT_VIEW" id="ALIGNMENT_VIEW" defval="Pairwise" class="reset">
+<option value="Pairwise" selected="selected">Pairwise</option>
+<option value="PairwiseWithIdentities">Pairwise with dots for identities</option>
+<option value="QueryAnchored">Query-anchored with dots for identities</option>
+<option value="QueryAnchoredNoIdentities">Query-anchored with letters for identities</option>
+<option value="FlatQueryAnchored">Flat query-anchored with dots for identities</option>
+<option value="FlatQueryAnchoredNoIdentities">Flat query-anchored with letters for identities</option>
+</select>
+<a aria-expanded="false" role="button" aria-disabled="false" class="helplink  jig-ncbitoggler ui-ncbitoggler ui-widget" title="Alignments view options help" id="alnViewHelp" href="#"><span class="ui-ncbitoggler-master-text"><span>[?]</span></span>
+<span class="ui-icon ui-icon-triangle-1-e"></span></a>
+<div class="ui-helper-reset" aria-live="assertive">
+<p aria-hidden="true" class="helpbox ui-ncbitoggler-slave ui-ncbitoggler" id="hlp2">
+Choose how to view alignments.
+The default "pairwise" view shows how each subject sequence aligns
+individually to the query sequence. The "query-anchored" view shows how
+all subject sequences align to the query sequence. For each view type,
+you can choose to show "identities" (matching residues) as letters or
+dots.
+<a href="http://www.ncbi.nlm.nih.gov/BLAST/blastcgihelp.shtml#alignment_view" target="helpWin" title="Additional alignments view options help">more...</a>
+</p>
+</div><!-- ARIA -->
+</div>
+</td>
+</tr>
+<tr class="paramSet">
+<td class="hd"><label>Display</label></td>
+<td class="cb">
+<div class="fi">
+<input name="SHOW_OVERVIEW" id="SHOW_OVERVIEW" class="cb reset" defval="checked" checked="checked" type="checkbox">
+<label class="rb" for="SHOW_OVERVIEW">Graphical Overview</label>
+<span class="hidden" id="shl">
+<input name="SHOW_LINKOUT" id="SHOW_LINKOUT" class="cb reset" defval="checked" checked="checked" type="checkbox">
+<label class="rb" for="SHOW_LINKOUT">Linkout</label>
+</span>
+<span class="hidden" id="gts">
+<input name="GET_SEQUENCE" id="GET_SEQUENCE" class="cb reset" defval="checked" checked="checked" type="checkbox">
+<label class="rb" for="GET_SEQUENCE">Sequence Retrieval</label>
+</span>
+<input name="NCBI_GI" id="NCBI_GI" class="cb reset" defval="unchecked" type="checkbox">
+<label class="rb" for="NCBI_GI">NCBI-gi</label>
+<span id="scf">
+<input name="SHOW_CDS_FEATURE" id="SHOW_CDS_FEATURE" class="cb reset blastn" defval="unchecked" type="checkbox">
+<label for="SHOW_CDS_FEATURE" class="blastn">CDS feature</label>
+</span>
+<a aria-expanded="false" role="button" aria-disabled="false" class="helplink  jig-ncbitoggler ui-ncbitoggler ui-widget" title="Alignments display options help" id="displayHelp" href="#"><span class="ui-ncbitoggler-master-text"><span>[?]</span></span>
+<span class="ui-icon ui-icon-triangle-1-e"></span></a>
+<div class="ui-helper-reset" aria-live="assertive">
+<ul aria-hidden="true" class="helpbox ui-ncbitoggler-slave ui-ncbitoggler" id="hlp3">
+<li>Graphical Overview: Graphical Overview: Show graph of similar sequence regions aligned to  query.
+<a href="http://www.ncbi.nlm.nih.gov/BLAST/blastcgihelp.shtml#show_overview" target="helpWin" title="Graphical Overview help">more...</a>
+</li>
+<li>Database LinkOuts: Show links from matching sequences to entries in specialized NCBI databases.
+<a href="http://www.ncbi.nlm.nih.gov/BLAST/blastcgihelp.shtml#show_linkout" title="LinkOut help" target="helpWin">more...</a>
+</li>
+<li>Sequence Retrieval: Show buttons to download matching sequences.
+<a href="http://www.ncbi.nlm.nih.gov/BLAST/blastcgihelp.shtml#get_sequence" title="Sequence Retrieval help" target="helpWin">more...</a>
+</li>
+<li>NCBI-gi: Show NCBI gi identifiers.
+<a href="http://www.ncbi.nlm.nih.gov/BLAST/blastcgihelp.shtml#ncbi_gi" title="NCBI-gi help" target="helpWin">more...</a>
+</li>
+<li>CDS feature: Show annotated coding region and translation.
+<a href="http://www.ncbi.nlm.nih.gov/BLAST/blastcgihelp.shtml#show_cds_feature" title="CDS feature help" target="helpWin">more...</a>
+</li></ul>
+</div><!-- ARIA -->
+</div>
+</td>
+</tr>
+<tr class="paramSet odd xgl">
+<td class="hd"><label>Masking</label></td>
+<td>
+<div class="fi">
+<label for="MASK_CHAR"> Character: </label>
+<select name="MASK_CHAR" id="MASK_CHAR" class="reset" defval="2">
+<option value="0">X for protein, n for nucleotide</option>
+<option value="2" selected="selected">Lower Case</option>
+</select>
+<label for="MASK_COLOR"> Color:</label>
+<select name="MASK_COLOR" id="MASK_COLOR" class="reset" defval="1">
+<option value="0">Black
+</option>
+<option value="1" selected="selected">Grey
+</option>
+<option value="2">Red
+</option>
+</select>
+<a aria-expanded="false" role="button" aria-disabled="false" class="helplink  jig-ncbitoggler ui-ncbitoggler ui-widget" title="Alignments masking help" id="maskingHelp" href="#"><span class="ui-ncbitoggler-master-text"><span>[?]</span></span>
+<span class="ui-icon ui-icon-triangle-1-e"></span></a>
+<div class="ui-helper-reset" aria-live="assertive">
+<ul aria-hidden="true" class="helpbox ui-ncbitoggler-slave ui-ncbitoggler" id="hlp4">
+<li>Masking Character: Display masked (filtered) sequence regions as
+lower-case or as specific letters (N for nucleotide, P for protein).
+</li>
+<li>Masking Color: Display masked sequence regions in the given color.</li>
+</ul>
+</div><!-- ARIA -->
+</div>
+</td>
+</tr>
+<tr id="lr" class="paramSet xgl">
+<td class="hd"><label>Limit results</label></td>
+<td>
+<div class="fi">
+<label for="FRM_DESCRIPTIONS">Descriptions:</label>
+<select name="DESCRIPTIONS" id="FRM_DESCRIPTIONS" class="reset" defval="100">
+<option value="10">10</option>
+<option value="50">50</option>
+<option value="100" selected="selected">100</option>
+</select>
+<label for="FRM_NUM_OVERVIEW">Graphical overview:</label>
+<select name="NUM_OVERVIEW" id="FRM_NUM_OVERVIEW" class="reset" defval="100">
+<option value="0">0</option>
+<option value="10">10</option>
+<option value="50">50</option>
+<option value="100" selected="selected">100</option>
+</select>
+<span class="hidden" id="frmAln">
+<label for="FRM_ALIGNMENTS">Alignments:</label>
+<select name="ALIGNMENTS" id="FRM_ALIGNMENTS" class="reset" defval="100">
+<option value="0">0</option>
+<option value="10">10</option>
+<option value="50">50</option>
+<option value="100" selected="selected">100</option>
+</select>
+</span>
+<label for="FRM_LINE_LENGTH">Line length:</label>
+<select name="LINE_LENGTH" id="FRM_LINE_LENGTH" class="reset" defval="60">
+<option value="60" selected="selected">60</option>
+<option value="90">90</option>
+<option value="120">120</option>
+<option value="150">150</option>
+</select>
+<a aria-expanded="false" role="button" aria-disabled="false" class="helplink  jig-ncbitoggler ui-ncbitoggler ui-widget" title="Limit number of descriptions/alignments help" id="numHelp" href="#"><span class="ui-ncbitoggler-master-text"><span>[?]</span></span>
+<span class="ui-icon ui-icon-triangle-1-e"></span></a>
+<div class="ui-helper-reset" aria-live="assertive">
+<ul aria-hidden="true" class="helpbox ui-ncbitoggler-slave ui-ncbitoggler" id="hlp5">
+<li>Descriptions: Show short descriptions for up to the given number of  sequences.</li>
+<li>Alignments:  Show alignments for up to the given number of sequences, in order of statistical significance.</li>
+<li>Line lenghth:  ....</li>
+</ul>
+</div><!-- ARIA -->
+</div>
+</td>
+</tr>
+<tr class="paramSet odd xgl ">
+<td class="hd"></td>
+<td>
+<div class="">
+<label for="qorganism">Organism</label>
+<span class="instr">Type common name, binomial, taxid, or group name. Only 20 top taxa will be shown.</span><br>
+<input role="textbox" aria-autocomplete="list" aria-haspopup="true" title="Use up and down arrows to choose an item from the autocomplete." name="FORMAT_ORGANISM" size="55" id="qorganism" value="Enter organism name or id--completions will be suggested" data-jigconfig="dictionary:'taxids_sg'" autocomplete="off" class="jig-ncbiautocomplete reset orgHint" type="text">
+<input name="FORMAT_ORG_EXCLUDE" class="oExclR cb" id="orgExcl" type="checkbox">
+<input value="1" name="FORMAT_NUM_ORG" id="numOrg" type="hidden">
+<label for="orgExcl" class="right">Exclude</label>
+<a href="#" title="Add organism" id="addOrg"><img src="NCBI%20Blast%20reference%20example_files/addOrg.jpg" id="addOrgIm" alt="Add organism" mouseovimg="css/images/addOrgOver.jpg" mouseoutimg="css/images/addOrg.jpg" mousedownimg="css/images/addOrgDown.jpg" mouseupimg="css/images/addOrgOver.jpg" border="0"></a>
+<div id="orgs">
+</div>
+<div class="fi">
+<a aria-expanded="false" role="button" aria-disabled="false" class="helplink  jig-ncbitoggler ui-ncbitoggler ui-widget" title="Limit results by organism help" id="organismHelp" href="#"><span class="ui-ncbitoggler-master-text"><span>[?]</span></span>
+<span class="ui-icon ui-icon-triangle-1-e"></span></a>
+<div class="ui-helper-reset" aria-live="assertive">
+<p aria-hidden="true" class="helpbox ui-ncbitoggler-slave ui-ncbitoggler" id="hlp6">
+Show only sequences from the given organism.
+</p>
+</div><!-- ARIA -->
+</div>
+</div>
+</td>
+</tr>
+<tr class="paramSet xgl ">
+<td class="hd"></td>
+<td>
+<div class="fi">
+<label for="FORMAT_EQ_TEXT">Entrez query:</label>
+<input name="FORMAT_EQ_TEXT" id="FORMAT_EQ_TEXT" size="60" class="reset" type="text">
+<a aria-expanded="false" role="button" aria-disabled="false" class="helplink  jig-ncbitoggler ui-ncbitoggler ui-widget" title="Limit results by Entrez query help" id="entrezHelp" href="#"><span class="ui-ncbitoggler-master-text"><span>[?]</span></span>
+<span class="ui-icon ui-icon-triangle-1-e"></span></a>
+<div class="ui-helper-reset" aria-live="assertive">
+<p aria-hidden="true" class="helpbox ui-ncbitoggler-slave ui-ncbitoggler" id="hlp7">
+Show only those sequences that match the given Entrez query.
+<a href="http://www.ncbi.nlm.nih.gov/BLAST/blastcgihelp.shtml#limit_result" target="helpWin" title="Additional limit results by Entrez query help">more...</a>
+</p>
+</div><!-- ARIA -->
+</div>
+</td>
+</tr>
+<tr class="paramSet odd xgl">
+<td class="hd"></td>
+<td>
+<div class="fi">
+<label for="EXPECT_LOW">Expect Min:</label> <input name="EXPECT_LOW" id="EXPECT_LOW" size="10" class="reset" type="text">
+<label for="EXPECT_HIGH">Expect Max:</label> <input name="EXPECT_HIGH" id="EXPECT_HIGH" size="10" class="reset" type="text">
+<a aria-expanded="false" role="button" aria-disabled="false" class="helplink  jig-ncbitoggler ui-ncbitoggler ui-widget" title="Limit results by expect value range help" id="expectHelp" href="#"><span class="ui-ncbitoggler-master-text"><span>[?]</span></span>
+<span class="ui-icon ui-icon-triangle-1-e"></span></a>
+<div class="ui-helper-reset" aria-live="assertive">
+<p aria-hidden="true" class="helpbox ui-ncbitoggler-slave ui-ncbitoggler" id="hlp8">
+Show only sequences with expect values in the given range.
+<a href="http://www.ncbi.nlm.nih.gov/BLAST/blastcgihelp.shtml#expect_range" target="helpWin" title="Additional limit results by expect value range help">more...</a>
+</p>
+</div><!-- ARIA -->
+</div>
+</td>
+</tr>
+<tr class="paramSet xgl">
+<td class="hd"></td>
+<td>
+<div class="fi">
+<label for="PERC_IDENT_LOW">Percent Identity Min:</label> <input name="PERC_IDENT_LOW" id="PERC_IDENT_LOW" size="10" class="reset" type="text">
+<label for="PERC_IDENT_HIGH">Percent Identity Max:</label> <input name="PERC_IDENT_HIGH" id="PERC_IDENT_HIGH" size="10" class="reset" type="text">
+<a aria-expanded="false" role="button" aria-disabled="false" class="helplink  jig-ncbitoggler ui-ncbitoggler ui-widget" title="Limit results by percent identity range help" id="percIdentHelp" href="#"><span class="ui-ncbitoggler-master-text"><span>[?]</span></span>
+<span class="ui-icon ui-icon-triangle-1-e"></span></a>
+<div class="ui-helper-reset" aria-live="assertive">
+<p aria-hidden="true" class="helpbox ui-ncbitoggler-slave ui-ncbitoggler" id="hlp10">
+Show only sequences with percent identity values in the given range.
+</p>
+</div><!-- ARIA -->
+</div>
+</td>
+</tr>
+<tr class="psiBlast odd paramSet xgl">
+<td class="hd"><label>Format for</label></td>
+<td>
+<div class="fi">
+<input name="RUN_PSIBLAST_FORM" id="RUN_PSIBLAST" class="cb psiBlast" type="checkbox">
+<label class="rb psiBlast" for="RUN_PSIBLAST">PSI-BLAST</label>
+<label for="I_THRESH">with inclusion threshold:</label>
+<input name="I_THRESH" id="I_THRESH" size="10" defval="0.005" type="text">
+<a aria-expanded="false" role="button" aria-disabled="false" class="helplink  jig-ncbitoggler ui-ncbitoggler ui-widget" title="PSI BLAST formatting help" id="psiHelp" href="#"><span class="ui-ncbitoggler-master-text"><span>[?]</span></span>
+<span class="ui-icon ui-icon-triangle-1-e"></span></a>
+<div class="ui-helper-reset" aria-live="assertive">
+<ul aria-hidden="true" class="helpbox ui-ncbitoggler-slave ui-ncbitoggler" id="hlp9">
+<li>Format for PSI-BLAST: The Position-Specific Iterated BLAST
+(PSI-BLAST) program performs iterative searches with a protein query,
+in which sequences found in one round of search are used to build a
+custom score model for the next round.
+<a href="http://www.ncbi.nlm.nih.gov/BLAST/blastcgihelp.shtml#psiblast" target="helpWin" title="Additional PSI BLAST formatting help">more...</a>
+</li>
+<li>Inclusion Threshold: This sets the statistical significance threshold for including a sequence in the model used
+by PSI-BLAST to create the PSSM on the next iteration.</li>
+</ul>
+</div><!-- ARIA -->
+</div>
+</td>
+</tr>
+</tbody></table>
+<input name="ViewReport" value="ViewReport" type="hidden">
+<input name="REFORMAT_REPORT" value="shown" type="hidden">
+<input name="RID" value="PHWP1JNZ014" type="hidden">
+<input name="CDD_RID" value="" type="hidden">
+<input name="CDD_SEARCH_STATE" value="" type="hidden">
+<input name="STEP_NUMBER" value="" id="stepNumber" type="hidden">
+<input name="CMD" value="Get" type="hidden">
+<input name="FORMAT_EQ_OP" value="AND" type="hidden">
+<input name="RESULTS_PAGE_TARGET" id="resPageTarget" value="" type="hidden">
+<!-- <input name="QUERY_INFO" type="hidden" value="Nucleotide Sequence (16 letters)" /> -->
+<!-- <input name="ENTREZ_QUERY" type="hidden" value="" /> -->
+<input name="QUERY_INDEX" value="0" type="hidden">
+<input name="NUM_QUERIES" value="1" type="hidden">
+<input name="PHI_PTTRN_INDEX" value="" type="hidden">
+<input id="cfcDsSave" name="CONFIG_DESCR" value="2,3,4,5,6,7,8" type="hidden">
+<!-- Those params are set in the template (blastn.dat, blastp.dat etc. -->
+<input name="BLAST_PROGRAMS" value="blastn" type="hidden">
+<input name="PAGE" value="Nucleotides" type="hidden">
+<input name="PROGRAM" value="blastn" type="hidden">
+<input name="MEGABLAST" value="" type="hidden">
+<input name="RUN_PSIBLAST" value="" type="hidden">
+<input name="BLAST_SPEC" id="blastSpec" value="" type="hidden">
+<input name="QUERY" value="" type="hidden">
+<input name="JOB_TITLE" value="Nucleotide Sequence (16 letters)" type="hidden">
+<input name="QUERY_TO" value="" type="hidden">
+<input name="QUERY_FROM" value="" type="hidden">
+<input name="EQ_TEXT" value="" type="hidden">
+<input name="ORGN" value="" type="hidden">
+<input name="EQ_MENU" value="" type="hidden">
+<input name="ORG_EXCLUDE" value="" type="hidden">
+<input name="PHI_PATTERN" value="" type="hidden">
+<input name="EXPECT" value="1000" type="hidden">
+<input name="DATABASE" value="pdb" type="hidden">
+<input name="DB_GROUP" value="" type="hidden">
+<input name="SUBGROUP_NAME" value="" type="hidden">
+<input name="GENETIC_CODE" value="" type="hidden">
+<input name="WORD_SIZE" value="7" type="hidden">
+<input name="MATCH_SCORES" value="1,-3" type="hidden">
+<input name="MATRIX_NAME" value="" type="hidden">
+<input name="GAPCOSTS" value="5 2" type="hidden">
+<input name="MAX_NUM_SEQ" id="maxNumSeq" value="100" type="hidden">
+<input name="COMPOSITION_BASED_STATISTICS" value="0" type="hidden">
+<input name="NEWWIN" value="" type="hidden">
+<input name="SHORT_QUERY_ADJUST" value="on" type="hidden">
+<input name="FILTER" value="" type="hidden">
+<input name="REPEATS" value="repeat_9606" type="hidden">
+<input name="ID_FOR_PSSM" value="" type="hidden">
+<input name="EXCLUDE_MODELS" value="" type="hidden">
+<input name="EXCLUDE_SEQ_UNCULT" value="" type="hidden">
+<input name="WP_PROTEINS" value="" type="hidden">
+<input name="SEQ_FROM_TYPE" value="" type="hidden">
+<input name="ENTREZ_QUERY_PRESET" value="" type="hidden">
+<input name="ENTREZ_QUERY_PRESET_EXCL" value="" type="hidden">
+<input name="NUM_ORG" value="1" type="hidden">
+<!-- PSSM -->
+<input name="LCASE_MASK" value="" type="hidden">
+<input name="TEMPLATE_TYPE" value="" type="hidden">
+<input name="TEMPLATE_LENGTH" value="" type="hidden">
+<input name="I_THRESH" value="" type="hidden">
+<input name="PSI_PSEUDOCOUNT" value="" type="hidden">
+<input name="DI_THRESH" id="diThresh" value="" type="hidden">
+<input name="HSP_RANGE_MAX" value="0" type="hidden">
+<input name="ADJUSTED_FOR_SHORT_QUERY" value="on" type="hidden">
+<input name="MIXED_QUERIES" value="" type="hidden">
+<input name="MIXED_DATABASE" id="mixedDb" value="" type="hidden">
+<input name="BUILD_NAME" value="" type="hidden">
+<input name="ORG_DBS" value="" type="hidden">
+</form>
+</div> <!-- aria -->
+<div class="ui-helper-reset" aria-live="assertive">
+<form aria-hidden="true" name="FormatDownload" id="FormatDownload" class="resbox ui-ncbitoggler-slave ui-ncbitoggler">
+<table class="options dwnl ">
+<tbody><tr><td class="frh" colspan="6"><div class="tb">Download</div></td></tr>
+<tr>
+<td id="tdal">
+<div class="dnHeader">Alignment</div>
+<div class="dnLinks">
+<a href="http://blast.ncbi.nlm.nih.gov/Blast.cgi?RESULTS_FILE=on&amp;RID=PHWP1JNZ014&amp;FORMAT_TYPE=Text&amp;FORMAT_OBJECT=Alignment&amp;DESCRIPTIONS=100&amp;ALIGNMENTS=100&amp;CMD=Get">Text</a>
+<a class="xgl" href="http://blast.ncbi.nlm.nih.gov/Blast.cgi?RESULTS_FILE=on&amp;RID=PHWP1JNZ014&amp;FORMAT_TYPE=XML&amp;FORMAT_OBJECT=Alignment&amp;CMD=Get">XML</a>
+<a href="http://blast.ncbi.nlm.nih.gov/Blast.cgi?RESULTS_FILE=on&amp;RID=PHWP1JNZ014&amp;FORMAT_TYPE=ASN.1&amp;FORMAT_OBJECT=Alignment&amp;CMD=Get">ASN.1</a>
+<a id="hitText" href="http://blast.ncbi.nlm.nih.gov/Blast.cgi?RESULTS_FILE=on&amp;RID=PHWP1JNZ014&amp;FORMAT_TYPE=Text&amp;FORMAT_OBJECT=Alignment&amp;ALIGNMENT_VIEW=Tabular&amp;CMD=Get">Hit Table(text)</a>
+<a id="hitCvs" href="http://blast.ncbi.nlm.nih.gov/Blast.cgi?RESULTS_FILE=on&amp;RID=PHWP1JNZ014&amp;FORMAT_TYPE=CSV&amp;FORMAT_OBJECT=Alignment&amp;ALIGNMENT_VIEW=Tabular&amp;CMD=Get">Hit Table(csv)</a>
+</div>
+</td>
+<td class="dnl xgl">
+<div class="dnHeader">Search Strategies</div>
+<div class="dnLinks">
+<a href="http://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=GetSaved&amp;RECENT_RESULTS=on&amp;RID=PHWP1JNZ014&amp;DOWNLOAD_OPTIONS=true">ASN.1</a>
+</div>
+</td>
+<td class="dnl hidden" id="dnPSSMPar">
+<div class="dnHeader">PssmWithParameters</div>
+<div class="dnLinks">
+<a href="http://blast.ncbi.nlm.nih.gov/Blast.cgi?RESULTS_FILE=on&amp;RID=PHWP1JNZ014&amp;FORMAT_TYPE=ASN.1&amp;FORMAT_OBJECT=PSSM_Scoremat&amp;CMD=Get">ASN.1</a>
+</div>
+</td>
+<td>
+<a aria-expanded="false" role="button" aria-disabled="false" class="helplink jig-ncbitoggler ui-ncbitoggler ui-widget" title="Download help" data-ncbitoggler-toggles="hlp11" id="dnHelp" href="#"><span class="ui-ncbitoggler-master-text"><span>[?]</span></span>
+<span class="ui-icon ui-icon-triangle-1-e"></span></a>
+</td>
+</tr>
+</tbody></table>
+<div class="ui-helper-reset" aria-live="assertive">
+<p aria-hidden="true" class="helpbox ui-ncbitoggler-slave ui-ncbitoggler" id="hlp11">
+The Download link provides BLAST output that may be used as input to
+another program.
