Mercurial > repos > jankanis > blast2html
changeset 2:bad241dc701f draft
add example input blast xml and output html page
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Blast output page example.html Tue May 06 17:05:58 2014 +0200 @@ -0,0 +1,2071 @@ +<!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="Blast%20output%20page%20example_files/jig.js"></script><link rel="stylesheet" type="text/css" href="Blast%20output%20page%20example_files/jig.css"><script type="text/javascript" src="Blast%20output%20page%20example_files/jquery_002.js"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example_files/jquery_005.css"><script type="text/javascript" src="Blast%20output%20page%20example_files/jquery_004.js"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example_files/jquery_004.css"><script type="text/javascript" src="Blast%20output%20page%20example_files/jquery_007.js"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example_files/jquery_003.css"><script type="text/javascript" src="Blast%20output%20page%20example_files/jquery.js"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example_files/jquery_007.css"><script type="text/javascript" src="Blast%20output%20page%20example_files/jquery_003.js"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example_files/jquery_008.css"><script type="text/javascript" src="Blast%20output%20page%20example_files/jquery_008.js"></script><script type="text/javascript" src="Blast%20output%20page%20example_files/jquery_005.js"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example_files/jquery.css"><script type="text/javascript" src="Blast%20output%20page%20example_files/jquery_009.js"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example_files/jquery_006.css"><script type="text/javascript" src="Blast%20output%20page%20example_files/jquery_006.js"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%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="Blast%20output%20page%20example_files/main.css" media="screen"> +<link rel="stylesheet" type="text/css" href="Blast%20output%20page%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="Blast%20output%20page%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="Blast%20output%20page%20example_files/blastReq.css" media="screen"> +<link rel="stylesheet" type="text/css" href="Blast%20output%20page%20example_files/results.css" media="screen"> +<link rel="stylesheet" type="text/css" href="Blast%20output%20page%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="Blast%20output%20page%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="Blast%20output%20page%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&PAGE_TYPE=BlastHome" title="BLAST Home">Home</a></li> + <li class="recent "><a href="http://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=GetSaved&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&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&PAGE_TYPE=BlastHome">BLAST</a>/ + <a href="http://blast.ncbi.nlm.nih.gov/Blast.cgi?PAGE=Nucleotides&PROGRAM=blastn&PAGE_TYPE=BlastSearch&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="Blast%20output%20page%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="Blast%20output%20page%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&RID=PHWP1JNZ014&FORMAT_TYPE=Text&FORMAT_OBJECT=Alignment&DESCRIPTIONS=100&ALIGNMENTS=100&CMD=Get">Text</a> +<a class="xgl" href="http://blast.ncbi.nlm.nih.gov/Blast.cgi?RESULTS_FILE=on&RID=PHWP1JNZ014&FORMAT_TYPE=XML&FORMAT_OBJECT=Alignment&CMD=Get">XML</a> +<a href="http://blast.ncbi.nlm.nih.gov/Blast.cgi?RESULTS_FILE=on&RID=PHWP1JNZ014&FORMAT_TYPE=ASN.1&FORMAT_OBJECT=Alignment&CMD=Get">ASN.1</a> +<a id="hitText" href="http://blast.ncbi.nlm.nih.gov/Blast.cgi?RESULTS_FILE=on&RID=PHWP1JNZ014&FORMAT_TYPE=Text&FORMAT_OBJECT=Alignment&ALIGNMENT_VIEW=Tabular&CMD=Get">Hit Table(text)</a> +<a id="hitCvs" href="http://blast.ncbi.nlm.nih.gov/Blast.cgi?RESULTS_FILE=on&RID=PHWP1JNZ014&FORMAT_TYPE=CSV&FORMAT_OBJECT=Alignment&ALIGNMENT_VIEW=Tabular&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&RECENT_RESULTS=on&RID=PHWP1JNZ014&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&RID=PHWP1JNZ014&FORMAT_TYPE=ASN.1&FORMAT_OBJECT=PSSM_Scoremat&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&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&db=nucleotide&term=59987&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&cmd=Retrieve&list_uids=9254694&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&RID=PHWP1JNZ014&FORMAT_OBJECT=TaxBlast&NCBI_GI=off&DESCRIPTIONS=100&ALIGNMENTS=100&FORMAT_BLOCK_ON_RESPAGE=Top&MASK_COLOR=1&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&blastRID=PHWP1JNZ014&queryID=lcl%7C59987&entrezLim=&ex=&exl=&exh=&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="Blast%20output%20page%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="Blast%20output%20page%20example_files/white.gif" height="4" width="50"></td> +<td align="LEFT" valign="CENTER"><img alt="" src="Blast%20output%20page%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="Blast%20output%20page%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="Blast%20output%20page%20example_files/white.gif" height="4" width="51"></td> +<td align="LEFT" valign="CENTER"><img alt="" src="Blast%20output%20page%20example_files/scale.gif" height="10" width="2"></td> +<td align="LEFT" valign="CENTER"><img alt="" src="Blast%20output%20page%20example_files/white.gif" height="4" width="91"></td> +<td align="LEFT" valign="CENTER"><img alt="" src="Blast%20output%20page%20example_files/scale.gif" height="10" width="2"></td> +<td align="LEFT" valign="CENTER"><img alt="" src="Blast%20output%20page%20example_files/white.gif" height="4" width="91"></td> +<td align="LEFT" valign="CENTER"><img alt="" src="Blast%20output%20page%20example_files/scale.gif" height="10" width="2"></td> +<td align="LEFT" valign="CENTER"><img alt="" src="Blast%20output%20page%20example_files/white.gif" height="4" width="91"></td> +<td align="LEFT" valign="CENTER"><img alt="" src="Blast%20output%20page%20example_files/scale.gif" height="10" width="2"></td> +<td align="LEFT" valign="CENTER"><img alt="" src="Blast%20output%20page%20example_files/white.gif" height="4" width="91"></td> +<td align="LEFT" valign="CENTER"><img alt="" src="Blast%20output%20page%20example_files/scale.gif" height="10" width="2"></td> +<td align="LEFT" valign="CENTER"><img alt="" src="Blast%20output%20page%20example_files/white.gif" height="4" width="91"></td> +<td align="LEFT" valign="CENTER"><img alt="" src="Blast%20output%20page%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="Blast%20output%20page%20example_files/white.gif" height="4" width="50"></td> +<td align="LEFT" valign="CENTER"><img alt="" src="Blast%20output%20page%20example_files/1.gif" height="13" width="10"></td> +<td align="LEFT" valign="CENTER"><img alt="" src="Blast%20output%20page%20example_files/white.gif" height="4" width="83"></td> +<td align="LEFT" valign="CENTER"><img alt="" src="Blast%20output%20page%20example_files/3.gif" height="13" width="10"></td> +<td align="LEFT" valign="CENTER"><img alt="" src="Blast%20output%20page%20example_files/white.gif" height="4" width="83"></td> +<td align="LEFT" valign="CENTER"><img alt="" src="Blast%20output%20page%20example_files/6.gif" height="13" width="10"></td> +<td align="LEFT" valign="CENTER"><img alt="" src="Blast%20output%20page%20example_files/white.gif" height="4" width="83"></td> +<td align="LEFT" valign="CENTER"><img alt="" src="Blast%20output%20page%20example_files/9.gif" height="13" width="10"></td> +<td align="LEFT" valign="CENTER"><img alt="" src="Blast%20output%20page%20example_files/white.gif" height="4" width="73"></td> +<td align="LEFT" valign="CENTER"><img alt="" src="Blast%20output%20page%20example_files/1.gif" height="13" width="10"></td> +<td align="LEFT" valign="CENTER"><img alt="" src="Blast%20output%20page%20example_files/2.gif" height="13" width="10"></td> +<td align="LEFT" valign="CENTER"><img alt="" src="Blast%20output%20page%20example_files/white.gif" height="4" width="73"></td> +<td align="LEFT" valign="CENTER"><img alt="" src="Blast%20output%20page%20example_files/1.gif" height="13" width="10"></td> +<td align="LEFT" valign="CENTER"><img alt="" src="Blast%20output%20page%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="Blast%20output%20page%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="Blast%20output%20page%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="Blast%20output%20page%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="Blast%20output%20page%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="Blast%20output%20page%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="Blast%20output%20page%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="Blast%20output%20page%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="Blast%20output%20page%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="Blast%20output%20page%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="Blast%20output%20page%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="Blast%20output%20page%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="Blast%20output%20page%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="Blast%20output%20page%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="Blast%20output%20page%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="Blast%20output%20page%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="Blast%20output%20page%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="Blast%20output%20page%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="Blast%20output%20page%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="Blast%20output%20page%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="Blast%20output%20page%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="Blast%20output%20page%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="Blast%20output%20page%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="Blast%20output%20page%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="Blast%20output%20page%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="Blast%20output%20page%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="Blast%20output%20page%20example_files/black.gif" height="4" border="0" width="250"></a></td> +<td align="LEFT" valign="CENTER"><img alt="" src="Blast%20output%20page%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="Blast%20output%20page%20example_files/black.gif" height="4" border="0" width="124"></a></td> +<td align="LEFT" valign="CENTER"><img alt="" src="Blast%20output%20page%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="Blast%20output%20page%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="Blast%20output%20page%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="Blast%20output%20page%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="Blast%20output%20page%20example_files/black.gif" height="4" border="0" width="219"></a></td> +<td align="LEFT" valign="CENTER"><img alt="" src="Blast%20output%20page%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="Blast%20output%20page%20example_files/black.gif" height="4" border="0" width="155"></a></td> +<td align="LEFT" valign="CENTER"><img alt="" src="Blast%20output%20page%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="Blast%20output%20page%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="Blast%20output%20page%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="Blast%20output%20page%20example_files/white.gif" height="4" width="50"></td> +<td align="LEFT" valign="CENTER"><img alt="" src="Blast%20output%20page%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="Blast%20output%20page%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="Blast%20output%20page%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@&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&rettype=gb&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&RID=PHWP1JNZ014&FORMAT_TYPE=Text&FORMAT_OBJECT=Alignment&ALIGNMENT_VIEW=Tabular&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&RID=PHWP1JNZ014&FORMAT_TYPE=CSV&FORMAT_OBJECT=Alignment&ALIGNMENT_VIEW=Tabular&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&RID=PHWP1JNZ014&FORMAT_TYPE=Text&FORMAT_OBJECT=Alignment&CMD=Get" type="radio"><label class="shownInl" for="dwText">Text</label></div> +<div><input name="dwn" id="dwXML" url="Blast.cgi?RESULTS_FILE=on&RID=PHWP1JNZ014&FORMAT_TYPE=XML&FORMAT_OBJECT=Alignment&CMD=Get" type="radio"><label class="shownInl" for="dwXML">XML</label></div> +<div><input name="dwn" id="dwASN" url="Blast.cgi?RESULTS_FILE=on&RID=PHWP1JNZ014&FORMAT_TYPE=ASN.1&FORMAT_OBJECT=Alignment&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&ALIGNMENTS=100&ALIGNMENT_VIEW=Pairwise&DATABASE_SORT=0&DESCRIPTIONS=100&DYNAMIC_FORMAT=on&FIRST_QUERY_NUM=0&FORMAT_OBJECT=Alignment&FORMAT_PAGE_TARGET=&FORMAT_TYPE=HTML&GET_SEQUENCE=yes&I_THRESH=&LINE_LENGTH=60&MASK_CHAR=2&MASK_COLOR=1&NUM_OVERVIEW=100&OLD_BLAST=false&PAGE=Nucleotides&QUERY_INDEX=0&QUERY_NUMBER=0&RESULTS_PAGE_TARGET=&RID=PHWP1JNZ014&SHOW_LINKOUT=yes&SHOW_OVERVIEW=yes&STEP_NUMBER=&WORD_SIZE=7&OLD_VIEW=false&DISPLAY_SORT=1&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&ALIGNMENTS=100&ALIGNMENT_VIEW=Pairwise&DATABASE_SORT=0&DESCRIPTIONS=100&DYNAMIC_FORMAT=on&FIRST_QUERY_NUM=0&FORMAT_OBJECT=Alignment&FORMAT_PAGE_TARGET=&FORMAT_TYPE=HTML&GET_SEQUENCE=yes&I_THRESH=&LINE_LENGTH=60&MASK_CHAR=2&MASK_COLOR=1&NUM_OVERVIEW=100&OLD_BLAST=false&PAGE=Nucleotides&QUERY_INDEX=0&QUERY_NUMBER=0&RESULTS_PAGE_TARGET=&RID=PHWP1JNZ014&SHOW_LINKOUT=yes&SHOW_OVERVIEW=yes&STEP_NUMBER=&WORD_SIZE=7&OLD_VIEW=false&DISPLAY_SORT=2&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&ALIGNMENTS=100&ALIGNMENT_VIEW=Pairwise&DATABASE_SORT=0&DESCRIPTIONS=100&DYNAMIC_FORMAT=on&FIRST_QUERY_NUM=0&FORMAT_OBJECT=Alignment&FORMAT_PAGE_TARGET=&FORMAT_TYPE=HTML&GET_SEQUENCE=yes&I_THRESH=&LINE_LENGTH=60&MASK_CHAR=2&MASK_COLOR=1&NUM_OVERVIEW=100&OLD_BLAST=false&PAGE=Nucleotides&QUERY_INDEX=0&QUERY_NUMBER=0&RESULTS_PAGE_TARGET=&RID=PHWP1JNZ014&SHOW_LINKOUT=yes&SHOW_OVERVIEW=yes&STEP_NUMBER=&WORD_SIZE=7&OLD_VIEW=false&DISPLAY_SORT=4&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&ALIGNMENTS=100&ALIGNMENT_VIEW=Pairwise&DATABASE_SORT=0&DESCRIPTIONS=100&DYNAMIC_FORMAT=on&FIRST_QUERY_NUM=0&FORMAT_OBJECT=Alignment&FORMAT_PAGE_TARGET=&FORMAT_TYPE=HTML&GET_SEQUENCE=yes&I_THRESH=&LINE_LENGTH=60&MASK_CHAR=2&MASK_COLOR=1&NUM_OVERVIEW=100&OLD_BLAST=false&PAGE=Nucleotides&QUERY_INDEX=0&QUERY_NUMBER=0&RESULTS_PAGE_TARGET=&RID=PHWP1JNZ014&SHOW_LINKOUT=yes&SHOW_OVERVIEW=yes&STEP_NUMBER=&WORD_SIZE=7&OLD_VIEW=false&DISPLAY_SORT=0&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&ALIGNMENTS=100&ALIGNMENT_VIEW=Pairwise&DATABASE_SORT=0&DESCRIPTIONS=100&DYNAMIC_FORMAT=on&FIRST_QUERY_NUM=0&FORMAT_OBJECT=Alignment&FORMAT_PAGE_TARGET=&FORMAT_TYPE=HTML&GET_SEQUENCE=yes&I_THRESH=&LINE_LENGTH=60&MASK_CHAR=2&MASK_COLOR=1&NUM_OVERVIEW=100&OLD_BLAST=false&PAGE=Nucleotides&QUERY_INDEX=0&QUERY_NUMBER=0&RESULTS_PAGE_TARGET=&RID=PHWP1JNZ014&SHOW_LINKOUT=yes&SHOW_OVERVIEW=yes&STEP_NUMBER=&WORD_SIZE=7&DISPLAY_SORT=3&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&log$=nucltop&blast_rank=1&RID=PHWP1JNZ014" class="dflSeq" target="lnkPHWP1JNZ014" title="Show report for 3J5A_A">3J5A_A</a> +</td> +</tr><tr id="dtr_557804395" ind="2" class="even dflLnk"> +<td class="l c0"><span class="ind">2</span><input id="chk_2" class="cb" name="getSeqGi" value="557804395" onclick="configDescrLinks(event,this)" type="checkbox"><label for="chk_2" class="accsb">Select seq pdb|3J58|A</label></td> +<td class="lim l c2"> +<div class="lim n"> +<a stat="disp" title="Go to alignment for Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Hybrid Pre- Translocation State (pre5b, 50s Subunit)" class="deflnDesc" hsp="4" len="38" ind="2" accs="pdb|3J58|A" seqfsta="gi|557804395" gi="557804395" seqid="557804395" id="deflnDesc_2" onclick="DisplayAlignFromDescription(this);" href="#alnHdr_557804395">Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Hybrid Pre- Translocation State (pre5b, 50s Subunit)</a> +</div> +</td> +<td class="c3">32.2</td> +<td class="c4">77.3</td> +<td class="c5">100%</td> +<td class="c6">8e-04</td><td class="c7">100%</td> +<td class="c1 l lim"> +<a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804395?report=genbank&log$=nucltop&blast_rank=2&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&log$=nucltop&blast_rank=3&RID=PHWP1JNZ014" class="dflSeq" target="lnkPHWP1JNZ014" title="Show report for 3J56_A">3J56_A</a> +</td> +</tr><tr id="dtr_557804283" ind="4" class="even dflLnk"> +<td class="l c0"><span class="ind">4</span><input id="chk_4" class="cb" name="getSeqGi" value="557804283" onclick="configDescrLinks(event,this)" type="checkbox"><label for="chk_4" class="accsb">Select seq pdb|3J54|A</label></td> +<td class="lim l c2"> +<div class="lim n"> +<a stat="disp" title="Go to alignment for Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Hybrid Pre- Translocation State (pre4, 50s Subunit)" class="deflnDesc" hsp="4" len="38" ind="4" accs="pdb|3J54|A" seqfsta="gi|557804283" gi="557804283" seqid="557804283" id="deflnDesc_4" onclick="DisplayAlignFromDescription(this);" href="#alnHdr_557804283">Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Hybrid Pre- Translocation State (pre4, 50s Subunit)</a> +</div> +</td> +<td class="c3">32.2</td> +<td class="c4">77.3</td> +<td class="c5">100%</td> +<td class="c6">8e-04</td><td class="c7">100%</td> +<td class="c1 l lim"> +<a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804283?report=genbank&log$=nucltop&blast_rank=4&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&log$=nucltop&blast_rank=5&RID=PHWP1JNZ014" class="dflSeq" target="lnkPHWP1JNZ014" title="Show report for 3J52_A">3J52_A</a> +</td> +</tr><tr id="dtr_557804195" ind="6" class="even dflLnk"> +<td class="l c0"><span class="ind">6</span><input id="chk_6" class="cb" name="getSeqGi" value="557804195" onclick="configDescrLinks(event,this)" type="checkbox"><label for="chk_6" class="accsb">Select seq pdb|3J51|A</label></td> +<td class="lim l c2"> +<div class="lim n"> +<a title="Go to alignment for Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Intermediate Pre- Translocation State (pre3, 50s Subunit)" class="deflnDesc" hsp="4" len="38" ind="6" accs="pdb|3J51|A" seqfsta="gi|557804195" gi="557804195" seqid="557804195" id="deflnDesc_6" onclick="DisplayAlignFromDescription(this);" href="#alnHdr_557804195">Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Intermediate Pre- Translocation State (pre3, 50s Subunit)</a> +</div> +</td> +<td class="c3">32.2</td> +<td class="c4">77.3</td> +<td class="c5">100%</td> +<td class="c6">8e-04</td><td class="c7">100%</td> +<td class="c1 l lim"> +<a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804195?report=genbank&log$=nucltop&blast_rank=6&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&log$=nucltop&blast_rank=7&RID=PHWP1JNZ014" class="dflSeq" target="lnkPHWP1JNZ014" title="Show report for 3J50_A">3J50_A</a> +</td> +</tr><tr id="dtr_557804083" ind="8" class="even dflLnk"> +<td class="l c0"><span class="ind">8</span><input id="chk_8" class="cb" name="getSeqGi" value="557804083" onclick="configDescrLinks(event,this)" type="checkbox"><label for="chk_8" class="accsb">Select seq pdb|3J4X|A</label></td> +<td class="lim l c2"> +<div class="lim n"> +<a title="Go to alignment for Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Classic Pre- Translocation State (pre1b, 50s Subunit)" class="deflnDesc" hsp="4" len="38" ind="8" accs="pdb|3J4X|A" seqfsta="gi|557804083" gi="557804083" seqid="557804083" id="deflnDesc_8" onclick="DisplayAlignFromDescription(this);" href="#alnHdr_557804083">Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Classic Pre- Translocation State (pre1b, 50s Subunit)</a> +</div> +</td> +<td class="c3">32.2</td> +<td class="c4">77.3</td> +<td class="c5">100%</td> +<td class="c6">8e-04</td><td class="c7">100%</td> +<td class="c1 l lim"> +<a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804083?report=genbank&log$=nucltop&blast_rank=8&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&log$=nucltop&blast_rank=9&RID=PHWP1JNZ014" class="dflSeq" target="lnkPHWP1JNZ014" title="Show report for 3J3F_5">3J3F_5</a> +</td> +</tr><tr id="dtr_485601474" ind="10" class="even dflLnk"> +<td class="l c0"><span class="ind">10</span><input id="chk_10" class="cb" name="getSeqGi" value="485601474" onclick="configDescrLinks(event,this)" type="checkbox"><label for="chk_10" class="accsb">Select seq pdb|3J3E|5</label></td> +<td class="lim l c2"> +<div class="lim n"> +<a title="Go to alignment for Chain 5, Structure Of The D. Melanogaster 60s Rrna" class="deflnDesc" hsp="4" len="31" ind="10" accs="pdb|3J3E|5" seqfsta="gi|485601474" gi="485601474" seqid="485601474" id="deflnDesc_10" onclick="DisplayAlignFromDescription(this);" href="#alnHdr_485601474">Chain 5, Structure Of The D. Melanogaster 60s Rrna</a> +</div> +</td> +<td class="c3">18.3</td> +<td class="c4">63.4</td> +<td class="c5">100%</td> +<td class="c6"> 12</td><td class="c7">100%</td> +<td class="c1 l lim"> +<a href="http://www.ncbi.nlm.nih.gov/nucleotide/485601474?report=genbank&log$=nucltop&blast_rank=10&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&log$=nucltop&blast_rank=11&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&blastRID=PHWP1JNZ014&queryID=lcl|59987&entrezLim=&ex=&exl=&exh=&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&blastRID=PHWP1JNZ014&queryID=lcl|59987&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="Blast%20output%20page%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&rettype=gb&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&log$=nuclalign&blast_rank=1&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&rid=PHWP1JNZ014[557804451]&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]&v=752:2685&appname=ncbiblast&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&currseq=557804451" id="alnNxt_557804451" onclick="goToNextAlign('dtr_557804451',true);"><span>Next</span></a> +<a disabled="disabled" class="gbd toolsCtr navPrev" ref="ordinalpos=1&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&log$=nuclalign&blast_rank=1&RID=PHWP1JNZ014" target="lnkPHWP1JNZ014" title="Show report for pdb|3J5A|A">pdb|3J5A|A</a><span class=" r"><label>Length: </label>2903<label>Number of Matches: </label>4</span></div> +</div> +</div> +<div class="relInf" id="relInf_557804451"><label>Related Information</label></div> +<!-- +<pre> +<@aln_gene_info@> +</pre> +--> +<div class="alnAll" id="alnAll_557804451"><div id="hd_557804451_1"> +<div class="dflLnk hsp"><span class="alnRn"><label>Range 1: 961 to 976</label><span class="" id="rng_557804451"><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804451?report=genbank&log$=nuclalign&blast_rank=1&RID=PHWP1JNZ014&from=961&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&rid=PHWP1JNZ014[557804451]&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]&v=961:976&appname=ncbiblast&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&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&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&log$=nuclalign&blast_rank=1&RID=PHWP1JNZ014&from=2591&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&rid=PHWP1JNZ014[557804451]&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]&v=2591:2598&appname=ncbiblast&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&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&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&log$=nuclalign&blast_rank=1&RID=PHWP1JNZ014&from=839&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&rid=PHWP1JNZ014[557804451]&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]&v=839:845&appname=ncbiblast&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&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&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&log$=nuclalign&blast_rank=1&RID=PHWP1JNZ014&from=2027&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&rid=PHWP1JNZ014[557804451]&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]&v=2027:2033&appname=ncbiblast&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&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&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&rettype=gb&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&log$=nuclalign&blast_rank=2&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&rid=PHWP1JNZ014[557804395]&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]&v=752:2685&appname=ncbiblast&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&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&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&log$=nuclalign&blast_rank=2&RID=PHWP1JNZ014" target="lnkPHWP1JNZ014" title="Show report for pdb|3J58|A">pdb|3J58|A</a><span class=" r"><label>Length: </label>2903<label>Number of Matches: </label>4</span></div> +</div> +</div> +<div class="relInf" id="relInf_557804395"><label>Related Information</label></div> +<!-- +<pre> +<@aln_gene_info@> +</pre> +--> +<div class="alnAll" id="alnAll_557804395"><div id="hd_557804395_1"> +<div class="dflLnk hsp"><span class="alnRn"><label>Range 1: 961 to 976</label><span class="" id="rng_557804395"><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804395?report=genbank&log$=nuclalign&blast_rank=2&RID=PHWP1JNZ014&from=961&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&rid=PHWP1JNZ014[557804395]&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]&v=961:976&appname=ncbiblast&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&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&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&log$=nuclalign&blast_rank=2&RID=PHWP1JNZ014&from=2591&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&rid=PHWP1JNZ014[557804395]&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]&v=2591:2598&appname=ncbiblast&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&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&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&log$=nuclalign&blast_rank=2&RID=PHWP1JNZ014&from=839&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&rid=PHWP1JNZ014[557804395]&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]&v=839:845&appname=ncbiblast&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&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&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&log$=nuclalign&blast_rank=2&RID=PHWP1JNZ014&from=2027&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&rid=PHWP1JNZ014[557804395]&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]&v=2027:2033&appname=ncbiblast&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&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&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&rettype=gb&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&log$=nuclalign&blast_rank=3&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&rid=PHWP1JNZ014[557804339]&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]&v=752:2685&appname=ncbiblast&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&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&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&log$=nuclalign&blast_rank=3&RID=PHWP1JNZ014" target="lnkPHWP1JNZ014" title="Show report for pdb|3J56|A">pdb|3J56|A</a><span class=" r"><label>Length: </label>2903<label>Number of Matches: </label>4</span></div> +</div> +</div> +<div class="relInf" id="relInf_557804339"><label>Related Information</label></div> +<!-- +<pre> +<@aln_gene_info@> +</pre> +--> +<div class="alnAll" id="alnAll_557804339"><div id="hd_557804339_1"> +<div class="dflLnk hsp"><span class="alnRn"><label>Range 1: 961 to 976</label><span class="" id="rng_557804339"><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804339?report=genbank&log$=nuclalign&blast_rank=3&RID=PHWP1JNZ014&from=961&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&rid=PHWP1JNZ014[557804339]&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]&v=961:976&appname=ncbiblast&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&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&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&log$=nuclalign&blast_rank=3&RID=PHWP1JNZ014&from=2591&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&rid=PHWP1JNZ014[557804339]&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]&v=2591:2598&appname=ncbiblast&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&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&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&log$=nuclalign&blast_rank=3&RID=PHWP1JNZ014&from=839&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&rid=PHWP1JNZ014[557804339]&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]&v=839:845&appname=ncbiblast&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&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&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&log$=nuclalign&blast_rank=3&RID=PHWP1JNZ014&from=2027&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&rid=PHWP1JNZ014[557804339]&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]&v=2027:2033&appname=ncbiblast&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&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&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&rettype=gb&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&log$=nuclalign&blast_rank=4&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&rid=PHWP1JNZ014[557804283]&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]&v=752:2685&appname=ncbiblast&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&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&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&log$=nuclalign&blast_rank=4&RID=PHWP1JNZ014" target="lnkPHWP1JNZ014" title="Show report for pdb|3J54|A">pdb|3J54|A</a><span class=" r"><label>Length: </label>2903<label>Number of Matches: </label>4</span></div> +</div> +</div> +<div class="relInf" id="relInf_557804283"><label>Related Information</label></div> +<!-- +<pre> +<@aln_gene_info@> +</pre> +--> +<div class="alnAll" id="alnAll_557804283"><div id="hd_557804283_1"> +<div class="dflLnk hsp"><span class="alnRn"><label>Range 1: 961 to 976</label><span class="" id="rng_557804283"><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804283?report=genbank&log$=nuclalign&blast_rank=4&RID=PHWP1JNZ014&from=961&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&rid=PHWP1JNZ014[557804283]&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]&v=961:976&appname=ncbiblast&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&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&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&log$=nuclalign&blast_rank=4&RID=PHWP1JNZ014&from=2591&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&rid=PHWP1JNZ014[557804283]&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]&v=2591:2598&appname=ncbiblast&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&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&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&log$=nuclalign&blast_rank=4&RID=PHWP1JNZ014&from=839&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&rid=PHWP1JNZ014[557804283]&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]&v=839:845&appname=ncbiblast&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&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&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&log$=nuclalign&blast_rank=4&RID=PHWP1JNZ014&from=2027&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&rid=PHWP1JNZ014[557804283]&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]&v=2027:2033&appname=ncbiblast&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&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&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&rettype=gb&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&log$=nuclalign&blast_rank=5&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&rid=PHWP1JNZ014[557804227]&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]&v=752:2685&appname=ncbiblast&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&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&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&log$=nuclalign&blast_rank=5&RID=PHWP1JNZ014" target="lnkPHWP1JNZ014" title="Show report for pdb|3J52|A">pdb|3J52|A</a><span class=" r"><label>Length: </label>2903<label>Number of Matches: </label>4</span></div> +</div> +</div> +<div class="relInf" id="relInf_557804227"><label>Related Information</label></div> +<!-- +<pre> +<@aln_gene_info@> +</pre> +--> +<div class="alnAll" id="alnAll_557804227"><div id="hd_557804227_1"> +<div class="dflLnk hsp"><span class="alnRn"><label>Range 1: 961 to 976</label><span class="" id="rng_557804227"><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804227?report=genbank&log$=nuclalign&blast_rank=5&RID=PHWP1JNZ014&from=961&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&rid=PHWP1JNZ014[557804227]&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]&v=961:976&appname=ncbiblast&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&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&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&log$=nuclalign&blast_rank=5&RID=PHWP1JNZ014&from=2591&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&rid=PHWP1JNZ014[557804227]&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]&v=2591:2598&appname=ncbiblast&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&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&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&log$=nuclalign&blast_rank=5&RID=PHWP1JNZ014&from=839&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&rid=PHWP1JNZ014[557804227]&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]&v=839:845&appname=ncbiblast&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&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&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&log$=nuclalign&blast_rank=5&RID=PHWP1JNZ014&from=2027&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&rid=PHWP1JNZ014[557804227]&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]&v=2027:2033&appname=ncbiblast&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&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&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="Blast%20output%20page%20example_files/utils.js"></script> +<script type="text/javascript" src="Blast%20output%20page%20example_files/toggle.js"></script> +<script type="text/javascript" src="Blast%20output%20page%20example_files/remote_data_provider.js"></script> +<script type="text/javascript" src="Blast%20output%20page%20example_files/results.js"></script><link rel="stylesheet" type="text/css" href="Blast%20output%20page%20example_files/firefox-descriptions.css" media="screen"> +<script type="text/javascript" src="Blast%20output%20page%20example_files/blast.js"></script> +<script type="text/javascript" src="Blast%20output%20page%20example_files/format.js"></script> +<script type="text/javascript" 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jQuery!=="undefined")if(e=jQuery(g).attr("sg")){e=e.split(/\}\s*,\s*\{/);for(s=0;s<e.length;s++){g=e[s].match(/name\s*:\s*'(.+)',\s*selector\s*:\s*'(.+)'/);if(g.length===3){i="cust_"+g[1];g=jQuery(g[2]).val();f.push(i+"="+encodeURIComponent(g))}}}c.length>0&&f.push("ancestorId="+ +c.join(","));v.length>0&&f.push("ancestorClassName="+v.join(",").replace(/\s+/g," ").replace(/(^\s|\s$)/g,""));u.addScrollDetailsAr(f,1800-f.join("&").length,true);c=f.join("&");f=ncbi.sg.getInstance().currentPageHitId||"";c+="&ncbi_phid="+f;ncbi.sg.getInstance()._storeNext("hovernext",c,null)});jQuery(document).on("mouseup mousedown",function(c){!jQuery(c.target).is("a[ref*='itool=Abstract-nondef']")&&jQuery(c.target).parents("a[ref*='itool=Abstract-nondef']").length==0&&!jQuery(c.target).is("#disc_col a")&& +jQuery(c.target).parents("#disc_col a").length==0&&ncbi.sg.getInstance().setCookie("hovernext","")})}}); + +; +// This code creates window.console if it doesn't exist. +// It also creates stub functions for those functions that are missing in window.console. +// (Safari implements some but not all of the firebug window.console methods--this implements the rest.) +(function() { + var names = [ "log", "debug", "info", "warn", "error", "assert", "dir", "dirxml", "group", + "groupEnd", "time", "timeEnd", "count", "trace", "profile", "profileEnd" ]; + + if (typeof(console) === 'undefined' || typeof console === "function" ) { + //"typeof function" is needed see PP-769 + console = {}; + } + + for (var i = 0; i < names.length; ++i) { + if (typeof(console[names[i]]) === 'undefined') { + console[names[i]] = function() { return false; }; + } + } + ncbi.sg.getInstance().init(); +})();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Blast output page example_files/blast.js Tue May 06 17:05:58 2014 +0200 @@ -0,0 +1,308 @@ + +function printfire() +{ + // Firefox + if (document.createEvent && window.dispatchEvent) { + printfire.args = arguments; + var ev = document.createEvent("Events"); + ev.initEvent("printfire", false, true); + window.dispatchEvent(ev); + } +} +//This functions handle setting defaults for protein or nulcleotide suite search page when +//one of blast program radio buttons is clicked - not used now +function AdjustMoreOptionsStyle() +{ + var optsEl = document.getElementById("moreopts"); + if(optsEl && optsEl.style.height != "0px") { + optsEl.style.height = optsEl.scrollHeight + "px"; + } +} + +//Strip (taxid:XXX) from organism list selection +//sgRunFunc="AdjustOrganism();" +function AdjustOrganism() +{ + var words = $("qorganism").value.split(" (taxid"); + $("qorganism").value = words[0]; +} + + +/* JS Common to all BLAST pages */ + + +function setResultsTarget() +{ + //var newWin = $("newwin"); + var newWin = this; + var searchFrm = $(newWin.getAttribute("form")); + if(newWin && newWin.checked == true) { + if(newWin.getAttribute("winType") == "random") { + searchFrm.target = "Blast_Results_for_" + Math.floor(Math.pow(10,10) *Math.random()); + } + else { + searchFrm.target = $("resPageTarget").value; + } + } + else { + searchFrm.target = ""; + } +} + +function diffFromDefault(elem) +{ + var currentVal = ""; + var ret = 0; + + if (!(elem)) return; + var defVal = elem.getAttribute("defVal"); //Default value + var elShowDiff = utils.getParent(elem); + if(!elem.type) {//div element for example + //Check if parent elem has "hide" class + if(utils.hasClass(utils.getParent(elem), "hide")) { + currentVal = "hide"; + } + else { + currentVal = "show"; + } + elShowDiff = elem; + } + else if(elem.type == "select-one") { + if(elem[elem.selectedIndex].value) currentVal = elem[elem.selectedIndex].value; + //If Default value is not specified - the first one in the selection list is the default + if (!defVal && elem[0].value) defVal = elem[0].value; + } + else if(elem.type == "select-multiple") { + currentVal = "";//for now + } + else if(elem.type == "checkbox") { + //alert("defVal1=" + elem.id + " " + defVal); + //var defVal = elem.defVal; //Default value + //alert("defVal2=" + defVal); + if(elem.checked == true) currentVal = "checked" + else currentVal = "unchecked"; + } + else { + currentVal = elem.value; + } + + + var numdiff = parseInt($("NUM_DIFFS").value,10); + var optsNumDiff = parseInt($("NUM_OPTS_DIFFS").value,10); + if(defVal != currentVal) { + if(!utils.hasClass(elShowDiff, "nondef")) { + utils.addClass(elShowDiff, "nondef"); + numdiff++; + if(utils.hasClass(elem,"opts")) optsNumDiff++; + } + ret = 1; + } + else { + if(utils.hasClass(elShowDiff, "nondef")) { + utils.removeClass(elShowDiff, "nondef"); + //alert("noDiff-" + elem.id); + if(numdiff != 0) numdiff--; + if(utils.hasClass(elem,"opts")) optsNumDiff--; + } + ret=0; + } + $("NUM_DIFFS").value = numdiff; + $("NUM_OPTS_DIFFS").value = optsNumDiff; + if(numdiff > 0) { + $("diffMes").style.display = "inline"; + } + else { + $("diffMes").style.display = "none"; + } + //alert(elem.id + " " + $("NUM_DIFFS").value); + return ret; +} + +function setDefalValue(elem) +{ + var currentVal; + var defVal = elem.getAttribute("defVal"); //Default value + if(elem.type == "select-one") { + //If Default value is not specified - the first one in the selection list is the default + if(!defVal) defVal = elem[0].value; + for(j=0; j < elem.options.length; j++) { + if(elem.options[j].value == defVal) { + elem.options[j].selected = true; + break; + } + } + } + else if(elem.type == "checkbox" || elem.type == "radio") { + if(!defVal) defVal = "checked"; + if(defVal == "checked") elem.checked = true + else elem.checked = false; + } + else { + if(!defVal) defVal = ""; + elem.value = defVal; + } + + var elShowDiff = utils.getParent(elem); + if(utils.hasClass(elShowDiff, "nondef")) { + utils.removeClass(elShowDiff, "nondef"); + } + //alert(elem.id + " " + $("NUM_DIFFS").value); +} + +function newResultsWinInit() { + jQuery("[class='newwin']").each(function(index) { + utils.addEvent(this, "click", setResultsTarget, false); + }); +} + +function resetOrganismSuggest(orgEntryElem) +{ + //suggestHint is in the hidden field used for SRA + var defaultMessage = ($("suggestHint")) ? $("suggestHint").value : "Enter organism name or id--completions will be suggested"; + var suggestHint = $("qorganism").getAttribute("suggestHint"); + if(suggestHint) defaultMessage = suggestHint; + if(orgEntryElem.value == "") { + orgEntryElem.value = defaultMessage; + } + if(orgEntryElem.value == defaultMessage) { + utils.addClass(orgEntryElem,"orgHint"); + } +} + +function setupOrganismSuggest(orgEntryElem) +{ + resetOrganismSuggest(orgEntryElem); + utils.addEvent(orgEntryElem, "focus", function() { + clearOrgSuggest(orgEntryElem); + }, false); +} + +function clearOrgSuggest(orgEntryElem) +{ + if(utils.hasClass(orgEntryElem,"orgHint")) { + orgEntryElem.value=""; + utils.removeClass(orgEntryElem,"orgHint"); + } +} + +function InitCustomButton(bn) +{ + utils.addEvent(bn, "mouseover", function() {this.src = this.getAttribute("mouseovImg");}, false); + utils.addEvent(bn, "mouseout", function() {this.src = this.getAttribute("mouseoutImg");}, false); + utils.addEvent(bn, "mousedown", function() {this.src = this.getAttribute("mousedownImg");}, false); + utils.addEvent(bn, "mouseup", function() {this.src = this.getAttribute("mouseupImg");}, false); +} + +function showHideElem(id,hide) +{ + if($(id)) { + if(hide) { + if(!utils.hasClass($(id),"hidden")) utils.addClass($(id), "hidden"); + } + else { + if(utils.hasClass($(id),"hidden")) utils.removeClass($(id), "hidden"); + } + } +} + +function resetOrganismControls(orgEntryElem) { + resetOrganismSuggest(orgEntryElem); + if ($("orgExcl")) $("orgExcl").checked = false; + utils.replaceInHtml("", $("orgs")); + if ($("frOrgs")) utils.replaceInHtml("", $("frOrgs")); + if ($("numOrg")) $("numOrg").value = 1; +} + +function AddOrgRow(e,orgName,exclName) { + e = e || window.event; + utils.preventDefault(e); + var checkedExclude = new Array(); + var orgDict = jQuery($($("qorganism"))).ncbiautocomplete("option","dictionary"); + orgDict = (!orgDict || orgDict == "") ? "taxids_sg" : orgDict; + var len = $("qorganism").getAttribute("size"); + + var newOrgFieldID = "qorganism" + $("numOrg").value; + var newOrgField = " <div><input name=\"" + orgName + $("numOrg").value + "\" size=\"" + len + "\" id=\"" + newOrgFieldID + + "\" type=\"text\" data-jigconfig=\"dictionary:'" + orgDict + "'\" autocomplete=\"off\" class=\"jig-ncbiautocomplete multiOrg\" />"; + if (exclName != "") { + newOrgField += "<span class=\"orgExcl\">" + + "<input type=\"checkbox\" name=\"" + exclName + $("numOrg").value + "\" class=\"oExcl cb\" id=\"orgExcl" + $("numOrg").value + "\" />" + + "<label for=\"orgExcl" + $("numOrg").value + "\" class=\"right oExclRl\">Exclude</label></span>"; + } + newOrgField += "</div>"; + if (navigator.userAgent.match(/ie/i)) { + for (i = 1; i < $("numOrg").value; i++) { + if ($("orgExcl" + i)) checkedExclude[i] = $("orgExcl" + i).checked; + } + } + if (!navigator.userAgent.match(/firefox/i)) { + jQuery($($(orgs))).append(newOrgField,true); + } + else { + utils.insertInHtml(newOrgField, $("orgs")); + } + + if (navigator.userAgent.match(/ie/i)) { + for (i = 1; i < $("numOrg").value; i++) { + if ($("orgExcl" + i)) $("orgExcl" + i).checked = checkedExclude[i]; + } + } + setupOrganismSuggest($(newOrgFieldID)); + jQuery($($(newOrgFieldID))).ncbiautocomplete(); + $("numOrg").value++; +} + +function adjustOrgVal(orgEntryElem) +{ + //if (utils.hasClass($("searchForm").EQ_MENU, "orgHint")) $("searchForm").EQ_MENU.value = ""; + clearOrgSuggest(orgEntryElem); + if ($("numOrg")) { + for (i = 1; i < $("numOrg").value; i++) { + if ($("qorganism" + i)) { + clearOrgSuggest($("qorganism" + i)); + } + } + } +} + +function getUrlCompForEntryField(elem) { + var url = ""; + if (elem && elem.value != "") { + url = "&" + elem.name + "=" + escape(elem.value); + } + return url; +} + + +function getUrlCompForCheckedField(elem) { + var url = ""; + if (elem && elem.checked) { + url = "&" + elem.name + "=" + elem.value; + } + return url; + +} + +function getUrlCompForOptionsField(elem) { + var url = ""; + if (elem) { + url = "&" + elem.name + "=" + elem[elem.selectedIndex].value; + } + return url; +} + +function getUrlCompForMultiOptionsField(elem) { + var url = ""; + if (elem) { + for (i = 0; i < elem.options.length; i++) { + if (elem.options[i].selected) { + url += "&" + elem.name + "=" + elem.options[i].value; + } + } + } + return url; +} + + +utils.addEvent(window, 'load', newResultsWinInit, false); +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Blast output page example_files/blastReq.css Tue May 06 17:05:58 2014 +0200 @@ -0,0 +1,332 @@ +#msgR .info { +background-color: #dfd; +padding: 4px; +border: solid 1px green; +color: green; +} + +dl.summary dt { +float: left; +width: 8em; +clear:left; +margin: 0; +text-align: right; +padding-right: 1em; +color: #666; +} + +dl.summary dd { +padding-left: 0.5em; +display: block; +margin-left: 7em !important; +margin: 0; +} +dl.summary dt, dl.summary dd { +margin-bottom: 0.5em; +} +a.help +{ +float:right; +font-size: 110%; +} + +dl.summary label { +display: inline; +} + +dl.summary tr th label { +padding: 0; +margin-right:0; +} +table.options { +border: solid 1px #ccc; +border-right: solid 1px #ccc; +} + +table.options td, +table.options td.frh { +font-size: 90%; +_font-size: 85%; +} + +table.options label.rb { +border-right: solid 1px #ccc; +margin-right: 0.5em; +padding-right: 2.0em; +} + +table.options tr td { +_font-size: 90%; +padding-left: 0.5em; +} + +table.options { +/*border-collapse: collapse;*/ +margin-left: 0; +padding-left: 0; +width: 62em; +} + +table.options td label { +font-size: 90%; +} + +table.options th label, +table.options td label { +margin-right: 0; +_position: relative; +_top: -0.1em; +} + +table.options tr.hdr td, +table.options tr.hdr th { +padding: 2px; +border: solid 1px #ccc; +background-color: #ddd; +} + +table.options td, table.options td.frh { +padding: 0.25em 0; +vertical-align: center; +} + +table.options th { +padding-right: 1em; +text-align: right; +padding-left: 1em; +} + +/* +*:focus{ +background-color: white !important; +} +*/ + +table.options select,table.options input, #graphic input{ +border: solid 1px #888; +padding: 1px; +} + +select { +font-size: 90%; +} + +select option { +padding-right: 0.5em; +} + +input.cb, table.options input.cb { +border: none; +} + +select { +margin-right:1em; +} + +table.options tr { +background-color: #eee; +} + +table.options tr.odd { +background-color: #e0e0e0; +} + +table.options th { + +background-color: white; +} + +table.options tr.paramSet td +{ + border-top: solid 2px white; +} + + + + +.resetAll +{ +font-weight: normal; +padding: 0.5em; +font-size: 90%; +margin-left:5em; +} + +.button { +background-color: #ccc; +padding: 0.25em 0.25em; +color: black; +border: outset 3px #eee; +_border: outset 3px #eee; +font-size: 90%; +_padding:0; +font-weight: bold; +height:25px; +_height:22px; +} + +.fbtn { +margin-bottom: 0.5em; +} + +.note { +font-size: 80%; +color: green; +background-color: #ffc; +margin-left: 2em; +padding: 3px; +} +.instr { + margin-left: 1em; + color: #666; +font-size: 90%; +} +.smaller { +font-size: 90%; +font-weight: normal; +} + +/* Results Page styles */ + +#ridRes +{ + background-color: #FC9; + padding:5px 5px; +} + + +span dd.hidden,dt.hidden,dd.hidden span +{ + display:none; +} + +dl.query .query, +dl.title .title, +dl.entrez .entrez, +dl.db .db +{ + display:block; +} + + +dl.entrez span.entrez +{ + display:inline; +} + +.hidden { +display: none; +} +.hide { +display: none; +} +.shown { +display: block; +} + + + +table.megaBlast tr.psiBlast, +table.blastn tr.psiBlast, +table.blastx tr.psiBlast, +table.tblastn tr.psiBlast, +table.tblastx tr.psiBlast, +table.discoMegablast tr.psiBlast +{ +display: none; +} + + +table.GlobalAln .xgl, +body.GlobalAln div.xgl, +body.GlobalAln dt.xgl, +body.GlobalAln dd.xgl, +body.GlobalAln span.xgl, +body.GlobalAln table.xgl +{ +display: none; +} + +.dispType +{ + /*background-color:White; + border:solid 1px black;*/ + border-top:solid 2px gray; + border-left:solid 2px gray; + font-size:90%; + padding-left:2px; + +} + +.newwin { +border: none; +} + +table.options .helplink +{ + font-weight:bold; + position:absolute; + right:0; +} + +div#query label +{ + display: inline; + font-weight:bold; + padding-right:1em; +} +#NEW_VIEW +{ + _margin-left:-2px; +} + + +table.blastp *.blastn, +table.psiBlast *.blastn, +table.phiBlast *.blastn, +table.blastx *.blastn, +table.tblastn *.blastn, +table.tblastx *.blastn +{ +display: none; +} + +#formatTable th.col1 { +width: 8em; +vertical-align: top; +} +/* +#formatTable .helplink span { +position: relative; +} +*/ +#org +{ + margin-top:2em; +} +#qorganism +{ + /*display:block;*/ +} +.fi +{ + position:relative; +} + +a#organismHelp +{ + margin-top:-1.5em; +} + +table.options tr.paramSet td.hd { +padding-right: 1em; +text-align: right; +padding-left: 1em; +background-color:White; +font-weight:bold; +border-top:none; +} +.oExcl +{ + margin-left:2px; +}
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Blast output page example_files/blastRes.css Tue May 06 17:05:58 2014 +0200 @@ -0,0 +1,262 @@ +a#refPage +{ + margin-left:3em; +} + +a.resLink +{ + margin-left:1em; + display:none; +} + +a.resLinkhidden +{ + display:none; +} + + +#cddResults +{ + float:right; + margin-top:-2em; + margin-right:1em; + color:#336699; + font-size:100%; +} + +#cddResults.showing { + background-image: url(images/down.gif); +} + + + +div.inlineDiv +{ + display:inline; +} + +span.reslink +{ + display:none; +} + +div.statPage *.statPage, +div.resPage *.resPage +{ + display:inline; +} + +div.resHeader *.hidden +{ + display:none; +} + +#cddInfo +{ + text-align:center; +} +#cddDesc +{ + font-weight:bold; +} +div#desctbl +{ +border: solid 1px #018aac; +/*min-width: 1000px;*/ +margin: none; +width: 100%; +background-color:White; +/*line-height:0; +_line-height:0;*/ +} + +table#descs +{ +font-family: Verdana, Sans-Serif; +font-size: 90%; +_font-size: 86%; +border-collapse: collapse; +/*min-width: 600px;*/ +width: 100%; +} + +table#descs th a { +text-decoration: none; +color: #00c; +} + +table#descs th a:visited { +color: #00c; +} + +table#descs th a:hover {position: relative; +text-decoration: underline; +} + +table#descs tr th.l, +table#descs tr td.l { +text-align: left; +} + +table#descs tr th.sp { +background-color: #def; +} + +table#descs tr th, +table#descs tr td { +text-align: center; +padding: 1px 4px; +} + +table#descs tr.first th { +padding-left:18px; +border-left: solid 1px #A0ceff; +border-top: solid 1px #A0ceff; +border-bottom: solid 1px #018aac; +border-right: solid 1px #018aac; +padding-right: 8px; +/*background-color: #01d5ff;*/ +background-color: #9cf; +/*font-size: 92%;*/ +white-space:normal; +line-height: 1.2em +} + + +table#descs td { +border: solid 1px #ccc; +border-width: 0px 1px; +white-space:nowrap; +overflow: hidden; +} + +.slink { +font-size: 90%; +font-weight: normal; +} + +table#descs tr.first th.sel { +background: #9cf url(images/up.gif) no-repeat center left; +padding-left: 18px; +padding-right: 18px; +} + +div.lim +{ +/*overflow: hidden;-this used to work in Firefox 2- comment for now and set the width */ +width: 35em; +display: inline-block; +height: 1.3em; +} + +table#descs tr:hover { +background-color: #def; +} + +pre +{ + font-size:110%; + _font-size:100%; + line-height:1; +} + +#msg +{ + white-space:normal; + border-color:#cccccc; + padding:0; + margin: 0; + margin-top:2px; +} +#msg li +{ + display:none; + padding:0; + margin: 0; + text-indent: 0; +} +#msg li.warning, #msg li.error ,#msg li.info +{ + display:block; +} + +#msg ul +{ + margin:0; + padding:0; +} + +table#statInfo +{ + border: solid 1px #ccc; + background-color: #eee; + width: 100%; +} + +table#statInfo tr.odd { +background-color: #e0e0e0; +} + +.READY, .UNKNOWN +{ + display:none; +} + +p.WAITING +{ + margin-top:1em; +} + +#frmPage +{ + margin-left:1em; +} + +span.Gene_PubMedLinks +{ + color: Green; font-weight: bold; +} + +ul.msg li p +{ + display:none; +} + +.msg li p.warning, .msg li p.error, .msg li p.success,.msg li p.info +{ + display:block; +} + +.mdlbox +{ + white-space:pre; + background-color:Transparent; + border:none; +} + +#blastErr +{ + white-space:normal; +} + + + +#RSIFrameNoRes,#RSIFrameDesc,#RSIFrameAln +{ + border:none; + width:519px; + height:35px; + margin:0px auto; +} + + +a.ui-ncbitoggler.hidden, a.ui-ncbitoggler-open.hidden +{ + display:none; +} + +.smn { + display: inline-block; + height: 16px; + width: 16px; +}