+This includes parseable formats such as the tabular report or XML as
+well as the Search Strategy files read by the BLAST+ applications.
+More details on the parseable (XML, tabular, and ASN.1) reports can be
+found at
+<a href="http://www.ncbi.nlm.nih.gov/books/NBK21097/" target="helpWin">http://www.ncbi.nlm.nih.gov/books/NBK21097/</a><br>
+<br>
+The following formats are offered under the Alignment section:<br>
+1). "Text". Non-HTML standard BLAST report.<br>
+2). "XML". XML report based upon the DTD at <a href="http://www.ncbi.nlm.nih.gov/data_specs/dtd/NCBI_BlastOutput.dtd" target="helpWin">http://www.ncbi.nlm.nih.gov/data_specs/dtd/NCBI_BlastOutput.dtd</a><br>
+3). "ASN.1" Alignment. This is the alignment written out in Abstract Syntax Notation 1.<br>
+4). "Hit Table(text)". The tabular report as text.<br>
+5). "Hit Table(csv)". The tabular report ready for import into spread-sheet programs like Excel.<br>
+<br>
+The following report is offered under the Search Strategy section:<br>
+1). "ASN.1" Search Strategy. A record of the parameters, query, and
+database used in the search. This file can be used to start a
+stand-alone BLAST search, see
+<a href="http://www.ncbi.nlm.nih.gov/books/NBK1763/#CmdLineAppsManual.I455_BLAST_search_stra" target="helpWin">http://www.ncbi.nlm.nih.gov/books/NBK1763/#CmdLineAppsManual.I455_BLAST_search_stra</a>
+</p>
+</div><!-- ARIA -->
+</form>
+</div> <!-- aria -->
+<form action="Blast.cgi" enctype="application/x-www-form-urlencoded" method="POST" name="overview0">
+<input name="ADJUSTED_FOR_SHORT_QUERY" value="on" type="hidden"><input name="ALIGNMENTS" value="100" type="hidden"><input name="ALIGNMENT_VIEW" value="Pairwise" type="hidden"><input name="BLAST_PROGRAMS" value="blastn" type="hidden"><input name="CLIENT" value="web" type="hidden"><input name="COMPOSITION_BASED_STATISTICS" value="0" type="hidden"><input name="CONFIG_DESCR" value="2,3,4,5,6,7,8" type="hidden"><input name="DATABASE" value="pdb" type="hidden"><input name="DBTYPE" value="gc" type="hidden"><input name="DEFAULT_PROG" value="megaBlast" type="hidden"><input name="DESCRIPTIONS" value="100" type="hidden"><input name="DYNAMIC_FORMAT" value="on" type="hidden"><input name="EQ_OP" value="AND" type="hidden"><input name="EXPECT" value="1000" type="hidden"><input name="FORMAT_NUM_ORG" value="1" type="hidden"><input name="FORMAT_OBJECT" value="Alignment" type="hidden"><input name="FORMAT_TYPE" value="HTML" type="hidden"><input name="FULL_DBNAME" value="pdb" type="hidden"><input name="GAPCOSTS" value="5 2" type="hidden"><input name="GET_SEQUENCE" value="on" type="hidden"><input name="HSP_RANGE_MAX" value="0" type="hidden"><input name="JOB_TITLE" value="Nucleotide Sequence (16 letters)" type="hidden"><input name="LAYOUT" value="OneWindow" type="hidden"><input name="LINE_LENGTH" value="60" type="hidden"><input name="MASK_CHAR" value="2" type="hidden"><input name="MASK_COLOR" value="1" type="hidden"><input name="MATCH_SCORES" value="1,-3" type="hidden"><input name="MAX_NUM_SEQ" value="100" type="hidden"><input name="NUCL_PENALTY" value="-2" type="hidden"><input name="NUCL_REWARD" value="1" type="hidden"><input name="NUM_DIFFS" value="1" type="hidden"><input name="NUM_OPTS_DIFFS" value="0" type="hidden"><input name="NUM_ORG" value="1" type="hidden"><input name="NUM_OVERVIEW" value="100" type="hidden"><input name="OLD_BLAST" value="false" type="hidden"><input name="OLD_VIEW" value="false" type="hidden"><input name="PAGE" value="Nucleotides" type="hidden"><input name="PAGE_TYPE" value="BlastSearch" type="hidden"><input name="PROGRAM" value="blastn" type="hidden"><input name="QUERY_INFO" value="Nucleotide Sequence (16 letters)" type="hidden"><input name="QUERY_LENGTH" value="16" type="hidden"><input name="REPEATS" value="repeat_9606" type="hidden"><input name="RID" value="PHWP1JNZ014" type="hidden"><input name="RTOE" value="42" type="hidden"><input name="SEARCH_DB_STATUS" value="43" type="hidden"><input name="SELECTED_PROG_TYPE" value="megaBlast" type="hidden"><input name="SERVICE" value="plain" type="hidden"><input name="SHORT_QUERY_ADJUST" value="on" type="hidden"><input name="SHOW_LINKOUT" value="on" type="hidden"><input name="SHOW_OVERVIEW" value="on" type="hidden"><input name="USER_DEFAULT_MATCH_SCORES" value="0" type="hidden"><input name="USER_DEFAULT_PROG_TYPE" value="megaBlast" type="hidden"><input name="USER_TYPE" value="2" type="hidden"><input name="WORD_SIZE" value="7" type="hidden"><input name="_PGR" value="2" type="hidden"><input name="db" value="nucleotide" type="hidden"><input name="stype" value="nucleotide" type="hidden">
+<input name="CMD" value="Get" type="hidden">
+<p id="qb"><!--
+QBlastInfoBegin
+	Status=READY
+QBlastInfoEnd
+--></p>
+<div id="page">
+<div id="summary" class="">
+<div id="ht"></div>
+<h1>Nucleotide Sequence (16 letters) <span id="hdTitle" class="shownInl"></span></h1>
+<div>
+<div id="multipleSeqs" class="hidden">
+<label for="queryList">Results for:</label>
+<select id="queryList" name="queryList">
+<option value="0" selected="selected" class="">lcl|59987 None(16bp)</option>
+</select>
+<a aria-expanded="false" role="button" aria-disabled="false" class="helplink jig-ncbitoggler ui-ncbitoggler ui-widget" data-ncbitoggler-toggles="queryInfo" title="Multiple quries help" id="queryHelp" href="#"><span class="ui-ncbitoggler-master-text"><span>[?]</span></span>
+<span class="ui-icon ui-icon-triangle-1-e"></span></a>
+</div><!--/#multipleSeqs"-->
+<div class="ui-helper-reset" aria-live="assertive">
+<p aria-hidden="true" id="queryInfo" class="helpbox ui-ncbitoggler-slave ui-ncbitoggler">
+Your BLAST job specified more than one input sequence.
+This box lets you choose which input sequence to show BLAST results for.
+</p>
+</div><!-- ARIA -->
+</div>
+<div id="summarylists">
+<dl>
+<dt>RID</dt>
+<dd>
+<a title="BLAST search request ID" href="http://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Get&amp;RID=PHWP1JNZ014" target="lnkPHWP1JNZ014">PHWP1JNZ014</a> (Expires on 05-07 22:33 pm)
+</dd>
+</dl>
+<div id="querysummary">
+<dl>
+<dt>Query ID</dt>
+<dd class="hidden">
+<a title="Find query in Entrez" href="http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=Search&amp;db=nucleotide&amp;term=59987&amp;dopt=GenBank" target="lnkPHWP1JNZ014">lcl|59987</a>
+</dd>
+<dd class="">lcl|59987</dd>
+<dt>Description</dt>
+<dd>None</dd>
+<dt>Molecule type</dt>
+<dd>nucleic acid</dd>
+<dt>Query Length</dt>
+<dd>16</dd>
+</dl>
+</div><!--/#querysummary-->
+<div id="dbsummary">
+<dl>
+<dt>   </dt><dd>   </dd>
+<dt>Database Name</dt>
+<dd>pdb</dd>
+<dt>Description</dt>
+<dd>PDB nucleotide database <a aria-expanded="false" role="button" aria-disabled="false" href="#" title="See multiple databases detailed information" class="jtg resArrowLinkB hidden  jig-ncbitoggler ui-ncbitoggler ui-widget" data-ncbitoggler-toggles="dbDetails" id="showDetails"><span class="ui-ncbitoggler-master-text">See details</span><span class="ui-icon ui-icon-triangle-1-e"></span></a></dd> <!-- -- Database or subject info ---->
+<dt class="xgl">Program</dt>
+<dd class="xgl">BLASTN 2.2.29+ <a aria-expanded="false" role="button" aria-disabled="false" href="#" title="How to cite BLAST in publications" class="resArrowLinkB hidden shown jig-ncbitoggler ui-ncbitoggler jtg ui-widget" data-ncbitoggler-toggles="refInfo" id="showRefs"><span class="ui-ncbitoggler-master-text">Citation</span><span class="ui-icon ui-icon-triangle-1-e"></span></a></dd>
+</dl>
+</div><!--/#dbsummary-->
+</div><!--/#summarylists -->
+<br>
+<div class="ui-helper-reset" aria-live="assertive">
+<div aria-hidden="true" id="dbDetails" class="helpbox ui-ncbitoggler-slave ui-ncbitoggler">
+<!-- multiple databases or subjects table -->
+</div>
+</div> <!-- aria end -->
+<div class="ui-helper-reset" aria-live="assertive">
+<div aria-hidden="true" id="refInfo" class="helpbox ui-ncbitoggler-slave ui-ncbitoggler">
+<a href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&amp;cmd=Retrieve&amp;list_uids=9254694&amp;dopt=Citation">Reference </a>
+<div>Stephen F. Altschul, Thomas L. Madden, Alejandro A. Schäffer,
+Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
+"Gapped BLAST and PSI-BLAST: a new generation of protein database search
+programs", Nucleic Acids Res. 25:3389-3402.</div>
+</div>  <!-- refInfo -->
+</div> <!-- aria end -->
+<div id="seealso">
+<label>Other reports:</label>
+<a aria-expanded="false" role="button" aria-disabled="false" href="#" title="Show statistics" class="resArrowLinkB jtg jig-ncbitoggler ui-ncbitoggler ui-widget" data-ncbitoggler-toggles="resStat" id="showStat"><span class="ui-ncbitoggler-master-text">Search Summary</span><span class="ui-icon ui-icon-triangle-1-e"></span></a>
+<span class="xgl">
+<a id="tax" class="hidden shown" href="http://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Get&amp;RID=PHWP1JNZ014&amp;FORMAT_OBJECT=TaxBlast&amp;NCBI_GI=off&amp;DESCRIPTIONS=100&amp;ALIGNMENTS=100&amp;FORMAT_BLOCK_ON_RESPAGE=Top&amp;MASK_COLOR=1&amp;MASK_CHAR=2" target="lnkPHWP1JNZ014" title="See results arranged by taxonomy">[Taxonomy reports]</a>
+<a href="http://www.ncbi.nlm.nih.gov/blast/treeview/treeView.cgi?request=page&amp;blastRID=PHWP1JNZ014&amp;queryID=lcl%7C59987&amp;entrezLim=&amp;ex=&amp;exl=&amp;exh=&amp;ns=100" class="" id="TreeViewlcl|59987" onclick="ViewTree('TreeViewlcl|59987');return false;" target="lnkPHWP1JNZ014" title="See a distance tree of these pairwise comparisons">[Distance tree of results]</a>
+</span>
+</div> <!-- seealso -->
+<div class="ui-helper-reset" aria-live="assertive">
+<div aria-hidden="true" id="resStat" class="helpbox ui-ncbitoggler-slave ui-ncbitoggler">
+<table id="params" class="dbInfo">
+<caption>Search Parameters</caption>
+<tbody><tr><th><div>Search parameter name</div></th><th><div>Search parameter value</div></th></tr>
+<tr><td>Program</td><td>blastn</td></tr><tr><td>Word size</td><td>7</td></tr><tr><td>Expect value</td><td>1000</td></tr><tr><td>Hitlist size</td><td>100</td></tr><tr><td>Match/Mismatch scores</td><td>1,-3</td></tr><tr><td>Gapcosts</td><td>5,2</td></tr><tr><td>Filter string </td><td>F</td></tr><tr><td>Genetic Code</td><td>1</td></tr>
+</tbody></table>
+<table id="dbStat" class="dbInfo">
+<caption>Database</caption>
+<tbody><tr><th><div>Database parameter name</div></th><th><div>Database parameter value</div></th></tr>
+<tr><td>Posted date</td><td>Apr 29, 2014  3:14 AM</td></tr>
+<tr><td>Number of letters</td><td>885,284</td></tr>
+<tr><td>Number of sequences</td><td>8,975</td></tr>
+<tr><td>Entrez query</td><td>none</td></tr>
+</tbody></table>
+<table id="Kappa" class="dbInfo show xgl">
+<caption>Karlin-Altschul statistics</caption>
+<tbody><tr><th><div>Params</div></th><th><div>Ungapped</div></th><th><div>Gapped</div></th></tr>
+<tr><td>Lambda</td><td>1.37406</td><td>1.37406</td></tr>
+<tr><td>K</td><td>0.710603</td><td>0.710603</td></tr>
+<tr><td>H</td><td>1.30725</td><td>1.30725</td></tr>
+</tbody></table>
+<table class="dbInfo show">
+<caption>Results Statistics</caption>
+<tbody><tr><th><div>Results Statistics parameter name</div></th><th><div>Results Statistics parameter value</div></th></tr>
+<tr><td>Length adjustment</td><td> 11</td></tr><tr><td>Effective length of query</td><td> 5</td></tr><tr><td>Effective length of database</td><td> 786559</td></tr><tr><td>Effective search space</td><td> 3932795</td></tr><tr><td>Effective search space used</td><td> 3932795</td></tr>
+</tbody></table>
+<!-- Results statistics -->
+</div>  <!-- resStat -->
+</div> <!-- aria end -->
+</div><!--/#summary-->
+</div><!--/#page-->
+<iframe id="RSIFrameDesc" class="ifrm shown" name="RSIFrame" noresize="noresize" border="0" cellspacing="0" scrolling="no" marginwidth="0" marginheight="0" src="NCBI%20Blast%20reference%20example_files/plinkcgi.html" title="Primer-BLAST ad" frameborder="0" align="middle"></iframe>
+<div id="grView" class="hidden shown">
+<h2 class="resArr">
+<a aria-expanded="true" role="button" aria-disabled="false" href="#" id="showGraphic" class="jig-ncbitoggler-open ui-ncbitoggler-open ui-widget" data-jigconfig="indicator: 'plus-minus-big'" data-ncbitoggler-toggles="graphicInfo" title="Show/hide Graphic Summary">
+<span class="ui-ncbitoggler-master-text">Graphic Summary</span>
+<span class="ui-icon ui-icon-plus-minus-big-open"></span>
+</a>
+</h2>
+<div class="ui-helper-reset" aria-live="assertive">
+<div aria-hidden="false" id="graphicInfo" class="resBox ui-ncbitoggler-slave-open ui-widget ui-ncbitoggler">
+<div id="graphic" class="hidden shown">
+<h3>Distribution of 45 Blast Hits on the Query Sequence
+<a aria-expanded="false" role="button" aria-disabled="false" class="helplink jig-ncbitoggler ui-ncbitoggler ui-widget" title="Graphic summary help" id="grHelp" href="#"><span class="ui-ncbitoggler-master-text"><span>[?]</span></span>
+<span class="ui-icon ui-icon-triangle-1-e"></span></a></h3>
+<div class="ui-helper-reset" aria-live="assertive">
+<p aria-hidden="true" id="ovrInfo" class="helpbox ui-ncbitoggler-slave ui-ncbitoggler">
+An overview of the database sequences aligned to the query sequence is
+shown. The score of each alignment is indicated by one of five
+different colors, which divides the range of scores into five groups.
+Multiple alignments on the same database sequence are connected
+by a striped line. <span class="hl">Mousing over</span> a hit sequence causes the definition and score to be shown in the window at the top,
+<span class="hl">clicking</span> on a hit sequence takes the user to the associated alignments.
+New:
+This graphic is an overview of database sequences aligned to the query sequence.
+Alignments are color-coded by score, within one of five score ranges.
+Multiple alignments on the same database sequence are connected by a dashed line.
+<span class="hl">Mousing</span> over an alignment shows the alignment definition and score in the box at the top.
+<span class="hl">Clicking</span> an alignment displays the alignment detail.