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Blast output page example_files/dynFormatRes.css Tue May 06 17:05:58 2014 +0200 @@ -0,0 +1,623 @@ +/* style changes for redesign begin*/ +a.gbd +{ + text-decoration:none; +} + +tr.dflLnk td span +{ + font-size:78%; + display:none; + text-align:center; +} +a.dflSeq +{ + color:#369; + text-decoration:underline; + width:auto; +} +table.defln tr.dflLnk a +{ + margin-right:auto; + padding-left:0; +} + +.alnParLinks +{ + float:right; +} + +.alnSeqLinks +{ + float:right; + margin-right:1em; +} + + +.seqlinks select +{ + padding:0; +} + +.dlfRow div +{ + font-size:90%; +} + +.dlfRow +{ + display:inline; + font-size:110%; +} + +.dlfRow.hidden +{ + display:none; +} +.dlfRow label +{ + font-size:87%; + display:inline; + color:#606060; + font-weight:bold; +} + +.dlfRow span.r label +{ + padding-left:0.8em; +} + + +div.relInf +{ + font-family: Verdana, Sans-Serif; + font-size: 80%; + float:right; + width:21%; + border-top:solid 2px gray; + margin-top:-1em; + margin-right:3.5em; + left:3em; + max-width:25em; + padding-left:1em; + position:relative; + white-space:normal; +} + +div.relInf a +{ + padding-right:0.2em; +} + +.rlLink +{ + padding-left:0.2em; +} +.relInf label +{ + font-size:110%; + color:brown; + font-weight:bold; +} +div#content +{ + min-width:70em; +} + +.dflLnk a +{ + font-size:90%; +} +a.dflSeq +{ + width:auto; + font-weight:normal; +} + + +#cntDesc,#cntDesc_psiw +{ + margin-bottom:0.2em; + display:inline-block; + width:20em; +} +#cntDesc span,#cntDesc_psiw span +{ + margin-right:0.5em; +} + +#cntDesc a,#cntDesc input,#cntDesc_psiw a,#cntDesc_psiw input +{ + margin-left:0.5em; +} + +#cntSelNone,#cntShAll +{ + margin-left:0.2em; +} + +.toolsCtr +{ + color:Blue; +} + +table.ui-ncbigrid th span.slink a +{ + display:inline; + padding-right: 0; +} +table.ui-ncbigrid th.sp +{ + font-weight:bold; +} + +table.ui-ncbigrid th span.slink +{ + margin-left:0.2em; +} + +table.ui-ncbigrid td { + white-space:nowrap; +} +table.ui-ncbigrid td.c3 +{ + /*padding-left:0.8em;*/ +} +table.ui-ncbigrid caption +{ + font-size:0; + line-height:0; +} +#content h3.cap,#content h3.cap a.ui-ncbitoggler.ui-widget, #content h3.cap a.ui-ncbitoggler-open +{ + color:#4d4d4d; + text-align:left; + margin:0 0 0.5em 0; +} + +#content div.cap,#content div.cap a.ui-ncbitoggler.ui-widget, #content div.cap a.ui-ncbitoggler-open +{ + color:#4d4d4d; + text-align:left; + margin:0 0 0.5em 0; + letter-spacing:-1px; + font-size:110%; + font-weight:bold; +} + +#descriptions div.caption-exists { + margin: 0; +} + +/**********decrition toolbar styles *********/ + +div.cnf { + -moz-border-bottom-colors: none; + -moz-border-image: none; + -moz-border-left-colors: none; + -moz-border-right-colors: none; + -moz-border-top-colors: none; + background: url("images/cnf.png") repeat scroll 0 0 transparent; + border-style: solid none none; + border-width: 1px medium medium; + /*clear: left;*/ + height: 22px; + /*overflow: auto;*/ + width: 100%; +} + +ul.ui-ncbilocalnav li.has-child a.button_config { + background: url("/portal/portal3rc.fcgi/3493904/img/81796") no-repeat scroll right center transparent !important; + width: 22px; + height:22px; + margin-left:12em; +} + +#li-config +{ + float:right; + width:17em; +} +div#descTblCtrl ul.ui-ncbilocalnav li +{ + border-right:none; +} + + +.cfg +{ + font-size:90%; +} + + +.oneSeqAln .hsp label +{ + color:#606060; + font-size:95%; + padding-right:0.5em; +} + +.oneSeqAln pre +{ + margin-top:0.5em; +} + +.aln_feat label +{ + color: #606060; + font-size: 95%; + padding-right: 0.5em; +} +.oneSeqAln .dflLnk.aln_feat +{ + padding-bottom:1em; +} +div.oneSeqAln h4 +{ + border:none; + font-size:100%; + font-weight:normal; + letter-spacing:normal; + margin:0; +} + +.oneSeqAln .dflLnk +{ + width:56em; +} +.aln_feat a +{ + margin-left:1em; + display:block; +} +.dflLnk.aln_feat div +{ + /*display:inline-block; */ + margin-left:5em; + margin-top:-1em; +} +.aln_frame.shown +{ + display:block; +} +/*align params styles change */ + +table.alnParams +{ + border-left:none; + border-right:none; + margin-top:0.5em; + width:49em; +} + +table.alnParams th +{ + background-color:Transparent; + border:none; + text-align:left; +} + +table.alnParams td +{ + border:none; +} + + +.alnAll +{ + line-height:normal; + margin-top:1em; +} + +.alnAll div +{ + width:70%; +} + +/**new config staff begin**/ +.popDl +{ + display:none; +} +.popDl div +{ + margin-top:0.5em; +} +.popDl div.tl +{ + margin-top:0; + font-weight:bold; +} +a.button_config { + background: url("images/cnfButn.png") no-repeat scroll right center transparent !important; + width: 22px; + height:22px; + margin-left:12em; + float:right; +} + +a.toolsCtr,span.csLinks a +{ + margin-left:8px; + float:left; + cursor:pointer; +} + +a.toolsCtr[disabled] { + cursor: default; +} + + +a.toolsCtr SPAN +{ + color: #14376c; + /*line-height: 22px;*/ + padding-left: 15px; + background-repeat: no-repeat; + background-position:left center; +} + +a.toolsCtr[disabled] SPAN,a.toolsCtr[disabled] +{ + color:#C2C2C2; +} + +a.dnld span +{ + background-image: url("images/dndl.png"); +} + +a.dnld[disabled] span +{ + background-image: url("images/dndl_dsb.png"); +} + +a.dialog +{ + padding-right: 18px; + background:transparent url(images/dialog.png) no-repeat scroll right center; + text-decoration:none; +} + +a.dialog[disabled] { + background-image: url("images/dialog_dsb.png"); +} + + +a.alnNav span +{ + background-image: url("images/align_Normal.png"); +} + +a.alnNav +{ + text-decoration:none; +} + + +a.navNext span +{ + background-image: url("images/next_Normal.png"); +} + + +a.navNext[disabled] span +{ + background-image: url("images/next_Inactive.png"); +} + + +a.navPrev span +{ + background-image: url("images/prev_Normal.png"); +} + + +a.navPrev[disabled] span +{ + background-image: url("images/prev_Inactive.png"); +} + + +a.navBack span +{ + background-image: url("images/table_Normal.png"); +} + +.alnRn +{ + float:left; +} + + +/* styles to change per discusssion with Mark begin*/ +.dflLnk a +{ + padding-left:0; +} + + +table.ui-ncbigrid th { + padding-left:0.3em; + padding-right:0; + text-align:center; +} + +table.ui-ncbigrid td { + padding-left:0.4em; + padding-right:0.4em; + text-align:center; +} + +table.ui-ncbigrid td.c2,table.ui-ncbigrid td.c1 { + text-align:left; +} + +table.ui-ncbigrid td.c3{ + padding:0.363em 0.25em; +} + + +table.ui-ncbigrid th a { + padding-right: 5px; +} +table.ui-ncbigrid th.c0 +{ + width:25px; + padding:0; +} + +.dflnDth +{ + width:100%; +} +div.lim { + width: 14em; +} + +table.ui-ncbigrid th.c8,table.ui-ncbigrid th.c9 { + padding-right: 0.3em; +} +.c8,.c9 +{ + font-size:80%; +} + + +td.lim.l.c2,td.lim.l.c1 +{ + overflow:hidden; +} +a.spr +{ + border-right:none; +} + + +.psiInp +{ + margin-left:1em; + margin-top:0.5em; +} + + +.c8 input +{ + border:none; +} +table.ui-ncbigrid td.c8 +{ + padding-left:1.5em; +} + +tr.psi_new td +{ + background-color:#FFFF99; + border-top:solid 4px white; + border-spacing:3px; + border-collapse:collapse; + line-height:normal; +} +/* accessibility setting */ +tr.dflLnk td span.psiNw,tr.first th span,a.button_config span, a span.accsb,.dflLnk label.accsb +{ + display:inline; + position:absolute; + left:-9999px; +} + +div.tgl +{ + margin-top:-1em; +} +.shcl +{ + float:right; +} + +/* styles to change per discusssion with Mark end*/ + +.alnRn a +{ + padding-right:1em; +} +.alnAll .moreHsps +{ + font-family: Verdana, Sans-Serif; + font-size: 75%; + margin-top:-2.5em; + width:58%; +} +.erm +{ + background-color:#FFFFCC; + padding:0.5em; +} + +#debug,.ind,.alnMsgS .db,.erm .db +{ + display:none; +} + +.tmsAln label +{ + font-size:93%; + display:inline; + color:#606060; + font-weight:bold; +} +.alnAll .tmsAln, .tmsAln div +{ + width:100%; + margin-bottom:-1em; +} +.tmsAlnPar +{ + margin-top:-1em; +} +/*debug info styles begin */ + + +/* use those styles only in debug version + +.alnMsg +{ + border:solid 1px black; +} + +.alnMsgS.hidden,.alnMsgS .db +{ + display:block; +} + +.oneSeqAln +{ + border:1px solid #C8C8C8; +} + +#debug,tr.dflLnk td span.ind +{ + display:inline; +} +.c0 +{ + width:30px; +} +/*debug info styles end */ + + + +/**new config staff end**/ +/* +ul.ui-ncbilocalnav li, ul.ui-ncbilocalnav { + background-color: #F4F4F4; + background-image: -moz-linear-gradient(center top , #FFFFFF, #F4F4F4); +} +ul.ui-ncbilocalnav li { + border-right: 1px solid #C4C4C4; +} +*/ +/**********decrition toolbar styles end*********/ + + +/* style chenges for redesign end*/
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Blast output page example_files/firefox-descriptions.css Tue May 06 17:05:58 2014 +0200 @@ -0,0 +1,3 @@ +table.dbInfo caption { + +} \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Blast output page example_files/format.js Tue May 06 17:05:58 2014 +0200 @@ -0,0 +1,270 @@ + +function UpdateDisplayTypes(displayTypes) { + dispMenu = displayTypes.options; + for(i=0; i < dispMenu.length; i++) { + //if(!utils.hasClass(displayTypes,"psiBlast") && !utils.hasClass(displayTypes,"phiBlast") || + if($("stepNumber").value == "" || $("stepNumber").value < 2) { + if(dispMenu[i].value.indexOf("PSSM") != -1) { + dispMenu[i--] = null; + //break; + } + } + } +} + +function GetIndexByValue(selectElem,val) { + var idx = 0; + var opts = selectElem.options; + for(i=0; i < opts.length; i++) { + if(opts[i].value == val) { + idx = i; + break; + } + } + return idx; +} + +function resetAdvView(show) +{ + var advView = $("advView"); + if(show) { + if(utils.hasClass(advView, "hidden")) { + utils.removeClass(advView, "hidden"); + } + } + else { + utils.addClass(advView, "hidden"); + } +} + + +function ShowOrHide(hide,elem) +{ + if(hide) { + if(!utils.hasClass(elem, "hidden")) { + utils.addClass(elem, "hidden"); + } + } + else { + if(utils.hasClass(elem, "hidden")) { + utils.removeClass(elem, "hidden"); + } + } +} + +function UpdateFormatTypes(form) { + var selectedObjType = form.FORMAT_OBJECT[form.FORMAT_OBJECT.selectedIndex].value; + var hideAdvView = false; + bioseqFormatHide = true; + pssmFormatHide = true; + pssmScFormatHide = true; + formatTypeHide = true; + if (selectedObjType == "Alignment") { + formatObjectSelectedIndex = 0; //HTML + formatTypeHide = false; + hideAdvView = true; + } + if (selectedObjType == "PSSM") { + formatObjectSelectedIndex = GetIndexByValue(form.FORMAT_TYPE,"Text"); + pssmFormatHide = false; + } + if (selectedObjType == "PSSM_Scoremat") { + formatObjectSelectedIndex = GetIndexByValue(form.FORMAT_TYPE,"ASN.1"); + pssmScFormatHide = false; + } + else if (selectedObjType == "Bioseq") { + formatObjectSelectedIndex = GetIndexByValue(form.FORMAT_TYPE,"ASN.1"); + bioseqFormatHide = false; + } + form.FORMAT_TYPE.selectedIndex = formatObjectSelectedIndex; + ShowOrHide(formatTypeHide,form.FORMAT_TYPE); + if ($("bioseqFormat")) { + ShowOrHide(bioseqFormatHide,$("bioseqFormat")); + $("bioseqFormat").readOnly=true; + } + if ($("pssmFormat")) { + ShowOrHide(pssmFormatHide,$("pssmFormat")); + $("pssmFormat").readOnly=true; + } + if ($("pssmScFormat")) { + ShowOrHide(pssmScFormatHide,$("pssmScFormat")); + $("pssmScFormat").readOnly=true; + } + resetAdvView(hideAdvView); +} + +function ResetForm() +{ + //var defValNodes = cssQuery(".reset"); + defValNodes = $("FormatForm").elements; + for(i=0; i < defValNodes.length; i++) { + if(utils.hasClass(defValNodes[i],"reset")) + setDefalValue(defValNodes[i]); + } + if ($("FormatForm").FORMAT_OBJECT.type == "select-one") { + UpdateFormatTypes($("FormatForm")); + UpdateDisplayTypes($("FormatForm").FORMAT_OBJECT); + } + if($("FormatForm").RUN_PSIBLAST.checked) setDefalValue($("FormatForm").I_THRESH) + else $("FormatForm").I_THRESH.value=""; + //resetOrganismSuggest($("FormatForm").FORMAT_ORGANISM); + resetOrganismControls($("FormatForm").FORMAT_ORGANISM); + //TO DO: add threshold +} + +function LimitByHitlistSize(list) +{ + var listBreak = false; + var optSel = false; + for(i=0; i < list.options.length; i++) { + var optVal = parseInt(list.options[i].value ,10); + var hitListSize = parseInt($("maxNumSeq").value ,10); + if(list.options[i].selected) optSel = true; + if(optVal >= hitListSize) { + if(!optSel) {list.options[i].selected = true;} + list.options.length = i + 1; + break; + } + } +} + +function AddFormatOrgField(e) { + AddOrgRow(e, "FORMAT_ORGANISM", "FORMAT_ORG_EXCLUDE"); +} + +function initSubmit() { + + +} + +function adjustFormatOptions() +{ + var alignView = $("FormatForm").ALIGNMENT_VIEW; + var formatType = $("FormatForm").FORMAT_TYPE; + var queryAnch = formatType[formatType.selectedIndex].value == "HTML" && (alignView[alignView.selectedIndex].value != "Pairwise" && alignView[alignView.selectedIndex].value != "PairwiseWithIdentities"); + var dynFormatQA = !$("FormatForm").OLD_VIEW.checked && queryAnch; + dynFormatPW = !$("FormatForm").OLD_VIEW.checked && formatType[formatType.selectedIndex].value == "HTML" && (alignView[alignView.selectedIndex].value == "Pairwise" || alignView[alignView.selectedIndex].value == "PairwiseWithIdentities"); + + UpdateDescriptions(dynFormatPW); + if (dynFormatPW) { + jQuery("#frmAln").addClass("hidden"); + if (!utils.hasClass($("shl"), "hidden")) jQuery("#shl").addClass("hidden"); //hide SHOW_LINKOUT + jQuery("#gts").addClass("hidden"); //hide GET_SEQUENCE + jQuery("#scf").removeClass("hidden");//show CDS_FEAT + $("FormatForm").SHOW_LINKOUT.checked = true; + } + else { + if(dynFormatQA) $("FRM_ALIGNMENTS").selectedIndex = $("FRM_DESCRIPTIONS").selectedIndex; + + jQuery("#frmAln").removeClass("hidden"); + if (dynFormatQA) { + if (!utils.hasClass($("shl"), "hidden")) jQuery("#shl").addClass("hidden"); //hide SHOW_LINKOUT + } + else { + jQuery("#shl").removeClass("hidden"); + } + if (queryAnch) { + jQuery("#scf").addClass("hidden"); //hide CDS_FEAT + } + else {//pairwise old_view=false + jQuery("#scf").removeClass("hidden"); //hide CDS_FEAT + } + jQuery("#gts").removeClass("hidden"); //GET_SEQUENCE + } + if ($("blastSpec").value == "VecScreen") { + adjustVecscreen(dynFormatPW); + } +} + +function adjustVecscreen(dynFormatPW) +{ + var dfltDescrInd = 0; //0 + var dfltDynDescrInd = 5; //1000 + var dfltAlnInd = 6; //1000 + if (dynFormatPW) { + utils.addClass($("lr"), "hidden"); + $("FRM_DESCRIPTIONS").selectedIndex = dfltDynDescrInd; + } + else { + utils.removeClass($("lr"), "hidden"); + $("FRM_DESCRIPTIONS").selectedIndex = dfltDescrInd; + } + $("FRM_ALIGNMENTS").selectedIndex = dfltAlnInd; +} + + +function UpdateDescriptions(removeZero) +{ + if (removeZero) { + dispMenu = $("FormatForm").DESCRIPTIONS; + dispMenu.remove(0); + } + else { + dispMenu = $("FormatForm").DESCRIPTIONS; + if (dispMenu.options[0].value != "0") { + if (navigator.userAgent.match(/ie/i)) { + dispMenu.add(new Option("0", "0"), 0); + } + else { + dispMenu.add(new Option("0", "0"), dispMenu[0]); + } + } + } +} + +function InitDynFormatOptions() +{ + if ($("OLD_VIEW")) { + utils.addEvent($("FormatForm").OLD_VIEW, "click", adjustFormatOptions, false); + utils.addEvent($("FormatForm").ALIGNMENT_VIEW,"change", adjustFormatOptions, false); + utils.addEvent($("FormatForm").FORMAT_TYPE, "change", adjustFormatOptions, false); + adjustFormatOptions(); + } +} + +function InitFormatPage() +{ + if ($("FormatForm").FORMAT_OBJECT.type == "select-one") { + UpdateDisplayTypes($("FormatForm").FORMAT_OBJECT); + UpdateFormatTypes($("FormatForm")); + list = $("FormatForm").FORMAT_OBJECT; + utils.addEvent(list, "change", function() { + UpdateFormatTypes($("FormatForm")); + }, + false); + } + utils.addEvent($("resetAll"), "click", ResetForm, false); + if($("maxNumSeq") != null) { + if($("maxNumSeq").value != "") { + LimitByHitlistSize($("FormatForm").DESCRIPTIONS); + LimitByHitlistSize($("FormatForm").ALIGNMENTS); + LimitByHitlistSize($("FormatForm").NUM_OVERVIEW); + } + } + setupOrganismSuggest($("FormatForm").FORMAT_ORGANISM); + utils.addEvent($("FormatForm"), "submit", function() { + adjustOrgVal($("FormatForm").FORMAT_ORGANISM);}, + false); + + if ($("addOrg")) utils.addEvent($("addOrg"), "click", AddFormatOrgField, false); + InitDynFormatOptions(); + /* add this code if decide image for View Report + var imgButtons = jQuery("[class='viewReport']"); + for (var i = 0; i < imgButtons.length; i++) { + var l = imgButtons[i]; + utils.addEvent(l, "click", function() {$("FormatForm").submit();}, false); + utils.addEvent(l, "mouseover", function() {l.src = l.getAttribute("mouseovImg");}, false); + utils.addEvent(l, "mouseout", function() {l.src = l.getAttribute("mouseoutImg");}, false); + utils.addEvent(l, "mousedown", function() {l.src = l.getAttribute("mousedownImg");}, false); + utils.addEvent(l, "mouseup", function() {l.src = l.getAttribute("mouseupImg");}, false); + } + */ +} + +utils.addEvent(window, 'load', InitFormatPage, false); + + + + + +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Blast output page example_files/formatRes.js Tue May 06 17:05:58 2014 +0200 @@ -0,0 +1,1542 @@ +// JScript source code +/*************************new code begin *******************************************************/ + +function getHiddenFieldVal(elemName) { + var val; + var elem = document.getElementsByName(elemName); + if (elem) { + val = (elem.length > 1) ? elem[0].value : elem.value; + } + return val; +} + +function getHiddenFieldParamString(elemName) { + var ret = ""; + var val = getHiddenFieldVal(elemName); + if (val) { + ret = "&" + elemName + "=" + val; + } + return ret; +} + +function elementInViewport(el) { + if (!el) return; + var rect = el.getBoundingClientRect(); + + var myWidth = 0, myHeight = 0; + if (typeof (window.innerWidth) == 'number') { + //Non-IE + myWidth = window.innerWidth; + myHeight = window.innerHeight; + } else if (document.documentElement && (document.documentElement.clientWidth || document.documentElement.clientHeight)) { + //IE 6+ in 'standards compliant mode' + myWidth = document.documentElement.clientWidth; + myHeight = document.documentElement.clientHeight; + } else if (document.body && (document.body.clientWidth || document.body.clientHeight)) { + //IE 4 compatible + myWidth = document.body.clientWidth; + myHeight = document.body.clientHeight; + } + //window.alert('Width = ' + myWidth); + //window.alert('Height = ' + myHeight); + + + //return (rect.top >= 0 && rect.left >= 0 && rect.bottom <= window.innerHeight && rect.right <= window.innerWidth) + //return (rect.top >= 0 && rect.left >= 0 && rect.bottom <= myHeight && rect.right <= myWidth) + return (rect.top >= 0 && rect.bottom <= myHeight); +} + +function DisplayAlignFromDescription(elem) { + var alignView = $("FormatForm").ALIGNMENT_VIEW; + if (alignView[alignView.selectedIndex].value == "Pairwise" || alignView[alignView.selectedIndex].value == "PairwiseWithIdentities") { + DisplayDynamicAlign(elem); + } + else { + location.href = "#" + elem.getAttribute("seqID"); + } +} + +//<a class="deflnDesc" hsp=<hsp_num> ind="<index>" gi="<gi>" id="deflnDesc_gi" href="#AlnHdrgi">desc</a> +//<div class="alnHdr" gi="<gi>" id="alnHdr_<index>"> +function DisplayDynamicAlign(elem) { + var currGi = elem.getAttribute("gi"); + var currInd = elem.getAttribute("ind"); + var stat = elem.getAttribute("stat"); + if (!currInd || !currGi) return; + + if (!stat || stat == "") { + //Get 4(5) aligns before currInd and 4(5) aligns after + ReadCurrentSeqAligns(currInd, 5); + } + else if (stat == "read") { + var indexes = getCurrIndexRange(currInd); + if (indexes) { + var msgID = "alnShow_" + indexes[0]; + location.href = "#" + msgID; + } + } + else { + //error status handling + } +} + + +function goToNextAlign(dtrID, next) { + var currInd = parseInt($(dtrID).getAttribute("ind")); + var rid = $("Rid").value; + nextInd = (next) ? currInd + 1 : currInd - 1; + + if ($("deflnDesc_" + nextInd)) { + currGi = $("deflnDesc_" + nextInd).getAttribute("seqID"); + scrollToGI = currGi; + if (!$("deflnDesc_" + nextInd).getAttribute("stat") || $("deflnDesc_" + nextInd).getAttribute("stat") == "") { + + if (!next) { + ReadPrevSeqAligns(currInd, 5, scrollToGI); + } + else { + //Use this indexes = wasAlignRead(nextInd); to determine insertAfterID in ReadNextAligns!!! + ReadNextSeqAligns(currInd, 5, scrollToGI); + } + + } + else { + location.href = "#" + scrollToGI; + } + } +} + +function goToDefLine(dtrID) { + if ($("psiInp")) { + var tbl = jQuery($(dtrID)).parents(".jig-ncbigrid"); //parent table + togglerID = PsiBelowThresh(tbl[0].id) ? "showDescB1" : "showDescG1"; + jQuery($(togglerID)).ncbitoggler("open"); + } +} + +/* +readAln.rid = rid; +readAln.startIndex = parseInt(currInd); +readAln.numSeq = parseInt(maxNumAligns); + +readAln.insertAfterID = insertAfterID; +readAln.seqList = giList; +readAln.scrollToSeqID = scrollToGI; +*/ +function ReadNextSeqAligns(currInd, maxNumAligns, scrollToGI) { + var lastDispIdx = 0; + var rid = $("Rid").value; + + var readAln = new Object(); + readAln.seqList = ""; //giList + readAln.rid = rid; + + currInd = parseInt(currInd); + + if (currInd != 0 && $("deflnDesc_" + currInd)) { + var par = utils.getParent($("aln_" + $("deflnDesc_" + currInd).getAttribute("seqID"))); //"alnShowReal_<ind> + //alert(par.id); + if (par) par = utils.getParent(par); //"alnShow_<ind> + //alert(par.id); + if (par) readAln.insertAfterID = par.id; + } + else { + readAln.insertAfterID = "alnStart"; + } + + + + readAln.startIndex = currInd + 1; + readAln.numSeq = maxNumAligns; + + checkIfAlnExceedsThreshold(readAln, currInd, maxNumAligns, "next"); + + readAln.scrollToSeqID = (scrollToGI && scrollToGI != "") ? scrollToGI : ""; + readAln.hspSort = 0; + ReadSeqAlignByIndex(readAln); +} + +function ReadPrevSeqAligns(currInd, maxNumAligns, scrollToGI) { + var lastDispIdx = 0; + var rid = $("Rid").value; + + var readAln = new Object(); + readAln.seqList = ""; //giList + readAln.rid = rid; + + currInd = parseInt(currInd); + + + //sets readAln.insertAfterID and returns lastDispIdx; + //Find the index of the previously displayed alignment + lastDispIdx = getPrevDisplyedAlignInfo(currInd, readAln); + + readAln.startIndex = (currInd - lastDispIdx > maxNumAligns) ? (currInd - maxNumAligns) : lastDispIdx + 1; + readAln.numSeq = currInd - readAln.startIndex; //stopIndex = currInd + + checkIfAlnExceedsThreshold(readAln, currInd, readAln.numSeq, "prev"); + + readAln.scrollToSeqID = (scrollToGI && scrollToGI != "") ? scrollToGI : $("deflnDesc_" + (currInd)).getAttribute("seqID"); + readAln.hspSort = 0; + ReadSeqAlignByIndex(readAln); +} + +//When descriptions is clicked - display maxNumAligns before currInd and maxNumAligns after currInd +function ReadCurrentSeqAligns(currInd, maxNumAligns) { + var rid = $("Rid").value; + var readAln = new Object(); + readAln.seqList = ""; //giList + readAln.rid = rid; + + currInd = parseInt(currInd); + + + //sets readAln.insertAfterID and returns lastDispIdx; + //Find the index of the previously displayed alignment + var lastDispIdx = getPrevDisplyedAlignInfo(currInd, readAln); + + //lastDispIdx = parseInt(lastDispIdx); + readAln.startIndex = (currInd - lastDispIdx > maxNumAligns) ? (currInd - maxNumAligns) : lastDispIdx + 1; + readAln.numSeq = parseInt(maxNumAligns * 2); + + checkIfAlnExceedsThreshold(readAln, currInd, maxNumAligns, "curr"); + + readAln.scrollToSeqID = $("deflnDesc_" + currInd).getAttribute("seqID"); + readAln.hspSort = 0; + ReadSeqAlignByIndex(readAln); + g_DisableAutoCheck = true; + location.href = "#alnShow_" + readAln.startIndex; +} + + + + +function setupDynHSPParams(readAln) +{ + var currSeqInd = readAln.startIndex; + hspNum = parseInt($("deflnDesc_" + currSeqInd).getAttribute("hsp")); + alnLen = parseInt($("deflnDesc_" + currSeqInd).getAttribute("len")); + var maxDispLen = parseInt($("maxDispAlnLen").value);//20000 + var minDispLen = parseInt($("minDispAlnLen").value);//2000 + if (alnLen > maxDispLen) { + var lenPerMatch = alnLen / hspNum; + readAln.AlignDbPageSize = (lenPerMatch > minDispLen) ? 1 : Math.floor(minDispLen / lenPerMatch); + readAln.AlignDbPageNum = 0; + $("deflnDesc_" + currSeqInd).setAttribute("dynHsps", readAln.AlignDbPageSize); + } +} + + + +function getCurrSeqsAlnLen(currSeqInd) +{ + var alnLen = 0; + if ($("deflnDesc_" + currSeqInd) && (!$("deflnDesc_" + currSeqInd).getAttribute("stat") || $("deflnDesc_" + currSeqInd).getAttribute("stat") == "")) { + alnLen = $("deflnDesc_" + currSeqInd).getAttribute("len"); + } + alnLen = (alnLen) ? parseInt(alnLen) : 0; + return alnLen; +} + +function checkTotalAlignLen(startIndex,stopIndex) +{ + var dispAlnLen = 0; + var maxDispLen = parseInt($("maxDispAlnLen").value); + for (var i = startIndex; i <= stopIndex; i++) { + alnLen = getCurrSeqsAlnLen(i); + if (alnLen == 0) break; + dispAlnLen += alnLen; + } + return dispAlnLen; +} +//Get total align length for seq currSeqInd and +//"curr" surrounding countSeqs seqs + current, "prev" - previous countSeqs seqs, "next" - next countSeqs seqs +function getTotalAlignLen(readAln, currSeqInd, countSeqs, dispType) +{ + var startIndex = readAln.startIndex; + var stopIndex = readAln.startIndex + readAln.numSeq - 1; + if (dispType == "curr") {//checks countSeqs before and countSeqs after current, including current + startIndex = Math.max(startIndex, currSeqInd - countSeqs); + stopIndex = Math.min(stopIndex, currSeqInd + countSeqs); + } + else if(dispType == "prev") { + startIndex = Math.max(startIndex, currSeqInd - 1 - countSeqs); + stopIndex = currSeqInd - 1; + } + else {//next + stopIndex = Math.min(stopIndex, currSeqInd + countSeqs + 1); + } + var totAlnLen = checkTotalAlignLen(startIndex,stopIndex); + return totAlnLen; +} + +function checkIfAlnExceedsThreshold(readAln,currSeqInd,maxNumAligns, dispType) +{ + var maxDispLen = parseInt($("maxDispAlnLen").value); + var totAlnLen = 0; + var exc = false; + for (var numSeq = 0; numSeq <= maxNumAligns; numSeq++) { + totAlnLen = getTotalAlignLen(readAln, currSeqInd, numSeq, dispType); + if(totAlnLen > maxDispLen) { + break; + } + } + if (totAlnLen > maxDispLen) { + if (numSeq != 0) numSeq--; + if (dispType == "curr") { + readAln.startIndex = Math.max(readAln.startIndex, currSeqInd - numSeq); + //prev + 1(curr) + next + readAln.numSeq = (currSeqInd - readAln.startIndex) + 1 + numSeq; + } + else if (dispType == "prev") { + readAln.startIndex = Math.max(readAln.startIndex, currSeqInd - 1 - numSeq); + readAln.numSeq = numSeq + 1; + } + else { //"next" - readAln.startIndex stays + readAln.numSeq = numSeq + 1; + } + + if (readAln.numSeq == 1 && $("useAlignDB") && $("useAlignDB").value == "true") { + setupDynHSPParams(readAln); + } + + exc = true; + } + return exc; +} + + +//readAln.startIndex, readAln.numSeq, readAln.scrollToSeqID,readAln.insertAfterID should be set +function ReadSeqAlignByIndex(readAln) { + var numAligns = 0; + for (var i = readAln.startIndex; i < readAln.startIndex + readAln.numSeq; i++) { + + if (!$("deflnDesc_" + i)) { + break; + } + if (!$("deflnDesc_" + i).getAttribute("stat") || $("deflnDesc_" + i).getAttribute("stat") == "") { + currGi = $("deflnDesc_" + i).getAttribute("seqFSTA"); + if (readAln.seqList != "") readAln.seqList += ","; + readAln.seqList += currGi; + numAligns++; + } + else { + break; + } + } + if (readAln.seqList != "") { + readAln.numSeq = parseInt(numAligns); + ReadSeqAlignForSeqList(readAln); + } +} + + +var g_DisplayeAlignsRanges = ""; //String in the format start1-stop1,start2-stop2... +//Find the range of indexes of displayed alignments for currAlnInd +//Returns array of 2 startIndex, stopIndex +function getCurrIndexRange(currAlinInd) { + var currRange; + var ranges = g_DisplayeAlignsRanges.split(","); + for (var i = 0; i < ranges.length; i++) { + var indexes = ranges[i].split("-"); + if (currAlinInd >= parseInt(indexes[0]) && currAlinInd <= parseInt(indexes[1])) { + currRange = indexes; + break; + } + } + return currRange; +} + + +//Find the index of the previous displayed alignment +function getPrevDisplyedAlignInfo(currInd, readAln) { + readAln.insertAfterID = "alnStart"; + lastDispIdx = 0; + for (var i = currInd - 1; i >= 1; i--) { + indexes = getCurrIndexRange(i); + if (indexes) { + lastDispIdx = indexes[1]; + readAln.insertAfterID = "alnShow_" + indexes[0]; + break; + } + } + return parseInt(lastDispIdx); +} + + +//setReadStatus +function setSeqAlnReadStatus(readAln, status) { + for (var i = readAln.startIndex; i < readAln.startIndex + readAln.numSeq; i++) { + if ($("deflnDesc_" + i)) { + jQuery($($("deflnDesc_" + i))).attr("stat", status); + if (status == "disp") { + g_MaxDisplayedIndex = (i > g_MaxDisplayedIndex) ? i : g_MaxDisplayedIndex; + } + } + } +} + +/* +readAln.rid = rid; +readAln.seqList = giList; +readAln.startIndex = parseInt(idx); +readAln.insertAfterID = insertAfterID; +readAln.numSeq = parseInt(numSeq); +readAln.scrollToSeqID = scrollToGI; +*/ +function SendReadSeqAlinRequest(readAln) { + blastUrl = "t2g.cgi"; + + var rp = new RemoteDataProvider(blastUrl); + + + rp.onSuccess = function(obj) { + if ($("alignView")) utils.removeClass($("alignView"), "hidden"); + + if ($("alnShow_" + readAln.startIndex)) { + var moreHspsLink = getNextHspsLink(readAln); + jQuery($($("alnShowReal_" + readAln.startIndex))).html(obj.responseText + moreHspsLink, { + 'widgets': ['ncbipopper', 'ncbitoggler'], + 'configs': { + 'ncbipopper': { hasArrow: true, arrowDirection: 'top' } + } + }); + setSeqAlnReadStatus(readAln, "disp"); + jQuery($("alnMsg_" + readAln.startIndex)).addClass("hidden"); + //Saves start and stop indexes of loaded alignments in global variables + saveIdxesForAutomaticLoad(readAln); + jQuery($($("alnShowReal_" + readAln.startIndex))).find(".alnHdr").each(function(index) { + var seqID = this.getAttribute("seqID"); + if(seqID) initAlignBatch(seqID); + }); + + } + + if (readAln.scrollToSeqID) { + location.href = "#" + readAln.scrollToSeqID; + } + + }; + rp.onError = function(obj) { + if ($("alignView")) utils.removeClass($("alignView"), "hidden"); + jQuery($("alnMsg_" + readAln.startIndex)).addClass("hidden"); + $("alnShowReal_" + readAln.startIndex).innerHTML = "<div class=\"erm\" id=\"erm_" + readAln.startIndex + "\">Error loading alignment ...<span class=\"db\">requests:" + this.iActiveRequests + " status:" + obj.status + + "</span><a class=\"gbd\" href=\"#\" onclick=\"ReSubmitReadSeqAligns(event," + readAln.startIndex + ")\">Try again<\a></div>"; + } + var params = constructURLParams(readAln); + if (readAln.numSeq == 1) { + params += "&TOTAL_HSPS=" + $("deflnDesc_" + readAln.startIndex).getAttribute("hsp"); + } + params += "&SEQ_LIST_START=" + readAln.startIndex; + + var formatParams = constructFormatParams(); + params += formatParams; + + //alert(params); + rp.Request(params); +} + + +function constructURLParams(readAln) { + var params; + + if ($("useAlignDB") && $("useAlignDB").value == "true") { + + var alignDbParams = "&USE_ALIGNDB=true"; + var batchID = document.getElementsByName("ALIGNDB_BATCH_ID"); + if (batchID) { + alignDbParams += getHiddenFieldParamString("ALIGNDB_BATCH_ID"); + alignDbParams += getHiddenFieldParamString("ALIGNDB_MASTER_ALIAS"); + alignDbParams += getHiddenFieldParamString("ALIGNDB_CGI_HOST"); + alignDbParams += getHiddenFieldParamString("ALIGNDB_CGI_PATH"); + } + alignDbParams += "&ALIGN_SEQ_LIST=" + readAln.seqList; + alignDbParams += "&HSP_SORT=" + readAln.hspSort; + + if (readAln.hasOwnProperty("AlignDbPageNum")) { + alignDbParams += "&ALIGNDB_PAGE_NUM=" + readAln.AlignDbPageNum; + alignDbParams += "&ALIGNDB_PAGE_SIZE=" + readAln.AlignDbPageSize; + alignDbParams += "&HSP_START=" + readAln.AlignDbPageSize * readAln.AlignDbPageNum; + } + + params = "CMD=Get&RID=" + readAln.rid + "&OLD_BLAST=false&DESCRIPTIONS=0&NUM_OVERVIEW=0&DYNAMIC_FORMAT=on" + alignDbParams; + } + else { + params = "CMD=Get&RID=" + readAln.rid + "&OLD_BLAST=false&DESCRIPTIONS=0&NUM_OVERVIEW=0&GET_SEQUENCE=on&DYNAMIC_FORMAT=on&ALIGN_SEQ_LIST=" + readAln.seqList + "&HSP_SORT=" + readAln.hspSort; + } + if ($("phiPtInd")) { + params += "&PHI_PTTRN_INDEX=" + $("phiPtInd")[$("phiPtInd").selectedIndex].value; + } + return params; +} + +/* +readAln.rid = rid; +readAln.seqList = giList; +readAln.startIndex = parseInt(idx); +readAln.insertAfterID = insertAfterID; +readAln.numSeq = parseInt(numSeq); +readAln.scrollToSeqID = scrollToGI; +*/ +/*1. Draw div with id="alnShow_index" class ="alnMsg" with the message listing gis nad indexes +2. Insert another div with id="alnShowReal_index and class="alnMsgR" +3. For "alnShow_index" set atrr indexes="startInd-stopInd" +4. Set global g_MaxReadMessageIndex - max index of displayed seqalign ??? - check this +5. Add string "startInd-stopInd" to g_DisplayeAlignsRanges - comma separated indexes +6. Send read request +*/ + +function ReadSeqAlignForSeqList(readAln) { + var text = "<div id=\"alnShow_" + readAln.startIndex + "\" class=\"alnMsg\"><div class=\"alnMsgS\" id=\"alnMsg_" + readAln.startIndex + "\">Loading alignment...<span class=\"db\"> for sequences " + readAln.seqList; + var stopIndex = readAln.startIndex + readAln.numSeq - 1; + var useAlignDB = ($("useAlignDB") && $("useAlignDB").value == "true") ? "AlignDB=on " : ""; + text += " " + useAlignDB + "Reading indexes " + readAln.startIndex + "-" + stopIndex + "</span></div>"; + text += "<div id=\"alnShowReal_" + readAln.startIndex + "\" class=\"alnMsgR\"></div></div>"; + var debugControl = "<div id=\"debug\"></div>"; + if (!$("debug")) { + jQuery($($("descriptions"))).before(debugControl); + } + if (!$("alnShow_" + readAln.startIndex)) { + jQuery($($(readAln.insertAfterID))).after(text); + jQuery($($("alnShow_" + readAln.startIndex))).attr("indexes", readAln.startIndex + "-" + stopIndex); + jQuery($($("alnShow_" + readAln.startIndex))).attr("seqlist", readAln.seqList); + g_MaxReadMessageIndex = (readAln.startIndex > g_MaxReadMessageIndex) ? readAln.startIndex : g_MaxReadMessageIndex; + setSeqAlnReadStatus(readAln, "read"); + $("debug").innerHTML += ", " + useAlignDB + "Reading indexes " + readAln.startIndex + "-" + stopIndex; + + if (g_DisplayeAlignsRanges != "") g_DisplayeAlignsRanges += ","; + g_DisplayeAlignsRanges += readAln.startIndex + "-" + stopIndex; + + SendReadSeqAlinRequest(readAln); + } + else if ($("alnShowReal_" + readAln.startIndex).innerHTML.indexOf("Error") != -1) { + jQuery($("alnMsg_" + readAln.startIndex)).removeClass("hidden"); + jQuery($("erm_" + readAln.startIndex)).remove(); + SendReadSeqAlinRequest(readAln); + } +} + + +function ReSubmitReadSeqAligns(e,currInd) { + var rid = $("Rid").value; + if ($("alnShow_" + currInd)) { + var indexRange = jQuery($("alnShow_" + currInd)).attr("indexes"); + var range = indexRange.split("-"); + + + var readAln = new Object(); + readAln.seqList = ""; //giList + readAln.rid = rid; + readAln.seqList = jQuery($("alnShow_" + currInd)).attr("seqlist"); + readAln.startIndex = parseInt(range[0]); + readAln.numSeq = parseInt(range[1]) - parseInt(range[0]) + 1; + readAln.hspSort = 0; + ReadSeqAlignForSeqList(readAln); + utils.preventDefault(e); + } +} + + +var g_MaxReadMessageIndex = 0; //alnShow_idx with the message, deflnDesc_idx with stat="read" +var g_MaxDisplayedIndex = 0; //deflnDesc_idx with stat="disp" - last one in the set of N +var g_DisableAutoCheck = false; + +var g_autoStartIdx = new Array(); +var g_autoStopIdx = new Array(); + +function saveIdxesForAutomaticLoad(readAln) { + var stopIndex = readAln.startIndex + readAln.numSeq - 1; + g_autoStartIdx.push(readAln.startIndex); //1,20,25 + g_autoStopIdx.push(stopIndex); //4,24,29 + $("debug").innerHTML += ", displaying indexes " + readAln.startIndex + "-" + stopIndex; +} + +function getNextHspsLink(readAln) +{ + var moreHspsLink = "" + if (readAln.hasOwnProperty("AlignDbPageNum")) { + var nextPageNum = readAln.AlignDbPageNum + 1; + var currHspInd = readAln.AlignDbPageSize * nextPageNum; + var argstring = readAln.startIndex + "," + currHspInd; + var currGi = $("deflnDesc_" + readAln.startIndex).getAttribute("seqId"); + var accs = $("deflnDesc_" + readAln.startIndex).getAttribute("accs"); + var totalHsps = $("deflnDesc_" + readAln.startIndex).getAttribute("hsp"); + var prevHspInd = readAln.AlignDbPageSize * nextPageNum; + var segs = (prevHspInd + 1) + "-" + (prevHspInd + readAln.AlignDbPageSize); + var moreHspsID = "nxHsp" + currGi + "_" + (prevHspInd + 1); + + moreHspsLink = $("dynHspTmpl").innerHTML.replace("@moreHspsID@", moreHspsID); + moreHspsLink = moreHspsLink.replace(/@accs@/g, accs); + moreHspsLink = moreHspsLink.replace("@argstring@", argstring); + moreHspsLink = moreHspsLink.replace(/@segs@/g, segs); + moreHspsLink = moreHspsLink.replace("@totalHSP@", totalHsps); + moreHspsLink = moreHspsLink.replace(/@alignDbPageSize@/g, readAln.AlignDbPageSize); + moreHspsLink = moreHspsLink.replace("@aln_prev_num@", prevHspInd); + moreHspsLink = moreHspsLink.replace("@alnSeqGi@", currGi); + } + return moreHspsLink; +} + + +function ReadNextHSPSet(currSeqInd, currHSPNum) { + var readAln = new Object(); + + readAln.rid = $("Rid").value; + readAln.seqList = $("deflnDesc_" + currSeqInd).getAttribute("seqFSTA"); + readAln.gi = $("deflnDesc_" + currSeqInd).getAttribute("seqId"); + dynHsps = $("deflnDesc_" + currSeqInd).getAttribute("dynHsps"); + readAln.startIndex = currSeqInd; + readAln.numSeq = 1; + if (dynHsps) { + readAln.AlignDbPageNum = parseInt(currHSPNum) / parseInt(dynHsps); + readAln.AlignDbPageSize = parseInt(dynHsps); //number of HSps to retrieve + } + if (currHSPNum != 0) { + readAln.scrollToSeqID = "hsp" + +readAln.gi + "_" + (parseInt(currHSPNum) + 1); + readAln.insertAfterID = "ar_" + readAln.gi + "_" + currHSPNum; + } + var sortLink = $("sa_" + readAln.gi); + readAln.hspSort = (sortLink) ? parseInt(sortLink[sortLink.selectedIndex].value) : 0; + SendReadSeqAlinSortHSPRequest(readAln); +} + +function ReadNextHSPSetEvt(e, currSeqInd, currHSPNum) { + ReadNextHSPSet(currSeqInd, currHSPNum); + utils.preventDefault(e); +} + + + +function checkAutoAlignArray() { + var stop = false; + var start = false; + var currAlignViewPos = $("alignView").getBoundingClientRect().top; + if (currAlignViewPos < g_alignViewPos) {//scrolling down + g_alignViewPos = currAlignViewPos; + if (g_DisableAutoCheck) { + g_DisableAutoCheck = false; + return; + } + for (i = 0; i < g_autoStopIdx.length; i++) { + if (elementInViewport($("alnHdr_" + $("deflnDesc_" + g_autoStopIdx[i]).getAttribute("seqID")))) { + //alert("Reading more aligns scrolling down!"); + var nextInd = parseInt(g_autoStopIdx[i] + 1); + var currInd = g_autoStopIdx[i]; + if ($("deflnDesc_" + nextInd) && (!$("deflnDesc_" + nextInd).getAttribute("stat") || $("deflnDesc_" + nextInd).getAttribute("stat") == "")) { + ReadNextSeqAligns(currInd, 5); + stop = true; + break; + } + } + } + if (stop) g_autoStopIdx.splice(i, 1); //delete index from the array + } + else if (currAlignViewPos > g_alignViewPos) {//scrolling up + g_alignViewPos = currAlignViewPos; + //here maybe return if autoStop found!!! + /* commenting automic read when scroll up */ + for (i = 0; i < g_autoStartIdx.length; i++) { + if (elementInViewport($("alnHdr_" + $("deflnDesc_" + g_autoStartIdx[i]).getAttribute("seqID")))) { + //alert("Reading more aligns scrolling up!"); + var currInd = g_autoStartIdx[i]; + //Check for condition here if go there at all!!! Check if do the same thing as for ReadNext!!!! + if (currInd > 1) { + ReadPrevSeqAligns(currInd, 5); + start = true; + break; + } + } + } + if (start) g_autoStartIdx.splice(i, 1); + } + /*end of comment*/ +} + +var g_alignViewPos = 0; + +function checkAutoAlignLoad() { + + + checkAutoAlignArray(); + + if (jQuery($($(window))).scrollTop() + jQuery($($(window))).height() >= jQuery($($(document))).height() - 100) { + //alert("bottom!"); + + if ($("alnShowReal_" + g_MaxReadMessageIndex) && $("alnShowReal_" + g_MaxReadMessageIndex).innerHTML != "") { + //if(!$("alnShow_" + maxReadMessageIndex)) {//g_MaxReadMessageIndex + ReadNextSeqAligns(g_MaxDisplayedIndex, 5); + } + } +} + + +function GetPatternLocResults() +{ + form = $("results"); + if (!form.PHI_PTTRN_INDEX) { + var el = document.createElement("input"); + el.name = "PHI_PTTRN_INDEX"; + el.value = $("phiPtInd")[$("phiPtInd").selectedIndex].value; + form.appendChild(el); + } + else { + form.PHI_PTTRN_INDEX.value = $("phiPtInd")[$("phiPtInd").selectedIndex].value; + } + form.submit(); +} + +function goToNextHSP(elem, next) { + var par = jQuery(elem).parent(); //parent span with class="alnParLinks" + var parts = par[0].id.split("_"); //"hsp<seqid>_hspnum "hsp207524544_2" + if (parts[0].indexOf("nxHsp") != -1) { + parts[0] = parts[0].replace("nxHsp", "hsp"); + } + nextID = (next) ? parts[0] + "_" + (parseInt(parts[1]) + 1) : parts[0] + "_" + (parseInt(parts[1]) - 1) + + gotoElem = jQuery($(nextID)); + if (gotoElem[0]) { + a = jQuery(gotoElem).offset(); + window.scroll(0, a.top); + } + + else { + retrieveNextHSP(parts[0],parts[1]); + } + +} + + +//parts[0]//hsp<seqid>, parts[1] hspnum +function retrieveNextHSP(currLinkID, currHSPNum) +{ + var desLineID = currLinkID.replace("hsp", "dtr_"); //tr id + var currSeqInd, totalHsps; + jQuery($($(desLineID))).find(".deflnDesc").each(function(index) { + currSeqInd = parseInt(this.getAttribute("ind")); + totalHsps = parseInt(this.getAttribute("hsp")); + dynHsps = this.getAttribute("dynHsps"); + }); + currHSPNum = parseInt(currHSPNum); + if (currHSPNum < totalHsps && dynHsps) { + ReadNextHSPSet(currSeqInd, currHSPNum); + } +} +/********Adding those functions back to formatRes.js to identify Uncaught ReferenceError: getUrlCompForCheckedField is not defined error********************************/ +function getUrlCompForEntryField(elem) { + var url = ""; + if (elem && elem.value != "") { + url = "&" + elem.name + "=" + escape(elem.value); + } + return url; +} + + +function getUrlCompForCheckedField(elem) { + var url = ""; + if (elem && elem.checked) { + url = "&" + elem.name + "=" + elem.value; + } + return url; + +} + +function getUrlCompForOptionsField(elem) { + var url = ""; + if (elem) { + url = "&" + elem.name + "=" + elem[elem.selectedIndex].value; + } + return url; +} +/****************************************/ + +function constructFormatParams() { + var formatParams = ""; + + if ($("queryList")) { + formatParams += "&QUERY_INDEX=" + $("queryList")[$("queryList").selectedIndex].value; + } + + + formatParams += getUrlCompForCheckedField($("FormatForm").SHOW_LINKOUT); + formatParams += getUrlCompForCheckedField($("FormatForm").SHOW_CDS_FEATURE); + formatParams += getUrlCompForCheckedField($("FormatForm").NCBI_GI); + formatParams += getUrlCompForOptionsField($("FormatForm").ALIGNMENT_VIEW); + formatParams += getUrlCompForOptionsField($("FormatForm").MASK_CHAR); + formatParams += getUrlCompForOptionsField($("FormatForm").MASK_COLOR); + formatParams += getUrlCompForEntryField($("FormatForm").EXPECT_LOW); + formatParams += getUrlCompForEntryField($("FormatForm").EXPECT_HIGH); + formatParams += getUrlCompForEntryField($("FormatForm").PERC_IDENT_LOW); + formatParams += getUrlCompForEntryField($("FormatForm").PERC_IDENT_HIGH); + formatParams += getUrlCompForEntryField($("FormatForm").LINE_LENGTH); + + + formatParams += getHiddenFieldParamString("BUILD_NAME"); + + var serviceType = ""; + if ($("serviceType").value == "sra") { + serviceType = "sra"; + } + else if ($("clientType").value == "TMSmart_restricted") { + serviceType = "restricted"; + } + if (serviceType != "") { + formatParams += "&BOBJSRVC=" + serviceType; + } + if ($("currQuery").value != "") { + formatParams += "&CURR_QUERY_ID=" + $("currQuery").value; + } + + return formatParams; +} + +//readAln.seqList contains one gi only for this +function SendReadSeqAlinSortHSPRequest(readAln) { + blastUrl = "t2g.cgi"; + var rp = new RemoteDataProvider(blastUrl); + + + rp.onSuccess = function(obj) { + var moreHspsLink = (readAln.hasOwnProperty("AlignDbPageNum")) ? getNextHspsLink(readAln) : ""; + var alnHtml = obj.responseText + moreHspsLink; + initHSPRequest(readAln, obj.responseText + moreHspsLink,false); + if (readAln.scrollToSeqID) { + location.href = "#" + readAln.scrollToSeqID; + } + }; + rp.onError = function(obj) { + var currHspInd = (readAln.hasOwnProperty("AlignDbPageNum")) ? readAln.AlignDbPageSize * readAln.AlignDbPageNum : 0; + var msgID = "erm_" + readAln.gi + "_" + (currHspInd + 1); + if (!$(msgID)) { + var msg = "<div class=\"erm\" att=\"1\" id=\"" + msgID + "\">Error loading alignment ...<span class=\"db\">status:" + obj.status + + "</span><a class=\"gbd\" href=\"#\" onclick=\"ReadNextHSPSetEvt(event," + readAln.startIndex + "," + currHspInd + + ")\">Try again <span class=\"attmt\"></span> <\a></div>"; + initHSPRequest(readAln, msg, true); + } + else { + var attNum = parseInt($(msgID).getAttribute("att")) + 1; + $(msgID).setAttribute("att", attNum); + jQuery($(msgID)).find(".attmt").each(function(index) { + jQuery(this).html(", attempt " + attNum); + }); + } + } + + var params = constructURLParams(readAln); + if (readAln.AlignDbPageSize) { + params += "&TOTAL_HSPS=" + $("deflnDesc_" + readAln.startIndex).getAttribute("hsp"); + } + params += "&SORT_ONE_ALN=on"; + var formatParams = constructFormatParams(); + + params += formatParams; + + //alert(params); + rp.Request(params); +} +function initHSPRequest(readAln, alnHtml, err) { + var currHspInd = (readAln.hasOwnProperty("AlignDbPageNum")) ? readAln.AlignDbPageSize * readAln.AlignDbPageNum : 0; + if (currHspInd != 0) { + readAln.insertAfterID = "ar_" + readAln.gi + "_" + currHspInd; + jQuery($(readAln.insertAfterID)).after(alnHtml); + moreHspsID = "nxHsp" + readAln.gi + "_" + (currHspInd + 1); + jQuery($(moreHspsID)).remove(); + if (!err) { + errMsgID = "erm_" + readAln.gi + "_" + (currHspInd + 1); + jQuery($(errMsgID)).remove(); + } + } + else { + jQuery($("alnAll_" + readAln.gi)).html(alnHtml); + } +} + +function SortHSPAlnSel(e, sortLink) {//example id="sa_207524544" + var readAln = new Object(); + + + var desLineID = sortLink.id.replace("sa", "dtr"); //tr id + var seqInd; + + jQuery($($(desLineID))).find(".deflnDesc").each(function(index) { + seqInd = this.getAttribute("ind"); + }); + + ReadNextHSPSet(parseInt(seqInd), 0); +} + + +function configDescriptions(e,btn,dlgId) +{ + var suffix = PsiBelowThresh(dlgId); + var colmnsInfId = "cfcDsInf" + suffix; + var tblID = "dscTable" + suffix; //"dscTable[_psiw]" + var showAllColId = "shcl" + suffix; + var chkBoxes = $C("checkbox", "type", $(dlgId), "input"); + if (!utils.hasClass(btn, "cnc")) $(colmnsInfId).value = ""; + for (i = 0; i < chkBoxes.length; i++) { + var check; + if (utils.hasClass(btn, "cnc")) {//cancel + if ($(colmnsInfId).value.indexOf(chkBoxes[i].value) != -1 && !chkBoxes[i].checked) { + check = true; + } + else if ($(colmnsInfId).value.indexOf(chkBoxes[i].value) == -1 && chkBoxes[i].checked) { + check = false; + } + } + else if (utils.hasClass(btn, "rdf") && !chkBoxes[i].checked) { + check = true; + } + if (typeof (check) != 'undefined') { + chkBoxes[i].checked = check; + showHideCol(tblID,parseInt(chkBoxes[i].value), !check); + } + if (!utils.hasClass(btn, "cnc")) { + if (chkBoxes[i].checked) { //OK + if ($(colmnsInfId).value != "") $(colmnsInfId).value += ","; + $(colmnsInfId).value += chkBoxes[i].value; + } + } + } + if ($(colmnsInfId).value != $(colmnsInfId).getAttribute("defval")) {//defval = "2,3,4,5,6,7,8" + jQuery($(showAllColId)).removeClass("hidden"); + } + else { + jQuery($(showAllColId)).addClass("hidden"); + } + + var chConfig = $("cfcDsSave").value != $(colmnsInfId).value; + + var cfds = document.getElementsByName("CONFIG_DESCR"); + if (cfds) { + for (i = 0; i < cfds.length; i++) { + cfds[i].value = $(colmnsInfId).value; + } + } + $("cfcDsSave").value = $(colmnsInfId).value; + if (chConfig) SaveConfigTable(); + jQuery(document.body).click(); + utils.preventDefault(e); +} + + + +function initDescConfig() +{ + initConfigColumns("dsConfig"); + if ($("psiw") && utils.hasClass($("psiw"), "shown")) { + initConfigColumns("dsConfig_psiw"); + } +} + + +function initConfigColumns(cnfDlgID) +{ + var suffix = PsiBelowThresh(cnfDlgID); + //cnfDlgID is "dsConfig[_psiw]" + var colmnsInfId = "cfcDsInf" + suffix; + var tblID = "dscTable" + suffix; //"dscTable[_psiw]" + var showAllColId = "shcl" + suffix; + + if (navigator.userAgent.match(/ie/i)) { + if ($("FormatForm").NCBI_GI.checked || $("serviceType").value == "sra") { + jQuery($(tblID)).find("th.c1").each(function(index) { + db = getHiddenFieldVal("DATABASE"); + var width = (db.match(/WGS/i) || db.match(/Whole_Genome_Shotgun_contigs/i)) ? "16em" : "14em"; + jQuery(this).css("width", width); + }); + } + } + + jQuery($(tblID)).find("tr.first").each(function(index) { + jQuery(this).find("a.dcs").each(function(index) { + jQuery(this).bind("click", function(e) { checkConfig(this); }); + }); + }); + + jQuery($(cnfDlgID)).find("button").each(function(index) { + jQuery(this).bind("click", function(e) { configDescriptions(e, this, cnfDlgID); }); + }); + + + jQuery($(cnfDlgID)).bind("click", function(e) { e.stopPropagation(); }); + + $(colmnsInfId).value = getHiddenFieldVal("CONFIG_DESCR"); + if ($(colmnsInfId).value == "" || $(colmnsInfId).value == "undefined") { + $(colmnsInfId).value = $(colmnsInfId).getAttribute("defval"); + } + if ($(colmnsInfId).value != $(colmnsInfId).getAttribute("defval")) {//defval = "2,3,4,5,6,7,8" + jQuery($(showAllColId)).removeClass("hidden"); + } + else { + jQuery($(showAllColId)).addClass("hidden"); + } + var chkBoxes = $C("checkbox", "type", $(cnfDlgID), "input") + for (i = 0; i < chkBoxes.length; i++) { + jQuery(chkBoxes[i]).bind("click", configColumn); + if ($(colmnsInfId).value.indexOf(chkBoxes[i].value) != -1) { + chkBoxes[i].checked = true; + } + else { + //jQuery($(tblID)).ncbigrid("hideColumn", chkBoxes[i].value); + showHideCol($(tblID), chkBoxes[i].value, true); + } + } +} +function showAllCol(e,elem) +{ + var suffix = PsiBelowThresh(elem.id); + var rdf = "dscRsDf" + suffix; + jQuery($(rdf)).click();//click "restore defaults' + utils.preventDefault(e); +} + + +function configColumn() { + var suffix = PsiBelowThresh(this.id); + var tblID = "dscTable" + suffix; //"dscTable[_psiw]" + + cCls = "c" + this.value; + if (this.checked) {//show + showHideCol(tblID,parseInt(this.value), false); + } + else { + showHideCol(tblID,parseInt(this.value), true); + } +} + +function showHideCol(tblID, columnIndex, hide) { + + if ($("Transcr")) { + colHidden = utils.hasClass($("c" + columnIndex), "ui-ncbigrid-column-hidden"); + hide = hide && !colHidden; + show = !hide && colHidden; + } + else { + show = !hide; + } + if (hide) { + jQuery($(tblID)).ncbigrid("hideColumn", columnIndex); + } + else if (show) { + jQuery($(tblID)).ncbigrid("showColumn", columnIndex); + } + if ($("Transcr") && (hide || show) ) { + var colsp = parseInt($("Transcr").getAttribute("colspan")); + colsp = (hide) ? colsp - 1 : colsp + 1; + $("Transcr").setAttribute("colSpan", colsp); + if ($("GnmSeq")) $("GnmSeq").setAttribute("colSpan", colsp); + } +} + +function checkConfig(lnk) { + var cnfCol = "&CONFIG_DESCR=" + $("cfcDsSave").value; + lnk.href = lnk.href + cnfCol + "#sort_mark"; +} + +function DisplayAlignFromGraphics(seqID,e) //SeqID = gi if exists +{ + var dflLineLinks = $C(seqID, "gi", document, "a"); + for (i = 0; i < dflLineLinks.length; i++) { + jQuery(dflLineLinks[i]).click(); + break; + } + location.href = dflLineLinks[i].href; +} + + + +function initDescSelect() +{ + + jQuery("#cntDesc").find("a").each(function(index) { + jQuery(this).bind("click", configDescrSelect); + }); + jQuery("#cntSelN").click(); + jQuery("#descTblCtrl").find("a[view]").each(function(index) { + jQuery(this).bind("click", DisplaySelectedView); + }); + if ($("psiw") && utils.hasClass($("psiw"), "shown")) { + jQuery("#cntDesc_psiw").find("a").each(function(index) { + jQuery(this).bind("click", configDescrSelect); + }); + jQuery("#cntSelN_psiw").click(); + jQuery("#descTblCtrl_psiw").find("a[view]").each(function(index) { + jQuery(this).bind("click", DisplaySelectedView); + }); + } + + + //jQuery("#dsConfig").bind("click", function(e) { e.stopPropagation(); });?? + +} + +function DisplaySelectedView(e) { + if (this.getAttribute("view") == "graph") { //seqviewer + ViewSelectedSeqViewer(e,this); + } + else { + if (this.getAttribute("view") == "tree") { //seqviewer + $("scrWidth").value = screen.width; + $("scrHeight").value = screen.height; + } + ViewSelectedSeqsEx(e, this); + } +} + +function PsiBelowThresh(elemID) +{ + var suffix = ""; + if (elemID.indexOf("_psiw") != -1) { + suffix = "_psiw"; + } + return suffix; +} + +function ViewSelectedSeqsEx(e,elem) { + var sbmForm = elem.getAttribute("frm"); + var seqList = elem.getAttribute("seqList"); + + var cnfElem = utils.getParent(elem); //.cnf div + var suffix = PsiBelowThresh(cnfElem.id); + var tblID = "dscTable" + suffix; + + $(seqList).value = createSelseqString(tblID,true); + $(seqList).value = $(seqList).value.replace(/ti:/g, ""); //For traces + if ($(seqList).value.indexOf("dbSNP") != -1) { + $(seqList).value = $(seqList).value.replace(/dbSNP:rs/g, ""); //For snp + elem.href = $(sbmForm).action + $(seqList).value; + elem.target = "new"; + } + else { + $(sbmForm).submit(); + utils.preventDefault(e); + } +} + +function ViewSelectedSeqsTree(e) { + $("scrWidth").value = screen.width; + $("scrHeight").value = screen.height; +} + +function initSeqViewerGet(seqList) { + if (seqList.length >= 2000) { + seqList = seqList.substr(0,2000); + lastComma = seqList.lastIndexOf(","); + seqList = seqList.substr(0,lastComma); + } + $("seqViewParams").name = "RID"; + $("seqViewParams").value = $("ridParam").value + "[" + seqList + "]"; +} + +function ViewSelectedSeqViewer(e, elem) +{ + var cnfElem = utils.getParent(elem); //.cnf div + var suffix = PsiBelowThresh(cnfElem.id); + var tblID = "dscTable" + suffix; + + //change to false when new verison of seqVier is installed in production + var seqList = createSelseqString(tblID, false); + $("sbmtGraphics").action = $("seqViewUrl").value; + + var rp = new RemoteDataProvider("url2nc.cgi"); + rp.onSuccess = function(obj) { + var jsnResp = JSON.parse(obj.responseText); + ncid = jsnResp.ncid; + + if (ncid != "") { + $("seqViewParams").name = "rkey"; + $("seqViewParams").value = ncid; + } + else { + initSeqViewerGet(seqList); + } + $("sbmtGraphics").submit(); + }; + rp.onError = function(obj) { + initSeqViewerGet(seqList); + $("sbmtGraphics").submit(); + utils.preventDefault(e); + } + var params = $("ridParam").value + "[" + seqList + "]"; + rp.Request(params, "POST"); + utils.preventDefault(e); +} + +function configDescrSelect(e) { + var sel = this.getAttribute("sel"); + if (sel) { + var selNum = 0; + var check = (sel == "all") ? true : false; + + var suffix = PsiBelowThresh(this.id); + var tblID = "dscTable" + suffix; + var toolbarID = "descTblCtrl" + suffix; + var selElID = "slcNum" + suffix; + + jQuery($(tblID)).find("input[type='checkbox'].cb").each(function(index) { + jQuery(this)[0].checked = check; + if (check) selNum++; + }); + enableDescrLinks(selNum, toolbarID, selElID); + } + utils.preventDefault(e); +} + + + +function enableDescrLinks(selNum, toolbarID, selElID) { + jQuery($(toolbarID)).find("a[minSlct]").each(function(index) { + var minSelected = this.getAttribute("minSlct"); + minSelected = parseInt(minSelected); + if (selNum >= minSelected) { + this.removeAttribute("disabled"); + } + else { + this.setAttribute("disabled", "disabled"); + } + }); + $(selElID).innerHTML = selNum; +} + + + +function configDescrLinks(e, elem) +{ + + ncbi.sg.ping(elem, "click", elem.checked ? "checked=true" : "checked=false"); + var par = jQuery(elem).parents(".jig-ncbigrid");//parent table + if (par) { + var suffix = PsiBelowThresh(par[0].id); + var tblID = "dscTable" + suffix; + var toolbarID = "descTblCtrl" + suffix; + var selElID = "slcNum" + suffix; + + var currSelNum = parseInt($(selElID).innerHTML); + var selNum = elem.checked ? currSelNum + 1 : currSelNum - 1; + enableDescrLinks(selNum, toolbarID, selElID); + } +} +/***Download code begin****/ + +function initDownLoadPopup(dwnDialog) { + + jQuery(dwnDialog).find("button").each(function(index) { + jQuery(this).bind("click", execDownLoad); + }); + + jQuery(dwnDialog).bind("click", function(e) { e.stopPropagation(); }); +} + +function initDescDownLoad() { + initDownLoadPopup($("dsDownload")); + + if ($("psiw") && utils.hasClass($("psiw"), "shown")) { + initDownLoadPopup($("dsDownload_psiw")); + } +} + +function initAlignDownLoad(navObj) +{ + var seqID = navObj.seqID; + var dwnDialog = $("dlgDwnl_" + seqID); + jQuery(dwnDialog).find("button").each(function(index) { + jQuery(this).bind("click", execDownLoad); + }); + + var dwnFSTW = $("dwFST_" + seqID);//whole seq + var dwnFSTAl = $("dwFSTAl_" + seqID);//aligned regions + + if(dwnFSTW) dwnFSTW.setAttribute("seqfsta", navObj.currSeqID); + if(dwnFSTAl) dwnFSTAl.setAttribute("seqfsta", navObj.currSeqID); + + jQuery(dwnDialog).bind("click", function(e) { e.stopPropagation(); }); +} + + +function execDownLoad(e) { + if (!utils.hasClass(this, "cnc")) { + par = utils.getParent(this); + dwnDialog = utils.getParent(par); //parent dialog with popDl class + var descr = (this.id == "dw_cont" || this.id == "dw_cont_psiw") ? true : false; + jQuery(dwnDialog).find("input").each(function(index) { + if (this.checked) { + submitDownLoad(this, descr); + } + }); + } + jQuery(document.body).click(); + utils.preventDefault(e); +} + +function submitDownLoad(radioElem, descr) { + var toolURL = radioElem.getAttribute("url"); + if (toolURL) { + if (descr) { + var getGi = radioElem.getAttribute("getGi"); + getGi = (getGi) ? true : false; + + var tblID = "dscTable"; + var suffix = PsiBelowThresh(radioElem.id); + tblID += suffix; + + $("selDnSeqs").value = createSelseqString(tblID,getGi); + } + else { + var seqfsta = radioElem.getAttribute("seqfsta"); + $("selDnSeqs").value = (seqfsta) ? seqfsta : radioElem.getAttribute("getGi"); + } + var addParams = ""; + if (radioElem.getAttribute("addParam")) { + addParams = addDwnlParams(); + } + var submitName = radioElem.getAttribute("sbName") + $("selDnSeqs").name = (submitName) ? submitName : "ALIGN_SEQ_LIST"; + $("dwdlSubmit").action = toolURL + addParams; + $("dwdlSubmit").submit(); + } + else { + var sbFunction = radioElem.getAttribute("sbFunc"); + if (sbFunction) { + eval(sbFunction + "(radioElem, descr)"); + } + } +} + + +function initDownLoadFSTA(radioElem, descr) +{ + if (descr) { + + var tblID = "dscTable"; + var suffix = PsiBelowThresh(radioElem.id); + tblID += suffix; + + $("sbmtFASTA").ALIGN_SEQ_LIST.value = createSelseqString(tblID,false); + } + else { + $("sbmtFASTA").ALIGN_SEQ_LIST.value = radioElem.getAttribute("seqfsta"); + } + $("sbmtFASTA").DOWNLOAD_TYPE.value = radioElem.getAttribute("fstaDWType"); + + $("sbmtFASTA").DATABASE.value = getHiddenFieldVal("DATABASE"); + if ($("useAlignDB") && $("useAlignDB").value == "true") {//temp checkbox + var batchID = document.getElementsByName("ALIGNDB_BATCH_ID"); + if (batchID) { + $("sbmtFASTA").ALIGNDB_BATCH_ID.value = getHiddenFieldVal("ALIGNDB_BATCH_ID"); + $("sbmtFASTA").ALIGNDB_MASTER_ALIAS.value = getHiddenFieldVal("ALIGNDB_MASTER_ALIAS"); + $("sbmtFASTA").ALIGNDB_CGI_HOST.value = getHiddenFieldVal("ALIGNDB_CGI_HOST"); + $("sbmtFASTA").ALIGNDB_CGI_PATH.value = getHiddenFieldVal("ALIGNDB_CGI_PATH"); + } + } + $("sbmtFASTA").submit(); +} + +function createSelseqString(tblID,getGi) { + var selSeqs = ""; + jQuery($(tblID)).find("input[type='checkbox'].cb").each(function(index) { + if (jQuery(this)[0].checked) { + if (selSeqs != "") selSeqs += ","; + if (getGi) { + selSeqs += jQuery(this)[0].value; + } + else { + var linkID = jQuery(this)[0].id.replace("chk", "deflnDesc"); + selSeqs += $(linkID).getAttribute("seqFSTA"); + } + } + }); + return selSeqs; +} + +/***Download code end****/ + +/***Init navigation code begin **/ + +function initNavigation(navObj) { + initNextAlnLink(navObj, true); + initNextAlnLink(navObj, false); +} + + +function initNavInfo(navObj) { + var currInd = parseInt($("dtr_" + navObj.seqID).getAttribute("ind")); + nextInd = currInd + 1; + prevInd = currInd - 1; + + navObj.currSeqID = ""; + navObj.nextSeqID = ""; + navObj.prevSeqID = ""; + + if ($("deflnDesc_" + nextInd)) { + navObj.nextSeqID = $("deflnDesc_" + nextInd).getAttribute("accs"); + if(navObj.nextSeqID =="") navObj.nextSeqID = $("deflnDesc_" + nextInd).getAttribute("seqFSTA"); + } + if ($("deflnDesc_" + prevInd)) { + navObj.prevSeqID = $("deflnDesc_" + prevInd).getAttribute("accs"); + if (navObj.prevSeqID == "") navObj.prevSeqID = $("deflnDesc_" + prevInd).getAttribute("seqFSTA"); + } + if ($("deflnDesc_" + currInd)) { + navObj.currSeqID = $("deflnDesc_" + currInd).getAttribute("seqFSTA"); + } +} + + +function initNextAlnLink(navObj, next) { + + var nextLinkEl = (next) ? $("alnNxt_" + navObj.seqID) : $("alnPrv_" + navObj.seqID); + var nextSeqid = (next) ? navObj.nextSeqID : navObj.prevSeqID; + + if (nextLinkEl) { + if (nextSeqid != "") { + var text = (next) ? "next" : "previous"; + nextLinkEl.setAttribute("title", "Go to " + text + " alignment for " + nextSeqid); + } + else { + nextLinkEl.setAttribute("disabled", "disabled"); + } + } +} +function scan(link) { + var init = link.getAttribute("init"); + if (!init) { + ncbi.sg.scanLinks(link); + link.setAttribute("init","on"); + } +} + +function initWidth(seqID) { + var lineLengthElem = $("FormatForm").LINE_LENGTH; + var lineLength = parseInt(lineLengthElem[lineLengthElem.selectedIndex].value); + if (parseInt(lineLengthElem.getAttribute("defval")) == lineLength) return; + + var relWidth = (lineLength > 90) ? "12%" : "15%"; + var charWidth = (navigator.userAgent.match(/ie/i)) ? 