+</p>
+</div><!-- ARIA -->
+<center><input name="defline" size="85" value="Mouse-over to show defline and scores, click to show alignments" type="text"><table bordercolordark="#0000FF" bordercolorlight="#0000FF" border="1" cellpadding="10" cellspacing="0"><tbody><tr><td align="LEFT" valign="CENTER"><table border="0" cellpadding="0" cellspacing="1"><tbody><tr><td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="50"></td>
+<td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/score.gif" height="40" width="500"></td>
+</tr></tbody></table>
+<table border="0" cellpadding="0" cellspacing="1"><tbody><tr><td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/query_no_scale.gif" height="10" width="550"></td></tr></tbody></table>
+<table border="0" cellpadding="0" cellspacing="0"><tbody><tr><td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="51"></td>
+<td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/scale.gif" height="10" width="2"></td>
+<td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="91"></td>
+<td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/scale.gif" height="10" width="2"></td>
+<td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="91"></td>
+<td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/scale.gif" height="10" width="2"></td>
+<td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="91"></td>
+<td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/scale.gif" height="10" width="2"></td>
+<td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="91"></td>
+<td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/scale.gif" height="10" width="2"></td>
+<td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="91"></td>
+<td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/scale.gif" height="10" width="2"></td>
+</tr></tbody></table>
+<table border="0" cellpadding="0" cellspacing="0"><tbody><tr><td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="50"></td>
+<td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/1.gif" height="13" width="10"></td>
+<td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="83"></td>
+<td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/3.gif" height="13" width="10"></td>
+<td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="83"></td>
+<td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/6.gif" height="13" width="10"></td>
+<td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="83"></td>
+<td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/9.gif" height="13" width="10"></td>
+<td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="73"></td>
+<td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/1.gif" height="13" width="10"></td>
+<td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/2.gif" height="13" width="10"></td>
+<td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="73"></td>
+<td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/1.gif" height="13" width="10"></td>
+<td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/5.gif" height="13" width="10"></td>
+</tr></tbody></table>
+<br><table border="0" cellpadding="0" cellspacing="0"><tbody><tr><td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="50"></td>
+<td align="LEFT" valign="CENTER"><a href="#557804451" onclick='DisplayAlignFromGraphics("557804451",event)'><img alt="score 32" onmouseout="document.overview0.defline.value='Mouse-over to show defline and scores, click to show alignments'" onmouseover="document.overview0.defline.value='3J5A_A Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex I.. S=32 E=0.00079'" src="NCBI%20Blast%20reference%20example_files/black.gif" height="4" border="0" width="500"></a></td>
+</tr></tbody></table>
+<table border="0" cellpadding="0" cellspacing="0"><tbody><tr><td><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="550"></td></tr></tbody></table>
+<table border="0" cellpadding="0" cellspacing="0"><tbody><tr><td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="50"></td>
+<td align="LEFT" valign="CENTER"><a href="#557804395" onclick='DisplayAlignFromGraphics("557804395",event)'><img alt="score 32" onmouseout="document.overview0.defline.value='Mouse-over to show defline and scores, click to show alignments'" onmouseover="document.overview0.defline.value='3J58_A Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex I.. S=32 E=0.00079'" src="NCBI%20Blast%20reference%20example_files/black.gif" height="4" border="0" width="500"></a></td>
+</tr></tbody></table>
+<table border="0" cellpadding="0" cellspacing="0"><tbody><tr><td><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="550"></td></tr></tbody></table>
+<table border="0" cellpadding="0" cellspacing="0"><tbody><tr><td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="50"></td>
+<td align="LEFT" valign="CENTER"><a href="#557804339" onclick='DisplayAlignFromGraphics("557804339",event)'><img alt="score 32" onmouseout="document.overview0.defline.value='Mouse-over to show defline and scores, click to show alignments'" onmouseover="document.overview0.defline.value='3J56_A Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex I.. S=32 E=0.00079'" src="NCBI%20Blast%20reference%20example_files/black.gif" height="4" border="0" width="500"></a></td>
+</tr></tbody></table>
+<table border="0" cellpadding="0" cellspacing="0"><tbody><tr><td><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="550"></td></tr></tbody></table>
+<table border="0" cellpadding="0" cellspacing="0"><tbody><tr><td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="50"></td>
+<td align="LEFT" valign="CENTER"><a href="#557804283" onclick='DisplayAlignFromGraphics("557804283",event)'><img alt="score 32" onmouseout="document.overview0.defline.value='Mouse-over to show defline and scores, click to show alignments'" onmouseover="document.overview0.defline.value='3J54_A Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex I.. S=32 E=0.00079'" src="NCBI%20Blast%20reference%20example_files/black.gif" height="4" border="0" width="500"></a></td>
+</tr></tbody></table>
+<table border="0" cellpadding="0" cellspacing="0"><tbody><tr><td><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="550"></td></tr></tbody></table>
+<table border="0" cellpadding="0" cellspacing="0"><tbody><tr><td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="50"></td>
+<td align="LEFT" valign="CENTER"><a href="#557804227" onclick='DisplayAlignFromGraphics("557804227",event)'><img alt="score 32" onmouseout="document.overview0.defline.value='Mouse-over to show defline and scores, click to show alignments'" onmouseover="document.overview0.defline.value='3J52_A Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex I.. S=32 E=0.00079'" src="NCBI%20Blast%20reference%20example_files/black.gif" height="4" border="0" width="500"></a></td>
+</tr></tbody></table>
+<table border="0" cellpadding="0" cellspacing="0"><tbody><tr><td><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="550"></td></tr></tbody></table>
+<table border="0" cellpadding="0" cellspacing="0"><tbody><tr><td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="50"></td>
+<td align="LEFT" valign="CENTER"><a href="#557804195" onclick='DisplayAlignFromGraphics("557804195",event)'><img alt="score 32" onmouseout="document.overview0.defline.value='Mouse-over to show defline and scores, click to show alignments'" onmouseover="document.overview0.defline.value='3J51_A Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex I.. S=32 E=0.00079'" src="NCBI%20Blast%20reference%20example_files/black.gif" height="4" border="0" width="500"></a></td>
+</tr></tbody></table>
+<table border="0" cellpadding="0" cellspacing="0"><tbody><tr><td><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="550"></td></tr></tbody></table>
+<table border="0" cellpadding="0" cellspacing="0"><tbody><tr><td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="50"></td>
+<td align="LEFT" valign="CENTER"><a href="#557804163" onclick='DisplayAlignFromGraphics("557804163",event)'><img alt="score 32" onmouseout="document.overview0.defline.value='Mouse-over to show defline and scores, click to show alignments'" onmouseover="document.overview0.defline.value='3J50_A Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex I.. S=32 E=0.00079'" src="NCBI%20Blast%20reference%20example_files/black.gif" height="4" border="0" width="500"></a></td>
+</tr></tbody></table>
+<table border="0" cellpadding="0" cellspacing="0"><tbody><tr><td><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="550"></td></tr></tbody></table>
+<table border="0" cellpadding="0" cellspacing="0"><tbody><tr><td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="50"></td>
+<td align="LEFT" valign="CENTER"><a href="#557804083" onclick='DisplayAlignFromGraphics("557804083",event)'><img alt="score 32" onmouseout="document.overview0.defline.value='Mouse-over to show defline and scores, click to show alignments'" onmouseover="document.overview0.defline.value='3J4X_A Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex I.. S=32 E=0.00079'" src="NCBI%20Blast%20reference%20example_files/black.gif" height="4" border="0" width="500"></a></td>
+</tr></tbody></table>
+<table border="0" cellpadding="0" cellspacing="0"><tbody><tr><td><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="550"></td></tr></tbody></table>
+<table border="0" cellpadding="0" cellspacing="0"><tbody><tr><td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="50"></td>
+<td align="LEFT" valign="CENTER"><a href="#485601478" onclick='DisplayAlignFromGraphics("485601478",event)'><img alt="score 16" onmouseout="document.overview0.defline.value='Mouse-over to show defline and scores, click to show alignments'" onmouseover="document.overview0.defline.value='3J3F_5 Chain 5, Structure Of The H. Sapiens 60s Rrna S=16 E=47'" src="NCBI%20Blast%20reference%20example_files/black.gif" height="4" border="0" width="250"></a></td>
+<td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/black.gif" height="6" width="1"></td>
+<td align="LEFT" valign="CENTER"><a href="#485601478" onclick='DisplayAlignFromGraphics("485601478",event)'><img alt="score 18" onmouseout="document.overview0.defline.value='Mouse-over to show defline and scores, click to show alignments'" onmouseover="document.overview0.defline.value='3J3F_5 Chain 5, Structure Of The H. Sapiens 60s Rrna S=18 E=12'" src="NCBI%20Blast%20reference%20example_files/black.gif" height="4" border="0" width="124"></a></td>
+<td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/black.gif" height="6" width="1"></td>
+<td align="LEFT" valign="CENTER"><a href="#485601478" onclick='DisplayAlignFromGraphics("485601478",event)'><img alt="score 16" onmouseout="document.overview0.defline.value='Mouse-over to show defline and scores, click to show alignments'" onmouseover="document.overview0.defline.value='3J3F_5 Chain 5, Structure Of The H. Sapiens 60s Rrna S=16 E=47'" src="NCBI%20Blast%20reference%20example_files/black.gif" height="4" border="0" width="124"></a></td>
+</tr></tbody></table>
+<table border="0" cellpadding="0" cellspacing="0"><tbody><tr><td><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="550"></td></tr></tbody></table>
+<table border="0" cellpadding="0" cellspacing="0"><tbody><tr><td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="50"></td>
+<td align="LEFT" valign="CENTER"><a href="#485601474" onclick='DisplayAlignFromGraphics("485601474",event)'><img alt="score 14" onmouseout="document.overview0.defline.value='Mouse-over to show defline and scores, click to show alignments'" onmouseover="document.overview0.defline.value='3J3E_5 Chain 5, Structure Of The D. Melanogaster 60s Rrna S=14 E=1.9e+02'" src="NCBI%20Blast%20reference%20example_files/black.gif" height="4" border="0" width="219"></a></td>
+<td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/black.gif" height="6" width="1"></td>
+<td align="LEFT" valign="CENTER"><a href="#485601474" onclick='DisplayAlignFromGraphics("485601474",event)'><img alt="score 18" onmouseout="document.overview0.defline.value='Mouse-over to show defline and scores, click to show alignments'" onmouseover="document.overview0.defline.value='3J3E_5 Chain 5, Structure Of The D. Melanogaster 60s Rrna S=18 E=12'" src="NCBI%20Blast%20reference%20example_files/black.gif" height="4" border="0" width="155"></a></td>
+<td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/black.gif" height="6" width="1"></td>
+<td align="LEFT" valign="CENTER"><a href="#485601474" onclick='DisplayAlignFromGraphics("485601474",event)'><img alt="score 16" onmouseout="document.overview0.defline.value='Mouse-over to show defline and scores, click to show alignments'" onmouseover="document.overview0.defline.value='3J3E_5 Chain 5, Structure Of The D. Melanogaster 60s Rrna S=16 E=47'" src="NCBI%20Blast%20reference%20example_files/black.gif" height="4" border="0" width="124"></a></td>
+</tr></tbody></table>
+<table border="0" cellpadding="0" cellspacing="0"><tbody><tr><td><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="550"></td></tr></tbody></table>
+<table border="0" cellpadding="0" cellspacing="0"><tbody><tr><td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="50"></td>
+<td align="LEFT" valign="CENTER"><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="94"></td>
+<td align="LEFT" valign="CENTER"><a href="#357380483" onclick='DisplayAlignFromGraphics("357380483",event)'><img alt="score 18" onmouseout="document.overview0.defline.value='Mouse-over to show defline and scores, click to show alignments'" onmouseover="document.overview0.defline.value='3J0O_8 Chain 8, Core Of Mammalian 80s Pre-Ribosome In Complex .. S=18 E=12'" src="NCBI%20Blast%20reference%20example_files/black.gif" height="4" border="0" width="281"></a></td>
+</tr></tbody></table>
+<table border="0" cellpadding="0" cellspacing="0"><tbody><tr><td><img alt="" src="NCBI%20Blast%20reference%20example_files/white.gif" height="4" width="550"></td></tr></tbody></table>
+</td></tr></tbody></table>
+</center><hr>
+</div><!--/#graphic-->
+</div><!-- graphicInfo -->
+</div><!-- ARIA -->
+</div>
+<!--HITMATRIX_VIEW - only for bl2seq -->
+<div id="dscrView" class="hidden shown">
+<h2 class="resArr">
+<a aria-expanded="true" role="button" aria-disabled="false" href="#" id="showDescr" class="jig-ncbitoggler-open ui-ncbitoggler-open ui-widget" data-jigconfig="indicator: 'plus-minus-big'" data-ncbitoggler-toggles="descrInfo" title="Show/hide Descriptions">
+<span class="ui-ncbitoggler-master-text">Descriptions</span>
+<span class="ui-icon ui-icon-plus-minus-big-open"></span>
+</a>
+</h2>
+<div class="ui-helper-reset" aria-live="assertive">
+<div aria-hidden="false" id="descrInfo" class="resBox ui-ncbitoggler-slave-open ui-widget ui-ncbitoggler">
+<!-- legend to links to other resources -->
+<a name="sort_mark"></a>
+<div id="debug">, Reading indexes 1-5, displaying indexes 1-5</div>
+<input id="Rid" value="PHWP1JNZ014" type="hidden">
+<input id="useAlignDB" name="useAlignDB" value="" type="hidden">
+<input id="dbType" value="GenBank" type="hidden"><!-- Indicates genbank, etc -->
+<input id="serviceType" value="plain" type="hidden">
+<input id="clientType" value="web" type="hidden">
+<input id="currQuery" value="" type="hidden">
+<input id="minDispAlnLen" value="2000" type="hidden">
+<input id="maxDispAlnLen" value="20000" type="hidden">
+<div class="hidden" id="dynHspTmpl"><div class="alnParLinks moreHsps" id="@moreHspsID@"><a class="gbd toolsCtr navNext" title="Load matches @segs@ out of @totalHSP@ for @accs@" onmouseover="scan(this)" ref="range=@segs@&amp;currseq=@alnSeqGi@" onclick="ReadNextHSPSet(@argstring@);"><span>Load next set</span></a><a class="gbd toolsCtr navPrev" title="Go to previous match #@aln_prev_num@ for @accs@" onclick="goToNextHSP(this,false)"><span>Previous Match</span></a></div></div>
+<div id="descriptions" class="blRes">
+<!--<pre> -->
+<div class="cap">Sequences producing significant alignments:</div>
+<a id="shcl" href="#" onclick="showAllCol(event,this)" class="shcl hidden">
+Show all columns <span class="accsb"> of the table presenting sequences producing significant alignments </span>
+</a>
+<span id="cntDesc">
+<span>Select:<a href="#" id="cntSelA" sel="all">All</a><a href="#" id="cntSelN" sel="n">None</a></span>
+<span>Selected:<span id="slcNum">0</span></span>
+</span>
+<div id="descTblCtrl" class="cnf">
+<a href="#alignInfo" id="alnNav" class="toolsCtr alnNav" title="Go to alignments"><span>Alignments</span></a>
+<a aria-haspopup="true" aria-expanded="false" role="button" href="#dsDownload" minslct="1" class="jig-ncbipopper toolsCtr dnld dialog " data-jigconfig="hasArrow:'true',arrowDirection:'top'" id="dscDwnld" disabled="disabled" title="Download information for selected sequences"><span>Download</span></a>
+<div style="top: -100px; left: -100px; display: none;" aria-hidden="true" aria-live="assertive" id="dsDownload" class="popDl ui-helper-reset ui-ncbipopper-wrapper ui-ncbipopper-basic">
+<div class=""><input name="dwn" checked="checked" id="dwFST" fstadwtype="complete" sbfunc="initDownLoadFSTA" type="radio"><label class="shownInl" for="dwFST">FASTA (complete sequence)</label></div>
+<div class=""><input name="dwn" id="dwFSTAl" fstadwtype="range" sbfunc="initDownLoadFSTA" type="radio"><label class="shownInl" for="dwFSTAl">FASTA (aligned sequences)</label></div>
+<div class=""><input name="dwn" id="dwGenBank" getgi="on" sbname="id" url="http://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?db=nuccore&amp;rettype=gb&amp;retmode=text" type="radio"><label class=" shownInl" for="dwGenBank">GenBank (complete sequence)</label></div>
+<div><input name="dwn" id="dwHitText" url="Blast.cgi?RESULTS_FILE=on&amp;RID=PHWP1JNZ014&amp;FORMAT_TYPE=Text&amp;FORMAT_OBJECT=Alignment&amp;ALIGNMENT_VIEW=Tabular&amp;CMD=Get" type="radio"><label class="shownInl" for="dwHitText">Hit Table (text)</label></div>
+<div><input name="dwn" id="dwHitCsv" url="Blast.cgi?RESULTS_FILE=on&amp;RID=PHWP1JNZ014&amp;FORMAT_TYPE=CSV&amp;FORMAT_OBJECT=Alignment&amp;ALIGNMENT_VIEW=Tabular&amp;CMD=Get" type="radio"><label class="shownInl" for="dwHitCsv">Hit Table (CSV)</label></div>
+<div><input name="dwn" id="dwText" url="Blast.cgi?RESULTS_FILE=on&amp;RID=PHWP1JNZ014&amp;FORMAT_TYPE=Text&amp;FORMAT_OBJECT=Alignment&amp;CMD=Get" type="radio"><label class="shownInl" for="dwText">Text</label></div>
+<div><input name="dwn" id="dwXML" url="Blast.cgi?RESULTS_FILE=on&amp;RID=PHWP1JNZ014&amp;FORMAT_TYPE=XML&amp;FORMAT_OBJECT=Alignment&amp;CMD=Get" type="radio"><label class="shownInl" for="dwXML">XML</label></div>
+<div><input name="dwn" id="dwASN" url="Blast.cgi?RESULTS_FILE=on&amp;RID=PHWP1JNZ014&amp;FORMAT_TYPE=ASN.1&amp;FORMAT_OBJECT=Alignment&amp;CMD=Get" type="radio"><label class="shownInl" for="dwASN">ASN.1</label></div>
+<div>
+<button class="cfg" id="dw_cont">Continue</button>
+<button class="cfg cnc">Cancel</button>