8 : 7; + lineLength = (lineLength + parseInt(17)) * charWidth; + var width = lineLength + "px"; + jQuery($("alnAll_" + seqID)).find("div.dflLnk").each(function(index) { + jQuery(this).css("width", width); + }); + jQuery($("alnAll_" + seqID)).find("table.alnParams").each(function(index) { + jQuery(this).css("width", width); + }); + jQuery($("relInf_" + seqID)).css("width", relWidth); +} + + +/***Init navigation code end **/ +function initAlignBatch(seqID) +{ + var navObj = new Object(); + navObj.seqID = seqID; + initNavInfo(navObj); + + initAlignDownLoad(navObj); + initNavigation(navObj); + ncbi.sg.scanLinks($("alnNxt_" + seqID)); + ncbi.sg.scanLinks($("alnPrv_" + seqID)); + if ($("serviceType").value == "vecscreen") { + utils.addClass($("alnDsc_" + seqID), "hidden"); + } + ncbi.sg.scanLinks($("alnDwnld_" + seqID)); + jQuery($("csLinks_" + seqID)).find("a").each(function(index) { + ncbi.sg.scanLinks(this); + }); + jQuery($("relInf_" + seqID)).find("a").each(function(index) { + ncbi.sg.scanLinks(this); + }); + jQuery($("rng_" + seqID)).find("a").each(function(index) { + ncbi.sg.scanLinks(this); + }); + jQuery($("dln_" + seqID)).find("a").each(function(index) { + ncbi.sg.scanLinks(this); + }); + initWidth(seqID); +/* + jQuery($("alnHdr_" + seqID)).find("a").each(function(index) { + ncbi.sg.scanLinks(this); + }); + jQuery($("aln_" + seqID)).find("a").each(function(index) { + ncbi.sg.scanLinks(this); + }); +*/ +} + +function SaveConfigTable() { + blastUrl = "fmtsave.cgi"; + + + var rp = new RemoteDataProvider(blastUrl); + + + rp.onSuccess = function(obj) { + //alert("success"); + }; + rp.onError = function(obj) { + //alert("error"); + } + + var program = getHiddenFieldVal("PROGRAM"); + var rid = getHiddenFieldVal("RID"); + var blastSpec = getHiddenFieldVal("BLAST_SPEC"); + var params = "CMD=Get&RID=" + rid + "&ViewReport=on&PROGRAM=" + program + "&SAVE_INDV_FRM_OPTION=on&CONFIG_DESCR=" + $("cfcDsSave").value; + if(blastSpec) { + params += "&BLAST_SPEC=" + blastSpec; + } + rp.Request(params,"POST"); +} + +function removeRID() { + var rid = document.getElementsByName("RID"); + for (var i = 0; i <= rid.length; i++) { + jQuery(rid[i]).remove(); + } +} + +function initAdvancedView() +{ + if ($("dsConfig")) { + + var alnView = getHiddenFieldVal("ALIGNMENT_VIEW"); + if (alnView == "Pairwise" || alnView == "PairwiseWithIdentities") { + var rid = getHiddenFieldVal("RID"); + ReadNextSeqAligns(0, 5); + g_alignViewPos = $("alignView").getBoundingClientRect().top; + utils.addEvent(window, "scroll", checkAutoAlignLoad, false); + } + list = $("phiPtInd"); + if (list) { + utils.addEvent(list, "change", GetPatternLocResults, false); + } + initDescConfig(); + initDescSelect(); + initDescDownLoad(); + if ($("psiInp")) { + var nextIter = document.getElementsByName("NEXT_I"); + for (var i = 0; i < nextIter.length; i++) { + utils.addEvent(nextIter[i], "click", removeRID, false); + } + } + } +} + +//takes care of jQuery calls to elements that have dots in id like id= "SRA34456.3.4" +function initjQry() +{ + var oldCreate = jQuery.ui.ncbipopper.prototype._create; + jQuery.ui.ncbipopper.prototype._create = function() { + var destSelector = this.options.destSelector || this.options.sourceSelector || this.element.prop("hash"); + this.options.destSelector = destSelector.replace(/\./g, "\\."); + oldCreate.apply(this, arguments); + } +} +utils.addEvent(window, + "load", initAdvancedView, + false); + +initjQry() + +/* If user agent has "safari" in it, include safari-specific stylesheet. */ +if (navigator.userAgent.match(/ie/i)) { + document.write("<link rel='stylesheet' type='text/css' href='css/ie-descriptions.css' media='screen'/>"); +} +/*****************************new code end*********************************************************************/
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a==="string"){b=a.split(Ga);d=0;for(e=this.length;d<e;d++){f=this[d];if(f.nodeType===1)if(!f.className&&b.length===1)f.className=a;else{h=" "+f.className+" ";l=0;for(m=b.length;l<m;l++)~h.indexOf(" "+b[l]+" ")||(h+=b[l]+" ");f.className=c.trim(h)}}}return this},removeClass:function(a){var b,d,e,f,h,l,m;if(c.isFunction(a))return this.each(function(n){c(this).removeClass(a.call(this, +n,this.className))});if(a&&typeof a==="string"||a===j){b=(a||"").split(Ga);d=0;for(e=this.length;d<e;d++){f=this[d];if(f.nodeType===1&&f.className)if(a){h=(" "+f.className+" ").replace(gb," ");l=0;for(m=b.length;l<m;l++)h=h.replace(" "+b[l]+" "," ");f.className=c.trim(h)}else f.className=""}}return this},toggleClass:function(a,b){var d=typeof a,e=typeof b==="boolean";if(c.isFunction(a))return this.each(function(f){c(this).toggleClass(a.call(this,f,this.className,b),b)});return this.each(function(){if(d=== +"string")for(var f,h=0,l=c(this),m=b,n=a.split(Ga);f=n[h++];){m=e?m:!l.hasClass(f);l[m?"addClass":"removeClass"](f)}else if(d==="undefined"||d==="boolean"){this.className&&c._data(this,"__className__",this.className);this.className=this.className||a===false?"":c._data(this,"__className__")||""}})},hasClass:function(a){a=" "+a+" ";for(var b=0,d=this.length;b<d;b++)if(this[b].nodeType===1&&(" "+this[b].className+" ").replace(gb," ").indexOf(a)>-1)return true;return false},val:function(a){var b,d,e, +f=this[0];if(arguments.length){e=c.isFunction(a);return this.each(function(h){var l=c(this);if(this.nodeType===1){h=e?a.call(this,h,l.val()):a;if(h==null)h="";else if(typeof h==="number")h+="";else if(c.isArray(h))h=c.map(h,function(m){return m==null?"":m+""});b=c.valHooks[this.nodeName.toLowerCase()]||c.valHooks[this.type];if(!b||!("set"in b)||b.set(this,h,"value")===j)this.value=h}})}else if(f){if((b=c.valHooks[f.nodeName.toLowerCase()]||c.valHooks[f.type])&&"get"in b&&(d=b.get(f,"value"))!==j)return d; +d=f.value;return typeof d==="string"?d.replace(Sb,""):d==null?"":d}}});c.extend({valHooks:{option:{get:function(a){var b=a.attributes.value;return!b||b.specified?a.value:a.text}},select:{get:function(a){var b,d,e=a.selectedIndex,f=[],h=a.options,l=a.type==="select-one";if(e<0)return null;a=l?e:0;for(d=l?e+1:h.length;a<d;a++){b=h[a];if(b.selected&&(c.support.optDisabled?!b.disabled:b.getAttribute("disabled")===null)&&(!b.parentNode.disabled||!c.nodeName(b.parentNode,"optgroup"))){b=c(b).val();if(l)return b; +f.push(b)}}if(l&&!f.length&&h.length)return c(h[e]).val();return f},set:function(a,b){var d=c.makeArray(b);c(a).find("option").each(function(){this.selected=c.inArray(c(this).val(),d)>=0});if(!d.length)a.selectedIndex=-1;return d}}},attrFn:{val:true,css:true,html:true,text:true,data:true,width:true,height:true,offset:true},attr:function(a,b,d,e){var f,h,l=a.nodeType;if(!(!a||l===3||l===8||l===2)){if(e&&b in c.attrFn)return c(a)[b](d);if(typeof a.getAttribute==="undefined")return c.prop(a,b,d);if(e= +l!==1||!c.isXMLDoc(a)){b=b.toLowerCase();h=c.attrHooks[b]||(hb.test(b)?jb:oa)}if(d!==j)if(d===null)c.removeAttr(a,b);else if(h&&"set"in h&&e&&(f=h.set(a,d,b))!==j)return f;else{a.setAttribute(b,""+d);return d}else if(h&&"get"in h&&e&&(f=h.get(a,b))!==null)return f;else{f=a.getAttribute(b);return f===null?j:f}}},removeAttr:function(a,b){var d,e,f,h=0;if(b&&a.nodeType===1){d=b.toLowerCase().split(Ga);for(f=d.length;h<f;h++)if(e=d[h]){b=c.propFix[e]||e;c.attr(a,e,"");a.removeAttribute(ib?e:b);if(hb.test(e)&& +b in a)a[b]=false}}},attrHooks:{type:{set:function(a,b){if(Tb.test(a.nodeName)&&a.parentNode)c.error("type property can't be changed");else if(!c.support.radioValue&&b==="radio"&&c.nodeName(a,"input")){var d=a.value;a.setAttribute("type",b);if(d)a.value=d;return b}}},value:{get:function(a,b){if(oa&&c.nodeName(a,"button"))return oa.get(a,b);return b in a?a.value:null},set:function(a,b,d){if(oa&&c.nodeName(a,"button"))return oa.set(a,b,d);a.value=b}}},propFix:{tabindex:"tabIndex",readonly:"readOnly", +"for":"htmlFor","class":"className",maxlength:"maxLength",cellspacing:"cellSpacing",cellpadding:"cellPadding",rowspan:"rowSpan",colspan:"colSpan",usemap:"useMap",frameborder:"frameBorder",contenteditable:"contentEditable"},prop:function(a,b,d){var e,f,h=a.nodeType;if(!(!a||h===3||h===8||h===2)){if(h!==1||!c.isXMLDoc(a)){b=c.propFix[b]||b;f=c.propHooks[b]}return d!==j?f&&"set"in f&&(e=f.set(a,d,b))!==j?e:(a[b]=d):f&&"get"in f&&(e=f.get(a,b))!==null?e:a[b]}},propHooks:{tabIndex:{get:function(a){var b= +a.getAttributeNode("tabindex");return b&&b.specified?parseInt(b.value,10):Ub.test(a.nodeName)||Vb.test(a.nodeName)&&a.href?0:j}}}});c.attrHooks.tabindex=c.propHooks.tabIndex;jb={get:function(a,b){var d,e=c.prop(a,b);return e===true||typeof e!=="boolean"&&(d=a.getAttributeNode(b))&&d.nodeValue!==false?b.toLowerCase():j},set:function(a,b,d){if(b===false)c.removeAttr(a,d);else{b=c.propFix[d]||d;if(b in a)a[b]=true;a.setAttribute(d,d.toLowerCase())}return d}};if(!ib){kb={name:true,id:true};oa=c.valHooks.button= +{get:function(a,b){return(a=a.getAttributeNode(b))&&(kb[b]?a.nodeValue!=="":a.specified)?a.nodeValue:j},set:function(a,b,d){var e=a.getAttributeNode(d);if(!e){e=L.createAttribute(d);a.setAttributeNode(e)}return e.nodeValue=b+""}};c.attrHooks.tabindex.set=oa.set;c.each(["width","height"],function(a,b){c.attrHooks[b]=c.extend(c.attrHooks[b],{set:function(d,e){if(e===""){d.setAttribute(b,"auto");return e}}})});c.attrHooks.contenteditable={get:oa.get,set:function(a,b,d){if(b==="")b="false";oa.set(a,b, +d)}}}c.support.hrefNormalized||c.each(["href","src","width","height"],function(a,b){c.attrHooks[b]=c.extend(c.attrHooks[b],{get:function(d){d=d.getAttribute(b,2);return d===null?j:d}})});if(!c.support.style)c.attrHooks.style={get:function(a){return a.style.cssText.toLowerCase()||j},set:function(a,b){return a.style.cssText=""+b}};if(!c.support.optSelected)c.propHooks.selected=c.extend(c.propHooks.selected,{get:function(){return null}});if(!c.support.enctype)c.propFix.enctype="encoding";c.support.checkOn|| +c.each(["radio","checkbox"],function(){c.valHooks[this]={get:function(a){return a.getAttribute("value")===null?"on":a.value}}});c.each(["radio","checkbox"],function(){c.valHooks[this]=c.extend(c.valHooks[this],{set:function(a,b){if(c.isArray(b))return a.checked=c.inArray(c(a).val(),b)>=0}})});var Ta=/^(?:textarea|input|select)$/i,lb=/^([^\.]*)?(?:\.(.+))?$/,Wb=/\bhover(\.\S+)?\b/,Xb=/^key/,Yb=/^(?:mouse|contextmenu)|click/,mb=/^(?:focusinfocus|focusoutblur)$/,Zb=/^(\w*)(?:#([\w\-]+))?(?:\.([\w\-]+))?$/, +$b=function(a){if(a=Zb.exec(a)){a[1]=(a[1]||"").toLowerCase();a[3]=a[3]&&new RegExp("(?:^|\\s)"+a[3]+"(?:\\s|$)")}return a},ac=function(a,b){var d=a.attributes||{};return(!b[1]||a.nodeName.toLowerCase()===b[1])&&(!b[2]||(d.id||{}).value===b[2])&&(!b[3]||b[3].test((d["class"]||{}).value))},nb=function(a){return c.event.special.hover?a:a.replace(Wb,"mouseenter$1 mouseleave$1")};c.event={add:function(a,b,d,e,f){var h,l,m,n,t,E,y,H,D;if(!(a.nodeType===3||a.nodeType===8||!b||!d||!(h=c._data(a)))){if(d.handler){y= +d;d=y.handler}if(!d.guid)d.guid=c.guid++;m=h.events;if(!m)h.events=m={};l=h.handle;if(!l){h.handle=l=function(S){return typeof c!=="undefined"&&(!S||c.event.triggered!==S.type)?c.event.dispatch.apply(l.elem,arguments):j};l.elem=a}b=c.trim(nb(b)).split(" ");for(h=0;h<b.length;h++){n=lb.exec(b[h])||[];t=n[1];E=(n[2]||"").split(".").sort();D=c.event.special[t]||{};t=(f?D.delegateType:D.bindType)||t;D=c.event.special[t]||{};n=c.extend({type:t,origType:n[1],data:e,handler:d,guid:d.guid,selector:f,quick:$b(f), +namespace:E.join(".")},y);H=m[t];if(!H){H=m[t]=[];H.delegateCount=0;if(!D.setup||D.setup.call(a,e,E,l)===false)if(a.addEventListener)a.addEventListener(t,l,false);else a.attachEvent&&a.attachEvent("on"+t,l)}if(D.add){D.add.call(a,n);if(!n.handler.guid)n.handler.guid=d.guid}f?H.splice(H.delegateCount++,0,n):H.push(n);c.event.global[t]=true}a=null}},global:{},remove:function(a,b,d,e,f){var h=c.hasData(a)&&c._data(a),l,m,n,t,E,y,H,D,S,$;if(h&&(H=h.events)){b=c.trim(nb(b||"")).split(" ");for(l=0;l<b.length;l++){m= +lb.exec(b[l])||[];n=t=m[1];m=m[2];if(n){D=c.event.special[n]||{};n=(e?D.delegateType:D.bindType)||n;S=H[n]||[];E=S.length;m=m?new RegExp("(^|\\.)"+m.split(".").sort().join("\\.(?:.*\\.)?")+"(\\.|$)"):null;for(y=0;y<S.length;y++){$=S[y];if((f||t===$.origType)&&(!d||d.guid===$.guid)&&(!m||m.test($.namespace))&&(!e||e===$.selector||e==="**"&&$.selector)){S.splice(y--,1);$.selector&&S.delegateCount--;D.remove&&D.remove.call(a,$)}}if(S.length===0&&E!==S.length){if(!D.teardown||D.teardown.call(a,m)===false)c.removeEvent(a, +n,h.handle);delete H[n]}}else for(n in H)c.event.remove(a,n+b[l],d,e,true)}if(c.isEmptyObject(H)){if(b=h.handle)b.elem=null;c.removeData(a,["events","handle"],true)}}},customEvent:{getData:true,setData:true,changeData:true},trigger:function(a,b,d,e){if(!(d&&(d.nodeType===3||d.nodeType===8))){var f=a.type||a,h=[],l,m,n,t,E;if(!mb.test(f+c.event.triggered)){if(f.indexOf("!")>=0){f=f.slice(0,-1);l=true}if(f.indexOf(".")>=0){h=f.split(".");f=h.shift();h.sort()}if(!((!d||c.event.customEvent[f])&&!c.event.global[f])){a= +typeof a==="object"?a[c.expando]?a:new c.Event(f,a):new c.Event(f);a.type=f;a.isTrigger=true;a.exclusive=l;a.namespace=h.join(".");a.namespace_re=a.namespace?new RegExp("(^|\\.)"+h.join("\\.(?:.*\\.)?")+"(\\.|$)"):null;l=f.indexOf(":")<0?"on"+f:"";if(d){a.result=j;if(!a.target)a.target=d;b=b!=null?c.makeArray(b):[];b.unshift(a);n=c.event.special[f]||{};if(!(n.trigger&&n.trigger.apply(d,b)===false)){E=[[d,n.bindType||f]];if(!e&&!n.noBubble&&!c.isWindow(d)){t=n.delegateType||f;h=mb.test(t+f)?d:d.parentNode; +for(m=null;h;h=h.parentNode){E.push([h,t]);m=h}if(m&&m===d.ownerDocument)E.push([m.defaultView||m.parentWindow||g,t])}for(m=0;m<E.length&&!a.isPropagationStopped();m++){h=E[m][0];a.type=E[m][1];(t=(c._data(h,"events")||{})[a.type]&&c._data(h,"handle"))&&t.apply(h,b);(t=l&&h[l])&&c.acceptData(h)&&t.apply(h,b)===false&&a.preventDefault()}a.type=f;if(!e&&!a.isDefaultPrevented())if((!n._default||n._default.apply(d.ownerDocument,b)===false)&&!(f==="click"&&c.nodeName(d,"a"))&&c.acceptData(d))if(l&&d[f]&& +(f!=="focus"&&f!=="blur"||a.target.offsetWidth!==0)&&!c.isWindow(d)){if(m=d[l])d[l]=null;c.event.triggered=f;d[f]();c.event.triggered=j;if(m)d[l]=m}return a.result}}else{d=c.cache;for(m in d)d[m].events&&d[m].events[f]&&c.event.trigger(a,b,d[m].handle.elem,true)}}}}},dispatch:function(a){a=c.event.fix(a||g.event);var b=(c._data(this,"events")||{})[a.type]||[],d=b.delegateCount,e=[].slice.call(arguments,0),f=!a.exclusive&&!a.namespace,h=[],l,m,n,t,E,y,H;e[0]=a;a.delegateTarget=this;if(d&&!a.target.disabled&& +!(a.button&&a.type==="click")){n=c(this);n.context=this.ownerDocument||this;for(m=a.target;m!=this;m=m.parentNode||this){E={};y=[];n[0]=m;for(l=0;l<d;l++){t=b[l];H=t.selector;if(E[H]===j)E[H]=t.quick?ac(m,t.quick):n.is(H);E[H]&&y.push(t)}y.length&&h.push({elem:m,matches:y})}}b.length>d&&h.push({elem:this,matches:b.slice(d)});for(l=0;l<h.length&&!a.isPropagationStopped();l++){d=h[l];a.currentTarget=d.elem;for(b=0;b<d.matches.length&&!a.isImmediatePropagationStopped();b++){t=d.matches[b];if(f||!a.namespace&& +!t.namespace||a.namespace_re&&a.namespace_re.test(t.namespace)){a.data=t.data;a.handleObj=t;t=((c.event.special[t.origType]||{}).handle||t.handler).apply(d.elem,e);if(t!==j){a.result=t;if(t===false){a.preventDefault();a.stopPropagation()}}}}}return a.result},props:"attrChange attrName relatedNode srcElement altKey bubbles cancelable ctrlKey currentTarget eventPhase metaKey relatedTarget shiftKey target timeStamp view which".split(" "),fixHooks:{},keyHooks:{props:"char charCode key keyCode".split(" "), +filter:function(a,b){if(a.which==null)a.which=b.charCode!=null?b.charCode:b.keyCode;return a}},mouseHooks:{props:"button buttons clientX clientY fromElement offsetX offsetY pageX pageY screenX screenY toElement".split(" "),filter:function(a,b){var d,e,f=b.button,h=b.fromElement;if(a.pageX==null&&b.clientX!=null){d=a.target.ownerDocument||L;e=d.documentElement;d=d.body;a.pageX=b.clientX+(e&&e.scrollLeft||d&&d.scrollLeft||0)-(e&&e.clientLeft||d&&d.clientLeft||0);a.pageY=b.clientY+(e&&e.scrollTop||d&& +d.scrollTop||0)-(e&&e.clientTop||d&&d.clientTop||0)}if(!a.relatedTarget&&h)a.relatedTarget=h===a.target?b.toElement:h;if(!a.which&&f!==j)a.which=f&1?1:f&2?3:f&4?2:0;return a}},fix:function(a){if(a[c.expando])return a;var b,d,e=a,f=c.event.fixHooks[a.type]||{},h=f.props?this.props.concat(f.props):this.props;a=c.Event(e);for(b=h.length;b;){d=h[--b];a[d]=e[d]}if(!a.target)a.target=e.srcElement||L;if(a.target.nodeType===3)a.target=a.target.parentNode;if(a.metaKey===j)a.metaKey=a.ctrlKey;return f.filter? +f.filter(a,e):a},special:{ready:{setup:c.bindReady},load:{noBubble:true},focus:{delegateType:"focusin"},blur:{delegateType:"focusout"},beforeunload:{setup:function(a,b,d){if(c.isWindow(this))this.onbeforeunload=d},teardown:function(a,b){if(this.onbeforeunload===b)this.onbeforeunload=null}}},simulate:function(a,b,d,e){a=c.extend(new c.Event,d,{type:a,isSimulated:true,originalEvent:{}});e?c.event.trigger(a,null,b):c.event.dispatch.call(b,a);a.isDefaultPrevented()&&d.preventDefault()}};c.event.handle= +c.event.dispatch;c.removeEvent=L.removeEventListener?function(a,b,d){a.removeEventListener&&a.removeEventListener(b,d,false)}:function(a,b,d){a.detachEvent&&a.detachEvent("on"+b,d)};c.Event=function(a,b){if(!(this instanceof c.Event))return new c.Event(a,b);if(a&&a.type){this.originalEvent=a;this.type=a.type;this.isDefaultPrevented=a.defaultPrevented||a.returnValue===false||a.getPreventDefault&&a.getPreventDefault()?x:r}else this.type=a;b&&c.extend(this,b);this.timeStamp=a&&a.timeStamp||c.now();this[c.expando]= +true};c.Event.prototype={preventDefault:function(){this.isDefaultPrevented=x;var a=this.originalEvent;if(a)if(a.preventDefault)a.preventDefault();else a.returnValue=false},stopPropagation:function(){this.isPropagationStopped=x;var 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g=jQuery(this),j=g.windowFrame(), +q=g.elementFrame();g=j.topleft.y;var v=j.topleft.x,p=j.bottomright.x,s=j.bottomright.y,r=q.topleft.y,x=q.bottomleft.y,C=q.topleft.x,G=q.topright.x,I=q.outerWidth;q=q.outerHeight;var N=rPixel=tPixel=bPixel=0,O=rPercent=tPercent=bPercent=0,Q=false;v=C-v;if(v<0){Q=true;N=v*-1;O=(I+v)/I*100}v=p-G;if(v<0){Q=true;rPixel=v*-1;rPercent=100-(I+v)/I*100}v=r-g;if(v<0){Q=true;tPixel=v*-1;tPercent=(q+v)/q*100}v=s-x+(!jQuery.browser.msie&&j.scrollWidth>j.width+16?-16:0);if(v<0){Q=true;bPixel=v*-1;bPercent=100- +(q+v)/q*100}return{isHidden:Q,left:O,right:rPercent,top:tPercent,bottom:bPercent,pixels:{left:N,right:rPixel,top:tPixel,bottom:bPixel}}},moveFrameIntoView:function(){var g=jQuery(this),j=g.elementFramePercentHidden();if(j.isHidden){var 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bottom,color-stop(0%,#a6b8c6),color-stop(100%,#99abb9));}.ui-ncbibutton-gray.ui-state-hover,.ui-ncbibutton-gray:hover{color:#222;background:#b3b4b4;background:-moz-linear-gradient(top,#bcbcbc 0,#b3b4b4 100%);background:-webkit-gradient(linear,left top,left bottom,color-stop(0%,#bcbcbc),color-stop(100%,#b3b4b4));}.ui-ncbibutton-blue.ui-state-hover,.ui-ncbibutton-blue:hover{background:#11417b;background:-moz-linear-gradient(top,#255a94 0,#11417b 100%);background:-webkit-gradient(linear,left top,left bottom,color-stop(0%,#255a94),color-stop(100%,#11417b));}.ui-ncbibutton-copper.ui-state-hover,.ui-ncbibutton-copper:hover{background:#6b2f10;background:-moz-linear-gradient(top,#834220 0,#6b2f10 100%);background:-webkit-gradient(linear,left top,left bottom,color-stop(0%,#834220),color-stop(100%,#6b2f10));} \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Blast output page example_files/jquery.js Tue May 06 17:05:58 2014 +0200 @@ -0,0 +1,11 @@ +jQuery.widget("ui.ncbimenu",{options:{isSubMenuLimited:false,delayTimeout:500,useHoverEvents:true},_create:function(){this._addClasses();this._addAria();this._createMenus();this._addListeners();this._addEvents();this._addAjaxEvents()},rescan:function(){this._destroyListeners();this._destroyEvents();this._addAria();this._createMenus();this._addListeners();this._addEvents()},destroy:function(){this._destroyEvents();this._destroyClasses();this._destroyAria();this._destroyListeners();this._destroyMenus()}, +_addClasses:function(){this.element.addClass("ui-ncbimenu")},_destroyClasses:function(){this.element.removeClass("ui-ncbimenu")},_addAria:function(){this.element.attr("role","menubar").find("li").filter(":has(ul)").find("a").attr("aria-haspopup","true").end().find("ul").attr("aria-hidden","true")},_destroyAria:function(){this.element.removeAttr("role").find("li").removeAttr("role").filter(":has(ul)").find("a").removeAttr("aria-haspopup").removeAttr("role").end().find("ul").removeAttr("aria-hidden").removeAttr("role")}, +_createMenus:function(){this.element.ncbibasicmenu({orientation:"horizontal"});var a=this.element.find(">li:has(>ul)");a.find(">a").addClass("expandDown");a.find(">ul").ncbibasicmenu({nested:true});if(!this.options.isSubMenuLimited){a.find(">ul ul").ncbibasicmenu({nested:true});a.find(">ul ul").parent().find(">a").addClass("expandRight")}},_destroyMenus:function(){this.element.removeClass("jig-ncbimenu cf ui-ncbibasicmenu orientation_hort").find("ul").andSelf().show().ncbibasicmenu("destroy")},_addEvents:function(){var a= +this;this._windowClickFnc=function(b){b=b.target||b.srcElement;a.element[0]===b||a.element.find(b).length===1||a.closeSub(a.element.find("ul"))};jQuery(window).on("click",this._windowClickFnc);this._unselectEverythingFnc=function(){a._unselectEverything()};this.element.find("li").not(":has(ul)").find("a").on("click",this._unselectEverythingFnc);this._blurFnc=function(){a._checkFocus()};this.element.on("blur","a",this._blurFnc);if(this.options.useHoverEvents){var d={timeout:this.options.delayTimeout, +over:function(){if(a._isActive){var b=jQuery(this),c=b.parent();if(c.has("ul").length===0){c=c.siblings("li.selected").removeClass("selected");a.closeSub(c);b.focus()}else c.hasClass("selected")||b.focus().click()}},out:function(){}};this.element.find(">li:not(:has(ul))>a,li:has(ul)>a").hoverIntent(d)}},_destroyEvents:function(){jQuery(window).off("click",this._windowClickFnc);this._windowClickFnc=null;this.element.off("blur","a",this._blurFnc);this._blurFnc=null;this.element.find(">li:not(:has(ul))>a,li:has(ul)>a").unbind("mouseover mouseoff"); +this.element.find("li").not(":has(ul)").find("a").off("click",this._unselectEverythingFnc)},_addAjaxEvents:function(){if(this.element.find(">li:has(a.expandDown)").not(":has(ul)").length>0){var a=this;this._ajaxEnterFnc=function(){a._loadAjaxContent()};this.element.on("mouseenter",this._ajaxEnterFnc)}},_loadAjaxContent:function(){var a=this;this.element.off("mouseenter",this._ajaxEnterFnc);this._ajaxEnterFnc=null;var d=this.element.find("a.expandDown"),b=d.eq(0).prop("href").split("#");jQuery("<div/>").load(b[0], +function(){a._handleAjaxLoadCallback(this,d)})},_handleAjaxLoadCallback:function(a,d){var b=jQuery(a);d.each(function(){var c=jQuery(this),e=c.prop("href").split("#")[1];e=b.find("#"+e);if(e[0].tagName.toLowerCase()==="li")e=e.find(">ul");c.parent().append(e)});this._createMenus();this._addEvents()},_checkFocus:function(){function a(){d.element.find("a:focus").length===0&&d._unselectEverything()}var d=this;window.setTimeout(a,10)},_addListeners:function(){var a=this;this.element.find(">ul").andSelf().on("ncbibasicmenuunselected", +function(d,b,c,e){e==="click"&&a.closeSub(c)}).on("ncbibasicmenuselected",function(d,b,c,e){if(e==="click")a.openSub(c);else{d=c.siblings().find("ul:visible");if(d.length>0){d.each(function(){a.closeSub(jQuery(this))});c.parent("ul").hasClass("ui-ncbimenu")&&a.openSub(c)}}}).on("ncbibasicmenuactiondown ncbibasicmenuactionright",function(d,b){b=jQuery(b);var c=b.find(">ul");if(b.hasClass("selected"))c.length===1&&c.not(":visible")&&a.openSub(b);else b.find(">a").click();c.length===1&&window.setTimeout(function(){c.ncbibasicmenu("selectFirstItem")}, +10)}).on("ncbibasicmenuactionup ncbibasicmenuactionleft ncbibasicmenuescape",function(d,b){b=jQuery(b);d=b.find(">ul");if(d.length>0&&d.is(":visible"))a.closeSub(jQuery(b));else{b=b.parent("ul").parent("li");b.find(">a").focus();a.closeSub(b)}})},_destroyListeners:function(){this.element.find("ul").andSelf().off("ncbibasicmenuunselected").off("ncbibasicmenuselected")},openSub:function(a){var d=a.find(">ul");if(d.length===1){this._isActive=true;var b=a.parent().find("li:has(ul:visible)");b.length> +0&&this.closeSub(b);if(a.parent().hasClass("orientation_hort")){b="left bottom";var c="fit flip"}else{b="right center";c="flip fit"}d.show().position({of:a,my:"left top",at:b,collision:c}).attr("aria-hidden","false")}},closeSub:function(a){(a.is("li")?a.find("ul"):a).find("ul").andSelf().not(".ui-ncbimenu").hide().attr("aria-hidden","true").end().ncbibasicmenu("removeAllSelections").find("li.selected").removeClass("selected")},_unselectEverything:function(){this.closeSub(this.element.find("ul:visible").andSelf()); +this._isActive=false}});