+</div>
+</div> <!-- dsDownload -->
+<a href="#" class="toolsCtr" minslct="1" view="dflt" frm="submitterTop" seqlist="selSeqs" title="See genbank report for selected sequences" disabled="disabled">GenBank</a> <!-- genbank or Traces -->
+<a href="#" class="toolsCtr " minslct="1" view="graph" title="See graphic representation for selected sequences" disabled="disabled">Graphics</a>
+<a href="#" class="toolsCtr hidden shown" view="tree" minslct="1" frm="sbmtTreeView" seqlist="selSeqsTr" disabled="disabled" title="See a distance tree of pairwise comparisons for the selected sequences">Distance tree of results</a>
+<a href="#" class="toolsCtr hidden " view="dflt" minslct="2" frm="sbmtMultiAln" seqlist="selSeqsMl" disabled="disabled" title="See multple alignment of query and target sequences for the selected sequences with expect value better than 0.001">Multiple alignment</a>
+<a aria-haspopup="true" aria-expanded="false" role="button" class="jig-ncbipopper button_config" title="Show/hide columns" id="button_config" href="#dsConfig"><span class="accsb">Show/hide columns of the table presenting sequences producing significant alignments </span></a>
+<div style="top: -100px; left: -100px; display: none;" aria-hidden="true" aria-live="assertive" id="dsConfig" class="popDl ui-helper-reset ui-ncbipopper-wrapper ui-ncbipopper-basic">
+<div class="tl">Available columns</div>
+<input checked="checked" id="chkDs" value="2" type="checkbox"><label class="shownInl" for="chkDs">Description</label><br>
+<input checked="checked" id="chkMS" value="3" type="checkbox"><label class="shownInl" for="chkMs">Max Score</label><br>
+<input checked="checked" id="chkTS" value="4" type="checkbox"><label class="shownInl" for="chkTs">Total Score</label><br>
+<input checked="checked" id="chkCov" value="5" type="checkbox"><label class="shownInl" for="chkCov">Coverage</label><br>
+<input checked="checked" id="chkEval" value="6" type="checkbox"><label class="shownInl" for="chkEval">E-value</label><br>
+<input checked="checked" id="chkIdnt" value="7" type="checkbox"><label class="shownInl" for="chkIdnt"><span class="">Ident</span><span class="hidden">N</span></label><br>
+<input checked="checked" id="chkAcc" value="8" type="checkbox"><label class="shownInl" for="chkAcc">Accession</label><br>
+<button class="cfg rdf" id="dscRsDf">Restore Defaults</button>
+<button class="cfg" id="dscOk">Ok</button>
+<button class="cfg cnc" id="dscCnc">Cancel</button>
+</div> <!-- dsConfig -->
+<input id="cfcDsInf" defval="2,3,4,5,6,7,8" value="2,3,4,5,6,7,8" type="hidden">
+</div>
+<div class="ui-ncbigrid-outer-div caption-exists">
+<div class="ui-ncbigrid-inner-div">
+<table id="dscTable" class="jig-ncbigrid  ui-ncbigrid" data-jigconfig="" cellpadding="0" cellspacing="0">
+<caption class="hdnHeader">Sequences producing significant alignments:</caption>
+<thead>
+<tr class="first">
+<th class="c0" id="c0"><span>Select for downloading or viewing reports</span></th>
+<th class="dflnDth c2" id="c2">Description</th>
+<th class=" c3" id="c3">
+<a href="http://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Get&amp;ALIGNMENTS=100&amp;ALIGNMENT_VIEW=Pairwise&amp;DATABASE_SORT=0&amp;DESCRIPTIONS=100&amp;DYNAMIC_FORMAT=on&amp;FIRST_QUERY_NUM=0&amp;FORMAT_OBJECT=Alignment&amp;FORMAT_PAGE_TARGET=&amp;FORMAT_TYPE=HTML&amp;GET_SEQUENCE=yes&amp;I_THRESH=&amp;LINE_LENGTH=60&amp;MASK_CHAR=2&amp;MASK_COLOR=1&amp;NUM_OVERVIEW=100&amp;OLD_BLAST=false&amp;PAGE=Nucleotides&amp;QUERY_INDEX=0&amp;QUERY_NUMBER=0&amp;RESULTS_PAGE_TARGET=&amp;RID=PHWP1JNZ014&amp;SHOW_LINKOUT=yes&amp;SHOW_OVERVIEW=yes&amp;STEP_NUMBER=&amp;WORD_SIZE=7&amp;OLD_VIEW=false&amp;DISPLAY_SORT=1&amp;HSP_SORT=1" class="dcs" title="Sort by max score">Max score</a>
+</th>
+<th class=" c4" id="c4">
+<a href="http://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Get&amp;ALIGNMENTS=100&amp;ALIGNMENT_VIEW=Pairwise&amp;DATABASE_SORT=0&amp;DESCRIPTIONS=100&amp;DYNAMIC_FORMAT=on&amp;FIRST_QUERY_NUM=0&amp;FORMAT_OBJECT=Alignment&amp;FORMAT_PAGE_TARGET=&amp;FORMAT_TYPE=HTML&amp;GET_SEQUENCE=yes&amp;I_THRESH=&amp;LINE_LENGTH=60&amp;MASK_CHAR=2&amp;MASK_COLOR=1&amp;NUM_OVERVIEW=100&amp;OLD_BLAST=false&amp;PAGE=Nucleotides&amp;QUERY_INDEX=0&amp;QUERY_NUMBER=0&amp;RESULTS_PAGE_TARGET=&amp;RID=PHWP1JNZ014&amp;SHOW_LINKOUT=yes&amp;SHOW_OVERVIEW=yes&amp;STEP_NUMBER=&amp;WORD_SIZE=7&amp;OLD_VIEW=false&amp;DISPLAY_SORT=2&amp;HSP_SORT=1" class="dcs" title="Sort by total score">Total score</a>
+</th>
+<th class=" c5" id="c5">
+<a href="http://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Get&amp;ALIGNMENTS=100&amp;ALIGNMENT_VIEW=Pairwise&amp;DATABASE_SORT=0&amp;DESCRIPTIONS=100&amp;DYNAMIC_FORMAT=on&amp;FIRST_QUERY_NUM=0&amp;FORMAT_OBJECT=Alignment&amp;FORMAT_PAGE_TARGET=&amp;FORMAT_TYPE=HTML&amp;GET_SEQUENCE=yes&amp;I_THRESH=&amp;LINE_LENGTH=60&amp;MASK_CHAR=2&amp;MASK_COLOR=1&amp;NUM_OVERVIEW=100&amp;OLD_BLAST=false&amp;PAGE=Nucleotides&amp;QUERY_INDEX=0&amp;QUERY_NUMBER=0&amp;RESULTS_PAGE_TARGET=&amp;RID=PHWP1JNZ014&amp;SHOW_LINKOUT=yes&amp;SHOW_OVERVIEW=yes&amp;STEP_NUMBER=&amp;WORD_SIZE=7&amp;OLD_VIEW=false&amp;DISPLAY_SORT=4&amp;HSP_SORT=0" class="dcs" title="Sort by query coverage">Query cover</a>
+</th>
+<th class="sel c6" id="c6">
+<a href="http://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Get&amp;ALIGNMENTS=100&amp;ALIGNMENT_VIEW=Pairwise&amp;DATABASE_SORT=0&amp;DESCRIPTIONS=100&amp;DYNAMIC_FORMAT=on&amp;FIRST_QUERY_NUM=0&amp;FORMAT_OBJECT=Alignment&amp;FORMAT_PAGE_TARGET=&amp;FORMAT_TYPE=HTML&amp;GET_SEQUENCE=yes&amp;I_THRESH=&amp;LINE_LENGTH=60&amp;MASK_CHAR=2&amp;MASK_COLOR=1&amp;NUM_OVERVIEW=100&amp;OLD_BLAST=false&amp;PAGE=Nucleotides&amp;QUERY_INDEX=0&amp;QUERY_NUMBER=0&amp;RESULTS_PAGE_TARGET=&amp;RID=PHWP1JNZ014&amp;SHOW_LINKOUT=yes&amp;SHOW_OVERVIEW=yes&amp;STEP_NUMBER=&amp;WORD_SIZE=7&amp;OLD_VIEW=false&amp;DISPLAY_SORT=0&amp;HSP_SORT=0" class="dcs" title="Sort by E value">E value</a>
+</th>
+<th class="c7" id="c7">
+<a href="http://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Get&amp;ALIGNMENTS=100&amp;ALIGNMENT_VIEW=Pairwise&amp;DATABASE_SORT=0&amp;DESCRIPTIONS=100&amp;DYNAMIC_FORMAT=on&amp;FIRST_QUERY_NUM=0&amp;FORMAT_OBJECT=Alignment&amp;FORMAT_PAGE_TARGET=&amp;FORMAT_TYPE=HTML&amp;GET_SEQUENCE=yes&amp;I_THRESH=&amp;LINE_LENGTH=60&amp;MASK_CHAR=2&amp;MASK_COLOR=1&amp;NUM_OVERVIEW=100&amp;OLD_BLAST=false&amp;PAGE=Nucleotides&amp;QUERY_INDEX=0&amp;QUERY_NUMBER=0&amp;RESULTS_PAGE_TARGET=&amp;RID=PHWP1JNZ014&amp;SHOW_LINKOUT=yes&amp;SHOW_OVERVIEW=yes&amp;STEP_NUMBER=&amp;WORD_SIZE=7&amp;DISPLAY_SORT=3&amp;HSP_SORT=3" class="dcs" title="Sort by ident">Ident</a>
+</th>
+<th class="c1" id="c8">Accession</th>
+</tr>
+</thead>
+<tbody>
+<tr id="dtr_557804451" ind="1" class="odd dflLnk">
+<td class="l c0"><span class="ind">1</span><input id="chk_1" class="cb" name="getSeqGi" value="557804451" onclick="configDescrLinks(event,this)" type="checkbox"><label for="chk_1" class="accsb">Select seq pdb|3J5A|A</label></td>
+<td class="lim l c2">
+<div class="lim n">
+<a stat="disp" title="Go to alignment for Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Classic Post- Translocation State (post1, 50s Subunit)" class="deflnDesc" hsp="4" len="38" ind="1" accs="pdb|3J5A|A" seqfsta="gi|557804451" gi="557804451" seqid="557804451" id="deflnDesc_1" onclick="DisplayAlignFromDescription(this);" href="#alnHdr_557804451">Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Classic Post- Translocation State (post1, 50s Subunit)</a>
+</div>
+</td>
+<td class="c3">32.2</td>
+<td class="c4">77.3</td>
+<td class="c5">100%</td>
+<td class="c6">8e-04</td><td class="c7">100%</td>
+<td class="c1 l lim">
+<a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804451?report=genbank&amp;log$=nucltop&amp;blast_rank=1&amp;RID=PHWP1JNZ014" class="dflSeq" target="lnkPHWP1JNZ014" title="Show report for 3J5A_A">3J5A_A</a>
+</td>
+</tr><tr id="dtr_557804395" ind="2" class="even dflLnk">
+<td class="l c0"><span class="ind">2</span><input id="chk_2" class="cb" name="getSeqGi" value="557804395" onclick="configDescrLinks(event,this)" type="checkbox"><label for="chk_2" class="accsb">Select seq pdb|3J58|A</label></td>
+<td class="lim l c2">
+<div class="lim n">
+<a stat="disp" title="Go to alignment for Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Hybrid Pre- Translocation State (pre5b, 50s Subunit)" class="deflnDesc" hsp="4" len="38" ind="2" accs="pdb|3J58|A" seqfsta="gi|557804395" gi="557804395" seqid="557804395" id="deflnDesc_2" onclick="DisplayAlignFromDescription(this);" href="#alnHdr_557804395">Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Hybrid Pre- Translocation State (pre5b, 50s Subunit)</a>
+</div>
+</td>
+<td class="c3">32.2</td>
+<td class="c4">77.3</td>
+<td class="c5">100%</td>
+<td class="c6">8e-04</td><td class="c7">100%</td>
+<td class="c1 l lim">
+<a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804395?report=genbank&amp;log$=nucltop&amp;blast_rank=2&amp;RID=PHWP1JNZ014" class="dflSeq" target="lnkPHWP1JNZ014" title="Show report for 3J58_A">3J58_A</a>
+</td>
+</tr><tr id="dtr_557804339" ind="3" class="odd dflLnk">
+<td class="l c0"><span class="ind">3</span><input id="chk_3" class="cb" name="getSeqGi" value="557804339" onclick="configDescrLinks(event,this)" type="checkbox"><label for="chk_3" class="accsb">Select seq pdb|3J56|A</label></td>
+<td class="lim l c2">
+<div class="lim n">
+<a stat="disp" title="Go to alignment for Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Hybrid Pre- Translocation State (pre5a, 50s Subunit)" class="deflnDesc" hsp="4" len="38" ind="3" accs="pdb|3J56|A" seqfsta="gi|557804339" gi="557804339" seqid="557804339" id="deflnDesc_3" onclick="DisplayAlignFromDescription(this);" href="#alnHdr_557804339">Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Hybrid Pre- Translocation State (pre5a, 50s Subunit)</a>
+</div>
+</td>
+<td class="c3">32.2</td>
+<td class="c4">77.3</td>
+<td class="c5">100%</td>
+<td class="c6">8e-04</td><td class="c7">100%</td>
+<td class="c1 l lim">
+<a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804339?report=genbank&amp;log$=nucltop&amp;blast_rank=3&amp;RID=PHWP1JNZ014" class="dflSeq" target="lnkPHWP1JNZ014" title="Show report for 3J56_A">3J56_A</a>
+</td>
+</tr><tr id="dtr_557804283" ind="4" class="even dflLnk">
+<td class="l c0"><span class="ind">4</span><input id="chk_4" class="cb" name="getSeqGi" value="557804283" onclick="configDescrLinks(event,this)" type="checkbox"><label for="chk_4" class="accsb">Select seq pdb|3J54|A</label></td>
+<td class="lim l c2">
+<div class="lim n">
+<a stat="disp" title="Go to alignment for Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Hybrid Pre- Translocation State (pre4, 50s Subunit)" class="deflnDesc" hsp="4" len="38" ind="4" accs="pdb|3J54|A" seqfsta="gi|557804283" gi="557804283" seqid="557804283" id="deflnDesc_4" onclick="DisplayAlignFromDescription(this);" href="#alnHdr_557804283">Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Hybrid Pre- Translocation State (pre4, 50s Subunit)</a>
+</div>
+</td>
+<td class="c3">32.2</td>
+<td class="c4">77.3</td>
+<td class="c5">100%</td>
+<td class="c6">8e-04</td><td class="c7">100%</td>
+<td class="c1 l lim">
+<a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804283?report=genbank&amp;log$=nucltop&amp;blast_rank=4&amp;RID=PHWP1JNZ014" class="dflSeq" target="lnkPHWP1JNZ014" title="Show report for 3J54_A">3J54_A</a>
+</td>
+</tr><tr id="dtr_557804227" ind="5" class="odd dflLnk">
+<td class="l c0"><span class="ind">5</span><input id="chk_5" class="cb" name="getSeqGi" value="557804227" onclick="configDescrLinks(event,this)" type="checkbox"><label for="chk_5" class="accsb">Select seq pdb|3J52|A</label></td>
+<td class="lim l c2">
+<div class="lim n">
+<a stat="disp" title="Go to alignment for Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Classic Pre- Translocation State (pre1a, 50s Subunit)" class="deflnDesc" hsp="4" len="38" ind="5" accs="pdb|3J52|A" seqfsta="gi|557804227" gi="557804227" seqid="557804227" id="deflnDesc_5" onclick="DisplayAlignFromDescription(this);" href="#alnHdr_557804227">Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Classic Pre- Translocation State (pre1a, 50s Subunit)</a>
+</div>
+</td>
+<td class="c3">32.2</td>
+<td class="c4">77.3</td>
+<td class="c5">100%</td>
+<td class="c6">8e-04</td><td class="c7">100%</td>
+<td class="c1 l lim">
+<a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804227?report=genbank&amp;log$=nucltop&amp;blast_rank=5&amp;RID=PHWP1JNZ014" class="dflSeq" target="lnkPHWP1JNZ014" title="Show report for 3J52_A">3J52_A</a>
+</td>
+</tr><tr id="dtr_557804195" ind="6" class="even dflLnk">
+<td class="l c0"><span class="ind">6</span><input id="chk_6" class="cb" name="getSeqGi" value="557804195" onclick="configDescrLinks(event,this)" type="checkbox"><label for="chk_6" class="accsb">Select seq pdb|3J51|A</label></td>
+<td class="lim l c2">
+<div class="lim n">
+<a title="Go to alignment for Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Intermediate Pre- Translocation State (pre3, 50s Subunit)" class="deflnDesc" hsp="4" len="38" ind="6" accs="pdb|3J51|A" seqfsta="gi|557804195" gi="557804195" seqid="557804195" id="deflnDesc_6" onclick="DisplayAlignFromDescription(this);" href="#alnHdr_557804195">Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Intermediate Pre- Translocation State (pre3, 50s Subunit)</a>
+</div>
+</td>
+<td class="c3">32.2</td>
+<td class="c4">77.3</td>
+<td class="c5">100%</td>
+<td class="c6">8e-04</td><td class="c7">100%</td>
+<td class="c1 l lim">
+<a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804195?report=genbank&amp;log$=nucltop&amp;blast_rank=6&amp;RID=PHWP1JNZ014" class="dflSeq" target="lnkPHWP1JNZ014" title="Show report for 3J51_A">3J51_A</a>
+</td>
+</tr><tr id="dtr_557804163" ind="7" class="odd dflLnk">
+<td class="l c0"><span class="ind">7</span><input id="chk_7" class="cb" name="getSeqGi" value="557804163" onclick="configDescrLinks(event,this)" type="checkbox"><label for="chk_7" class="accsb">Select seq pdb|3J50|A</label></td>
+<td class="lim l c2">
+<div class="lim n">
+<a title="Go to alignment for Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Intermediate Pre- Translocation State (pre2, 50s Subunit)" class="deflnDesc" hsp="4" len="38" ind="7" accs="pdb|3J50|A" seqfsta="gi|557804163" gi="557804163" seqid="557804163" id="deflnDesc_7" onclick="DisplayAlignFromDescription(this);" href="#alnHdr_557804163">Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Intermediate Pre- Translocation State (pre2, 50s Subunit)</a>
+</div>
+</td>
+<td class="c3">32.2</td>
+<td class="c4">77.3</td>
+<td class="c5">100%</td>
+<td class="c6">8e-04</td><td class="c7">100%</td>
+<td class="c1 l lim">
+<a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804163?report=genbank&amp;log$=nucltop&amp;blast_rank=7&amp;RID=PHWP1JNZ014" class="dflSeq" target="lnkPHWP1JNZ014" title="Show report for 3J50_A">3J50_A</a>
+</td>
+</tr><tr id="dtr_557804083" ind="8" class="even dflLnk">
+<td class="l c0"><span class="ind">8</span><input id="chk_8" class="cb" name="getSeqGi" value="557804083" onclick="configDescrLinks(event,this)" type="checkbox"><label for="chk_8" class="accsb">Select seq pdb|3J4X|A</label></td>
+<td class="lim l c2">
+<div class="lim n">
+<a title="Go to alignment for Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Classic Pre- Translocation State (pre1b, 50s Subunit)" class="deflnDesc" hsp="4" len="38" ind="8" accs="pdb|3J4X|A" seqfsta="gi|557804083" gi="557804083" seqid="557804083" id="deflnDesc_8" onclick="DisplayAlignFromDescription(this);" href="#alnHdr_557804083">Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Classic Pre- Translocation State (pre1b, 50s Subunit)</a>
+</div>
+</td>
+<td class="c3">32.2</td>
+<td class="c4">77.3</td>
+<td class="c5">100%</td>
+<td class="c6">8e-04</td><td class="c7">100%</td>
+<td class="c1 l lim">
+<a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804083?report=genbank&amp;log$=nucltop&amp;blast_rank=8&amp;RID=PHWP1JNZ014" class="dflSeq" target="lnkPHWP1JNZ014" title="Show report for 3J4X_A">3J4X_A</a>
+</td>
+</tr><tr id="dtr_485601478" ind="9" class="odd dflLnk">
+<td class="l c0"><span class="ind">9</span><input id="chk_9" class="cb" name="getSeqGi" value="485601478" onclick="configDescrLinks(event,this)" type="checkbox"><label for="chk_9" class="accsb">Select seq pdb|3J3F|5</label></td>
+<td class="lim l c2">
+<div class="lim n">
+<a title="Go to alignment for Chain 5, Structure Of The H. Sapiens 60s Rrna" class="deflnDesc" hsp="8" len="63" ind="9" accs="pdb|3J3F|5" seqfsta="gi|485601478" gi="485601478" seqid="485601478" id="deflnDesc_9" onclick="DisplayAlignFromDescription(this);" href="#alnHdr_485601478">Chain 5, Structure Of The H. Sapiens 60s Rrna</a>
+</div>
+</td>
+<td class="c3">18.3</td>
+<td class="c4">  128</td>
+<td class="c5">100%</td>
+<td class="c6">   12</td><td class="c7">100%</td>
+<td class="c1 l lim">
+<a href="http://www.ncbi.nlm.nih.gov/nucleotide/485601478?report=genbank&amp;log$=nucltop&amp;blast_rank=9&amp;RID=PHWP1JNZ014" class="dflSeq" target="lnkPHWP1JNZ014" title="Show report for 3J3F_5">3J3F_5</a>
+</td>
+</tr><tr id="dtr_485601474" ind="10" class="even dflLnk">
+<td class="l c0"><span class="ind">10</span><input id="chk_10" class="cb" name="getSeqGi" value="485601474" onclick="configDescrLinks(event,this)" type="checkbox"><label for="chk_10" class="accsb">Select seq pdb|3J3E|5</label></td>
+<td class="lim l c2">
+<div class="lim n">
+<a title="Go to alignment for Chain 5, Structure Of The D. Melanogaster 60s Rrna" class="deflnDesc" hsp="4" len="31" ind="10" accs="pdb|3J3E|5" seqfsta="gi|485601474" gi="485601474" seqid="485601474" id="deflnDesc_10" onclick="DisplayAlignFromDescription(this);" href="#alnHdr_485601474">Chain 5, Structure Of The D. Melanogaster 60s Rrna</a>
+</div>
+</td>
+<td class="c3">18.3</td>
+<td class="c4">63.4</td>
+<td class="c5">100%</td>
+<td class="c6">   12</td><td class="c7">100%</td>
+<td class="c1 l lim">
+<a href="http://www.ncbi.nlm.nih.gov/nucleotide/485601474?report=genbank&amp;log$=nucltop&amp;blast_rank=10&amp;RID=PHWP1JNZ014" class="dflSeq" target="lnkPHWP1JNZ014" title="Show report for 3J3E_5">3J3E_5</a>
+</td>
+</tr><tr id="dtr_357380483" ind="11" class="odd dflLnk">
+<td class="l c0"><span class="ind">11</span><input id="chk_11" class="cb" name="getSeqGi" value="357380483" onclick="configDescrLinks(event,this)" type="checkbox"><label for="chk_11" class="accsb">Select seq pdb|3J0O|8</label></td>
+<td class="lim l c2">
+<div class="lim n">
+<a title="Go to alignment for Chain 8, Core Of Mammalian 80s Pre-Ribosome In Complex With Trnas Fitted To A 9a Cryo-Em Map: Classic Pre State 2" class="deflnDesc" hsp="1" len="9" ind="11" accs="pdb|3J0O|8" seqfsta="gi|357380483" gi="357380483" seqid="357380483" id="deflnDesc_11" onclick="DisplayAlignFromDescription(this);" href="#alnHdr_357380483">Chain 8, Core Of Mammalian 80s Pre-Ribosome In Complex With Trnas Fitted To A 9a Cryo-Em Map: Classic Pre State 2</a>
+</div>
+</td>
+<td class="c3">18.3</td>
+<td class="c4">18.3</td>
+<td class="c5">56%</td>
+<td class="c6">   12</td><td class="c7">100%</td>
+<td class="c1 l lim">
+<a href="http://www.ncbi.nlm.nih.gov/nucleotide/357380483?report=genbank&amp;log$=nucltop&amp;blast_rank=11&amp;RID=PHWP1JNZ014" class="dflSeq" target="lnkPHWP1JNZ014" title="Show report for 3J0O_8">3J0O_8</a>
+</td>
+</tr>
+</tbody>
+</table>
+</div></div>
+<!--</pre>  -->
+</div><!--/#descriptions-->
+</div><!-- descrInfo -->
+</div><!--ARIA-->
+</div>
+</form><!-- this is the end tag for the <form in blastcgi templates -->
+<form id="dwdlSubmit" action="" method="post" class="getseq">
+<input name="" value="" id="selDnSeqs" type="hidden">
+</form>
+<form class="getseq" method="post" seqsform="getSeqAlignment1" action="http://www.ncbi.nlm.nih.gov/sites/entrez" target="lnkPHWP1JNZ014" id="submitterTop">
+<input name="db" value="Nucleotide" type="hidden">
+<input id="selSeqs" name="term" value="" type="hidden">
+<input name="doptcmdl" value="docsum" type="hidden">
+<input name="cmd" value="search" type="hidden">
+</form>
+<form class="getseq" method="get" action="http://www.ncbi.nlm.nih.gov/projects/sviewer/" target="lnkPHWP1JNZ014" id="sbmtGraphics">
+<input id="ridParam" value="PHWP1JNZ014" type="hidden">
+<input id="seqViewParams" name="RID" value="" type="hidden">
+<input name="appname" value="ncbiblast" type="hidden">
+<input name="link_loc" value="fromDescr" type="hidden">
+<input name="tracks" value="[key:sequence_track,ShowLabel:true]" type="hidden">
+<input name="id" value="" type="hidden">
+</form>
+<form class="getseq" method="post" action="http://www.ncbi.nlm.nih.gov/blast/treeview/treeView.cgi?request=page&amp;blastRID=PHWP1JNZ014&amp;queryID=lcl|59987&amp;entrezLim=&amp;ex=&amp;exl=&amp;exh=&amp;ns=100" id="sbmtTreeView" target="lnkPHWP1JNZ014">
+<input id="selSeqsTr" name="sequenceSet" value="" type="hidden">
+<input id="scrWidth" name="screenWidth" value="" type="hidden">
+<input id="scrHeight" name="screenHeight" value="" type="hidden">
+</form>
+<form class="getseq" method="post" action="?CMD=submit&amp;blastRID=PHWP1JNZ014&amp;queryID=lcl|59987&amp;numSeqs=100" id="sbmtMultiAln" target="lnkPHWP1JNZ014">
+<input id="selSeqsMl" name="sequenceSet" value="" type="hidden">
+</form>
+<form class="getseq" enctype="text/plain" method="post" action="http://blast.ncbi.nlm.nih.gov/blast/SEQDUMP/seqdump.cgi" id="sbmtFASTA">
+<input name="RID" value="PHWP1JNZ014" type="hidden">
+<input name="DATABASE" value="" type="hidden">
+<input name="ALIGNDB_BATCH_ID" value="" type="hidden">
+<input name="ALIGNDB_MASTER_ALIAS" value="" type="hidden">
+<input name="ALIGNDB_CGI_HOST" value="" type="hidden">
+<input name="ALIGNDB_CGI_PATH" value="" type="hidden">
+<input name="SERVICE_TYPE" value="plain" type="hidden">
+<input name="DBTYPE" value="nucl" type="hidden">
+<input name="DOWNLOAD_TYPE" value="" type="hidden">
+<input name="ALIGN_SEQ_LIST" value="" type="hidden">
+</form><!-- used in redesign -->
+<iframe id="RSIFrameAln" class="ifrm shown" name="RSIFrame" noresize="noresize" border="0" cellspacing="0" scrolling="no" marginwidth="0" marginheight="0" src="NCBI%20Blast%20reference%20example_files/plinkcgi_002.html" title="Primer-BLAST ad" frameborder="0" align="middle"></iframe>
+<div id="alignView" class=" ">
+<h2 class="resArr">
+<a aria-expanded="true" role="button" aria-disabled="false" href="#" id="showAlign" class="jig-ncbitoggler-open ui-ncbitoggler-open ui-widget" data-jigconfig="indicator: 'plus-minus-big'" data-ncbitoggler-toggles="alignInfo" title="Show/hide Alignments">
+<span class="ui-ncbitoggler-master-text">Alignments</span>
+<span class="ui-icon ui-icon-plus-minus-big-open"></span>
+</a>
+</h2>
+<div class="ui-helper-reset" aria-live="assertive">
+<div aria-hidden="false" id="alignInfo" class="resBox ui-ncbitoggler-slave-open ui-widget ui-ncbitoggler">
+<div id="alignments" class="blRes">
+<span id="alnStart"></span><div seqlist="gi|557804451,gi|557804395,gi|557804339,gi|557804283,gi|557804227" indexes="1-5" id="alnShow_1" class="alnMsg"><div class="alnMsgS hidden" id="alnMsg_1">Loading alignment...<span class="db"> for sequences gi|557804451,gi|557804395,gi|557804339,gi|557804283,gi|557804227 Reading indexes 1-5</span></div><div id="alnShowReal_1" class="alnMsgR"><form name="getSeqAlignment1">
+<div class="alnHdr cnf" id="alnHdr_557804451" seqid="557804451" accs="pdb|3J5A|A">
+<a name="557804451"></a>
+<a aria-haspopup="true" aria-expanded="false" role="button" href="#dlgDwnl_557804451" class="jig-ncbipopper toolsCtr dnld dialog" data-jigconfig="hasArrow:'true',arrowDirection:'top',closeEvent: 'click', openEvent: 'click', destPosition: 'top center', triggerPosition: 'bottom right'" id="alnDwnld_557804451" title="Download information for pdb|3J5A|A"><span>Download</span></a>
+<div style="top: -100px; left: -100px; display: none;" aria-hidden="true" aria-live="assertive" id="dlgDwnl_557804451" class="popDl ui-helper-reset ui-ncbipopper-wrapper ui-ncbipopper-basic">
+<div><input seqfsta="gi|557804451" name="dwn_557804451" checked="checked" id="dwFST_557804451" fstadwtype="complete" sbfunc="initDownLoadFSTA" type="radio"><label class="shownInl" for="dwFST_557804451">FASTA (complete sequence)</label></div>
+<div><input seqfsta="gi|557804451" name="dwn_557804451" id="dwFSTAl_557804451" fstadwtype="range" sbfunc="initDownLoadFSTA" type="radio"><label class="shownInl" for="dwFSTAl_557804451">FASTA (aligned sequences)</label></div>
+<div class=""><input name="dwn_557804451" id="dwGenBank_557804451" getgi="557804451" sbname="id" url="http://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?db=nuccore&amp;rettype=gb&amp;retmode=text" type="radio"><label class="shownInl" for="dwGenBank_557804451">GenBank (complete sequence)</label></div>
+<div>
+<button class="cfg" id="dw_cont_557804451">Continue</button>
+<button class="cfg cnc">Cancel</button>
+</div>
+</div> <!-- dsDownload -->
+<span class="csLinks" id="csLinks_557804451"><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804451?report=genbank&amp;log$=nuclalign&amp;blast_rank=1&amp;RID=PHWP1JNZ014" class="" target="lnkPHWP1JNZ014" title="Show genbank report for 3J5A_A">GenBank</a><a href="http://www.ncbi.nlm.nih.gov/nuccore/557804451?report=graph&amp;rid=PHWP1JNZ014[557804451]&amp;tracks=[key:sequence_track,name:Sequence,display_name:Sequence,id:STD1,category:Sequence,annots:Sequence,ShowLabel:true][key:gene_model_track,CDSProductFeats:false][key:alignment_track,name:other%20alignments,annots:NG%20Alignments%7CRefseq%20Alignments%7CGnomon%20Alignments%7CUnnamed,shown:false]&amp;v=752:2685&amp;appname=ncbiblast&amp;link_loc=fromSubj" class="spr" target="lnkPHWP1JNZ014" title="Show alignment to 3J5A_A in Nucleotide Graphics">Graphics</a></span>
+<div class="seqlinks alnDflLn alnSortSeq"><label>Sort by:</label>
+<select id="sa_557804451" onchange="SortHSPAlnSel(event,this)">
+<option selected="selected" value="0">E value</option>
+<option value="1"> Score</option>
+<option value="3">Percent identity</option>
+<option value="2">Query start position</option>
+<option value="4">Subject start position</option>
+</select>
+</div>
+<span class="alnSeqLinks">
+<a title="Go to next alignment for pdb|3J58|A" class="gbd toolsCtr navNext" ref="ordinalpos=1&amp;currseq=557804451" id="alnNxt_557804451" onclick="goToNextAlign('dtr_557804451',true);"><span>Next</span></a>
+<a disabled="disabled" class="gbd toolsCtr navPrev" ref="ordinalpos=1&amp;currseq=557804451" id="alnPrv_557804451" onclick="goToNextAlign('dtr_557804451',false);"><span>Previous</span></a>
+<a class="gbd toolsCtr navBack" title="Go to definition line for pdb|3J5A|A" id="alnDsc_557804451" onclick="goToDefLine('dtr_557804451');" href="#dtr_557804451"><span>Descriptions</span></a>
+</span>
+</div>
+<div class="oneSeqAln" id="aln_557804451">
+<div id="dln_557804451">
+<div class="dlfRow">
+Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Classic Post- Translocation State (post1, 50s Subunit)
+<div><label>Sequence ID: </label><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804451?report=genbank&amp;log$=nuclalign&amp;blast_rank=1&amp;RID=PHWP1JNZ014" target="lnkPHWP1JNZ014" title="Show report for pdb|3J5A|A">pdb|3J5A|A</a><span class=" r"><label>Length: </label>2903<label>Number of Matches: </label>4</span></div>
+</div>
+</div>
+<div class="relInf" id="relInf_557804451"><label>Related Information</label></div>
+<!--
+<pre>
+<@aln_gene_info@>
+</pre>
+-->
+<div class="alnAll" id="alnAll_557804451"><div id="hd_557804451_1">
+<div class="dflLnk hsp"><span class="alnRn"><label>Range 1: 961 to 976</label><span class="" id="rng_557804451"><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804451?report=genbank&amp;log$=nuclalign&amp;blast_rank=1&amp;RID=PHWP1JNZ014&amp;from=961&amp;to=976" class="" target="lnkPHWP1JNZ014" title="Aligned region spanning positions 961 to 976 on 3J5A_A">GenBank</a><a href="http://www.ncbi.nlm.nih.gov/nuccore/557804451?report=graph&amp;rid=PHWP1JNZ014[557804451]&amp;tracks=[key:sequence_track,name:Sequence,display_name:Sequence,id:STD1,category:Sequence,annots:Sequence,ShowLabel:true][key:gene_model_track,CDSProductFeats:false][key:alignment_track,name:other%20alignments,annots:NG%20Alignments%7CRefseq%20Alignments%7CGnomon%20Alignments%7CUnnamed,shown:false]&amp;v=961:976&amp;appname=ncbiblast&amp;link_loc=fromHSP" class="spr" target="lnkPHWP1JNZ014" title="Show alignment to 3J5A_A in Nucleotide Graphics for 961 to 976 range">Graphics</a></span></span>
+<span id="hsp557804451_1" class="alnParLinks">
+<a init="on" class="gbd toolsCtr navNext" title="Go to next match #2 for pdb|3J5A|A" onmouseover="scan(this)" ref="ordinalpos=1&amp;currseq=557804451" onclick="goToNextHSP(this,true)"><span>Next Match</span></a>
+<a class="gbd toolsCtr navPrev" disabled="disabled" title="Go to previous match #0 for pdb|3J5A|A" onmouseover="scan(this)" ref="ordinalpos=1&amp;currseq=557804451" onclick="goToNextHSP(this,false)"><span>Previous Match</span></a>
+<a class="gbd toolsCtr navBack hidden" href="#hsp557804451_1" title="Go to first match for pdb|3J5A|A"><span>First Match</span></a>
+</span>
+</div>
+<table class="alnParams">
+<caption class="hdnHeader">Alignment statistics for match #1</caption>
+<tbody><tr>
+<th>Score</th><th>Expect</th><th>Identities</th><th>Gaps</th><th>Strand</th><th class="aln_frame ">Frame</th>
+</tr>
+<tr>
+<td>32.2 bits(16)</td>
+<td>8e-04<span class="sumN ">()</span></td>
+<td>16/16(100%)</td>
+<td>0/16(0%)</td>
+<td>Plus/Plus</td>
+<td class="aln_frame "></td>
+</tr></tbody></table>
+<div class="dflLnk aln_feat hidden"><label>Features:</label><div></div></div>
+</div>
+<div id="ar_557804451_1">
+<pre>Query  1    CGTCCGTCGTGAAGAG  16
+||||||||||||||||
+Sbjct  961  CGTCCGTCGTGAAGAG  976
+</pre>
+</div>
+<div id="hd_557804451_2">
+<div class="dflLnk hsp"><span class="alnRn"><label>Range 2: 2591 to 2598</label><span class="" id="rng_557804451"><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804451?report=genbank&amp;log$=nuclalign&amp;blast_rank=1&amp;RID=PHWP1JNZ014&amp;from=2591&amp;to=2598" class="" target="lnkPHWP1JNZ014" title="Aligned region spanning positions 2591 to 2598 on 3J5A_A">GenBank</a><a href="http://www.ncbi.nlm.nih.gov/nuccore/557804451?report=graph&amp;rid=PHWP1JNZ014[557804451]&amp;tracks=[key:sequence_track,name:Sequence,display_name:Sequence,id:STD1,category:Sequence,annots:Sequence,ShowLabel:true][key:gene_model_track,CDSProductFeats:false][key:alignment_track,name:other%20alignments,annots:NG%20Alignments%7CRefseq%20Alignments%7CGnomon%20Alignments%7CUnnamed,shown:false]&amp;v=2591:2598&amp;appname=ncbiblast&amp;link_loc=fromHSP" class="spr" target="lnkPHWP1JNZ014" title="Show alignment to 3J5A_A in Nucleotide Graphics for 2591 to 2598 range">Graphics</a></span></span>
+<span id="hsp557804451_2" class="alnParLinks">
+<a class="gbd toolsCtr navNext" title="Go to next match #3 for pdb|3J5A|A" onmouseover="scan(this)" ref="ordinalpos=2&amp;currseq=557804451" onclick="goToNextHSP(this,true)"><span>Next Match</span></a>
+<a class="gbd toolsCtr navPrev" title="Go to previous match #1 for pdb|3J5A|A" onmouseover="scan(this)" ref="ordinalpos=2&amp;currseq=557804451" onclick="goToNextHSP(this,false)"><span>Previous Match</span></a>
+<a class="gbd toolsCtr navBack " href="#hsp557804451_1" title="Go to first match for pdb|3J5A|A"><span>First Match</span></a>
+</span>
+</div>
+<table class="alnParams">
+<caption class="hdnHeader">Alignment statistics for match #2</caption>
+<tbody><tr>
+<th>Score</th><th>Expect</th><th>Identities</th><th>Gaps</th><th>Strand</th><th class="aln_frame ">Frame</th>
+</tr>
+<tr>
+<td>16.4 bits(8)</td>
+<td>   47<span class="sumN ">()</span></td>
+<td>8/8(100%)</td>
+<td>0/8(0%)</td>
+<td>Plus/Plus</td>
+<td class="aln_frame "></td>
+</tr></tbody></table>
+<div class="dflLnk aln_feat hidden"><label>Features:</label><div></div></div>
+</div>
+<div id="ar_557804451_2">
+<pre>Query  5     CGTCGTGA  12
+||||||||
+Sbjct  2591  CGTCGTGA  2598
+</pre>
+</div>
+<div id="hd_557804451_3">
+<div class="dflLnk hsp"><span class="alnRn"><label>Range 3: 839 to 845</label><span class="" id="rng_557804451"><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804451?report=genbank&amp;log$=nuclalign&amp;blast_rank=1&amp;RID=PHWP1JNZ014&amp;from=839&amp;to=845" class="" target="lnkPHWP1JNZ014" title="Aligned region spanning positions 839 to 845 on 3J5A_A">GenBank</a><a href="http://www.ncbi.nlm.nih.gov/nuccore/557804451?report=graph&amp;rid=PHWP1JNZ014[557804451]&amp;tracks=[key:sequence_track,name:Sequence,display_name:Sequence,id:STD1,category:Sequence,annots:Sequence,ShowLabel:true][key:gene_model_track,CDSProductFeats:false][key:alignment_track,name:other%20alignments,annots:NG%20Alignments%7CRefseq%20Alignments%7CGnomon%20Alignments%7CUnnamed,shown:false]&amp;v=839:845&amp;appname=ncbiblast&amp;link_loc=fromHSP" class="spr" target="lnkPHWP1JNZ014" title="Show alignment to 3J5A_A in Nucleotide Graphics for 839 to 845 range">Graphics</a></span></span>
+<span id="hsp557804451_3" class="alnParLinks">
+<a class="gbd toolsCtr navNext" title="Go to next match #4 for pdb|3J5A|A" onmouseover="scan(this)" ref="ordinalpos=3&amp;currseq=557804451" onclick="goToNextHSP(this,true)"><span>Next Match</span></a>
+<a class="gbd toolsCtr navPrev" title="Go to previous match #2 for pdb|3J5A|A" onmouseover="scan(this)" ref="ordinalpos=3&amp;currseq=557804451" onclick="goToNextHSP(this,false)"><span>Previous Match</span></a>
+<a class="gbd toolsCtr navBack " href="#hsp557804451_1" title="Go to first match for pdb|3J5A|A"><span>First Match</span></a>
+</span>
+</div>
+<table class="alnParams">
+<caption class="hdnHeader">Alignment statistics for match #3</caption>
+<tbody><tr>
+<th>Score</th><th>Expect</th><th>Identities</th><th>Gaps</th><th>Strand</th><th class="aln_frame ">Frame</th>
+</tr>
+<tr>
+<td>14.4 bits(7)</td>
+<td>  186<span class="sumN ">()</span></td>
+<td>7/7(100%)</td>
+<td>0/7(0%)</td>
+<td>Plus/Plus</td>
+<td class="aln_frame "></td>
+</tr></tbody></table>
+<div class="dflLnk aln_feat hidden"><label>Features:</label><div></div></div>
+</div>
+<div id="ar_557804451_3">
+<pre>Query  7    TCGTGAA  13
+|||||||
+Sbjct  839  TCGTGAA  845
+</pre>
+</div>
+<div id="hd_557804451_4">
+<div class="dflLnk hsp"><span class="alnRn"><label>Range 4: 2027 to 2033</label><span class="" id="rng_557804451"><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804451?report=genbank&amp;log$=nuclalign&amp;blast_rank=1&amp;RID=PHWP1JNZ014&amp;from=2027&amp;to=2033" class="" target="lnkPHWP1JNZ014" title="Aligned region spanning positions 2027 to 2033 on 3J5A_A">GenBank</a><a href="http://www.ncbi.nlm.nih.gov/nuccore/557804451?report=graph&amp;rid=PHWP1JNZ014[557804451]&amp;tracks=[key:sequence_track,name:Sequence,display_name:Sequence,id:STD1,category:Sequence,annots:Sequence,ShowLabel:true][key:gene_model_track,CDSProductFeats:false][key:alignment_track,name:other%20alignments,annots:NG%20Alignments%7CRefseq%20Alignments%7CGnomon%20Alignments%7CUnnamed,shown:false]&amp;v=2027:2033&amp;appname=ncbiblast&amp;link_loc=fromHSP" class="spr" target="lnkPHWP1JNZ014" title="Show alignment to 3J5A_A in Nucleotide Graphics for 2027 to 2033 range">Graphics</a></span></span>
+<span id="hsp557804451_4" class="alnParLinks">
+<a class="gbd toolsCtr navNext" disabled="disabled" title="Go to next match #5 for pdb|3J5A|A" onmouseover="scan(this)" ref="ordinalpos=4&amp;currseq=557804451" onclick="goToNextHSP(this,true)"><span>Next Match</span></a>
+<a class="gbd toolsCtr navPrev" title="Go to previous match #3 for pdb|3J5A|A" onmouseover="scan(this)" ref="ordinalpos=4&amp;currseq=557804451" onclick="goToNextHSP(this,false)"><span>Previous Match</span></a>
+<a class="gbd toolsCtr navBack " href="#hsp557804451_1" title="Go to first match for pdb|3J5A|A"><span>First Match</span></a>
+</span>
+</div>
+<table class="alnParams">
+<caption class="hdnHeader">Alignment statistics for match #4</caption>
+<tbody><tr>
+<th>Score</th><th>Expect</th><th>Identities</th><th>Gaps</th><th>Strand</th><th class="aln_frame ">Frame</th>
+</tr>
+<tr>
+<td>14.4 bits(7)</td>
+<td>  186<span class="sumN ">()</span></td>
+<td>7/7(100%)</td>
+<td>0/7(0%)</td>
+<td>Plus/Plus</td>
+<td class="aln_frame "></td>
+</tr></tbody></table>
+<div class="dflLnk aln_feat hidden"><label>Features:</label><div></div></div>
+</div>
+<div id="ar_557804451_4">
+<pre>Query  9     GTGAAGA  15
+|||||||
+Sbjct  2027  GTGAAGA  2033
+</pre>
+</div>
+</div> <!-- alnAll_557804451 -->
+</div> <!-- aln_557804451 -->
+<div class="alnHdr cnf" id="alnHdr_557804395" seqid="557804395" accs="pdb|3J58|A">
+<a name="557804395"></a>
+<a aria-haspopup="true" aria-expanded="false" role="button" href="#dlgDwnl_557804395" class="jig-ncbipopper toolsCtr dnld dialog" data-jigconfig="hasArrow:'true',arrowDirection:'top',closeEvent: 'click', openEvent: 'click', destPosition: 'top center', triggerPosition: 'bottom right'" id="alnDwnld_557804395" title="Download information for pdb|3J58|A"><span>Download</span></a>
+<div style="top: -100px; left: -100px; display: none;" aria-hidden="true" aria-live="assertive" id="dlgDwnl_557804395" class="popDl ui-helper-reset ui-ncbipopper-wrapper ui-ncbipopper-basic">
+<div><input seqfsta="gi|557804395" name="dwn_557804395" checked="checked" id="dwFST_557804395" fstadwtype="complete" sbfunc="initDownLoadFSTA" type="radio"><label class="shownInl" for="dwFST_557804395">FASTA (complete sequence)</label></div>
+<div><input seqfsta="gi|557804395" name="dwn_557804395" id="dwFSTAl_557804395" fstadwtype="range" sbfunc="initDownLoadFSTA" type="radio"><label class="shownInl" for="dwFSTAl_557804395">FASTA (aligned sequences)</label></div>