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Blast output page example_files/jquery_002.css Tue May 06 17:05:58 2014 +0200 @@ -0,0 +1,1 @@ +.ui-ncbigrid-outer-div{min-width:300px;}table.ui-ncbigrid td{padding:.363em .637em;}table.ui-ncbigrid th{padding:.308em .539em;text-align:left;border-left:0;border-top:0;font-weight:normal;}table.ui-ncbigrid thead th{border-bottom:1px solid #d4dfe9;border-right:1px solid #cfcfcf;background:#F0F0F0;background:-moz-linear-gradient(top,#FFF 0,#F0F0F0 100%);background:-webkit-gradient(linear,left top,left bottom,color-stop(0%,#FFF),color-stop(100%,#F0F0F0));}table.ui-ncbigrid tbody th{line-height:1.333em;color:#333;font-size:.923em;border-bottom:1px solid #d4dfe9;border-right:1px solid #cfcfcf;background:#FAFAFA;background:-moz-linear-gradient(top,#FFF 0,#FAFAFA 100%);background:-webkit-gradient(linear,left top,left bottom,color-stop(0%,#FFF),color-stop(100%,#FAFAFA));}table.ui-ncbigrid th:last-child{border-right:0;*margin-right:-1px;}table.ui-ncbigrid td{border:0;}table.ui-ncbigrid td input[type="checkbox"]{margin:0;}table.ui-ncbigrid thead,table.ui-ncbigrid tbody,table.ui-ncbigrid colgroup,table.ui-ncbigrid col,table.ui-ncbigrid tr{border:0!important;}table.ui-ncbigrid,table.ui-ncbigrid thead,table.ui-ncbigrid caption{margin:0;}.ui-ncbigrid-outer-div{position:relative;zoom:1;margin:1em 0 2.8em 0;}div.caption-exists,div.filterToolbar-exists{margin:3em 0;}table.ui-ncbigrid{border-width:0;}.ui-ncbigrid-inner-div{border-color:#97b0c8;border-style:solid;}.ui-ncbigrid-inner-div{border-width:0 0 1px 0;clear:both;}.ui-ncbigrid-outer-div{border:1px solid #97b0c8;}.ui-ncbigrid-outer-div:after{clear:both;content:'.';display:block;height:0;visibility:hidden;font-size:0;}.ui-ncbigrid-header-wrapper{height:auto;max-width:100%;}.ui-ncbigrid-header-wrapper table.ui-ncbigrid{border:0;height:auto;}.ui-ncbigrid-header-wrapper thead{border-width:1px 0 0 0;}table.ui-ncbigrid caption{color:#4D4D4D;font-size:.923em;font-weight:bold;padding:0;position:absolute;text-align:left;top:-2.077em;zoom:1;}.ui-ncbigrid-filter-toolbar{clear:both;display:block;font-size:.923em;line-height:27px;position:absolute;right:0;text-align:right;top:-2.417em;width:auto;}.ui-ncbigrid-filter-toolbar input[type="text"]{font-size:inherit!important;height:1.091em;padding:0;margin-right:-1px;}.ui-ncbigrid-paged-toolbar{display:block;clear:both;width:100%;}.ui-ncbigrid-paged-countItems,.ui-ncbigrid-checkbox-toolbar{font-size:.923em;}.ui-ncbigrid-paged-toolbar div{float:left;display:inline-block;width:auto;margin-right:1em;}.ui-ncbigrid-paged-toolbar .ui-ncbigrid-paged-pageControl{margin-right:0;}.ui-ncbigrid-paged-countItems{text-align:center;}.ui-ncbigrid-paged-pageControl{text-align:right;font-size:.923em;}.ui-ncbigrid-paged-pageControl .prev{margin-left:.2em;margin-right:.6em;}.ui-ncbigrid-paged-pageControl .next{margin-left:.6em;margin-right:.2em;}.ui-ncbigrid-paged-toolbar-bottom{border-top:0;}.ui-ncbigrid-select-question{clear:both;text-align:center;display:none;padding:.385em 0 .308em;border-style:solid;border-color:#d4dfe9;border-width:1px 0;background:-moz-linear-gradient(top,#FFF 0,#F5F5F5 100%);background:-webkit-gradient(linear,left top,left bottom,color-stop(0%,#FFF),color-stop(100%,#F5F5F5));font-size:.923em;}.ui-ncbigrid-select-question-footer{background:#fff;border-bottom:0;}.ui-ncbigrid-select-question .ui-ncbigrid-select-row-count{font-weight:bold;}.ui-ncbigrid-select-question a{margin-left:.583em;}.ui-ncbigrid-checkbox-toolbar label{margin-left:1em;}.ui-ncbigrid-checkbox-toolbar label:first-child{margin-left:0;}.ui-ncbigrid-checkbox-toolbar a,.ui-ncbigrid-checkbox-toolbar a:visited{color:#369;}.ui-ncbigrid-checkbox-toolbar,.ui-ncbigrid-paged-toolbar{width:auto;}.ui-ncbigrid-checkbox-toolbar{float:left;clear:left;padding:.416em .416em .416em .583em;line-height:1.75em;}.ui-ncbigrid-paged-toolbar{float:right;clear:right;padding:.385em .385em .385em .539em;line-height:1.615em;}table.ui-ncbigrid{border-collapse:separate;width:100%;}div.ui-ncbigrid-scroll{height:20em;overflow-y:auto;overflow-x:hidden;}div.ui-ncbigrid-scroll table.ui-ncbigrid{border-top:0;border-bottom:0;width:100%;}div.ui-ncbigrid-scroll table.ui-ncbigrid caption,div.ui-ncbigrid-scroll>table.ui-ncbigrid>thead>tr>th{visibility:hidden;line-height:0;border-bottom:0;border-top:0;padding-top:0;padding-bottom:0;}div.ui-ncbigrid-scroll table.ui-ncbigrid tbody tr:first-child td{border-top:0;}div.ui-ncbigrid-header-wrapper{width:100%;overflow:hidden;}div.ui-ncbigrid-hort-scroll{overflow-x:auto;}tr.ui-ncbigrid-rowHidden{display:none;}table.ui-ncbigrid th.sortAsc a,table.ui-ncbigrid th.sortDsc a,table.ui-ncbigrid th.sortNone a{padding-right:21px;background-repeat:no-repeat;background-position:right center;color:#333;}table.ui-ncbigrid th.sortAsc,table.ui-ncbigrid th.sortDsc{background:#fff;}table.ui-ncbigrid th.sortAsc a{background-image:url('../img/sorted_asc.gif');}table.ui-ncbigrid th.sortDsc a{background-image:url('../img/sorted_dsc.gif');}table.ui-ncbigrid th.sortNone a{background-image:none;color:#14376c;}table.ui-ncbigrid th.sortNone a:hover{background-image:url('../img/sorted_non.gif');color:#985735;}table.ui-ncbigrid th a{display:block;text-decoration:none;_width:100%;padding-right:21px;border:0;}table.ui-ncbigrid th a:hover,table.ui-ncbigrid th a,table.ui-ncbigrid th a:active{border:0!important;}table.ui-ncbigrid th,table.ui-ncbigrid th a{color:#14376c;}table.ui-ncbigrid tbody tr.ui-ncbigrid-checkbox-selected td,table.ui-ncbigrid tr.ui-ncbigrid-row-selected td{background-color:#eaf0f4;}table.ui-ncbigrid tbody tr.ui-ncbigrid-checkbox-hover td,table.ui-ncbigrid tr.ui-ncbigrid-row-hover>td{background-color:#D5DEE3;}table.ui-ncbigrid tr.ncbigrid-row-filtered{display:none;}td.ui-ncbigrid-column-hidden,th.ui-ncbigrid-column-hidden{display:none;}table.ui-ncbigrid tbody tr.ui-ncbigrid-high>td{background-color:#eaf0f4;}.ui-ncbigrid-paged-pageControl{margin-top:0;}.ui-ncbigrid-paged-pageControl input[type="text"]{height:1.091em;font-size:inherit!important;padding:0;}.ui-ncbigrid-paged-pageControl span.page_link{color:#ccc;padding:1px 7px;}.ui-ncbigrid-paged-pageControl a.page_link{border:1px solid #ddd;padding:2px 6px;*padding:0 4px;white-space:nowrap;text-decoration:none;}.ui-ncbigrid-paged-pageControl a.page_link:hover{color:#985735;}.ui-ncbigrid tbody tr.collapsed{display:none;}.ui-ncbigrid tbody tr th span.collapsableTbodyIcon{float:left;margin-right:.833em;}.ui-ncbigrid tbody tr th span.ui-icon-plus-minus-big{background-position:left -30px;}.ui-ncbigrid tbody tr th span.ui-icon-plus-minus-big-open{background-position:left 0;}.ui-ncbigrid tbody tr th span.ui-icon-plus-minus-big,.ui-ncbigrid tbody tr th span.ui-icon-plus-minus-big-open{background-color:transparent;background-image:url("../img/ncbitoggler-plus-minus-big.gif");background-repeat:no-repeat;margin-left:-0.1em;top:.2em;}.ui-ncbigrid-collapsable,.ui-ncbigrid-collapsable span{cursor:pointer;}table.ui-ncbigrid .ignoreCollapse{cursor:default;}.ui-ncbigrid-outer-div .ui-ncbigrid-outer-div{margin:0;*position:static;} \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Blast output page example_files/jquery_002.js Tue May 06 17:05:58 2014 +0200 @@ -0,0 +1,22 @@ +(function(e){e.widget("ui.ncbitoggler",{styles:{ariaWrapper:"ui-ncbitoggler-live",groupMasterReplaceNode:"span.ui-ncbitoggler-group-replace-txt",groupMasterStateClose:"ui-ncbitoggler-group-master-to-close",groupMasterStateOpen:"ui-ncbitoggler-group-master-to-open",master:"ui-ncbitoggler",masterOpen:"ui-ncbitoggler-open",target:"ui-ncbitoggler-slave",targetOpen:"ui-ncbitoggler-slave-open",icon:"ui-icon-triangle-1-e",iconOpen:"ui-icon-triangle-1-s",iconPlusMinusBig:"ui-icon-plus-minus-big",iconPlusMinusBigOpen:"ui-icon-plus-minus-big-open", +iconArrowStop:"ui-icon-arrowthickstop-1-s",iconArrowStopOpen:"ui-icon-arrowthickstop-1-n"},options:{animation:"slide",closedAppendText:"",cookieNamePrefix:"jig-tog-rem-",indicator:"small-arrow",initOpen:false,isIcon:true,liveRegions:true,openedAppendText:"",remember:false,speed:50,targets:""},_cachedTargetData:{},_create:function(){this._setOption("disabled",false);this.appendTextNode=this.initTargetsClass=this.iconSpan=this.startOpen=this.rememberCookie=this.remember=this.cookieName=this.addedHref= +null;var a=this.element,b=a[0],c=this.styles,d=this,f=this.options.isIcon;a.data("isOpen",false);a.addClass("ui-widget ui-ncbitoggler");f||a.addClass("ui-ncbitoggler-no-icon");var g=a.attr("href");!g?(this.addedHref=true):(this.addedHref=false);this._validate(g);a.children("span.ui-ncbitoggler-master-text").length===0&&a.contents().filter(function(){return this.nodeType===3}).each(function(){var h=e(this);jQuery.trim(this.nodeValue).length>0&&h.wrap('<span class="ui-ncbitoggler-master-text"></span>')}); +if(this.options.openedAppendText!==""||this.options.closedAppendText!==""){this.appendTextNode=a.children("span.ui-ncbitoggler-appended-text");if(this.appendTextNode.length===0)if(!this.initOpen){this.appendTextNode=e('<span class="ui-ncbitoggler-appended-text">'+this.options.closedAppendText+"</span>");a.find(".ui-ncbitoggler-master-text").after(this.appendTextNode)}}if(this.remember=this.options.remember||false){g=this.element.attr("id");if(!g){window.console&&console.error&&console.error("ncbitoggler: master node "+ +b+" must have a unique id attribute when remembering state");return}this.cookieName=this.options.cookieNamePrefix+g;this.rememberCookie=e.cookie(this.cookieName)}if(this.startOpen=this.rememberCookie?this.rememberCookie==="open"?true:false:a.hasClass("jig-ncbitoggler-open")||a.hasClass(c.masterOpen)||this.options.initOpen?true:false){this.element.data("isOpen",true);a.removeClass(this.styles.master);a.addClass(c.masterOpen);this._targetsOpen=true}else{this.element.data("isOpen",false);a.removeClass(this.styles.masterOpen); +a.addClass(c.master)}f&&this._initMasterIcon();this.targets=this._getTargets();this.targets.addClass("ui-ncbitoggler").removeClass("ui-ncbitoggler-disabled ui-state-disabled");if(this.startOpen){this.targets.removeClass(c.target);this.targets.addClass(c.targetOpen);this.initTargetsClass=c.targetOpen}else{this.targets.removeClass(c.targetOpen);this.targets.addClass(c.target);this.initTargetsClass=c.target}this._initAria();this._doGrouping();a.click(function(h){d.toggle(h,d)});this._saveReferences()}, +_getGroupMaster:function(){for(var a=this.styles,b=this.element[0].className.split(/\s+/),c=0;c<b.length;c++){var d=b[c].match(/ui-ncbitoggler-group-(.+)$/);if(d){d=d[1];var f=e("a.ui-ncbitoggler-group-open-"+d+", a.ui-ncbitoggler-group-close-"+d,this.options.contextNode);if(f.length===1){f.hasClass("ui-ncbitoggler-group-open-"+d)&&f.addClass(a.groupMasterStateOpen);f.hasClass("ui-ncbitoggler-group-close-"+d)&&f.addClass(a.groupMasterStateClose);return f}}}},_doGrouping:function(){var a=this._getGroupMaster(); +if(a){var b=this,c=this.styles,d=a.data("togglers");this.element.id||e.ui.jig._generateId(this.widgetName);if(!this.element[0].id)this.element[0].id=e.ui.jig._generateId(this.widgetName);if(typeof d==="undefined"){a.data("togglers",[]);a.data("togglers").push(this.element)}else d.push(this.element);var f=a.find(c.groupMasterReplaceNode);a.click(function(g){g.preventDefault();g=a.data("togglers");g=g[g.length-1][0];if(a.hasClass(c.groupMasterStateOpen)){b.open();f.length>0&&f.text(b.options.groupMasterCloseReplaceText); +b.element[0]===g&&a.removeClass(c.groupMasterStateOpen).addClass(c.groupMasterStateClose)}else{b.close();f.length>0&&f.text(b.options.groupMasterOpenReplaceText);b.element[0]===g&&a.removeClass(c.groupMasterStateClose).addClass(c.groupMasterStateOpen)}})}},_initAria:function(){var a=this.startOpen;this.element.attr({role:"button","aria-expanded":a});this.options.liveRegions&&this.targets.each(function(){var b=e(this);b.find("table").length===0&&!b.parent("div").hasClass("ui-helper-reset")&&b.wrap('<div class="ui-helper-reset" aria-live="assertive">'); +b.attr("aria-hidden",a?"false":"true")})},_validate:function(a){var b=this.element,c=["a"],d=b[0].tagName.toLowerCase();if(e.inArray(d,c)===-1)throw new Error("ncbitoggler: master node must be one of the following elements: "+c.toString());a||b.attr("href","#")},_initMasterIcon:function(){var a=this.element,b=this.styles;if(this.options.indicator=="plus-minus-big"){this.iconOpenClass=b.iconPlusMinusBigOpen;this.iconCloseClass=b.iconPlusMinusBig}else if(this.options.indicator=="arrow-stop"){this.iconOpenClass= +b.iconArrowStopOpen;this.iconCloseClass=b.iconArrowStop}else{this.iconOpenClass=b.iconOpen;this.iconCloseClass=b.icon}this.iconSpan=a.find("span.ui-icon");if(this.iconSpan.length===0){this.iconSpan=e('<span class="ui-icon"></span>');this.startOpen?this.iconSpan.addClass(this.iconOpenClass):this.iconSpan.addClass(this.iconCloseClass);a.append(this.iconSpan)}else if(this.startOpen){this.iconSpan.removeClass(this.iconCloseClass);this.iconSpan.addClass(this.iconOpenClass)}},getSlaves:function(){return this._targets}, +getTargets:function(){return this.getSlaves()},_getTargets:function(){var a=this.element,b=a.attr("toggles")||a.attr("data-ncbitoggler-toggles");if(b)jQuery.ui.jig._isConsole("warn")&&console.warn('The attributes "toggles" and "data-ncbitoggler-toggles" are deprecated. Please use the "targets" attribute instead (see documentation).');else b=this.options.targets;if(b&&typeof b=="object"){b=b;a="";for(var c in b)a+=c+", ";a=a.replace(/,\s$/,"");c=e(a)}else if(b){c=e(b);if(c.length===0){this.isSibling= +false;c=b.split(/ +/);b="";for(a=0;a<c.length;a++)b+=a!==c.length-1?"#"+c[a]+",":"#"+c[a];c=e(b)}}else if(a.parent(":header").length>0){a.parent(":header").parent().css("zoom","1");this.isSibling=true;c=a.parent(":header").css("zoom","1").next()}else{this.isSibling=true;c=a.next()}return this._targets=this._normalizeTargets(c)},_normalizeTargets:function(a){var b=[];a.each(function(){var c=this,d=e(this);if(d.hasClass("ui-helper-reset"))c=d.children().get(0);b.push(c)});return ret=e(b)},_getCachedTargetData:function(a){return this._cachedTargetData[a]}, +_cacheTargetData:function(a,b){this._cachedTargetData[a]=b},_openAjaxTarget:function(a,b){var c=this,d=this._getCachedTargetData(a);d?e(a).html(d):e.get(b,function(f){c._cacheTargetData(a,f);e(a).html(f)})},_openTargets:function(){if(!(this._targetsOpening||this._targetsClosing||this._targetOpen)){this._targetsOpening=true;var a=this.targets,b=this.styles;a.removeClass(b.target).addClass(b.targetOpen).attr("aria-hidden","false");var c=this.options.targets;if(typeof c=="object"){var d=this;for(targetSel in c)(function(f){d._openAjaxTarget(f, +c[f])})(targetSel)}b=this.options.openedAppendText;b!==""&&this.appendTextNode.html(b);a.css("display","");this._targetsOpening=false;this._targetsOpen=true}},_closeTargets:function(){if(!(this._targetsOpening||this._targetsClosing||!this._targetsOpen)){this._targetsClosing=true;var a=this.targets,b=this.styles;a.removeClass(b.targetOpen).addClass(b.target).attr("aria-hidden","true");b=this.options.closedAppendText;b!==""&&this.appendTextNode.html(b);a.css("display","");this._targetsOpen=this._targetsClosing= +false}},_fixHasLayout:function(a){window.setTimeout(function(){a.targets.addClass("foo").removeClass("foo")},1)},open:function(a){var b=this.element,c=this;if(!b.hasClass(this.styles.master))return b;this.updateState("open");if(this.options.animation==="slide")this.targets.slideToggle(this.options.speed,function(){c._openTargets();e.browser.msie&&c._fixHasLayout(c);b.data("isOpen",true);b.trigger("ncbitoggleropen");a&&a()});else{this._openTargets();e.browser.msie&&c._fixHasLayout(c);b.data("isOpen", +true);b.trigger("ncbitoggleropen");a&&a()}this._updateReferences("open");return b},close:function(a){var b=this.element,c=this;if(!b.hasClass(this.styles.masterOpen))return b;this.updateState("closed");if(this.options.animation==="slide")this.targets.slideToggle(this.options.speed,function(){c._closeTargets();b.trigger("ncbitogglerclosed").trigger("ncbitogglerclose");b.data("isOpen",false);a&&a()});else{this._closeTargets();b.data("isOpen",false);b.trigger("ncbitogglerclosed");a&&a()}this._updateReferences("closed"); +return b},toggle:function(a,b,c){var d=arguments.length;if(d===0||d===1){b=this;if(d===1)c=arguments[0]}else a.preventDefault();this.element.hasClass(this.styles.master)?b.open(c):b.close(c)},updateState:function(a){var b=this.element;a||(a=b.hasClass(styles.master)?"open":"closed");var c=this.styles.master,d=this.styles.masterOpen,f=this.iconCloseClass,g=this.iconOpenClass;if(a=="closed"){c=this.styles.masterOpen;d=this.styles.master;f=this.iconOpenClass;g=this.iconCloseClass}b.removeClass(c).addClass(d).attr("aria-expanded", +a=="closed"?"false":"true");this.options.isIcon&&this.iconSpan.removeClass(f).addClass(g);this.remember&&e.cookie(this.cookieName,a)},_removeHandlers:function(){this.element.unbind("click")},destroy:function(){e.Widget.prototype.destroy.apply(this,arguments);var a=this.element,b=this.styles;a.removeClass(b.master+" "+b.masterOpen+" ui-state-disabled ui-widget ui-ncbitoggler-disabled").removeAttr("role").removeAttr("aria-expanded");this.targets.removeClass("ui-ncbitoggler ui-ncbitoggler-slave ui-ncbitoggler-slave-open ui-state-disabled ui-ncbitoggler-disabled"); +this.targets.removeAttr("aria-hidden");if(this.options.isIcon){b=a.find("span.ui-icon")[0];a[0].removeChild(b)}this.targets.each(function(){var d=jQuery(this),f=d.parent("div.ui-helper-reset");if(f.length>0){d.insertBefore(f);f.remove()}});b=a.find("span.ui-ncbitoggler-master-text");var c=b.html();b.remove();a.html(c);this._removeHandlers();return this},disable:function(){e.Widget.prototype.disable.apply(this,arguments);this._removeHandlers();this.targets.addClass("ui-ncbitoggler-disabled ui-state-disabled"); +return this},enable:function(){e.Widget.prototype.enable.apply(this,arguments);this.targets.removeClass("ui-ncbitoggler-disabled ui-state-disabled");var a=this;this.element.click(function(b){a.toggle(b,a)});return this},_saveReferences:function(){var a=this;this._targets.each(function(){typeof e(this).data("ncbitoggler-masters")==="undefined"&&e(this).data("ncbitoggler-masters",[]);e(this).data("ncbitoggler-masters").push(a.element)})},_updateReferences:function(a){var b=this;e.each(this._targets.data("ncbitoggler-masters"), +function(){b.element!=this&&e(this).ncbitoggler("updateState",a)})}})})(jQuery);
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Blast output page example_files/jquery_003.css Tue May 06 17:05:58 2014 +0200 @@ -0,0 +1,1 @@ +.ui-ncbibasicmenu{list-style-type:none;min-width:200px;}.ui-ncbibasicmenu,.ui-ncbibasicmenu>li{padding:0;margin:0;}.ui-ncbibasicmenu li ul li{background-color:#FFF;}.ui-ncbibasicmenu li ul li a:hover,.ui-ncbibasicmenu li ul li.selected a:hover{background-color:#4C96DF;color:#FFF;}.oneLevel li a,.ui-ncbibasicmenu li a{display:block;text-decoration:none;background-color:#FCFCFC;border:1px solid #FCFCFC;border-width:1px 0;color:#14376C;font-size:13px;font-weight:normal;margin:0;padding:.2em .9em;text-decoration:none;}.oneLevel li a:hover,.ui-ncbibasicmenu>li>a:hover{background-color:#E3F8FF;}.oneLevel li.ui-ncbimenu-item-no-hlt a:hover,.ui-ncbibasicmenu>li.ui-ncbimenu-item-no-hlt>a:hover,.oneLevel li.ui-ncbimenu-item-skip a:hover,.ui-ncbibasicmenu>li.ui-ncbimenu-item-skip>a:hover{background-color:#FCFCFC;}.oneLevel li a:focus,.ui-ncbibasicmenu>li>a:focus{outline:1px dashed #000;}.oneLevel li.selected a,.ui-ncbibasicmenu>li.selected>a{color:#FFF;background-color:#4C96DF;}.oneLevel li.selected a:hover,.ui-ncbibasicmenu>li.selected>a:hover{color:#FFF;}.oneLevel li.selected.ui-ncbimenu-item-no-hlt a:hover,.ui-ncbibasicmenu>li.selected.ui-ncbimenu-item-no-hlt>a:hover,.oneLevel li.selected.ui-ncbimenu-item-skip a:hover,.ui-ncbibasicmenu>li.selected.ui-ncbimenu-item-skip>a:hover{color:inherit;background-color:#FCFCFC;}.orientation_hort>li{display:inline;float:left;} \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Blast output page example_files/jquery_003.js Tue May 06 17:05:58 2014 +0200 @@ -0,0 +1,1 @@ +(function(){jQuery.widget("ui.ncbilocalnav",jQuery.ui.ncbimenu,{_create:function(){this.options.isSubMenuLimited=true;jQuery.ui.ncbimenu.prototype._create.apply(this,arguments)},_addClasses:function(){this.element.addClass("ui-ncbilocalnav");jQuery.ui.ncbimenu.prototype._addClasses.apply(this,arguments)},_destroyClasses:function(){this.element.removeClass("ui-ncbilocalnav");jQuery.ui.ncbimenu.prototype._destroyClasses.apply(this,arguments)}})})();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Blast output page example_files/jquery_004.css Tue May 06 17:05:58 2014 +0200 @@ -0,0 +1,1 @@ +div.ui-ncbiautocomplete-holder{position:absolute;top:0;left:0;border:1px solid #5a5a5a;display:none;font-family:Arial,helvetica,sans-serif;font-size:inherit;border-style:solid;border-color:#777;border-width:1px;}ul.ui-ncbiautocomplete-options{height:218px;overflow:auto;overflow-x:hidden;overflow-y:auto;width:100%;margin:0;padding:0;list-style-type:none;font-weight:normal;cursor:pointer;background-color:#FFF;}ul.ui-ncbiautocomplete-options li span{font-weight:normal;}ul.ui-ncbiautocomplete-options li{padding:.2em;padding-left:.8em;padding:.231em .461em;white-space:nowrap;overflow:hidden;width:100%;color:#14376c;text-overflow:ellipsis;}ul.ui-ncbiautocomplete-options li:last-child{padding-bottom:.6em;}ul.ui-ncbiautocomplete-options li.ui-ncbiautocomplete-options-high{background-color:#DAEEF4;text-decoration:none;color:#015;}.ui-ncbiautocomplete-actions{background-color:#CECECE;line-height:inherit;padding:5px;border:1px solid #777;*zoom:1;*display:block;margin:1px -1px 0 -1px;min-height:15px;}.ui-ncbiautocomplete-actions:after{content:".";display:block;height:0;clear:both;visibility:hidden;}.ui-ncbiautocomplete-actions{display:inline-block;}.ui-ncbiautocomplete-actions a{display:inline;float:left;color:#015;text-decoration:none;}.ui-ncbiautocomplete-actions .ui-ncbiautocomplete-link-pref-right{text-align:right;float:right;}.ui-ncbiautocomplete-link-pref{text-indent:-9999px;background:url("../img/gear.png") no-repeat;width:15px;height:16px;}a.ui-ncbiautocomplete-link-off:hover,a.ui-ncbiautocomplete-link-pref:hover{text-decoration:underline;color:#015;}li.ui-ncbiautocomplete-show-more{width:100%!important;background:#C3D2DB!important;border-top:1px solid #5A5A5A;}li.ui-ncbiautocomplete-show-more.ui-ncbiautocomplete-options-high{text-decoration:underline!important;}iframe.ui-ncbiautocomplete-iframe{position:absolute;top:0;left:0;height:200px;z-index:1000;display:none;filter:alpha(opacity=1);}.shadow{-webkit-box-shadow:.4em .4em .5em rgba(153,153,153,.9);-moz-box-shadow:.4em .4em .5em rgba(153,153,153,.9);box-shadow:.4em .4em .5em rgba(153,153,153,.9);} \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Blast output page example_files/jquery_004.js Tue May 06 17:05:58 2014 +0200 @@ -0,0 +1,53 @@ +jQuery.widget("ui.ncbiautocomplete",{options:{webserviceUrl:"/portal/utils/autocomp.fcgi",isUrlRelative:false,dictionary:"",responseFormat:"old",disableUrl:null,prefUrl:null,zIndex:1001,isEnabled:true,hasRelatedMatches:false,minLength:2,expandPauseTime:400,maxListLimit:null,isCrossDomain:false,disableCache:false,requireValidation:false,queryParameter:"q"},_create:function(){if(this.options.localData&&!this.options.dictionary)this.options.dictionary="local";this._storeTitleAttribute();this._createOptionsBox(); +this._addAttributes();this._setHandlers();this._setWebServicePath();this._lastEnteredTerm="";this._setSGData()},_storeTitleAttribute:function(){this.element.data("ncbiautocompleteOriginalTitle",this.element.attr("title"))},destroy:function(){jQuery.Widget.prototype.destroy.apply(this,arguments);this.element.removeAttr("title");this._destroyAria();this._destroyHandlers();var a=this.element.data("ncbiautocompleteOriginalTitle");a&&this.element.attr("title",a)},_destroyOptionsBox:function(){jQuery.ui.ncbiautocomplete._globalOptionsList.optionsBox!= +null&&jQuery.ui.ncbiautocomplete._globalOptionsList.optionsBox.remove()},_destroyHandlers:function(){this.element.off("keypress keydown keyup cut paste")},_destroyAria:function(){this.element.removeAttr("aria-haspopup").removeAttr("aria-autocomplete").removeAttr("role").removeAttr("autocomplete")},_activeRequest:null,_keys:{up:38,down:40,enter:13,escape:27,tab:9,shift:16},_setSGData:function(){this.sgData={jsevent:"autocomplete",userTyped:"",hasScrolled:false,usedArrows:false,selectionAction:"",optionSelected:"", +optionIndex:-1,optionsCount:-1}},_addAttributes:function(){this.element.attr({title:"Use up and down arrows to choose an item from the autocomplete.","aria-haspopup":true,"aria-autocomplete":"list",role:"textbox"})},_setHandlers:function(){var a=this;jQuery(this.element).focus(function(){a._focused()}).keypress(function(c){a._keyPress(c,"press")}).keydown(function(c){a._keyPress(c,"down")}).keyup(function(c){a._keyUp(c)}).bind("cut paste",function(){a._changeFired()}).attr("AUTOCOMPLETE","OFF");var b= +jQuery(this.element)[0];b.autocomplete="off";b.AUTOCOMPLETE="OFF";jQuery(window).resize(function(){a._isActive&&a._positionOptionsBox()});jQuery(document).click(function(c){a._checkClickEvent(c)});jQuery(this._gol.optionsBox).hover(function(){if(a._isActive)a._isOptionsBoxFocused=true},function(){if(a._isActive)a._isOptionsBoxFocused=false})},_isOptionsBoxFocused:false,_createOptionsBox:function(){if(jQuery.ui.ncbiautocomplete._globalOptionsList===null){jQuery.ui.ncbiautocomplete._globalOptionsList= +{};var a=jQuery("div.grid");a=a.length===1?a:jQuery(document.body);jQuery.ui.ncbiautocomplete._globalOptionsList.optionsBox=jQuery("<div class='ui-ncbiautocomplete-holder shadow' aria-live='assertive'></div>").appendTo(a);jQuery.ui.ncbiautocomplete._globalOptionsList.optionsList=jQuery("<ul class='ui-ncbiautocomplete-options' role='listbox' aria-activedescendant=''></ul>").appendTo(jQuery(jQuery.ui.ncbiautocomplete._globalOptionsList.optionsBox));jQuery.ui.ncbiautocomplete._globalOptionsList.optionsActions= +jQuery("<div class='ui-ncbiautocomplete-actions shadow'></div>").appendTo(jQuery(jQuery.ui.ncbiautocomplete._globalOptionsList.optionsBox));jQuery.ui.ncbiautocomplete._globalOptionsList.prefLink=jQuery("<a href='#' class='ui-ncbiautocomplete-link-pref'>Preferences</a>").appendTo(jQuery(jQuery.ui.ncbiautocomplete._globalOptionsList.optionsActions));jQuery.ui.ncbiautocomplete._globalOptionsList.turnOffLink=jQuery("<a href='#' class='ui-ncbiautocomplete-link-off'>Turn off</a>").appendTo(jQuery(jQuery.ui.ncbiautocomplete._globalOptionsList.optionsActions)); +jQuery.ui.ncbiautocomplete._globalOptionsList.isIE6=jQuery.browser.msie&&parseInt(jQuery.browser.version,10)<7;if(jQuery.ui.ncbiautocomplete._globalOptionsList.isIE6)jQuery.ui.ncbiautocomplete._globalOptionsList.optionsBox.iframe=jQuery("<iframe src='javascript:\"\";' class='ui-ncbiautocomplete-iframe' marginwidth='0' marginheight='0' align='bottom' scrolling='no' frameborder='0'></iframe>").appendTo(document.body)}this._gol=jQuery.ui.ncbiautocomplete._globalOptionsList},_positionOptionsBox:function(){if(this._gol.activeElement){var a= +jQuery(this.element),b=jQuery(this._gol.activeElement);a=a.attr("id")||a[0];b=b.attr("id")||b[0];a!==b&&this._hideOptions()}var c=this;if(this._gol.activeElement!==this.element){b=this.options.prefUrl!==null?"block":"none";a=this.options.disableUrl!==null?"block":"none";var e=b==="block"||a==="block"?"block":"none";jQuery(this._gol.prefLink).css("display",b).attr("href",this.options.prefUrl).unbind("click").click(function(){c._prefLinkClick()});jQuery(this._gol.turnOffLink).css("display",a).unbind("click").click(function(m){c.turnOff(); +m.preventDefault()});jQuery(this._gol.optionsActions).css("display",e);jQuery(this._gol.optionsActions).children(":nth-child(2)").addClass("ui-ncbiautocomplete-link-pref-right")}else this._gol.activeElement=this.element;e=this.element;var d=jQuery(this._gol.optionsBox),f=false;if(e.parent().hasClass("jig-ncbiclearbutton-wrap")){e=e.parent();f=true;d.addClass("ui-ncbiautocomplete-holder-clearfix")}else d.removeClass("ui-ncbiautocomplete-holder-clearfix");b=e.outerWidth();a=e.outerHeight();e=e.offset(); +var i,k,h;if(jQuery.browser.msie)h=k=i=0;else{i=parseInt(d.css("borderLeftWidth"),10);k=parseInt(d.css("borderRightWidth"),10);h=f?0:-1}d.css("top",e.top+a+(f?-1:-2)+"px").css("left",e.left+"px").width(b-i-k+h+"px");f=parseInt(this.options.zIndex,10);d.css("zIndex",f);d=jQuery(this._gol.optionsList);d[0].onscroll=function(){};d.scrollTop(0);d[0].onscroll=function(){c.sgData.hasScrolled=true};if(this._gol.isIE6){d=jQuery(this._gol.optionsBox.iframe);d.css("top",e.top+a+"px").css("left",e.left+"px").width(b- +i-k+h+"px");d.css("zIndex",f-1)}},_isActive:false,_focused:function(){this._gol.activeElement!