+<div class=""><input name="dwn_557804395" id="dwGenBank_557804395" getgi="557804395" sbname="id" url="http://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?db=nuccore&amp;rettype=gb&amp;retmode=text" type="radio"><label class="shownInl" for="dwGenBank_557804395">GenBank (complete sequence)</label></div>
+<div>
+<button class="cfg" id="dw_cont_557804395">Continue</button>
+<button class="cfg cnc">Cancel</button>
+</div>
+</div> <!-- dsDownload -->
+<span class="csLinks" id="csLinks_557804395"><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804395?report=genbank&amp;log$=nuclalign&amp;blast_rank=2&amp;RID=PHWP1JNZ014" class="" target="lnkPHWP1JNZ014" title="Show genbank report for 3J58_A">GenBank</a><a href="http://www.ncbi.nlm.nih.gov/nuccore/557804395?report=graph&amp;rid=PHWP1JNZ014[557804395]&amp;tracks=[key:sequence_track,name:Sequence,display_name:Sequence,id:STD1,category:Sequence,annots:Sequence,ShowLabel:true][key:gene_model_track,CDSProductFeats:false][key:alignment_track,name:other%20alignments,annots:NG%20Alignments%7CRefseq%20Alignments%7CGnomon%20Alignments%7CUnnamed,shown:false]&amp;v=752:2685&amp;appname=ncbiblast&amp;link_loc=fromSubj" class="spr" target="lnkPHWP1JNZ014" title="Show alignment to 3J58_A in Nucleotide Graphics">Graphics</a></span>
+<div class="seqlinks alnDflLn alnSortSeq"><label>Sort by:</label>
+<select id="sa_557804395" onchange="SortHSPAlnSel(event,this)">
+<option selected="selected" value="0">E value</option>
+<option value="1"> Score</option>
+<option value="3">Percent identity</option>
+<option value="2">Query start position</option>
+<option value="4">Subject start position</option>
+</select>
+</div>
+<span class="alnSeqLinks">
+<a title="Go to next alignment for pdb|3J56|A" class="gbd toolsCtr navNext" ref="ordinalpos=2&amp;currseq=557804395" id="alnNxt_557804395" onclick="goToNextAlign('dtr_557804395',true);"><span>Next</span></a>
+<a title="Go to previous alignment for pdb|3J5A|A" class="gbd toolsCtr navPrev" ref="ordinalpos=2&amp;currseq=557804395" id="alnPrv_557804395" onclick="goToNextAlign('dtr_557804395',false);"><span>Previous</span></a>
+<a class="gbd toolsCtr navBack" title="Go to definition line for pdb|3J58|A" id="alnDsc_557804395" onclick="goToDefLine('dtr_557804395');" href="#dtr_557804395"><span>Descriptions</span></a>
+</span>
+</div>
+<div class="oneSeqAln" id="aln_557804395">
+<div id="dln_557804395">
+<div class="dlfRow">
+Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Hybrid Pre- Translocation State (pre5b, 50s Subunit)
+<div><label>Sequence ID: </label><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804395?report=genbank&amp;log$=nuclalign&amp;blast_rank=2&amp;RID=PHWP1JNZ014" target="lnkPHWP1JNZ014" title="Show report for pdb|3J58|A">pdb|3J58|A</a><span class=" r"><label>Length: </label>2903<label>Number of Matches: </label>4</span></div>
+</div>
+</div>
+<div class="relInf" id="relInf_557804395"><label>Related Information</label></div>
+<!--
+<pre>
+<@aln_gene_info@>
+</pre>
+-->
+<div class="alnAll" id="alnAll_557804395"><div id="hd_557804395_1">
+<div class="dflLnk hsp"><span class="alnRn"><label>Range 1: 961 to 976</label><span class="" id="rng_557804395"><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804395?report=genbank&amp;log$=nuclalign&amp;blast_rank=2&amp;RID=PHWP1JNZ014&amp;from=961&amp;to=976" class="" target="lnkPHWP1JNZ014" title="Aligned region spanning positions 961 to 976 on 3J58_A">GenBank</a><a href="http://www.ncbi.nlm.nih.gov/nuccore/557804395?report=graph&amp;rid=PHWP1JNZ014[557804395]&amp;tracks=[key:sequence_track,name:Sequence,display_name:Sequence,id:STD1,category:Sequence,annots:Sequence,ShowLabel:true][key:gene_model_track,CDSProductFeats:false][key:alignment_track,name:other%20alignments,annots:NG%20Alignments%7CRefseq%20Alignments%7CGnomon%20Alignments%7CUnnamed,shown:false]&amp;v=961:976&amp;appname=ncbiblast&amp;link_loc=fromHSP" class="spr" target="lnkPHWP1JNZ014" title="Show alignment to 3J58_A in Nucleotide Graphics for 961 to 976 range">Graphics</a></span></span>
+<span id="hsp557804395_1" class="alnParLinks">
+<a class="gbd toolsCtr navNext" title="Go to next match #2 for pdb|3J58|A" onmouseover="scan(this)" ref="ordinalpos=1&amp;currseq=557804395" onclick="goToNextHSP(this,true)"><span>Next Match</span></a>
+<a class="gbd toolsCtr navPrev" disabled="disabled" title="Go to previous match #0 for pdb|3J58|A" onmouseover="scan(this)" ref="ordinalpos=1&amp;currseq=557804395" onclick="goToNextHSP(this,false)"><span>Previous Match</span></a>
+<a class="gbd toolsCtr navBack hidden" href="#hsp557804395_1" title="Go to first match for pdb|3J58|A"><span>First Match</span></a>
+</span>
+</div>
+<table class="alnParams">
+<caption class="hdnHeader">Alignment statistics for match #1</caption>
+<tbody><tr>
+<th>Score</th><th>Expect</th><th>Identities</th><th>Gaps</th><th>Strand</th><th class="aln_frame ">Frame</th>
+</tr>
+<tr>
+<td>32.2 bits(16)</td>
+<td>8e-04<span class="sumN ">()</span></td>
+<td>16/16(100%)</td>
+<td>0/16(0%)</td>
+<td>Plus/Plus</td>
+<td class="aln_frame "></td>
+</tr></tbody></table>
+<div class="dflLnk aln_feat hidden"><label>Features:</label><div></div></div>
+</div>
+<div id="ar_557804395_1">
+<pre>Query  1    CGTCCGTCGTGAAGAG  16
+||||||||||||||||
+Sbjct  961  CGTCCGTCGTGAAGAG  976
+</pre>
+</div>
+<div id="hd_557804395_2">
+<div class="dflLnk hsp"><span class="alnRn"><label>Range 2: 2591 to 2598</label><span class="" id="rng_557804395"><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804395?report=genbank&amp;log$=nuclalign&amp;blast_rank=2&amp;RID=PHWP1JNZ014&amp;from=2591&amp;to=2598" class="" target="lnkPHWP1JNZ014" title="Aligned region spanning positions 2591 to 2598 on 3J58_A">GenBank</a><a href="http://www.ncbi.nlm.nih.gov/nuccore/557804395?report=graph&amp;rid=PHWP1JNZ014[557804395]&amp;tracks=[key:sequence_track,name:Sequence,display_name:Sequence,id:STD1,category:Sequence,annots:Sequence,ShowLabel:true][key:gene_model_track,CDSProductFeats:false][key:alignment_track,name:other%20alignments,annots:NG%20Alignments%7CRefseq%20Alignments%7CGnomon%20Alignments%7CUnnamed,shown:false]&amp;v=2591:2598&amp;appname=ncbiblast&amp;link_loc=fromHSP" class="spr" target="lnkPHWP1JNZ014" title="Show alignment to 3J58_A in Nucleotide Graphics for 2591 to 2598 range">Graphics</a></span></span>
+<span id="hsp557804395_2" class="alnParLinks">
+<a class="gbd toolsCtr navNext" title="Go to next match #3 for pdb|3J58|A" onmouseover="scan(this)" ref="ordinalpos=2&amp;currseq=557804395" onclick="goToNextHSP(this,true)"><span>Next Match</span></a>
+<a class="gbd toolsCtr navPrev" title="Go to previous match #1 for pdb|3J58|A" onmouseover="scan(this)" ref="ordinalpos=2&amp;currseq=557804395" onclick="goToNextHSP(this,false)"><span>Previous Match</span></a>
+<a class="gbd toolsCtr navBack " href="#hsp557804395_1" title="Go to first match for pdb|3J58|A"><span>First Match</span></a>
+</span>
+</div>
+<table class="alnParams">
+<caption class="hdnHeader">Alignment statistics for match #2</caption>
+<tbody><tr>
+<th>Score</th><th>Expect</th><th>Identities</th><th>Gaps</th><th>Strand</th><th class="aln_frame ">Frame</th>
+</tr>
+<tr>
+<td>16.4 bits(8)</td>
+<td>   47<span class="sumN ">()</span></td>
+<td>8/8(100%)</td>
+<td>0/8(0%)</td>
+<td>Plus/Plus</td>
+<td class="aln_frame "></td>
+</tr></tbody></table>
+<div class="dflLnk aln_feat hidden"><label>Features:</label><div></div></div>
+</div>
+<div id="ar_557804395_2">
+<pre>Query  5     CGTCGTGA  12
+||||||||
+Sbjct  2591  CGTCGTGA  2598
+</pre>
+</div>
+<div id="hd_557804395_3">
+<div class="dflLnk hsp"><span class="alnRn"><label>Range 3: 839 to 845</label><span class="" id="rng_557804395"><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804395?report=genbank&amp;log$=nuclalign&amp;blast_rank=2&amp;RID=PHWP1JNZ014&amp;from=839&amp;to=845" class="" target="lnkPHWP1JNZ014" title="Aligned region spanning positions 839 to 845 on 3J58_A">GenBank</a><a href="http://www.ncbi.nlm.nih.gov/nuccore/557804395?report=graph&amp;rid=PHWP1JNZ014[557804395]&amp;tracks=[key:sequence_track,name:Sequence,display_name:Sequence,id:STD1,category:Sequence,annots:Sequence,ShowLabel:true][key:gene_model_track,CDSProductFeats:false][key:alignment_track,name:other%20alignments,annots:NG%20Alignments%7CRefseq%20Alignments%7CGnomon%20Alignments%7CUnnamed,shown:false]&amp;v=839:845&amp;appname=ncbiblast&amp;link_loc=fromHSP" class="spr" target="lnkPHWP1JNZ014" title="Show alignment to 3J58_A in Nucleotide Graphics for 839 to 845 range">Graphics</a></span></span>
+<span id="hsp557804395_3" class="alnParLinks">
+<a class="gbd toolsCtr navNext" title="Go to next match #4 for pdb|3J58|A" onmouseover="scan(this)" ref="ordinalpos=3&amp;currseq=557804395" onclick="goToNextHSP(this,true)"><span>Next Match</span></a>
+<a class="gbd toolsCtr navPrev" title="Go to previous match #2 for pdb|3J58|A" onmouseover="scan(this)" ref="ordinalpos=3&amp;currseq=557804395" onclick="goToNextHSP(this,false)"><span>Previous Match</span></a>
+<a class="gbd toolsCtr navBack " href="#hsp557804395_1" title="Go to first match for pdb|3J58|A"><span>First Match</span></a>
+</span>
+</div>
+<table class="alnParams">
+<caption class="hdnHeader">Alignment statistics for match #3</caption>
+<tbody><tr>
+<th>Score</th><th>Expect</th><th>Identities</th><th>Gaps</th><th>Strand</th><th class="aln_frame ">Frame</th>
+</tr>
+<tr>
+<td>14.4 bits(7)</td>
+<td>  186<span class="sumN ">()</span></td>
+<td>7/7(100%)</td>
+<td>0/7(0%)</td>
+<td>Plus/Plus</td>
+<td class="aln_frame "></td>
+</tr></tbody></table>
+<div class="dflLnk aln_feat hidden"><label>Features:</label><div></div></div>
+</div>
+<div id="ar_557804395_3">
+<pre>Query  7    TCGTGAA  13
+|||||||
+Sbjct  839  TCGTGAA  845
+</pre>
+</div>
+<div id="hd_557804395_4">
+<div class="dflLnk hsp"><span class="alnRn"><label>Range 4: 2027 to 2033</label><span class="" id="rng_557804395"><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804395?report=genbank&amp;log$=nuclalign&amp;blast_rank=2&amp;RID=PHWP1JNZ014&amp;from=2027&amp;to=2033" class="" target="lnkPHWP1JNZ014" title="Aligned region spanning positions 2027 to 2033 on 3J58_A">GenBank</a><a href="http://www.ncbi.nlm.nih.gov/nuccore/557804395?report=graph&amp;rid=PHWP1JNZ014[557804395]&amp;tracks=[key:sequence_track,name:Sequence,display_name:Sequence,id:STD1,category:Sequence,annots:Sequence,ShowLabel:true][key:gene_model_track,CDSProductFeats:false][key:alignment_track,name:other%20alignments,annots:NG%20Alignments%7CRefseq%20Alignments%7CGnomon%20Alignments%7CUnnamed,shown:false]&amp;v=2027:2033&amp;appname=ncbiblast&amp;link_loc=fromHSP" class="spr" target="lnkPHWP1JNZ014" title="Show alignment to 3J58_A in Nucleotide Graphics for 2027 to 2033 range">Graphics</a></span></span>
+<span id="hsp557804395_4" class="alnParLinks">
+<a class="gbd toolsCtr navNext" disabled="disabled" title="Go to next match #5 for pdb|3J58|A" onmouseover="scan(this)" ref="ordinalpos=4&amp;currseq=557804395" onclick="goToNextHSP(this,true)"><span>Next Match</span></a>
+<a class="gbd toolsCtr navPrev" title="Go to previous match #3 for pdb|3J58|A" onmouseover="scan(this)" ref="ordinalpos=4&amp;currseq=557804395" onclick="goToNextHSP(this,false)"><span>Previous Match</span></a>
+<a class="gbd toolsCtr navBack " href="#hsp557804395_1" title="Go to first match for pdb|3J58|A"><span>First Match</span></a>
+</span>
+</div>
+<table class="alnParams">
+<caption class="hdnHeader">Alignment statistics for match #4</caption>
+<tbody><tr>
+<th>Score</th><th>Expect</th><th>Identities</th><th>Gaps</th><th>Strand</th><th class="aln_frame ">Frame</th>
+</tr>
+<tr>
+<td>14.4 bits(7)</td>
+<td>  186<span class="sumN ">()</span></td>
+<td>7/7(100%)</td>
+<td>0/7(0%)</td>
+<td>Plus/Plus</td>
+<td class="aln_frame "></td>
+</tr></tbody></table>
+<div class="dflLnk aln_feat hidden"><label>Features:</label><div></div></div>
+</div>
+<div id="ar_557804395_4">
+<pre>Query  9     GTGAAGA  15
+|||||||
+Sbjct  2027  GTGAAGA  2033
+</pre>
+</div>
+</div> <!-- alnAll_557804395 -->
+</div> <!-- aln_557804395 -->
+<div class="alnHdr cnf" id="alnHdr_557804339" seqid="557804339" accs="pdb|3J56|A">
+<a name="557804339"></a>
+<a aria-haspopup="true" aria-expanded="false" role="button" href="#dlgDwnl_557804339" class="jig-ncbipopper toolsCtr dnld dialog" data-jigconfig="hasArrow:'true',arrowDirection:'top',closeEvent: 'click', openEvent: 'click', destPosition: 'top center', triggerPosition: 'bottom right'" id="alnDwnld_557804339" title="Download information for pdb|3J56|A"><span>Download</span></a>
+<div style="top: -100px; left: -100px; display: none;" aria-hidden="true" aria-live="assertive" id="dlgDwnl_557804339" class="popDl ui-helper-reset ui-ncbipopper-wrapper ui-ncbipopper-basic">
+<div><input seqfsta="gi|557804339" name="dwn_557804339" checked="checked" id="dwFST_557804339" fstadwtype="complete" sbfunc="initDownLoadFSTA" type="radio"><label class="shownInl" for="dwFST_557804339">FASTA (complete sequence)</label></div>
+<div><input seqfsta="gi|557804339" name="dwn_557804339" id="dwFSTAl_557804339" fstadwtype="range" sbfunc="initDownLoadFSTA" type="radio"><label class="shownInl" for="dwFSTAl_557804339">FASTA (aligned sequences)</label></div>
+<div class=""><input name="dwn_557804339" id="dwGenBank_557804339" getgi="557804339" sbname="id" url="http://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?db=nuccore&amp;rettype=gb&amp;retmode=text" type="radio"><label class="shownInl" for="dwGenBank_557804339">GenBank (complete sequence)</label></div>
+<div>
+<button class="cfg" id="dw_cont_557804339">Continue</button>
+<button class="cfg cnc">Cancel</button>
+</div>
+</div> <!-- dsDownload -->
+<span class="csLinks" id="csLinks_557804339"><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804339?report=genbank&amp;log$=nuclalign&amp;blast_rank=3&amp;RID=PHWP1JNZ014" class="" target="lnkPHWP1JNZ014" title="Show genbank report for 3J56_A">GenBank</a><a href="http://www.ncbi.nlm.nih.gov/nuccore/557804339?report=graph&amp;rid=PHWP1JNZ014[557804339]&amp;tracks=[key:sequence_track,name:Sequence,display_name:Sequence,id:STD1,category:Sequence,annots:Sequence,ShowLabel:true][key:gene_model_track,CDSProductFeats:false][key:alignment_track,name:other%20alignments,annots:NG%20Alignments%7CRefseq%20Alignments%7CGnomon%20Alignments%7CUnnamed,shown:false]&amp;v=752:2685&amp;appname=ncbiblast&amp;link_loc=fromSubj" class="spr" target="lnkPHWP1JNZ014" title="Show alignment to 3J56_A in Nucleotide Graphics">Graphics</a></span>
+<div class="seqlinks alnDflLn alnSortSeq"><label>Sort by:</label>
+<select id="sa_557804339" onchange="SortHSPAlnSel(event,this)">
+<option selected="selected" value="0">E value</option>
+<option value="1"> Score</option>
+<option value="3">Percent identity</option>
+<option value="2">Query start position</option>
+<option value="4">Subject start position</option>
+</select>
+</div>
+<span class="alnSeqLinks">
+<a title="Go to next alignment for pdb|3J54|A" class="gbd toolsCtr navNext" ref="ordinalpos=3&amp;currseq=557804339" id="alnNxt_557804339" onclick="goToNextAlign('dtr_557804339',true);"><span>Next</span></a>
+<a title="Go to previous alignment for pdb|3J58|A" class="gbd toolsCtr navPrev" ref="ordinalpos=3&amp;currseq=557804339" id="alnPrv_557804339" onclick="goToNextAlign('dtr_557804339',false);"><span>Previous</span></a>
+<a class="gbd toolsCtr navBack" title="Go to definition line for pdb|3J56|A" id="alnDsc_557804339" onclick="goToDefLine('dtr_557804339');" href="#dtr_557804339"><span>Descriptions</span></a>
+</span>
+</div>
+<div class="oneSeqAln" id="aln_557804339">
+<div id="dln_557804339">
+<div class="dlfRow">
+Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Hybrid Pre- Translocation State (pre5a, 50s Subunit)
+<div><label>Sequence ID: </label><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804339?report=genbank&amp;log$=nuclalign&amp;blast_rank=3&amp;RID=PHWP1JNZ014" target="lnkPHWP1JNZ014" title="Show report for pdb|3J56|A">pdb|3J56|A</a><span class=" r"><label>Length: </label>2903<label>Number of Matches: </label>4</span></div>
+</div>
+</div>
+<div class="relInf" id="relInf_557804339"><label>Related Information</label></div>
+<!--
+<pre>
+<@aln_gene_info@>
+</pre>
+-->
+<div class="alnAll" id="alnAll_557804339"><div id="hd_557804339_1">
+<div class="dflLnk hsp"><span class="alnRn"><label>Range 1: 961 to 976</label><span class="" id="rng_557804339"><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804339?report=genbank&amp;log$=nuclalign&amp;blast_rank=3&amp;RID=PHWP1JNZ014&amp;from=961&amp;to=976" class="" target="lnkPHWP1JNZ014" title="Aligned region spanning positions 961 to 976 on 3J56_A">GenBank</a><a href="http://www.ncbi.nlm.nih.gov/nuccore/557804339?report=graph&amp;rid=PHWP1JNZ014[557804339]&amp;tracks=[key:sequence_track,name:Sequence,display_name:Sequence,id:STD1,category:Sequence,annots:Sequence,ShowLabel:true][key:gene_model_track,CDSProductFeats:false][key:alignment_track,name:other%20alignments,annots:NG%20Alignments%7CRefseq%20Alignments%7CGnomon%20Alignments%7CUnnamed,shown:false]&amp;v=961:976&amp;appname=ncbiblast&amp;link_loc=fromHSP" class="spr" target="lnkPHWP1JNZ014" title="Show alignment to 3J56_A in Nucleotide Graphics for 961 to 976 range">Graphics</a></span></span>
+<span id="hsp557804339_1" class="alnParLinks">
+<a class="gbd toolsCtr navNext" title="Go to next match #2 for pdb|3J56|A" onmouseover="scan(this)" ref="ordinalpos=1&amp;currseq=557804339" onclick="goToNextHSP(this,true)"><span>Next Match</span></a>
+<a class="gbd toolsCtr navPrev" disabled="disabled" title="Go to previous match #0 for pdb|3J56|A" onmouseover="scan(this)" ref="ordinalpos=1&amp;currseq=557804339" onclick="goToNextHSP(this,false)"><span>Previous Match</span></a>
+<a class="gbd toolsCtr navBack hidden" href="#hsp557804339_1" title="Go to first match for pdb|3J56|A"><span>First Match</span></a>
+</span>
+</div>
+<table class="alnParams">
+<caption class="hdnHeader">Alignment statistics for match #1</caption>
+<tbody><tr>
+<th>Score</th><th>Expect</th><th>Identities</th><th>Gaps</th><th>Strand</th><th class="aln_frame ">Frame</th>
+</tr>
+<tr>
+<td>32.2 bits(16)</td>
+<td>8e-04<span class="sumN ">()</span></td>
+<td>16/16(100%)</td>
+<td>0/16(0%)</td>
+<td>Plus/Plus</td>
+<td class="aln_frame "></td>
+</tr></tbody></table>
+<div class="dflLnk aln_feat hidden"><label>Features:</label><div></div></div>
+</div>
+<div id="ar_557804339_1">
+<pre>Query  1    CGTCCGTCGTGAAGAG  16
+||||||||||||||||
+Sbjct  961  CGTCCGTCGTGAAGAG  976
+</pre>
+</div>
+<div id="hd_557804339_2">
+<div class="dflLnk hsp"><span class="alnRn"><label>Range 2: 2591 to 2598</label><span class="" id="rng_557804339"><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804339?report=genbank&amp;log$=nuclalign&amp;blast_rank=3&amp;RID=PHWP1JNZ014&amp;from=2591&amp;to=2598" class="" target="lnkPHWP1JNZ014" title="Aligned region spanning positions 2591 to 2598 on 3J56_A">GenBank</a><a href="http://www.ncbi.nlm.nih.gov/nuccore/557804339?report=graph&amp;rid=PHWP1JNZ014[557804339]&amp;tracks=[key:sequence_track,name:Sequence,display_name:Sequence,id:STD1,category:Sequence,annots:Sequence,ShowLabel:true][key:gene_model_track,CDSProductFeats:false][key:alignment_track,name:other%20alignments,annots:NG%20Alignments%7CRefseq%20Alignments%7CGnomon%20Alignments%7CUnnamed,shown:false]&amp;v=2591:2598&amp;appname=ncbiblast&amp;link_loc=fromHSP" class="spr" target="lnkPHWP1JNZ014" title="Show alignment to 3J56_A in Nucleotide Graphics for 2591 to 2598 range">Graphics</a></span></span>
+<span id="hsp557804339_2" class="alnParLinks">
+<a class="gbd toolsCtr navNext" title="Go to next match #3 for pdb|3J56|A" onmouseover="scan(this)" ref="ordinalpos=2&amp;currseq=557804339" onclick="goToNextHSP(this,true)"><span>Next Match</span></a>
+<a class="gbd toolsCtr navPrev" title="Go to previous match #1 for pdb|3J56|A" onmouseover="scan(this)" ref="ordinalpos=2&amp;currseq=557804339" onclick="goToNextHSP(this,false)"><span>Previous Match</span></a>
+<a class="gbd toolsCtr navBack " href="#hsp557804339_1" title="Go to first match for pdb|3J56|A"><span>First Match</span></a>
+</span>
+</div>
+<table class="alnParams">
+<caption class="hdnHeader">Alignment statistics for match #2</caption>
+<tbody><tr>
+<th>Score</th><th>Expect</th><th>Identities</th><th>Gaps</th><th>Strand</th><th class="aln_frame ">Frame</th>
+</tr>
+<tr>
+<td>16.4 bits(8)</td>
+<td>   47<span class="sumN ">()</span></td>
+<td>8/8(100%)</td>
+<td>0/8(0%)</td>
+<td>Plus/Plus</td>
+<td class="aln_frame "></td>
+</tr></tbody></table>
+<div class="dflLnk aln_feat hidden"><label>Features:</label><div></div></div>
+</div>
+<div id="ar_557804339_2">
+<pre>Query  5     CGTCGTGA  12
+||||||||
+Sbjct  2591  CGTCGTGA  2598
+</pre>
+</div>
+<div id="hd_557804339_3">
+<div class="dflLnk hsp"><span class="alnRn"><label>Range 3: 839 to 845</label><span class="" id="rng_557804339"><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804339?report=genbank&amp;log$=nuclalign&amp;blast_rank=3&amp;RID=PHWP1JNZ014&amp;from=839&amp;to=845" class="" target="lnkPHWP1JNZ014" title="Aligned region spanning positions 839 to 845 on 3J56_A">GenBank</a><a href="http://www.ncbi.nlm.nih.gov/nuccore/557804339?report=graph&amp;rid=PHWP1JNZ014[557804339]&amp;tracks=[key:sequence_track,name:Sequence,display_name:Sequence,id:STD1,category:Sequence,annots:Sequence,ShowLabel:true][key:gene_model_track,CDSProductFeats:false][key:alignment_track,name:other%20alignments,annots:NG%20Alignments%7CRefseq%20Alignments%7CGnomon%20Alignments%7CUnnamed,shown:false]&amp;v=839:845&amp;appname=ncbiblast&amp;link_loc=fromHSP" class="spr" target="lnkPHWP1JNZ014" title="Show alignment to 3J56_A in Nucleotide Graphics for 839 to 845 range">Graphics</a></span></span>
+<span id="hsp557804339_3" class="alnParLinks">
+<a class="gbd toolsCtr navNext" title="Go to next match #4 for pdb|3J56|A" onmouseover="scan(this)" ref="ordinalpos=3&amp;currseq=557804339" onclick="goToNextHSP(this,true)"><span>Next Match</span></a>
+<a class="gbd toolsCtr navPrev" title="Go to previous match #2 for pdb|3J56|A" onmouseover="scan(this)" ref="ordinalpos=3&amp;currseq=557804339" onclick="goToNextHSP(this,false)"><span>Previous Match</span></a>
+<a class="gbd toolsCtr navBack " href="#hsp557804339_1" title="Go to first match for pdb|3J56|A"><span>First Match</span></a>
+</span>
+</div>
+<table class="alnParams">
+<caption class="hdnHeader">Alignment statistics for match #3</caption>
+<tbody><tr>
+<th>Score</th><th>Expect</th><th>Identities</th><th>Gaps</th><th>Strand</th><th class="aln_frame ">Frame</th>
+</tr>
+<tr>
+<td>14.4 bits(7)</td>
+<td>  186<span class="sumN ">()</span></td>
+<td>7/7(100%)</td>
+<td>0/7(0%)</td>
+<td>Plus/Plus</td>
+<td class="aln_frame "></td>
+</tr></tbody></table>
+<div class="dflLnk aln_feat hidden"><label>Features:</label><div></div></div>
+</div>
+<div id="ar_557804339_3">
+<pre>Query  7    TCGTGAA  13
+|||||||
+Sbjct  839  TCGTGAA  845
+</pre>
+</div>
+<div id="hd_557804339_4">
+<div class="dflLnk hsp"><span class="alnRn"><label>Range 4: 2027 to 2033</label><span class="" id="rng_557804339"><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804339?report=genbank&amp;log$=nuclalign&amp;blast_rank=3&amp;RID=PHWP1JNZ014&amp;from=2027&amp;to=2033" class="" target="lnkPHWP1JNZ014" title="Aligned region spanning positions 2027 to 2033 on 3J56_A">GenBank</a><a href="http://www.ncbi.nlm.nih.gov/nuccore/557804339?report=graph&amp;rid=PHWP1JNZ014[557804339]&amp;tracks=[key:sequence_track,name:Sequence,display_name:Sequence,id:STD1,category:Sequence,annots:Sequence,ShowLabel:true][key:gene_model_track,CDSProductFeats:false][key:alignment_track,name:other%20alignments,annots:NG%20Alignments%7CRefseq%20Alignments%7CGnomon%20Alignments%7CUnnamed,shown:false]&amp;v=2027:2033&amp;appname=ncbiblast&amp;link_loc=fromHSP" class="spr" target="lnkPHWP1JNZ014" title="Show alignment to 3J56_A in Nucleotide Graphics for 2027 to 2033 range">Graphics</a></span></span>
+<span id="hsp557804339_4" class="alnParLinks">
+<a class="gbd toolsCtr navNext" disabled="disabled" title="Go to next match #5 for pdb|3J56|A" onmouseover="scan(this)" ref="ordinalpos=4&amp;currseq=557804339" onclick="goToNextHSP(this,true)"><span>Next Match</span></a>
+<a class="gbd toolsCtr navPrev" title="Go to previous match #3 for pdb|3J56|A" onmouseover="scan(this)" ref="ordinalpos=4&amp;currseq=557804339" onclick="goToNextHSP(this,false)"><span>Previous Match</span></a>
+<a class="gbd toolsCtr navBack " href="#hsp557804339_1" title="Go to first match for pdb|3J56|A"><span>First Match</span></a>
+</span>
+</div>
+<table class="alnParams">
+<caption class="hdnHeader">Alignment statistics for match #4</caption>
+<tbody><tr>
+<th>Score</th><th>Expect</th><th>Identities</th><th>Gaps</th><th>Strand</th><th class="aln_frame ">Frame</th>
+</tr>
+<tr>
+<td>14.4 bits(7)</td>
+<td>  186<span class="sumN ">()</span></td>
+<td>7/7(100%)</td>
+<td>0/7(0%)</td>
+<td>Plus/Plus</td>
+<td class="aln_frame "></td>
+</tr></tbody></table>
+<div class="dflLnk aln_feat hidden"><label>Features:</label><div></div></div>
+</div>
+<div id="ar_557804339_4">
+<pre>Query  9     GTGAAGA  15
+|||||||
+Sbjct  2027  GTGAAGA  2033
+</pre>
+</div>
+</div> <!-- alnAll_557804339 -->
+</div> <!-- aln_557804339 -->
+<div class="alnHdr cnf" id="alnHdr_557804283" seqid="557804283" accs="pdb|3J54|A">
+<a name="557804283"></a>
+<a aria-haspopup="true" aria-expanded="false" role="button" href="#dlgDwnl_557804283" class="jig-ncbipopper toolsCtr dnld dialog" data-jigconfig="hasArrow:'true',arrowDirection:'top',closeEvent: 'click', openEvent: 'click', destPosition: 'top center', triggerPosition: 'bottom right'" id="alnDwnld_557804283" title="Download information for pdb|3J54|A"><span>Download</span></a>
+<div style="top: -100px; left: -100px; display: none;" aria-hidden="true" aria-live="assertive" id="dlgDwnl_557804283" class="popDl ui-helper-reset ui-ncbipopper-wrapper ui-ncbipopper-basic">
+<div><input seqfsta="gi|557804283" name="dwn_557804283" checked="checked" id="dwFST_557804283" fstadwtype="complete" sbfunc="initDownLoadFSTA" type="radio"><label class="shownInl" for="dwFST_557804283">FASTA (complete sequence)</label></div>
+<div><input seqfsta="gi|557804283" name="dwn_557804283" id="dwFSTAl_557804283" fstadwtype="range" sbfunc="initDownLoadFSTA" type="radio"><label class="shownInl" for="dwFSTAl_557804283">FASTA (aligned sequences)</label></div>
+<div class=""><input name="dwn_557804283" id="dwGenBank_557804283" getgi="557804283" sbname="id" url="http://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?db=nuccore&amp;rettype=gb&amp;retmode=text" type="radio"><label class="shownInl" for="dwGenBank_557804283">GenBank (complete sequence)</label></div>
+<div>
+<button class="cfg" id="dw_cont_557804283">Continue</button>
+<button class="cfg cnc">Cancel</button>
+</div>
+</div> <!-- dsDownload -->
+<span class="csLinks" id="csLinks_557804283"><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804283?report=genbank&amp;log$=nuclalign&amp;blast_rank=4&amp;RID=PHWP1JNZ014" class="" target="lnkPHWP1JNZ014" title="Show genbank report for 3J54_A">GenBank</a><a href="http://www.ncbi.nlm.nih.gov/nuccore/557804283?report=graph&amp;rid=PHWP1JNZ014[557804283]&amp;tracks=[key:sequence_track,name:Sequence,display_name:Sequence,id:STD1,category:Sequence,annots:Sequence,ShowLabel:true][key:gene_model_track,CDSProductFeats:false][key:alignment_track,name:other%20alignments,annots:NG%20Alignments%7CRefseq%20Alignments%7CGnomon%20Alignments%7CUnnamed,shown:false]&amp;v=752:2685&amp;appname=ncbiblast&amp;link_loc=fromSubj" class="spr" target="lnkPHWP1JNZ014" title="Show alignment to 3J54_A in Nucleotide Graphics">Graphics</a></span>
+<div class="seqlinks alnDflLn alnSortSeq"><label>Sort by:</label>
+<select id="sa_557804283" onchange="SortHSPAlnSel(event,this)">
+<option selected="selected" value="0">E value</option>
+<option value="1"> Score</option>
+<option value="3">Percent identity</option>
+<option value="2">Query start position</option>
+<option value="4">Subject start position</option>
+</select>
+</div>
+<span class="alnSeqLinks">
+<a title="Go to next alignment for pdb|3J52|A" class="gbd toolsCtr navNext" ref="ordinalpos=4&amp;currseq=557804283" id="alnNxt_557804283" onclick="goToNextAlign('dtr_557804283',true);"><span>Next</span></a>
+<a title="Go to previous alignment for pdb|3J56|A" class="gbd toolsCtr navPrev" ref="ordinalpos=4&amp;currseq=557804283" id="alnPrv_557804283" onclick="goToNextAlign('dtr_557804283',false);"><span>Previous</span></a>
+<a class="gbd toolsCtr navBack" title="Go to definition line for pdb|3J54|A" id="alnDsc_557804283" onclick="goToDefLine('dtr_557804283');" href="#dtr_557804283"><span>Descriptions</span></a>
+</span>
+</div>
+<div class="oneSeqAln" id="aln_557804283">
+<div id="dln_557804283">
+<div class="dlfRow">
+Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Hybrid Pre- Translocation State (pre4, 50s Subunit)
+<div><label>Sequence ID: </label><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804283?report=genbank&amp;log$=nuclalign&amp;blast_rank=4&amp;RID=PHWP1JNZ014" target="lnkPHWP1JNZ014" title="Show report for pdb|3J54|A">pdb|3J54|A</a><span class=" r"><label>Length: </label>2903<label>Number of Matches: </label>4</span></div>
+</div>
+</div>
+<div class="relInf" id="relInf_557804283"><label>Related Information</label></div>
+<!--
+<pre>
+<@aln_gene_info@>
+</pre>
+-->
+<div class="alnAll" id="alnAll_557804283"><div id="hd_557804283_1">
+<div class="dflLnk hsp"><span class="alnRn"><label>Range 1: 961 to 976</label><span class="" id="rng_557804283"><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804283?report=genbank&amp;log$=nuclalign&amp;blast_rank=4&amp;RID=PHWP1JNZ014&amp;from=961&amp;to=976" class="" target="lnkPHWP1JNZ014" title="Aligned region spanning positions 961 to 976 on 3J54_A">GenBank</a><a href="http://www.ncbi.nlm.nih.gov/nuccore/557804283?report=graph&amp;rid=PHWP1JNZ014[557804283]&amp;tracks=[key:sequence_track,name:Sequence,display_name:Sequence,id:STD1,category:Sequence,annots:Sequence,ShowLabel:true][key:gene_model_track,CDSProductFeats:false][key:alignment_track,name:other%20alignments,annots:NG%20Alignments%7CRefseq%20Alignments%7CGnomon%20Alignments%7CUnnamed,shown:false]&amp;v=961:976&amp;appname=ncbiblast&amp;link_loc=fromHSP" class="spr" target="lnkPHWP1JNZ014" title="Show alignment to 3J54_A in Nucleotide Graphics for 961 to 976 range">Graphics</a></span></span>
+<span id="hsp557804283_1" class="alnParLinks">
+<a class="gbd toolsCtr navNext" title="Go to next match #2 for pdb|3J54|A" onmouseover="scan(this)" ref="ordinalpos=1&amp;currseq=557804283" onclick="goToNextHSP(this,true)"><span>Next Match</span></a>
+<a class="gbd toolsCtr navPrev" disabled="disabled" title="Go to previous match #0 for pdb|3J54|A" onmouseover="scan(this)" ref="ordinalpos=1&amp;currseq=557804283" onclick="goToNextHSP(this,false)"><span>Previous Match</span></a>
+<a class="gbd toolsCtr navBack hidden" href="#hsp557804283_1" title="Go to first match for pdb|3J54|A"><span>First Match</span></a>
+</span>
+</div>
+<table class="alnParams">
+<caption class="hdnHeader">Alignment statistics for match #1</caption>
+<tbody><tr>
+<th>Score</th><th>Expect</th><th>Identities</th><th>Gaps</th><th>Strand</th><th class="aln_frame ">Frame</th>
+</tr>
+<tr>
+<td>32.2 bits(16)</td>
+<td>8e-04<span class="sumN ">()</span></td>
+<td>16/16(100%)</td>
+<td>0/16(0%)</td>
+<td>Plus/Plus</td>
+<td class="aln_frame "></td>
+</tr></tbody></table>
+<div class="dflLnk aln_feat hidden"><label>Features:</label><div></div></div>
+</div>
+<div id="ar_557804283_1">
+<pre>Query  1    CGTCCGTCGTGAAGAG  16
+||||||||||||||||
+Sbjct  961  CGTCCGTCGTGAAGAG  976
+</pre>
+</div>
+<div id="hd_557804283_2">
+<div class="dflLnk hsp"><span class="alnRn"><label>Range 2: 2591 to 2598</label><span class="" id="rng_557804283"><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804283?report=genbank&amp;log$=nuclalign&amp;blast_rank=4&amp;RID=PHWP1JNZ014&amp;from=2591&amp;to=2598" class="" target="lnkPHWP1JNZ014" title="Aligned region spanning positions 2591 to 2598 on 3J54_A">GenBank</a><a href="http://www.ncbi.nlm.nih.gov/nuccore/557804283?report=graph&amp;rid=PHWP1JNZ014[557804283]&amp;tracks=[key:sequence_track,name:Sequence,display_name:Sequence,id:STD1,category:Sequence,annots:Sequence,ShowLabel:true][key:gene_model_track,CDSProductFeats:false][key:alignment_track,name:other%20alignments,annots:NG%20Alignments%7CRefseq%20Alignments%7CGnomon%20Alignments%7CUnnamed,shown:false]&amp;v=2591:2598&amp;appname=ncbiblast&amp;link_loc=fromHSP" class="spr" target="lnkPHWP1JNZ014" title="Show alignment to 3J54_A in Nucleotide Graphics for 2591 to 2598 range">Graphics</a></span></span>
+<span id="hsp557804283_2" class="alnParLinks">
+<a class="gbd toolsCtr navNext" title="Go to next match #3 for pdb|3J54|A" onmouseover="scan(this)" ref="ordinalpos=2&amp;currseq=557804283" onclick="goToNextHSP(this,true)"><span>Next Match</span></a>
+<a class="gbd toolsCtr navPrev" title="Go to previous match #1 for pdb|3J54|A" onmouseover="scan(this)" ref="ordinalpos=2&amp;currseq=557804283" onclick="goToNextHSP(this,false)"><span>Previous Match</span></a>
+<a class="gbd toolsCtr navBack " href="#hsp557804283_1" title="Go to first match for pdb|3J54|A"><span>First Match</span></a>
+</span>
+</div>
+<table class="alnParams">
+<caption class="hdnHeader">Alignment statistics for match #2</caption>
+<tbody><tr>
+<th>Score</th><th>Expect</th><th>Identities</th><th>Gaps</th><th>Strand</th><th class="aln_frame ">Frame</th>
+</tr>
+<tr>
+<td>16.4 bits(8)</td>
+<td>   47<span class="sumN ">()</span></td>
+<td>8/8(100%)</td>
+<td>0/8(0%)</td>
+<td>Plus/Plus</td>
+<td class="aln_frame "></td>
+</tr></tbody></table>
+<div class="dflLnk aln_feat hidden"><label>Features:</label><div></div></div>
+</div>
+<div id="ar_557804283_2">
+<pre>Query  5     CGTCGTGA  12
+||||||||
+Sbjct  2591  CGTCGTGA  2598
+</pre>
+</div>
+<div id="hd_557804283_3">
+<div class="dflLnk hsp"><span class="alnRn"><label>Range 3: 839 to 845</label><span class="" id="rng_557804283"><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804283?report=genbank&amp;log$=nuclalign&amp;blast_rank=4&amp;RID=PHWP1JNZ014&amp;from=839&amp;to=845" class="" target="lnkPHWP1JNZ014" title="Aligned region spanning positions 839 to 845 on 3J54_A">GenBank</a><a href="http://www.ncbi.nlm.nih.gov/nuccore/557804283?report=graph&amp;rid=PHWP1JNZ014[557804283]&amp;tracks=[key:sequence_track,name:Sequence,display_name:Sequence,id:STD1,category:Sequence,annots:Sequence,ShowLabel:true][key:gene_model_track,CDSProductFeats:false][key:alignment_track,name:other%20alignments,annots:NG%20Alignments%7CRefseq%20Alignments%7CGnomon%20Alignments%7CUnnamed,shown:false]&amp;v=839:845&amp;appname=ncbiblast&amp;link_loc=fromHSP" class="spr" target="lnkPHWP1JNZ014" title="Show alignment to 3J54_A in Nucleotide Graphics for 839 to 845 range">Graphics</a></span></span>
+<span id="hsp557804283_3" class="alnParLinks">
+<a class="gbd toolsCtr navNext" title="Go to next match #4 for pdb|3J54|A" onmouseover="scan(this)" ref="ordinalpos=3&amp;currseq=557804283" onclick="goToNextHSP(this,true)"><span>Next Match</span></a>
+<a class="gbd toolsCtr navPrev" title="Go to previous match #2 for pdb|3J54|A" onmouseover="scan(this)" ref="ordinalpos=3&amp;currseq=557804283" onclick="goToNextHSP(this,false)"><span>Previous Match</span></a>
+<a class="gbd toolsCtr navBack " href="#hsp557804283_1" title="Go to first match for pdb|3J54|A"><span>First Match</span></a>
+</span>
+</div>
+<table class="alnParams">
+<caption class="hdnHeader">Alignment statistics for match #3</caption>
+<tbody><tr>
+<th>Score</th><th>Expect</th><th>Identities</th><th>Gaps</th><th>Strand</th><th class="aln_frame ">Frame</th>
+</tr>
+<tr>
+<td>14.4 bits(7)</td>
+<td>  186<span class="sumN ">()</span></td>
+<td>7/7(100%)</td>
+<td>0/7(0%)</td>
+<td>Plus/Plus</td>
+<td class="aln_frame "></td>
+</tr></tbody></table>
+<div class="dflLnk aln_feat hidden"><label>Features:</label><div></div></div>
+</div>
+<div id="ar_557804283_3">
+<pre>Query  7    TCGTGAA  13
+|||||||
+Sbjct  839  TCGTGAA  845
+</pre>
+</div>
+<div id="hd_557804283_4">
+<div class="dflLnk hsp"><span class="alnRn"><label>Range 4: 2027 to 2033</label><span class="" id="rng_557804283"><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804283?report=genbank&amp;log$=nuclalign&amp;blast_rank=4&amp;RID=PHWP1JNZ014&amp;from=2027&amp;to=2033" class="" target="lnkPHWP1JNZ014" title="Aligned region spanning positions 2027 to 2033 on 3J54_A">GenBank</a><a href="http://www.ncbi.nlm.nih.gov/nuccore/557804283?report=graph&amp;rid=PHWP1JNZ014[557804283]&amp;tracks=[key:sequence_track,name:Sequence,display_name:Sequence,id:STD1,category:Sequence,annots:Sequence,ShowLabel:true][key:gene_model_track,CDSProductFeats:false][key:alignment_track,name:other%20alignments,annots:NG%20Alignments%7CRefseq%20Alignments%7CGnomon%20Alignments%7CUnnamed,shown:false]&amp;v=2027:2033&amp;appname=ncbiblast&amp;link_loc=fromHSP" class="spr" target="lnkPHWP1JNZ014" title="Show alignment to 3J54_A in Nucleotide Graphics for 2027 to 2033 range">Graphics</a></span></span>
+<span id="hsp557804283_4" class="alnParLinks">
+<a class="gbd toolsCtr navNext" disabled="disabled" title="Go to next match #5 for pdb|3J54|A" onmouseover="scan(this)" ref="ordinalpos=4&amp;currseq=557804283" onclick="goToNextHSP(this,true)"><span>Next Match</span></a>