==this.element&&this._hideOptions();this._setActivedescendant();this._positionOptionsBox();if(this.options.isEnabled){this._isActive=true;this._hasBeenEscaped=false}this.options.minLength===0&&this.options.localData&&this._keyUp({})},_lastEnteredTerm:null,_isCached:false,_hasBeenEscaped:false,_lastKeyPressDwnUpScroll:new Date,_lastFoundMatch:null,_findMatchInCache:function(a){this._lastFoundMatch=null;if(typeof this._localCache[this.options.dictionary]=== +"undefined")return false;var b="l"+(this.options.maxListLimit||"n");if(typeof this._localCache[this.options.dictionary][b]==="undefined")return false;for(var c=0;a.length>1||c<10;){a=a.substr(0,a.length-1);var e=this._localCache[this.options.dictionary][b][a];if(e)if(e.isCompleteList){this._lastFoundMatch=a;return true}else break;c++}return false},_cloneMatchObject:function(a){var b={};b.matchedText=a.matchedText.toString();b.matches=a.matches?a.matches.slice():[];b.isCompleteList=a.isCompleteList=== +true;return b},_timerTriggerEnterEvent:null,_clearTriggerEnterEvent:function(){this._timerTriggerEnterEvent=null},_triggerEnterEvent:function(){var a=this;if(!this._timerTriggerEnterEvent){this._timerTriggerEnterEvent=window.setTimeout(function(){a._clearTriggerEnterEvent()},50);this.element.trigger("ncbiautocompleteenter",this.sgData);this.element.trigger("ncbiautocompletechange",this.sgData);this._sgSend()}},_triggerTabEvent:function(){this.element.trigger("ncbiautocompletetab",this.sgData);this.element.trigger("ncbiautocompletechange", +this.sgData);this._sgSend()},_keyPress:function(a,b){var c=false,e=this;if(a.keyCode===this._keys.enter||a.keyCode===this._keys.tab){var d=a.keyCode===this._keys.enter,f=false;if(this._isActive&&this.isOptionsBoxOpen())if(this._currIndex===this.options.maxListLimit&&jQuery("li:eq("+this._currIndex+")",this._gol.optionsList).hasClass("ui-ncbiautocomplete-show-more")){this._hideOptions(true);this._gotoShowAll()}else if(this.sgData.optionSelected===jQuery(this.element).val()){f=d;if(!this._timerTriggerEnterEvent){this.sgData.selectionAction= +d?"enter":"tab";this.element.attr("valueId",this.element.attr("_optValue")||null);if(d)this._triggerEnterEvent();else{this._sentTab||this._triggerTabEvent();this._sentTab=true;window.setTimeout(function(){e._sentTab=false},10)}}this._hideOptions(true);if(d){a.stopPropagation();a.preventDefault();return false}}else a.keyCode===this._keys.tab&&this._hideOptions(true);else if(a.keyCode===this._keys.tab)if(!this._tabCalled){this._hideOptions(true);this._tabCalled=true;window.setTimeout(function(){e._tabCalled= +false},10)}if(d&&!f){this._hideOptions(true);this._triggerEnterEvent()}}else if(jQuery(this.element).val().length===0&&!this.options.localData)this._hideOptions(true);else if(a.keyCode===this._keys.up){c=true;this._scrollUpDownRateLimiter(-1)}else if(a.keyCode===this._keys.down&&!a.shiftKey){if(jQuery(this.element).val().length>=this.options.minLength&&!this.isOptionsBoxOpen()){this._reopenOptions=true;c=false;return}this._reopenOptions=false;c=true;this._scrollUpDownRateLimiter(1)}if(!this._lastKeyAction|| +b===this._lastKeyAction){this._lastKeyAction=b;this._prevWasArrow=this._usedArrow;this._usedArrow=c}},_scrollUpDownRateLimiter:function(a){if(!(new Date-this._lastKeyPressDwnUpScroll<90)){this._moveSelection(a);this._lastKeyPressDwnUpScroll=new Date}},_checkArrowSelection:function(a){if(this._prevWasArrow&&a.keyCode!==this._keys.down&&a.keyCode!==this._keys.up&&a.keyCode!==this._keys.tab&&a.keyCode!==this._keys.enter&&this._isActive&&this.isOptionsBoxOpen()){this.sgData.selectionAction="arrows";typeof ncbi!== +"undefined"&&ncbi.sg&&ncbi.sg.ping&&ncbi.sg.ping(this.sgData,false);this._usedArrow=this._prevWasArrow=false}},_keyUp:function(a){if(!(!this.options.isEnabled||this._hasBeenEscaped)){this._checkArrowSelection(a);var b=jQuery(this.element).val().toLowerCase().replace(/^\s+/,"").replace(/\s+$/," "),c="l"+(this.options.maxListLimit||"n");if(!((a.keyCode===this._keys.up||a.keyCode===this._keys.down||a.keyCode===this._keys.enter)&&!this._reopenOptions))if(a.keyCode===this._keys.tab&&this._isOptionsBoxFocused){this._isActive= +this._isOptionsBoxFocused=false;a.type!=="keyup"&&this._hideOptions(true)}else if(a.keyCode===this._keys.escape){this._isActive=this._isOptionsBoxFocused=false;this._hasBeenEscaped=true;this._hideOptions(true)}else 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Date-this._lastKeyPressDwnUpScroll>100){this._resetCurrentIndex();this._currIndex=jQuery(a).prevAll("li").length;this._addHightlight(a)}},_addHightlight:function(a){this._removeHighlight();jQuery(a).addClass("ui-ncbiautocomplete-options-high");var b=this;this._expandTimer&&window.clearTimeout(this._expandTimer);this._expandTimer=window.setTimeout(function(){b._expandOption(a)},this.options.expandPauseTime)},_expandOption:function(a){if(jQuery(a).hasClass("ui-ncbiautocomplete-options-high")){a= +jQuery(a).attr("isExpanded",true);var b=a.attr("fullText");if(a.html()!==b||a.attr("isIEExpand")){a.html(b).css("text-overflow","").css("white-space","normal").css("-o-text-overflow","");this._scrollIntoView()}}},_collapseOption:function(a){a=jQuery(a);a.attr("isIEExpand")?a.css("text-overflow","ellipsis").css("white-space","nowrap").css("-o-text-overflow","ellipsis"):a.css("white-space","nowrap").html(a.attr("partialText"))},_optionClicked:function(a){a=jQuery(a);if(a.hasClass("ui-ncbiautocomplete-show-more"))this._gotoShowAll(); +else{var b=this._cleanUpSelectionText(a);a=a.attr("valueId")||null;this.sgData.optionSelected=b;this.sgData.optionIndex=this._currIndex;this.sgData.valueId=a;this.sgData.selectionAction="click";this._sgSend();b=jQuery(this.element).val(b);b.attr("valueid",a);b.trigger("ncbiautocompleteoptionclick",this.sgData);b.trigger("ncbiautocompletechange",this.sgData)}this._isOptionsBoxFocused=false;this._hideOptions()},isOptionsBoxOpen:function(){return jQuery(this._gol.optionsBox).css("display")==="block"}, +_hideOptions:function(a){this._gol.activeElement=null;if(!(this._isOptionsBoxFocused&&!a)){var b=jQuery(this._gol.optionsBox);a&&jQuery(this._gol.optionsBox).css("display","none");b.attr("aria-activedescendant")===this.element.attr("id")&&b.attr("aria-activedescendant","");this._gol.isIE6&&jQuery(this._gol.optionsBox.iframe).css("display","none");this._resetCurrentIndex();this._isActive=false;this._lastEnteredTerm=null;b=jQuery(this._gol.optionsBox);var c=jQuery(this._gol.optionsList);b.css("display", +"none");c.html("");this._lastTextInTextbox=b=this.element.val();if(this.options.requireValidation&&b.length>0&&this.options.isEnabled&&(!this.element.is(":focus")||a))this._trigger((b.length<this.options.minLength?false:this.isInDictionary(b))?"validselection":"invalidselection")}},_setTextCursorToEnd:function(a){var b=this.element;jQuery(b).val(a);if(b.createTextRange){a=b.createTextRange();a.moveStart("character",b.value.length);a.collapse();a.select()}},_resetCurrentIndex:function(){this._currIndex= +-1},_cleanUpSelectionText:function(a){return jQuery.trim(a.attr("acValue")).replace(/&/gi,"&").replace(/\\"/g,'"')},_currIndex:-1,_moveSelection:function(a){if(this._isActive){this.sgData.usedArrows=true;var b=jQuery("li",this._gol.optionsList).length;this._currIndex+=a;this._removeHighlight();a=this._lastEnteredTerm;var c="";if(!(a===null||a.length<this.options.minLength)){if(this._currIndex<0||this._currIndex>=b)this._currIndex=this._currIndex===-2?b-1:-1;if(this._currIndex!==-1){b=jQuery("li:eq("+ +this._currIndex+")",this._gol.optionsList);this._addHightlight(b);if(this._currIndex===this.options.maxListLimit){this.sgData.optionSelected="";this.sgData.valueId=""}else{a=this._cleanUpSelectionText(b);c=b.attr("valueId")||null;this.sgData.optionSelected=a;this.sgData.valueId=c}}else{this.sgData.optionSelected="";this.sgData.valueId=""}this.element.attr("_optValue",c);this.element.attr("valueId",c);this._setTextCursorToEnd(a);this._scrollIntoView();this.sgData.optionIndex=this._currIndex}}},_scrollIntoView:function(){var a= +jQuery("li:eq("+this._currIndex+")",this._gol.optionsList);if(a.length!==0){var b=jQuery(this._gol.optionsList),c=b.height(),e=b.scrollTop(),d=a[0].offsetTop;a=a.height();if(d-c+a>e){e=jQuery("li:eq("+(this._currIndex+1)+")",this._gol.optionsList);b.scrollTop((e.length===1?e[0].offsetTop:d+a+10)-c)}else d<e&&b.scrollTop(d)}},enableAutocomnplete:function(){this.options.isEnabled=true},disableAutocomnplete:function(){this.disableAutocomplete()},disableAutocomplete:function(){this._isOptionsBoxFocused= +this.options.isEnabled=false;this._hideOptions()},turnOff:function(a){this.disableAutocomplete();var b=this.element.data("ncbiautocompleteOriginalTitle");b&&this.element.attr("title",b);if(!a){typeof ncbi!=="undefined"&&ncbi.sg&&ncbi.sg.ping&&ncbi.sg.ping(this.element[0],"autocompleteoffclick","dictionary="+this.options.dictionary);this.element.trigger("ncbiautocompletedisableclicked");a=this.options.disableUrl;if(a!==null&&a.length>0){b=jQuery.ui.jig._getFncFromStr(a);typeof b==="function"?b():jQuery.get(a)}}}, +_prefLinkClick:function(){typeof ncbi!=="undefined"&&ncbi.sg&&ncbi.sg.ping&&ncbi.sg.ping(this.element[0],"autocompleteprefclick","dictionary="+this.options.dictionary)},_checkClickEvent:function(a){if(this._isActive)if(jQuery(this.element)[0]!=a.target){this._isActive=this._isOptionsBoxFocused=false;this._hideOptions()}},_sgSend:function(){typeof ncbi!=="undefined"&&typeof ncbi.sg!=="undefined"&&typeof ncbi.sg.ping!=="undefined"&&ncbi.sg.ping(this.sgData,false)},getSgData:function(){return this.sgData}, +_gotoShowAll:function(){var a=jQuery(this.element),b=a.val();a.trigger("ncbiautocompleteshowall",{value:b,dictionary:this.options.dictionary})},_hideOptionsIfOffPage:function(){if(this.options.maxListLimit){var a=this,b=jQuery(".ui-ncbiautocomplete-options li"),c=b.eq(0).outerHeight()||20,e=jQuery(this._gol.optionsBox),d=jQuery(window).height(),f=e.position().top,i=f+e.outerHeight()-(document.body.scrollTop||document.documentElement.scrollTop||window.pageYOffset||0);if(b.last().hasClass("ui-ncbiautocomplete-show-more")){var k= +f+"-"+d+"-"+i;if(!this.choppedDetails)this.choppedDetails={};var h=this.choppedDetails[k],m=0,q=function(){i=f+e.outerHeight()-(document.body.scrollTop||document.documentElement.scrollTop||window.pageYOffset||0);if(i>d){b=jQuery(".ui-ncbiautocomplete-options li");var r=b.length-2;if(r>=0){b.eq(r).remove();sz=c*(b.length-1);b.closest(".ui-ncbiautocomplete-holder").height(sz).css("min-height",sz+"px");b.closest(".ui-ncbiautocomplete-options").height(sz).css("overflow-y","hidden");m++;q()}}else a.choppedDetails[k].count= +m};if(h){var l=h.count;if(l>0){h=2*h.length-l-b.length-2;b.filter(":lt("+(b.length-1)+")").filter(":gt("+h+")").remove();b=jQuery(".ui-ncbiautocomplete-options li");sz=c*b.length;b.closest(".ui-ncbiautocomplete-holder").height(sz).css("min-height",sz+"px");b.closest(".ui-ncbiautocomplete-options").height(sz).css("overflow-y","hidden")}m=l}else this.choppedDetails[k]={count:0,length:b.length};q()}else{l=Math.floor((d-f)/c)*c;h=b.length*c;if(l>h)l=h;b.closest(".ui-ncbiautocomplete-holder").height(l).css("min-height", +l+"px");b.closest(".ui-ncbiautocomplete-options").height(l).css("overflow-y","auto")}}},isValid:function(){return this.isInDictionary(this.element.val())},isInDictionary:function(a){var b=false;if(a&&a.length>=this.options.minLength&&this.options.dictionary&&this.options.dictionary.length>0&&this.options.isEnabled){var c=false,e="l"+(this.options.maxListLimit||"n"),d=a.toLowerCase();if(this._localCache[this.options.dictionary]&&this._localCache[this.options.dictionary][e]){e=this._localCache[this.options.dictionary][e]; +c=true;if(e[d])b=this._isValidCheck(d,e[d].matches);else for(var f in e)if(b=this._isValidCheck(d,e[f].matches))break}if(!b&&!c)b=this._validSeverCall(a)}return b},_isValidCheck:function(a,b){var c=false;if(b){c=jQuery.inArray(a.toLowerCase(),b)>-1;if(!c){var e=new RegExp("(^|@)("+a.toLowerCase()+")(@|$)","i");jQuery.each(b,function(d,f){if(f.match(e)){c=true;return false}})}}return c},_customFormat:function(a){if(typeof this.options.responseProcessor==="string")this.options.responseProcessor=jQuery.ui.jig._getFncFromStr(this.options.responseProcessor); +this._displayOptions({matchedText:this._lastEnteredTerm,matches:this.options.responseProcessor.call(this,a),isCompleteList:0})}});jQuery.ui.ncbiautocomplete._globalOptionsList=null;
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Blast output page example_files/jquery_005.css Tue May 06 17:05:58 2014 +0200 @@ -0,0 +1,1 @@ +a.ui-ncbitoggler{color:#22c;}a.ui-ncbitoggler,a.ui-ncbitoggler-open{padding-left:16px;position:relative;display:block;}a.ui-ncbitoggler-no-icon{padding-left:0;}a.ui-ncbitoggler span.ui-icon-plus-minus-big,a.ui-ncbitoggler-open span.ui-icon-plus-minus-big-open{background-color:transparent;background-image:url(../img/ncbitoggler-plus-minus-big.gif);background-repeat:no-repeat;top:.2em;margin-left:-0.1em;}a.ui-ncbitoggler span.ui-icon-plus-minus-big{background-position:left -30px;}a.ui-ncbitoggler-open span.ui-icon-plus-minus-big-open{background-position:left 0;}.ui-ncbitoggler-slave,.ui-ncbitoggler-slave-open{margin:.2em 0 0 16px;}.ui-ncbitoggler-slave{display:none;}.ui-ncbitoggler-slave-open{display:block;}a.ui-ncbitoggler span.ui-icon,a.ui-ncbitoggler-open span.ui-icon{display:inline;position:absolute;left:0;_left:-1em;}a.ui-ncbitoggler-disabled{outline:none;}a.ui-ncbitoggler-disabled:active{outline:none;color:#551A8B;} \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Blast output page example_files/jquery_005.js Tue May 06 17:05:58 2014 +0200 @@ -0,0 +1,2 @@ +(function(){var d=jQuery.ui.button.prototype._create;jQuery.ui.button.prototype.options.color="ui-ncbibutton-gray";jQuery.ui.button.validColors=["ui-ncbibutton-gray","ui-ncbibutton-copper","ui-ncbibutton-blue"];jQuery.ui.button.classColors=["jig-ncbibutton-gray","jig-ncbibutton-copper","jig-ncbibutton-blue"];var e=function(){d.apply(this,arguments);this._addClasses()};jQuery.widget("ui.ncbibutton",jQuery.ui.button,{_create:function(){e.apply(this,arguments)},_getColor:function(){for(var a=this.options.color, +f=this.element[0].className,c=jQuery.ui.button.classColors,b=0;b<c.length;b++)if(f.indexOf(c[b])!==-1){a=jQuery.ui.button.validColors[b];break}if(a.indexOf("ui-ncbibutton-")!==0)a="ui-ncbibutton-"+a;if(jQuery.inArray(a,jQuery.ui.button.validColors)===-1){typeof console!=="undefined"&&console.warn&&console.warn("The color you picked: "+this.options.color+" is not a valid color choice.\n Valid colors: "+jQuery.ui.button.validColors.join(", "));a=jQuery.ui.button.validColors[0]}return a},_addClasses:function(){this.buttonElement.addClass("ui-ncbibutton").addClass(this._getColor()).removeClass("ui-button ui-widget")}})})();
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Blast output page example_files/jquery_006.css Tue May 06 17:05:58 2014 +0200 @@ -0,0 +1,1 @@ +.ui-ncbipopper-wrapper{position:fixed;top:0;left:0;z-index:11;display:none;}.ui-ncbipopper-wrapper-relative-parent{position:fixed!important;}.ui-ncbipopper-basic{border:3px solid #3e72a6;background-color:#fff;color:#303030;padding:1em;text-align:left;-moz-border-radius:6px;-webkit-border-radius:6px;border-radius:6px;}button.ui-ncbipopper-close-button-generated{display:block;float:right;margin:-1.25em -1.3em 0 0;font-size:small;width:1.7em;text-align:center;padding:0;border:0;}button.ui-ncbipopper-close-button-generated,button.ui-ncbipopper-close-button-generated:active{margin:-0.615em;height:14px;width:13px;background-image:url(../img/ui-popper-closebutton.png);background-color:transparent;background-repeat:no-repeat;}button.ui-ncbipopper-close-button-generated .ui-button-text{color:transparent;text-shadow:none;}div.ui-ncbipopper-arrow-image{position:absolute;top:100px;left:100px;width:7px;height:7px;z-index:11;display:none;background-image:url(../img/ncbipopper-arrow.png);background-repeat:no-repeat;}div.ui-ncbipopper-arrow-left{background-position:center left;height:28px;}div.ui-ncbipopper-arrow-right{background-position:center right;height:28px;}div.ui-ncbipopper-arrow-top{background-position:top center;width:28px;}div.ui-ncbipopper-arrow-bottom{background-position:bottom center;width:28px;}.brieflinkpopdesc{font-size:.846em;margin-top:.4em;}.portlet .brieflinkpop{width:350px;}.portlet .brieflinkpop a{font-size:1em;}.portlet .brieflinkpopperctrl{display:inline-block;} \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Blast output page example_files/jquery_006.js Tue May 06 17:05:58 2014 +0200 @@ -0,0 +1,75 @@ +jQuery.widget("ui.ncbigrid",{options:{isScrollable:false,height:"10em",hortScrollbarEnabled:false,width:null,isPageable:false,currentPage:1,isPageToolbarHideable:true,pageSize:10,isSortable:false,columnTypes:[],sortFunctions:[],isPresorted:false,sortColumn:-1,sortColumnDir:1,sortRowIndex:0,titleAscending:"sort ascending",titleDescending:"sort descending",ariaLabelAscending:"activate to sort column ascending",ariaLabelDescending:"activate to sort column descending",regExp:false,checkboxToolbarEnabled:false, +filterToolbarEnabled:false,filterToolbarIsCaseInsensitive:null,filterToolbarColumnIndex:null,filterToolbarIsInverse:null,isLoadingMessageShown:true,loadingText:"Loading",collapseRowsEnabled:false,addCommas:false},_init:function(){},_create:function(){this._isStartPageOne=this.options.currentPage===1;this._wrapTable();this._addBasicStyles();this._checkIfCSSIsScrollable();this._attachLoadingMessageListener();if(this.options.isScrollable||this.options.isSortable||this.options.isPageable||this.options.checkboxToolbarEnabled|| +this.options.filterToolbarEnabled)this._addAriaRolesAndStates();this._addRowClickWatcher();this.options.isScrollable&&this._createScrollable();if(this.options.isPageable||this.options.isPagable){this.options.isPageable=true;this._createPageGrid()}if(this.options.isSortable){this._createSortGrid();this.updateAriaTH()}else this._enableCollapseTbodyRows();this.options.checkboxToolbarEnabled&&this._createCheckboxSelectors();this.options.filterToolbarEnabled&&this._createFilterBarControl();this._addRowHoverEvent(); +this._addContentsAdjustmentEvent();this._adjustContents()},destroy:function(){jQuery.Widget.prototype.destroy.apply(this,arguments);this.options.isScrollable&&this._destroyScrollable();if(this.options.isPageable||this.options.isPagable)this._destroyPageGrid();this._destroyRowHoverEvent()},_addBasicStyles:function(){this.element.addClass("ui-ncbigrid").attr("cellpadding","0").attr("cellspacing","0")},_checkIfCSSIsScrollable:function(){if(this.element.hasClass("jig-ncbigrid-scroll"))this.options.isScrollable= +true},_wrapTable:function(){var a=this.element.parent().parent();if(!a.hasClass("ui-ncbigrid-outer-div")){this.element.wrap('<div class="ui-ncbigrid-outer-div"><div class="ui-ncbigrid-inner-div"></div></div>');a=this.element.parent().parent()}this.element.find("caption").length>0&&a.addClass("caption-exists");var b=this.options.width;b&&a.css("width",b)},_addRowHoverEvent:function(){jQuery(this.element).on("mouseenter","tbody > tr",function(){var a=jQuery(this);a.hasClass("ignoreHoverHighlight")|| +a.addClass("ui-ncbigrid-row-hover")}).on("mouseleave","tbody > tr",function(){jQuery(this).removeClass("ui-ncbigrid-row-hover")})},_destroyRowHoverEvent:function(){jQuery(this.element).off("mouseenter mouseleave","tr")},_addContentsAdjustmentEvent:function(){var a=this;this.element.on("ncbigridupdated",function(){a._adjustContents()})},_getNumCommaIndices:function(){var a=this.options.columnTypes;if(!a)return[];for(var b=[],c=0;c<a.length;c++)if(a[c]=="numComma"||a[c]=="numberComma")b.push(c);return b}, +_getCommaSeparatedValue:function(a){var b=parseInt(a);if(isNaN(b))return a;else{a=a.split(".");b=a[0].replace(/(\d)(?=(\d\d\d)+(?!\d))/g,"$1,");return a[1]?b+"."+a[1]:b}},_adjustContentsForCommas:function(){var a=this._getNumCommaIndices();if(a.length){var b=this;jQuery(this.element).find("tbody td").each(function(){var c=jQuery(this),d=c.parent().find("td").index(c);jQuery.inArray(d,a)!=-1&&c.html(b._getCommaSeparatedValue(c.html()))})}},_adjustContents:function(){this.options.addCommas&&this._adjustContentsForCommas()}, +_addAriaRolesAndStates:function(){var a=this.element;a.attr("id")||a.attr("id",jQuery.ui.jig._generateId(this.widgetName));a.parent().parent().attr("role","grid").attr("tabindex","0");a.children("thead").children("tr").attr("role","row").children("th").attr({"aria-controls":a.attr("id"),role:"columnheader",tabindex:"0"});a.children("tbody").attr({role:"alert","aria-live":"polite","aria-relevant":"text"})},updateAriaTH:function(){if(this.options.isSortable){var a=this;this.element.parent().parent().find("div, table").attr("tabindex", +"0").end().find("thead").find("th").each(function(b,c){b="";var d=a.options.ariaLabelAscending;if(jQuery(c).is(".sortDsc")){b="descending";d=a.options.ariaLabelAscending}else if(jQuery(c).is(".sortAsc")){b="ascending";d=a.options.ariaLabelDescending}c=jQuery(c).children("a");jQuery(c).attr("aria-label",jQuery(c).text()+": "+d);b==""?jQuery(c).removeAttr("aria-sort"):jQuery(c).attr("aria-sort",b)})}},_createScrollable:function(){this._storeRefs();this._addScrollClasses();this._copyCaptionHeader(); +this._setWidthHeight();this._setWidths();this._registerScrollableListeners()},_destroyScrollable:function(){this._removeScrollClasses();if(this.parts){this.parts.scrollWrapper.removeClass("ui-ncbigrid-scroll");this.parts.headerWrapper.remove();for(var a in this.parts)this.parts[a]=null;this.parts=null}this._windowResize&&jQuery(window).unbind("resize",this._windowResize)},_storeRefs:function(){var a=this.element;this.parts={table:a,ths:a.find("> thead th")}},_addScrollClasses:function(){var a=this.element, +b=a.parent().addClass("ui-ncbigrid-scroll");this.parts.scrollWrapper=b;if(jQuery.browser.webkit){var c=navigator.userAgent;c.indexOf("AppleWebKit")>0&&c.indexOf("Chrome")==-1&&a.addClass("safari")}this.options.hortScrollbarEnabled&&b.addClass("ui-ncbigrid-hort-scroll")},_removeScrollClasses:function(){this.element.removeClass("ui-ncbigrid").removeClass("safari").parent().removeClass("ui-ncbigrid-scroll")},_copyCaptionHeader:function(){var a=this.element,b=a.parent();b.parent();var c=a.find("caption").clone(); +a=a.find("> thead").clone();c=jQuery("<div class='ui-ncbigrid-header-wrapper'></div>").append("<table cellpadding='0' cellspacing='0' class='ui-ncbigrid ui-ncbigrid-header'></table>").find("table").append(c).append(a).end();c.insertBefore(b);b=c.find("caption");b.wrapInner("<div></div>");this.parts.captionDiv=b.find("div");this.parts.headerWrapper=c;this.parts.headerThs=c.find("thead th")},_setWidthHeight:function(){this.options.height!==null&&this.parts.scrollWrapper.height(this.options.height)}, +_setWidths:function(){function a(j){jQuery(this).width(h[j])}var b=this.parts,c=b.table,d=b.ths,e=b.scrollWrapper,g=b.headerWrapper;b=b.headerThs;var f=jQuery.browser.msie;if(!this.options.hortScrollbarEnabled&&c.data("isMinSet")!==true&&this.element.is(":visible")){var i=c.outerWidth();if(c.width()>e.width()){e.css("min-width",i+16);c.data("isMinSet",true)}}var h=[];d.each(function(){var j=0;if(jQuery(this).is(":visible"))j=jQuery(this).width()+0;h.push(j)});d=c.height()>e.height()?16:0;f=this.options.isSortable&& +f&&parseInt(jQuery.browser.version,10)<8?d:0;c.parent().parent().find("table.ui-ncbigrid-header").width(c.width()+2-f);c=e.width()-d;g.width(c);this.parts.captionDiv&&this.parts.captionDiv.width(c);b.each(a)},_handleScroll:function(a,b,c){function d(){g._handleScroll(a,b,true)}var e=a.scrollLeft;b.scrollLeft=e;this.parts.captionDiv&&this.parts.captionDiv.css("margin-left",e+"px");var g=this;if(!c){window.setTimeout(d,1);window.setTimeout(d,5)}},_registerScrollableListeners:function(){var a=this;this._windowResize= +function(){a._setWidths()};jQuery(window).resize(this._windowResize);var b=this.element.parent().parent().find(".ui-ncbigrid-header-wrapper")[0];this.element.parent().scroll(function(){a._handleScroll(this,b)});this.element.bind("ncbigridupdated",function(){a._setWidths()});this.element.bind("resetScroll",function(){a._resetScrollToTop()})},_resetScrollToTop:function(){this.parts.scrollWrapper.scrollTop(0)},_createPageGrid:function(){this._createPageBars();this._addPagingEvents();this._gotoPage(this.options.currentPage)}, +_destroyPageGrid:function(){if(this._pageBars){this._removePagingEvents();this._removePageBars()}},_pagingControlsHTML:' <div class="ui-ncbigrid-paged-toolbar"> <div class="ui-ncbigrid-paged-countItems">Items <span class="ui-ncbigrid-paged-startRow">1</span> - <span class="ui-ncbigrid-paged-endRow">10</span> of <span class="ui-ncbigrid-paged-totalRows">10</span></div> <div class="ui-ncbigrid-paged-pageControl pagination"> <a href="#" class="ui-ncbigrid-paged-pageControl-first page_link" title="Goto First Page"><< First</a> <span class="ui-ncbigrid-paged-pageControl-first page_link" title="Inactive Goto First Page"><< First</span> <a href="#" class="ui-ncbigrid-paged-pageControl-previous page_link prev" title="Goto Previous Page">< Prev</a> <span class="ui-ncbigrid-paged-pageControl-previous page_link prev" title="Inactive Goto Previous Page">< Prev</span> <label>Page</label> <input type="text" value="1" size="2" title="current page number"/> of <span class="ui-ncbigrid-paged-endPage">2</span> <a href="#" class="ui-ncbigrid-paged-pageControl-next next page_link" title="Goto Next Page">Next ></a> <span class="ui-ncbigrid-paged-pageControl-next next page_link" title="Inactive Goto Next Page">Next ></span> <a href="#" class="ui-ncbigrid-paged-pageControl-last page_link" title="Goto Last Page">Last >></a> <span class="ui-ncbigrid-paged-pageControl-last page_link" title="Inactive Goto Last Page">Last >></span> </div> </div>', +_createPageBars:function(){this._pageToolBar_top=jQuery(this._pagingControlsHTML).addClass("ui-ncbigrid-paged-toolbar-top");this._pageToolBar_bottom=jQuery(this._pagingControlsHTML).addClass("ui-ncbigrid-paged-toolbar-bottom");var a=this.element,b=a.parent().parent();b.prepend(this._pageToolBar_top);b.append(this._pageToolBar_bottom);b.children(".ui-ncbigrid-paged-toolbar-top").children(".ui-ncbigrid-paged-countItems").attr("id",jQuery.ui.jig._generateId("ui-ncbigrid-paged-countItems"));a.attr("aria-describedby", +this._pageToolBar_top.children(".ui-ncbigrid-paged-countItems").attr("id"));this._pageBars=this._pageToolBar_top.add(this._pageToolBar_bottom);this._pageBars.find(":input").each(function(c,d){jQuery(d).attr("id",jQuery.ui.jig._generateId("ui-ncbigrid-paged-current-page")).prev().attr("for",jQuery(d).attr("id"))})},_removePageBars:function(){this._pageToolBar_top.remove();this._pageToolBar_top=null;this._pageToolBar_bottom.remove();this._pageBars=this._pageToolBar_bottom=null;this.element.removeAttr("aria-describedby")}, +_addPagingEvents:function(){var a=this,b=this._pageBars.find("a.ui-ncbigrid-paged-pageControl-first"),c=this._pageBars.find("a.ui-ncbigrid-paged-pageControl-previous"),d=this._pageBars.find("a.ui-ncbigrid-paged-pageControl-next"),e=this._pageBars.find("a.ui-ncbigrid-paged-pageControl-last"),g=this._pageBars.find("input");b.click(function(f){a.gotoFirstPage();f.preventDefault()});c.click(function(f){a.gotoPrevPage();f.preventDefault()});d.click(function(f){a.gotoNextPage();f.preventDefault()});e.click(function(f){a.gotoLastPage(); +f.preventDefault()});g.keypress(function(f){if(f.keyCode===13){a.gotoPage(this.value.replace(/,/g,""));f.preventDefault()}})},_removePagingEvents:function(){this._pageBars.find("a").unbind("click").end().find("input").unbind("keypress")},_showHidePageToolbar:function(){if(this._pageBars)if(this.options.isPageToolbarHideable)parseInt(this.getRowCount())<=parseInt(this.options.pageSize)?this._pageBars.hide():this._pageBars.show()},_setPage:function(){this.element.trigger("resetScroll");this.element.trigger("pagechanged"); +var a=this._getCurrentPage(),b=this.getMaxPage();this._showHidePageToolbar();this._updateRows(a,b);this._updateButtons(a,b);this._updatePagingText(a,b);this._updateGoto(a,b);this._updateItemRange(a,b);this._pageBars.find(".ui-ncbigrid-paged-pageControl").attr({"aria-valuemin":"1","aria-controls":this.element.attr("id"),"aria-valuemax":b,"aria-valuenow":a});this._notifyGridUpdated()},_updateRows:function(a){var b=this.options.pageSize,c=this.getRowCount();a=(a-1)*b;var d=a+b;b=this.element.find("> tbody > tr:not(.ncbigrid-row-filtered)"); +var e=this.element.find("> tbody").length>1,g=0;if(e&&a>0)g=b.filter(":lt("+a+")").filter(":has(th)").length;var f="";if(d<c)f+=":lt("+(d+g)+")";if(a>0)f+=":gt("+(a-1+g)+")";c=b;if(f.length>0){b.not(".ui-ncbigrid-rowHidden").addClass("ui-ncbigrid-rowHidden");c=b.filter(f)}c.removeClass("ui-ncbigrid-rowHidden");if(e){a=c.filter(":has(th)").length;if(a>0){b=0;for(c=c.last().next();b<a&&c.length===1;){if(!c.hasClass("ncbigrid-row-filtered")){c.has("th")||b++;c.removeClass("ui-ncbigrid-rowHidden")}c= +c.next()}}}this._notifyGridUpdated()},_updateButtons:function(a,b){var c=b===2,d=a===1,e=this._pageBars.find("a.ui-ncbigrid-paged-pageControl-previous,a.ui-ncbigrid-paged-pageControl-first").css("display",d?"none":"inline").filter("a.ui-ncbigrid-paged-pageControl-first");d=this._pageBars.find("span.ui-ncbigrid-paged-pageControl-previous,span.ui-ncbigrid-paged-pageControl-first").css("display",d?"inline":"none").filter("span.ui-ncbigrid-paged-pageControl-first");b=a===b||b==0;a=this._pageBars.find("a.ui-ncbigrid-paged-pageControl-next,a.ui-ncbigrid-paged-pageControl-last").css("display", +b?"none":"inline").filter("a.ui-ncbigrid-paged-pageControl-last");b=this._pageBars.find("span.ui-ncbigrid-paged-pageControl-next,span.ui-ncbigrid-paged-pageControl-last").css("display",b?"inline":"none").filter("span.ui-ncbigrid-paged-pageControl-last");c&&e.add(d).add(a).add(b).css("display","none")},_updatePagingText:function(a,b){if(b<1)b=1;if(this.options.addCommas)b=this._getCommaSeparatedValue(""+b);this._pageBars.find("div.ui-ncbigrid-paged-pageControl").find("span.ui-ncbigrid-paged-endPage").html(b)}, +_updateGoto:function(a){if(this.options.addCommas)a=this._getCommaSeparatedValue(""+a);this._pageBars.find("input").val(a)},_updateItemRange:function(a){var b=parseInt(this.options.pageSize,10),c=this.getRowCount();a=(a-1)*b+1;b=a+b-1;if(b>c)b=c;if(c==0)a=0;if(this.options.addCommas){c=this._getCommaSeparatedValue(""+c);a=this._getCommaSeparatedValue(""+a);b=this._getCommaSeparatedValue(""+b)}var d=this._pageBars.find("div.ui-ncbigrid-paged-countItems");d.find("span.ui-ncbigrid-paged-startRow").html(a); +d.find("span.ui-ncbigrid-paged-endRow").html(b);d.find("span.ui-ncbigrid-paged-totalRows").html(c)},_getCurrentPage:function(){return this.options.currentPage},getCurrentPage:function(){return this._getCurrentPage()},getMaxPage:function(){return Math.ceil(this.getRowCount()/this.options.pageSize)},getRowCount:function(){return jQuery(this.element).find("> tbody > tr:not(.ncbigrid-row-filtered):not(:has(> th))").length},getHeaderRowCount:function(){return jQuery(this.element).find("tbody > tr:has(th)").length}, +gotoFirstPage:function(){this._gotoPage(1)},gotoLastPage:function(){this._gotoPage(this.getMaxPage())},gotoNextPage:function(){this._gotoPage(this._getCurrentPage()+1)},gotoPrevPage:function(){this._gotoPage(this._getCurrentPage()-1)},gotoPage:function(a){this._gotoPage(parseInt(a,10))},_gotoPage:function(a){if(isNaN(a)||a<1)a=1;else if(a>this.getMaxPage()){a=this.getMaxPage();if(a<1)a=1}this.options.currentPage=a;this._pagingSelectAllQuestions&&this._pagingSelectAllQuestions.hide();this._setPage()}, +_createSortGrid:function(){var a=this.options.sortColumn;if(this.options.sortColumn!