+<a class="gbd toolsCtr navPrev" title="Go to previous match #3 for pdb|3J54|A" onmouseover="scan(this)" ref="ordinalpos=4&amp;currseq=557804283" onclick="goToNextHSP(this,false)"><span>Previous Match</span></a>
+<a class="gbd toolsCtr navBack " href="#hsp557804283_1" title="Go to first match for pdb|3J54|A"><span>First Match</span></a>
+</span>
+</div>
+<table class="alnParams">
+<caption class="hdnHeader">Alignment statistics for match #4</caption>
+<tbody><tr>
+<th>Score</th><th>Expect</th><th>Identities</th><th>Gaps</th><th>Strand</th><th class="aln_frame ">Frame</th>
+</tr>
+<tr>
+<td>14.4 bits(7)</td>
+<td>  186<span class="sumN ">()</span></td>
+<td>7/7(100%)</td>
+<td>0/7(0%)</td>
+<td>Plus/Plus</td>
+<td class="aln_frame "></td>
+</tr></tbody></table>
+<div class="dflLnk aln_feat hidden"><label>Features:</label><div></div></div>
+</div>
+<div id="ar_557804283_4">
+<pre>Query  9     GTGAAGA  15
+|||||||
+Sbjct  2027  GTGAAGA  2033
+</pre>
+</div>
+</div> <!-- alnAll_557804283 -->
+</div> <!-- aln_557804283 -->
+<div class="alnHdr cnf" id="alnHdr_557804227" seqid="557804227" accs="pdb|3J52|A">
+<a name="557804227"></a>
+<a aria-haspopup="true" aria-expanded="false" role="button" href="#dlgDwnl_557804227" class="jig-ncbipopper toolsCtr dnld dialog" data-jigconfig="hasArrow:'true',arrowDirection:'top',closeEvent: 'click', openEvent: 'click', destPosition: 'top center', triggerPosition: 'bottom right'" id="alnDwnld_557804227" title="Download information for pdb|3J52|A"><span>Download</span></a>
+<div style="top: -100px; left: -100px; display: none;" aria-hidden="true" aria-live="assertive" id="dlgDwnl_557804227" class="popDl ui-helper-reset ui-ncbipopper-wrapper ui-ncbipopper-basic">
+<div><input seqfsta="gi|557804227" name="dwn_557804227" checked="checked" id="dwFST_557804227" fstadwtype="complete" sbfunc="initDownLoadFSTA" type="radio"><label class="shownInl" for="dwFST_557804227">FASTA (complete sequence)</label></div>
+<div><input seqfsta="gi|557804227" name="dwn_557804227" id="dwFSTAl_557804227" fstadwtype="range" sbfunc="initDownLoadFSTA" type="radio"><label class="shownInl" for="dwFSTAl_557804227">FASTA (aligned sequences)</label></div>
+<div class=""><input name="dwn_557804227" id="dwGenBank_557804227" getgi="557804227" sbname="id" url="http://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?db=nuccore&amp;rettype=gb&amp;retmode=text" type="radio"><label class="shownInl" for="dwGenBank_557804227">GenBank (complete sequence)</label></div>
+<div>
+<button class="cfg" id="dw_cont_557804227">Continue</button>
+<button class="cfg cnc">Cancel</button>
+</div>
+</div> <!-- dsDownload -->
+<span class="csLinks" id="csLinks_557804227"><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804227?report=genbank&amp;log$=nuclalign&amp;blast_rank=5&amp;RID=PHWP1JNZ014" class="" target="lnkPHWP1JNZ014" title="Show genbank report for 3J52_A">GenBank</a><a href="http://www.ncbi.nlm.nih.gov/nuccore/557804227?report=graph&amp;rid=PHWP1JNZ014[557804227]&amp;tracks=[key:sequence_track,name:Sequence,display_name:Sequence,id:STD1,category:Sequence,annots:Sequence,ShowLabel:true][key:gene_model_track,CDSProductFeats:false][key:alignment_track,name:other%20alignments,annots:NG%20Alignments%7CRefseq%20Alignments%7CGnomon%20Alignments%7CUnnamed,shown:false]&amp;v=752:2685&amp;appname=ncbiblast&amp;link_loc=fromSubj" class="spr" target="lnkPHWP1JNZ014" title="Show alignment to 3J52_A in Nucleotide Graphics">Graphics</a></span>
+<div class="seqlinks alnDflLn alnSortSeq"><label>Sort by:</label>
+<select id="sa_557804227" onchange="SortHSPAlnSel(event,this)">
+<option selected="selected" value="0">E value</option>
+<option value="1"> Score</option>
+<option value="3">Percent identity</option>
+<option value="2">Query start position</option>
+<option value="4">Subject start position</option>
+</select>
+</div>
+<span class="alnSeqLinks">
+<a title="Go to next alignment for pdb|3J51|A" class="gbd toolsCtr navNext" ref="ordinalpos=5&amp;currseq=557804227" id="alnNxt_557804227" onclick="goToNextAlign('dtr_557804227',true);"><span>Next</span></a>
+<a title="Go to previous alignment for pdb|3J54|A" class="gbd toolsCtr navPrev" ref="ordinalpos=5&amp;currseq=557804227" id="alnPrv_557804227" onclick="goToNextAlign('dtr_557804227',false);"><span>Previous</span></a>
+<a class="gbd toolsCtr navBack" title="Go to definition line for pdb|3J52|A" id="alnDsc_557804227" onclick="goToDefLine('dtr_557804227');" href="#dtr_557804227"><span>Descriptions</span></a>
+</span>
+</div>
+<div class="oneSeqAln" id="aln_557804227">
+<div id="dln_557804227">
+<div class="dlfRow">
+Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Classic Pre- Translocation State (pre1a, 50s Subunit)
+<div><label>Sequence ID: </label><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804227?report=genbank&amp;log$=nuclalign&amp;blast_rank=5&amp;RID=PHWP1JNZ014" target="lnkPHWP1JNZ014" title="Show report for pdb|3J52|A">pdb|3J52|A</a><span class=" r"><label>Length: </label>2903<label>Number of Matches: </label>4</span></div>
+</div>
+</div>
+<div class="relInf" id="relInf_557804227"><label>Related Information</label></div>
+<!--
+<pre>
+<@aln_gene_info@>
+</pre>
+-->
+<div class="alnAll" id="alnAll_557804227"><div id="hd_557804227_1">
+<div class="dflLnk hsp"><span class="alnRn"><label>Range 1: 961 to 976</label><span class="" id="rng_557804227"><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804227?report=genbank&amp;log$=nuclalign&amp;blast_rank=5&amp;RID=PHWP1JNZ014&amp;from=961&amp;to=976" class="" target="lnkPHWP1JNZ014" title="Aligned region spanning positions 961 to 976 on 3J52_A">GenBank</a><a href="http://www.ncbi.nlm.nih.gov/nuccore/557804227?report=graph&amp;rid=PHWP1JNZ014[557804227]&amp;tracks=[key:sequence_track,name:Sequence,display_name:Sequence,id:STD1,category:Sequence,annots:Sequence,ShowLabel:true][key:gene_model_track,CDSProductFeats:false][key:alignment_track,name:other%20alignments,annots:NG%20Alignments%7CRefseq%20Alignments%7CGnomon%20Alignments%7CUnnamed,shown:false]&amp;v=961:976&amp;appname=ncbiblast&amp;link_loc=fromHSP" class="spr" target="lnkPHWP1JNZ014" title="Show alignment to 3J52_A in Nucleotide Graphics for 961 to 976 range">Graphics</a></span></span>
+<span id="hsp557804227_1" class="alnParLinks">
+<a class="gbd toolsCtr navNext" title="Go to next match #2 for pdb|3J52|A" onmouseover="scan(this)" ref="ordinalpos=1&amp;currseq=557804227" onclick="goToNextHSP(this,true)"><span>Next Match</span></a>
+<a class="gbd toolsCtr navPrev" disabled="disabled" title="Go to previous match #0 for pdb|3J52|A" onmouseover="scan(this)" ref="ordinalpos=1&amp;currseq=557804227" onclick="goToNextHSP(this,false)"><span>Previous Match</span></a>
+<a class="gbd toolsCtr navBack hidden" href="#hsp557804227_1" title="Go to first match for pdb|3J52|A"><span>First Match</span></a>
+</span>
+</div>
+<table class="alnParams">
+<caption class="hdnHeader">Alignment statistics for match #1</caption>
+<tbody><tr>
+<th>Score</th><th>Expect</th><th>Identities</th><th>Gaps</th><th>Strand</th><th class="aln_frame ">Frame</th>
+</tr>
+<tr>
+<td>32.2 bits(16)</td>
+<td>8e-04<span class="sumN ">()</span></td>
+<td>16/16(100%)</td>
+<td>0/16(0%)</td>
+<td>Plus/Plus</td>
+<td class="aln_frame "></td>
+</tr></tbody></table>
+<div class="dflLnk aln_feat hidden"><label>Features:</label><div></div></div>
+</div>
+<div id="ar_557804227_1">
+<pre>Query  1    CGTCCGTCGTGAAGAG  16
+||||||||||||||||
+Sbjct  961  CGTCCGTCGTGAAGAG  976
+</pre>
+</div>
+<div id="hd_557804227_2">
+<div class="dflLnk hsp"><span class="alnRn"><label>Range 2: 2591 to 2598</label><span class="" id="rng_557804227"><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804227?report=genbank&amp;log$=nuclalign&amp;blast_rank=5&amp;RID=PHWP1JNZ014&amp;from=2591&amp;to=2598" class="" target="lnkPHWP1JNZ014" title="Aligned region spanning positions 2591 to 2598 on 3J52_A">GenBank</a><a href="http://www.ncbi.nlm.nih.gov/nuccore/557804227?report=graph&amp;rid=PHWP1JNZ014[557804227]&amp;tracks=[key:sequence_track,name:Sequence,display_name:Sequence,id:STD1,category:Sequence,annots:Sequence,ShowLabel:true][key:gene_model_track,CDSProductFeats:false][key:alignment_track,name:other%20alignments,annots:NG%20Alignments%7CRefseq%20Alignments%7CGnomon%20Alignments%7CUnnamed,shown:false]&amp;v=2591:2598&amp;appname=ncbiblast&amp;link_loc=fromHSP" class="spr" target="lnkPHWP1JNZ014" title="Show alignment to 3J52_A in Nucleotide Graphics for 2591 to 2598 range">Graphics</a></span></span>
+<span id="hsp557804227_2" class="alnParLinks">
+<a class="gbd toolsCtr navNext" title="Go to next match #3 for pdb|3J52|A" onmouseover="scan(this)" ref="ordinalpos=2&amp;currseq=557804227" onclick="goToNextHSP(this,true)"><span>Next Match</span></a>
+<a class="gbd toolsCtr navPrev" title="Go to previous match #1 for pdb|3J52|A" onmouseover="scan(this)" ref="ordinalpos=2&amp;currseq=557804227" onclick="goToNextHSP(this,false)"><span>Previous Match</span></a>
+<a class="gbd toolsCtr navBack " href="#hsp557804227_1" title="Go to first match for pdb|3J52|A"><span>First Match</span></a>
+</span>
+</div>
+<table class="alnParams">
+<caption class="hdnHeader">Alignment statistics for match #2</caption>
+<tbody><tr>
+<th>Score</th><th>Expect</th><th>Identities</th><th>Gaps</th><th>Strand</th><th class="aln_frame ">Frame</th>
+</tr>
+<tr>
+<td>16.4 bits(8)</td>
+<td>   47<span class="sumN ">()</span></td>
+<td>8/8(100%)</td>
+<td>0/8(0%)</td>
+<td>Plus/Plus</td>
+<td class="aln_frame "></td>
+</tr></tbody></table>
+<div class="dflLnk aln_feat hidden"><label>Features:</label><div></div></div>
+</div>
+<div id="ar_557804227_2">
+<pre>Query  5     CGTCGTGA  12
+||||||||
+Sbjct  2591  CGTCGTGA  2598
+</pre>
+</div>
+<div id="hd_557804227_3">
+<div class="dflLnk hsp"><span class="alnRn"><label>Range 3: 839 to 845</label><span class="" id="rng_557804227"><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804227?report=genbank&amp;log$=nuclalign&amp;blast_rank=5&amp;RID=PHWP1JNZ014&amp;from=839&amp;to=845" class="" target="lnkPHWP1JNZ014" title="Aligned region spanning positions 839 to 845 on 3J52_A">GenBank</a><a href="http://www.ncbi.nlm.nih.gov/nuccore/557804227?report=graph&amp;rid=PHWP1JNZ014[557804227]&amp;tracks=[key:sequence_track,name:Sequence,display_name:Sequence,id:STD1,category:Sequence,annots:Sequence,ShowLabel:true][key:gene_model_track,CDSProductFeats:false][key:alignment_track,name:other%20alignments,annots:NG%20Alignments%7CRefseq%20Alignments%7CGnomon%20Alignments%7CUnnamed,shown:false]&amp;v=839:845&amp;appname=ncbiblast&amp;link_loc=fromHSP" class="spr" target="lnkPHWP1JNZ014" title="Show alignment to 3J52_A in Nucleotide Graphics for 839 to 845 range">Graphics</a></span></span>
+<span id="hsp557804227_3" class="alnParLinks">
+<a class="gbd toolsCtr navNext" title="Go to next match #4 for pdb|3J52|A" onmouseover="scan(this)" ref="ordinalpos=3&amp;currseq=557804227" onclick="goToNextHSP(this,true)"><span>Next Match</span></a>
+<a class="gbd toolsCtr navPrev" title="Go to previous match #2 for pdb|3J52|A" onmouseover="scan(this)" ref="ordinalpos=3&amp;currseq=557804227" onclick="goToNextHSP(this,false)"><span>Previous Match</span></a>
+<a class="gbd toolsCtr navBack " href="#hsp557804227_1" title="Go to first match for pdb|3J52|A"><span>First Match</span></a>
+</span>
+</div>
+<table class="alnParams">
+<caption class="hdnHeader">Alignment statistics for match #3</caption>
+<tbody><tr>
+<th>Score</th><th>Expect</th><th>Identities</th><th>Gaps</th><th>Strand</th><th class="aln_frame ">Frame</th>
+</tr>
+<tr>
+<td>14.4 bits(7)</td>
+<td>  186<span class="sumN ">()</span></td>
+<td>7/7(100%)</td>
+<td>0/7(0%)</td>
+<td>Plus/Plus</td>
+<td class="aln_frame "></td>
+</tr></tbody></table>
+<div class="dflLnk aln_feat hidden"><label>Features:</label><div></div></div>
+</div>
+<div id="ar_557804227_3">
+<pre>Query  7    TCGTGAA  13
+|||||||
+Sbjct  839  TCGTGAA  845
+</pre>
+</div>
+<div id="hd_557804227_4">
+<div class="dflLnk hsp"><span class="alnRn"><label>Range 4: 2027 to 2033</label><span class="" id="rng_557804227"><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804227?report=genbank&amp;log$=nuclalign&amp;blast_rank=5&amp;RID=PHWP1JNZ014&amp;from=2027&amp;to=2033" class="" target="lnkPHWP1JNZ014" title="Aligned region spanning positions 2027 to 2033 on 3J52_A">GenBank</a><a href="http://www.ncbi.nlm.nih.gov/nuccore/557804227?report=graph&amp;rid=PHWP1JNZ014[557804227]&amp;tracks=[key:sequence_track,name:Sequence,display_name:Sequence,id:STD1,category:Sequence,annots:Sequence,ShowLabel:true][key:gene_model_track,CDSProductFeats:false][key:alignment_track,name:other%20alignments,annots:NG%20Alignments%7CRefseq%20Alignments%7CGnomon%20Alignments%7CUnnamed,shown:false]&amp;v=2027:2033&amp;appname=ncbiblast&amp;link_loc=fromHSP" class="spr" target="lnkPHWP1JNZ014" title="Show alignment to 3J52_A in Nucleotide Graphics for 2027 to 2033 range">Graphics</a></span></span>
+<span id="hsp557804227_4" class="alnParLinks">
+<a class="gbd toolsCtr navNext" disabled="disabled" title="Go to next match #5 for pdb|3J52|A" onmouseover="scan(this)" ref="ordinalpos=4&amp;currseq=557804227" onclick="goToNextHSP(this,true)"><span>Next Match</span></a>
+<a class="gbd toolsCtr navPrev" title="Go to previous match #3 for pdb|3J52|A" onmouseover="scan(this)" ref="ordinalpos=4&amp;currseq=557804227" onclick="goToNextHSP(this,false)"><span>Previous Match</span></a>
+<a class="gbd toolsCtr navBack " href="#hsp557804227_1" title="Go to first match for pdb|3J52|A"><span>First Match</span></a>
+</span>
+</div>
+<table class="alnParams">
+<caption class="hdnHeader">Alignment statistics for match #4</caption>
+<tbody><tr>
+<th>Score</th><th>Expect</th><th>Identities</th><th>Gaps</th><th>Strand</th><th class="aln_frame ">Frame</th>
+</tr>
+<tr>
+<td>14.4 bits(7)</td>
+<td>  186<span class="sumN ">()</span></td>
+<td>7/7(100%)</td>
+<td>0/7(0%)</td>
+<td>Plus/Plus</td>
+<td class="aln_frame "></td>
+</tr></tbody></table>
+<div class="dflLnk aln_feat hidden"><label>Features:</label><div></div></div>
+</div>
+<div id="ar_557804227_4">
+<pre>Query  9     GTGAAGA  15
+|||||||
+Sbjct  2027  GTGAAGA  2033
+</pre>
+</div>
+</div> <!-- alnAll_557804227 -->
+</div> <!-- aln_557804227 -->
+</form>
+</div></div>
+<pre>
+</pre>
+</div><!--/#alignments-->
+</div><!-- alignInfo -->
+</div><!--ARIA-->
+</div><!-- alignView -->
+<form><!-- this is the start tag for the </form in blastcgi templates - needs to be changed-->
+<!-- not used - verify -->
+<!-- not used - verify -->
+</form>
+				</div><!-- /#content -->
+				<form action="Blast.cgi" enctype="application/x-www-form-urlencoded" method="post" name="reformat" id="reformat">
+				   <input name="QUERY_INFO" value="Nucleotide Sequence (16 letters)" type="hidden">
+				   <input name="ENTREZ_QUERY" value="" type="hidden">
+<input name="CDD_RID" value="" type="hidden">
+<input name="CDD_SEARCH_STATE" value="" type="hidden">
+<input name="RID" value="PHWP1JNZ014" type="hidden">
+				   <input name="STEP_NUMBER" value="" type="hidden">
+				   <input name="CMD" value="Web" type="hidden">
+				   <input name="PAGE_TYPE" value="BlastFormatting" type="hidden">
+				   <!-- TO DO: test all of those changes -->
+				   <!-- Psi blast params  PSI_BLAST_PARAMS - commented- using forms[0] from fromatter> -->
+				   <!-- Current Formatting options FORMATTING_OPTIONS- commented- using forms[0] from fromatter> -->
+				   <!-- Current Search options CURR_SAVED_OPTIONS - commented- using forms[0] from fromatter> -->
+</form>
+<form action="Blast.cgi" enctype="application/x-www-form-urlencoded" method="post" name="setSavedOptions" id="setSavedOptions">
+					<input name="PAGE_TYPE" value="BlastSearch" type="hidden">
+					<input name="VIEW_SEARCH" value="true" type="hidden">
+					<input name="CMD" value="Web" type="hidden">
+					<!-- Current Search options CURR_SAVED_OPTIONS - commented- using forms[0] from fromatter> -->
+				</form>
+				<form action="Blast.cgi" enctype="application/x-www-form-urlencoded" method="post" name="saveOptions" id="saveOptions">
+					<input name="SAVE" value="true" type="hidden">
+					<input name="CMD" value="GetSaved" type="hidden">
+					<!-- Current Search options CURR_SAVED_OPTIONS - commented- using forms[0] from formatter> -->
+				</form>
+</div><!-- /#content-wrap -->
+<div id="footer">
+<div id="rgs">BLAST is a registered trademark of the National Library of Medicine.</div>
+<p id="orgns">
+<a href="http://www.ncbi.nlm.nih.gov/" title="National Center for Biotechnology Information">NCBI</a> |
+<a href="http://www.nlm.nih.gov/" title="National Library of Medicine">NLM</a> |
+<a href="http://www.nih.gov/" title="National Institutes of Health">NIH</a> |
+<a href="http://www.hhs.gov/" title="US Department of Health and Human Services">DHHS</a>
+</p>
+<p>
+<a href="http://www.ncbi.nlm.nih.gov/About/disclaimer.html" title="NCBI intellectual property statement">Copyright</a> |
+<a href="http://www.ncbi.nlm.nih.gov/About/disclaimer.html#disclaimer" title="About liability, endorsements, external links, pop-up advertisements">Disclaimer</a> |
+<a href="http://www.nlm.nih.gov/privacy.html" title="NLM privacy policy">Privacy</a> |
+<a href="http://www.nlm.nih.gov/accessibility.html" title="About using NCBI resources with assistive technology">Accessibility</a> |
+<a href="http://www.ncbi.nlm.nih.gov/About/glance/contact_info.html" title="How to get help, submit data, or provide feedback">Contact</a> |
+<a href="mailto:blast-help@ncbi.nlm.nih.gov" title="How to get help, submit data, or provide feedback">Send feedback</a>
+</p>
+</div>
+</div><!--/#wrap-->
+<script type="text/javascript" src="NCBI%20Blast%20reference%20example_files/utils.js"></script>
+<script type="text/javascript" src="NCBI%20Blast%20reference%20example_files/toggle.js"></script>
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+<script type="text/javascript" src="NCBI%20Blast%20reference%20example_files/results.js"></script><link rel="stylesheet" type="text/css" href="NCBI%20Blast%20reference%20example_files/firefox-descriptions.css" media="screen">
+<script type="text/javascript" src="NCBI%20Blast%20reference%20example_files/blast.js"></script>
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+<script type="text/javascript" src="NCBI%20Blast%20reference%20example_files/InstrumentPageStarterJS.js"></script>
+<div class="ui-ncbiautocomplete-holder shadow" aria-live="assertive"><ul class="ui-ncbiautocomplete-options" role="listbox" aria-activedescendant=""></ul><div class="ui-ncbiautocomplete-actions shadow"><a href="#" class="ui-ncbiautocomplete-link-pref">Preferences</a><a href="#" class="ui-ncbiautocomplete-link-off">Turn off</a></div></div><ul class="print-log"><li></li></ul></body></html>

Mercurial > repos > jankanis > blast2html

comparison NCBI Blast reference example.html @ 31:344cd76f6fd2