==-1){a=a-1;this.options.sortColumn=a!==-1?a:0}this._indexGrid();this._addSortEvents();this._setSortHeaders();this._checkInitialState();this._notifyGridUpdated()},_destroySortGrid:function(){},reindex:function(){for(var a=0;a<this.element.find("tbody tr:eq(0) td").length;a++)this.element.data("sort_order_col_"+a,null);this.element.data("rows",null);this._indexGrid()},_indexGrid:function(){var a=this,b=this.element.find("> tbody"); +if(b.length===0)this._isIndexed=false;else for(var c=0;c<b.length;c++)(function(d,e){function g(){for(var o=0;o<50&&k<m;o++){var p=l[k],q=a.getRowValues_DOM(p);if(q.length==0){a._enableCollapseTbodyRows(p);i.push(p);j++}else{q.unshift(k-j,p);f.push(q);h.push(q)}k++}if(k<m)window.setTimeout(g,0);else{a.element.data("tbody"+e+"-rows",h);a.element.data("tbody"+e+"-header",i);a._presort(f,e)}}var f=[],i=[],h=[],j=0,l=jQuery(d).find("> tr"),k=0,m=l.length;if(m===0)a._isIndexed=false;else{a._isIndexed= +true;g()}})(b[c],c)},_presort:function(a,b){function c(h){var j=g.options.sortFunctions[h-2];j||(j=g.element.find("> thead th:eq("+(h-2)+")").data("sortfunc"));if(j)if(typeof j==="function")return j;else if(j.indexOf("fnc:")===0){j=j.substr(4,j.length).split(".");for(var l=window[j[0]],k=1;k<j.length;k++)l=l[j[k]];return g.options.sortFunctions[h]=l}return null}function d(h,j,l){function k(n){if(n.length<2)return n;var r=parseInt(n.length/2),s=n.slice(0,r);n=n.slice(r,n.length);return m(k(s),k(n))} +function m(n,r){for(var s=[];n.length&&r.length;){var u=false;(u=o?-g.options.sortColumnDir==o.call(g,{data:n[0][j],row:jQuery(n[0][1])},{data:r[0][j],row:jQuery(r[0][1])}):n[0][j]<=r[0][j])?s.push(n.shift()):s.push(r.shift())}for(;n.length;)s.push(n.shift());for(;r.length;)s.push(r.shift());return s}var o=c(j),p=jQuery.browser.msie?100:1E3,q=0,t=[];(function(){for(var n=0;n<p&&q<h.length;n++){t.push(h[q]);q++}q<h.length?setTimeout(arguments.callee,0):l(k(t),j)})()}function e(h,j){var l=0,k=[];(function(){for(var m= +0;m<50&&l<h.length;m++){k.push(h[l][0]);l++}l<h.length?setTimeout(arguments.callee,0):g.element.data("tbody"+b+"-sort_order_col_"+(j-2),k)})()}for(var g=this,f=a[0].length,i=2;i<f;i++)this._getColumnType(i-2)!=="none"&&d(a,i,e)},_getColumnType:function(a){var b=this.options.columnTypes[a];b||(b=this.element.find("> thead th:eq("+a+")").data("columntype"));return b||"str"},getColumnType:function(a){return this._getColumnType(a-1)},getRowValues:function(a){if(typeof a==="number")a=this.element.find("tbody tr:eq("+ +a+")");var b=[];a=a[0].getElementsByTagName("td");for(var c=a.length,d=0;d<c;d++)b.push(this._getCellValueHelper(a[d].innerHTML,d));return b},getRowValues_DOM:function(a){var b=[];a=jQuery(a).children("td");for(var c=a.length,d=0;d<c;d++)b.push(this._getCellValueHelper(a[d].textContent||a[d].innerText||"",d));return b},_getCellValue:function(a,b){return this._getCellValueHelper(a.html(),b)},_getCellValueHelper:function(a,b){var c=this._getColumnType(b);switch(c){case "num":case "number":case "float":return a!== +undefined&&a.length>0?parseFloat(a):Number.POSITIVE_INFINITY;case "int":return a!==undefined&&a.length>0?parseInt(a,10):Number.POSITIVE_INFINITY;case "numberComma":case "numComma":a=(a||"").replace(/[, ]/g,"");return a.length>0?parseFloat(a):Number.POSITIVE_INFINITY;case "date":return new Date(a);case "str-insensitive":return a.toLowerCase();case "str":default:if(typeof c==="function")return c(a);else if(c.indexOf("fnc:")===0){c=c.substr(4,c.length).split(".");for(var 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tr:"+d+"contains"+f+"("+a+")",this.element).each(function(i,h){i=jQuery(h);h="ui-ncbigrid-high";if(e)h=i.hasClass("ui-ncbigrid-row-even")?"ui-ncbigrid-row-even-high-IE6":"ui-ncbigrid-row-odd-high-IE6";i.addClass(h);g.push(i)});this.element.trigger("ncbigridhighlightapplied",[a,b,c,g]).trigger("ncbigridhideloadingbar");return{highlightedRows:g}}},removeHighlightRows:function(a,b,c,d){var e=jQuery.browser.msie&&parseFloat(jQuery.browser.version)< +7;if(typeof a!="undefined"&&a.length>0){var g=[],f=b?"-insensitive":"";d=d?"not-":"";if(a.constructor&&a.constructor.toString().indexOf("RegExp")>0){f="-regexp";d=""}typeof c!="undefined"?jQuery("tbody tr td"+(":nth-child("+c+")")+":"+d+"contains"+f+"("+a+")",this.element).each(function(i,h){i=jQuery(h).parent().removeClass("ui-ncbigrid-high");e&&i.removeClass("ui-ncbigrid-row-odd-high-IE6").removeClass("ui-ncbigrid-row-even-high-IE6");jQuery.inArray(i,g)===-1&&g.push(i)}):jQuery("tbody tr:"+d+"contains"+ +f+"("+a+")",this.element).each(function(i,h){i=jQuery(h).removeClass("ui-ncbigrid-high");e&&i.removeClass("ui-ncbigrid-row-odd-high-IE6").removeClass("ui-ncbigrid-row-even-high-IE6");g.push(i)})}else{jQuery(".ui-ncbigrid-high",this.element).removeClass("ui-ncbigrid-high");e&&jQuery(".ui-ncbigrid-row-odd-high-IE6, .ui-ncbigrid-row-even-high-IE6",this.element).removeClass("ui-ncbigrid-row-odd-high-IE6").removeClass("ui-ncbigrid-row-even-high-IE6")}this.element.trigger("ncbigridhighlightremoved",[a, +b,c])},setCellData:function(a,b,c,d){jQuery("tbody"+(d!==undefined?":eq("+d+")":"")+" tr:nth-child("+a+") td:nth-child("+b+")",this.element).text(c);this.element.trigger("ncbigridcellchange",[a,b,this.getCellData(a,b)]);this._notifyGridUpdated();this._notifyGridContentChanged()},setRowData:function(a,b,c){jQuery("tbody"+(c!==undefined?":eq("+c+")":"")+" tr:nth-child("+a+") td",this.element).each(function(d,e){jQuery(e).text(b[d])});this.element.trigger("ncbigridrowchange",[a,this.getRowData(a,c)]); +this._notifyGridUpdated();this._notifyGridContentChanged()},_enableCollapseTbodyRows:function(a){if(this.options.collapseRowsEnabled){a||(a=jQuery(this.element).find("tbody tr:has(th)"));var b=this;jQuery(a).each(function(){jQuery(this).addClass("ui-ncbigrid-collapsable").find("th").eq(0).prepend('<span class="collapsableTbodyIcon ui-icon ui-icon-plus-minus-big-open"></span>').find("span").click(function(c){c.stopPropagation();b._collapseTbodyRows(this.parentNode.parentNode)}).end().end().not(".ignoreCollapse").click(function(){b._collapseTbodyRows(this.parentNode)})})}}, +_collapseTbodyRows:function(a){jQuery(a).find("th span.collapsableTbodyIcon").toggleClass("ui-icon-plus-minus-big").toggleClass("ui-icon-plus-minus-big-open").end().siblings().toggleClass("collapsed")}});jQuery.extend(jQuery.expr[":"],{"contains-insensitive":function(a,b,c){return(a.textContent||a.innerText||"").toLowerCase().indexOf((c[3]||"").toLowerCase())>=0}}); +jQuery.extend(jQuery.expr[":"],{"contains-regexp":function(a,b,c){a=jQuery.trim(a.textContent||a.innerText||"");c=c[3];b=c.match(/\/([gi]+)$/);b=b!==null?b[1]:"";c=c.replace(/\/[gi]?$/,"").replace(/^\//,"");return a.match(new RegExp(c,b))!==null}});jQuery.extend(jQuery.expr[":"],{"contains-functionTest":function(a,b,c){a=a.textContent||a.innerText||"";return jQuery.ui.jig._getFncFromStr(c[3])(a)}}); +jQuery.extend(jQuery.expr[":"],{"not-contains":function(a,b,c){return(a.textContent||a.innerText||"").indexOf(c[3]||"")===-1}});jQuery.extend(jQuery.expr[":"],{"not-contains-insensitive":function(a,b,c){return(a.textContent||a.innerText||"").toLowerCase().indexOf((c[3]||"").toLowerCase())===-1}});
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Blast output page example_files/jquery_007.css Tue May 06 17:05:58 2014 +0200 @@ -0,0 +1,1 @@ +html .ui-ncbimenu>li>a{color:#fff;}.jig-ncbimenu li.offscreen_noflow{position:absolute;left:-1000px;}.jig-ncbimenu{clear:both;}.jig-ncbimenu ul{display:none;}.jig-ncbimenu>li{display:inline;float:left;}ul.ui-ncbibasicmenu li{display:block;margin:0;}.ui-ncbimenu li>a{background-color:transparent;border:0;}.ui-ncbimenu ul{-moz-border-radius:6px;-webkit-border-radius:6px;border-radius:6px;border:1px solid #CCC;-webkit-box-shadow:.4em .4em .5em rgba(0,0,0,.3);-moz-box-shadow:.4em .4em .5em rgba(0,0,0,.3);box-shadow:.4em .4em .5em rgba(0,0,0,.3);}.ui-ncbimenu li.active a{background-color:#4c96df;}.ui-ncbimenu>li a:focus{outline:0;}.ui-ncbimenu li a.expandDown{padding-right:20px;background:url("../img/arrow-sprite.png") no-repeat scroll 96% -6% #FFF;}.ui-ncbimenu li a.expandRight{background:url("../img/arrow-sprite.png") no-repeat scroll 96% 106% #FFF;}.ui-ncbimenu>li>a.expandDown,.ui-ncbimenu>li>a.expandRight{background-color:transparent;}.ui-ncbimenu li>a:hover.expandRight{background:url("../img/arrow-sprite.png") no-repeat scroll 96% 106% #4C96DF;}.ui-ncbimenu li.ui-ncbimenu-item-no-hlt>a:hover.expandRight,.ui-ncbimenu li.ui-ncbimenu-item-skip>a:hover.expandRight{background-color:transparent;}.ui-ncbimenu li ul{display:none;z-index:200;}ul.ui-ncbimenu li ul li a{background-color:#fff;}.ui-ncbimenu ul{position:absolute;display:none;}.ui-ncbimenu>li a:hover,.ui-ncbimenu li.selected>a{background-color:#4C96DF;color:#fff;}.ui-ncbimenu li ul.ncbibasicmenu li.ui-ncbimenu-item-no-hlt,.ui-ncbimenu li ul.ncbibasicmenu li.ui-ncbimenu-item-skip{background-color:#FFF;}.ui-ncbimenu li.ui-ncbimenu-item-no-hlt a:hover,.ui-ncbimenu li.selected.ui-ncbimenu-item-no-hlt>a,.ui-ncbimenu li.ui-ncbimenu-item-skip a:hover,.ui-ncbimenu li.selected.ui-ncbimenu-item-skip>a{color:#fff;}.ui-ncbimenu li ul li.ui-ncbimenu-item-no-hlt a:hover,.ui-ncbimenu li ul li.selected.ui-ncbimenu-item-no-hlt>a,.ui-ncbimenu li ul li.ui-ncbimenu-item-skip a:hover,.ui-ncbimenu li ul li.selected.ui-ncbimenu-item-skip>a{color:#14376C;background-color:transparent;}.ui-ncbimenu .oneLevel li.ui-ncbimenu-item-no-hlt a:hover,.ui-ncbimenu.ui-ncbibasicmenu>li.ui-ncbimenu-item-no-hlt>a:hover,.ui-ncbimenu .oneLevel li.ui-ncbimenu-item-skip a:hover,.ui-ncbimenu.ui-ncbibasicmenu>li.ui-ncbimenu-item-skip>a:hover{background-color:transparent;}.ui-ncbimenu .ui-ncbimenu-item-leaf{margin:0 .75em 0 0;}.ui-ncbimenu .ui-ncbimenu-item-leaf>a:hover{background-color:transparent;}.ui-ncbimenu:before,.ui-ncbimenu:after{content:"";display:table;}.ui-ncbimenu{*zoom:1;} \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Blast output page example_files/jquery_007.js Tue May 06 17:05:58 2014 +0200 @@ -0,0 +1,14 @@ +jQuery.widget("ui.ncbibasicmenu",{options:{defaultSelection:-1,allowMultipleSelections:false,orientation:"vertical",preventDefaultCheck:true,stopPropagationCheck:true,normalizeSubsToOneLevel:false,disableSelect:false},styles:{itemNoHilite:"ui-ncbimenu-item-no-hlt",itemSkip:"ui-ncbimenu-item-skip"},_init:function(){this._loadedOnce&&this.rescan();this._loadedOnce=true},_create:function(){this._setSelectorString();this._addClasses();this._formatList();this._addEvents();this._setUpDefaults();this._setTabIndex(); +this._addAria()},rescan:function(){this._addClasses();this._setTabIndex();this._addAria();this._destroyFocusEvents();this._setUpFocusEvents()},destroy:function(){this._destroyTabIndex();this._destroyClasses();this._destroyEvents();this._destroyAria();this._destroyFormatList()},_setSelectorString:function(){var a=">";if(this.options.normalizeSubsToOneLevel){a="";this.element.addClass("oneLevel")}this._liSelector=a+"li:not(.ui-ncbimenu-item-skip)"},_addClasses:function(){this.isVert=this.options.orientation=== +"vertical";var a="ui-ncbibasicmenu";this.isVert||(a+=" orientation_hort");this.element.addClass(a)},_destroyClasses:function(){this.element.removeClass("ui-ncbibasicmenu")},_setUpDefaults:function(){this.selectedOption=this.options.defaultSelection;if(this.selectedOption!==-1){var a=this.element.find(this._liSelector+">a");if(this.options.allowMultipleSelections)for(var b=0;b<this.selectedOption.length;b++)this._makeSelection(a.eq(this.selectedOption[b]),"load");else this._makeSelection(a.eq(this.selectedOption), +"load")}},_formatList:function(){},_destroyFormatList:function(){},_setTabIndex:function(){var a=this.element.find(this._liSelector+">a").attr("tabindex","-1"),b=this.element.find(this._liSelector+".selected>a");if(b.length>0)b=b.eq(0);else{var c=0;for(b=a.eq(0);b.is("."+this.styles.itemSkip+" a")&&c<a.length-1;){c+=1;b=a.eq(c)}}this.options.nested||b.removeAttr("tabindex")},_destroyTabIndex:function(){this.element.find(this._liSelector+">a").removeAttr("tabindex")},_addEvents:function(){this._setUpKeyListener(); +this._setUpClickEvents();this._setUpFocusEvents();this._setUpHoverEvents()},_destroyEvents:function(){this._destroyKeyListener();this._destroyClickEvents();this._destroyFocusEvents();this._destroyHoverEvents()},_setUpKeyListener:function(){if(!this._menuKeyListener){var a=this;this._menuKeyListener=function(b){if(a.element.is(":visible"))if(a._keyPressDetected(b.keyCode)){b.preventDefault();a.options.stopPropagationCheck&&b.stopPropagation()}};jQuery(document).keydown(this._menuKeyListener)}},_destroyKeyListener:function(){if(this._menuKeyListener){jQuery(window).unbind("keydown", +this._menuKeyListener);this._menuKeyListener=null}},_setUpClickEvents:function(){var a=this;this._ulClickEvent=function(b){var c=b.srcElement||b.target;if(c){a.options.disableSelect||a._makeSelection(jQuery(c),"click");a.options.stopPropagationCheck&&b.stopPropagation();a.options.preventDefaultCheck&&jQuery(c).siblings("ul").length===1&&b.preventDefault()}};this.element.on("click.ncbibasicmenu",this._ulClickEvent)},_destroyClickEvents:function(){this.element.off("click",this._ulClickEvent)},_setUpFocusEvents:function(){var a= +this;this._focusFnc=function(){a._menuFocused(this)};this._blurFnc=function(){a._menuBlured(this)};this.element.find(this._liSelector+">a").on("blur",this._blurFnc).on("focus",this._focusFnc)},_destroyFocusEvents:function(){this.element.find(this._liSelector+">a").off("blur",this._blurFnc).off("focus",this._focusFnc)},focus:function(){this._menuFocused(null)},_menuFocused:function(a){this._lastAnchor=a;this._isFocused=true},_menuBlured:function(a){if(this._lastAnchor==a)this._isFocused=false},removeFocus:function(){this._menuBlured()}, +_setUpHoverEvents:function(){var a=this;this._mouseEnterFnc=function(b){b=jQuery(b.target).closest("li");!b.hasClass(a.styles.itemNoHilite)&&!b.hasClass(a.styles.itemSkip)&&b.addClass("hover")};this.mouseLeaveFnc=function(){jQuery(this).removeClass("hover")};this.element.on("mouseenter","li",this._mouseEnterFnc).on("mouseleave","li",this.mouseLeaveFnc)},_destroyHoverEvents:function(){this.element.off("mouseenter",this._mouseEnterFnc).off("mouseleave",this.mouseLeaveFnc);this.mouseLeaveFnc=this._mouseEnterFnc= +null},_makeSelection:function(a,b){var c=a.parent("li");if(c.length===1){var d=c.hasClass("selected");this.options.allowMultipleSelections||this._removeAllSelections();if(!c.hasClass(this.styles.itemSkip)){c.hasClass(this.styles.itemNoHilite)||c[d?"removeClass":"addClass"]("selected");var e=d?"unselected":"selected";b!=="menunav"&&this._trigger(e,"x",[a,c,b]);if(b==="click"||b==="load")this.selectedOption=this.element.find(this._liSelector+".selected").index();else d||c.find(">a").focus()}}this._setTabIndex()}, +_keys:{up:38,down:40,left:37,right:39,enter:13,escape:27,tab:9},_keyPressDetected:function(a){var b=this._keys,c=false;if(this._isFocused&&this.element.has(this._liSelector+">a:focus"))switch(a){case b.up:this._upDownPressed(-1);c=true;break;case b.down:this._upDownPressed(1);c=true;break;case b.left:this._leftRightPressed(-1);c=true;break;case b.right:this._leftRightPressed(1);c=true;break;case b.enter:this._enterSelected();c=false;break;case b.escape:this._escapeTyped();c=false;break;case b.tab:this._trigger("tab"); +default:c=false}return c},_upDownPressed:function(a){this.isVert?this._moveSelection(a):this._trigger(a===1?"actiondown":"actionup","x",this.focusedElement())},_leftRightPressed:function(a){this.isVert?this._trigger(a===1?"actionright":"actionleft","x",this.focusedElement()):this._moveSelection(a)},focusedElement:function(){return this.selectedOption!==-1?this.element.find(this._liSelector).eq(this.selectedOption):this.element.find(this._liSelector+":has(>a:focus)")},moveSelection:function(a){this._moveSelection(a)}, +_getNextIndex:function(a,b,c){a=a+b;if(a<0)a=c-1;else if(a>c-1)a=0;return a},_moveSelection:function(a){for(var b=this.element.find(this._liSelector+">a"),c=this._getNextIndex(this.selectedOption,a,b.length);b.eq(c).closest("li").hasClass(this.styles.itemSkip);)c=this._getNextIndex(c,a,b.length);this.selectedOption=c;this._makeSelection(b.eq(c),"keyboard")},removeAllSelections:function(){this.selectedOption=-1;this._removeAllSelections();this._setTabIndex()},_removeAllSelections:function(){this.element.find(this._liSelector).removeClass("selected")}, +_enterSelected:function(){this._trigger("enter")},_escapeTyped:function(){this._trigger("escape","x",this.focusedElement())},_addAria:function(){var a=this.element.parents('[role="menubar"]'),b=this.element.find(this._liSelector),c=b.find(">a");this.element.attr("role",a.length===0?"menubar":"menu");b.attr("role","presentation");c.attr("role","menuitem")},_destroyAria:function(){var a=this.element.find(this._liSelector),b=a.find(">a");this.element.removeAttr("role");a.removeAttr("role");b.removeAttr("role")}, +selectFirstItem:function(){this.selectedOption=0;this._moveSelection(0)}});
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Blast output page example_files/jquery_008.css Tue May 06 17:05:58 2014 +0200 @@ -0,0 +1,1 @@ +ul.jig-ncbilocalnav,ul.ui-ncbilocalnav{list-style:none;margin:0;padding:0;width:100%;}ul.jig-ncbilocalnav:after,ul.ui-ncbilocalnav:after{content:".";display:block;height:0;clear:both;visibility:hidden;*zoom:1;*display:block;}ul.jig-ncbilocalnav li,ul.ui-ncbilocalnav li{float:left;position:relative;list-style:none;display:block;}ul.jig-ncbilocalnav li a,ul.ui-ncbilocalnav li a{color:#444;text-decoration:none;display:block;padding:.15em 1em .15em 1em;zoom:1;}ul.jig-ncbilocalnav ul{display:none;}ul.ui-ncbilocalnav ul{margin:0;margin-left:0!important;display:none;border-width:1px 0 0 1px;width:200px;padding-left:0;-moz-box-shadow:.4em .4em .5em #999;-webkit-box-shadow:.4em .4em .5em #999;box-shadow:.4em .4em .5em #999;_margin-top:1px;}ul.ui-ncbilocalnav li.open ul{display:block;position:absolute;left:-1px;}ul.ui-ncbilocalnav li:first-child{margin-left:1.333em;}ul.ui-ncbilocalnav ul li:first-child{margin-left:0;}ul.ui-ncbilocalnav ul li{float:none;display:block;position:relative;*line-height:125%;zoom:1;}ul.ui-ncbilocalnav li.has-child ul{z-index:1003;}ul.ui-ncbilocalnav li:first-child{border-left:1px solid #b0b0b0;}ul.ui-ncbilocalnav ul li:first-child{border-left:0;}ul.ui-ncbilocalnav{border-top:1px solid #c4c4c4;border-bottom:1px solid #c4c4c4;}ul.ui-ncbilocalnav ul{border-left:1px solid #b0b0b0;}ul.ui-ncbilocalnav li{border-right:1px solid #c4c4c4;}ul.ui-ncbilocalnav ul li{border-bottom:1px solid #c4c4c4;}ul.ui-ncbilocalnav ul li:first-child{border-top:1px solid #b0b0b0;}ul.ui-ncbilocalnav li.active{border-right:1px solid #c4c4c4;*z-index:1005;}ul.ui-ncbilocalnav li.active ul li{*z-index:1006;}ul.ui-ncbilocalnav li.active,ul.ui-ncbilocalnav li.active ul li,ul.ui-ncbilocalnav li.hover,ul.ui-ncbilocalnav li.hover ul li{*z-index:1006;}ul.ui-ncbilocalnav li.selected>ul>li a{margin:0 .75em;padding:.15em 1.5em .15em .25em;}ul.ui-ncbilocalnav li.selected a{color:#444!important;background-color:transparent!important;}ul.ui-ncbilocalnav li.hover>a,ul.ui-ncbilocalnav li.hover.selected>a,ul.ui-ncbilocalnav li.selected>a{background-color:transparent!important;color:#444!important;}ul.ui-ncbilocalnav,ul.ui-ncbilocalnav li{background-color:#F4F4F4;background-image:-webkit-gradient(linear,left top,left bottom,from(#fff),to(#F4F4F4));background-image:-webkit-linear-gradient(top,#fff,#F4F4F4);background-image:-moz-linear-gradient(top,#fff,#F4F4F4);background-image:-ms-linear-gradient(top,#fff,#F4F4F4);background-image:-o-linear-gradient(top,#fff,#F4F4F4);background-image:linear-gradient(top,#fff,#F4F4F4);}ul.ui-ncbilocalnav li.hover,ul.ui-ncbilocalnav li.selected{background-color:#E0E0E0;background-image:-webkit-gradient(linear,left top,left bottom,from(#F2F2F2),to(#E0E0E0));background-image:-webkit-linear-gradient(top,#F2F2F2,#E0E0E0);background-image:-moz-linear-gradient(top,#F2F2F2,#E0E0E0);background-image:-ms-linear-gradient(top,#F2F2F2,#E0E0E0);background-image:-o-linear-gradient(top,#F2F2F2,#E0E0E0);background-image:linear-gradient(top,#F2F2F2,#E0E0E0);}ul.ui-ncbilocalnav li li.hover{background-color:#EDEDED;background-image:-webkit-gradient(linear,left top,left bottom,from(#DEDEDE),to(#EDEDED));background-image:-webkit-linear-gradient(top,#DEDEDE,#EDEDED);background-image:-moz-linear-gradient(top,#DEDEDE,#EDEDED);background-image:-ms-linear-gradient(top,#DEDEDE,#EDEDED);background-image:-o-linear-gradient(top,#DEDEDE,#EDEDED);background-image:linear-gradient(top,#DEDEDE,#EDEDED);}.ui-ncbilocalnav>li>a.expandDown{background:url(../img/ncbilocalnav-arrow.png) no-repeat right 8px!important;_background-position:right 11px!important;padding:.15em 1.5em .15em .25em;margin:0 .75em;color:#444;}ul.ui-ncbilocalnav li.selected ul li a{background-image:none!important;zoom:1;} \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Blast output page example_files/jquery_008.js Tue May 06 17:05:58 2014 +0200 @@ -0,0 +1,14 @@ +(function(b){var h,i,j,g,l=function(){var a=b(this).find(":ui-button");setTimeout(function(){a.button("refresh")},1)},k=function(a){var c=a.name,e=a.form,f=b([]);if(c)f=e?b(e).find("[name='"+c+"']"):b("[name='"+c+"']",a.ownerDocument).filter(function(){return!this.form});return f};b.widget("ui.button",{options:{disabled:null,text:true,label:null,icons:{primary:null,secondary:null}},_create:function(){this.element.closest("form").unbind("reset.button").bind("reset.button",l);if(typeof this.options.disabled!== +"boolean")this.options.disabled=this.element.propAttr("disabled");this._determineButtonType();this.hasTitle=!!this.buttonElement.attr("title");var a=this,c=this.options,e=this.type==="checkbox"||this.type==="radio",f="ui-state-hover"+(!e?" ui-state-active":"");if(c.label===null)c.label=this.buttonElement.html();if(this.element.is(":disabled"))c.disabled=true;this.buttonElement.addClass("ui-button ui-widget ui-state-default ui-corner-all").attr("role","button").bind("mouseenter.button",function(){if(!c.disabled){b(this).addClass("ui-state-hover"); +this===h&&b(this).addClass("ui-state-active")}}).bind("mouseleave.button",function(){c.disabled||b(this).removeClass(f)}).bind("click.button",function(d){if(c.disabled){d.preventDefault();d.stopImmediatePropagation()}});this.element.bind("focus.button",function(){a.buttonElement.addClass("ui-state-focus")}).bind("blur.button",function(){a.buttonElement.removeClass("ui-state-focus")});if(e){this.element.bind("change.button",function(){g||a.refresh()});this.buttonElement.bind("mousedown.button",function(d){if(!c.disabled){g= +false;i=d.pageX;j=d.pageY}}).bind("mouseup.button",function(d){if(!c.disabled)if(i!==d.pageX||j!==d.pageY)g=true})}if(this.type==="checkbox")this.buttonElement.bind("click.button",function(){if(c.disabled||g)return false;b(this).toggleClass("ui-state-active");a.buttonElement.attr("aria-pressed",a.element[0].checked)});else if(this.type==="radio")this.buttonElement.bind("click.button",function(){if(c.disabled||g)return false;b(this).addClass("ui-state-active");a.buttonElement.attr("aria-pressed","true"); +var d=a.element[0];k(d).not(d).map(function(){return b(this).button("widget")[0]}).removeClass("ui-state-active").attr("aria-pressed","false")});else{this.buttonElement.bind("mousedown.button",function(){if(c.disabled)return false;b(this).addClass("ui-state-active");h=this;b(document).one("mouseup",function(){h=null})}).bind("mouseup.button",function(){if(c.disabled)return false;b(this).removeClass("ui-state-active")}).bind("keydown.button",function(d){if(c.disabled)return false;if(d.keyCode==b.ui.keyCode.SPACE|| +d.keyCode==b.ui.keyCode.ENTER)b(this).addClass("ui-state-active")}).bind("keyup.button",function(){b(this).removeClass("ui-state-active")});this.buttonElement.is("a")&&this.buttonElement.keyup(function(d){d.keyCode===b.ui.keyCode.SPACE&&b(this).click()})}this._setOption("disabled",c.disabled);this._resetButton()},_determineButtonType:function(){this.type=this.element.is(":checkbox")?"checkbox":this.element.is(":radio")?"radio":this.element.is("input")?"input":"button";if(this.type==="checkbox"||this.type=== +"radio"){var a=this.element.parents().filter(":last"),c="label[for='"+this.element.attr("id")+"']";this.buttonElement=a.find(c);if(!this.buttonElement.length){a=a.length?a.siblings():this.element.siblings();this.buttonElement=a.filter(c);if(!this.buttonElement.length)this.buttonElement=a.find(c)}this.element.addClass("ui-helper-hidden-accessible");(a=this.element.is(":checked"))&&this.buttonElement.addClass("ui-state-active");this.buttonElement.attr("aria-pressed",a)}else this.buttonElement=this.element}, +widget:function(){return this.buttonElement},destroy:function(){this.element.removeClass("ui-helper-hidden-accessible");this.buttonElement.removeClass("ui-button ui-widget ui-state-default ui-corner-all ui-state-hover ui-state-active ui-button-icons-only ui-button-icon-only ui-button-text-icons ui-button-text-icon-primary ui-button-text-icon-secondary ui-button-text-only").removeAttr("role").removeAttr("aria-pressed").html(this.buttonElement.find(".ui-button-text").html());this.hasTitle||this.buttonElement.removeAttr("title"); +b.Widget.prototype.destroy.call(this)},_setOption:function(a,c){b.Widget.prototype._setOption.apply(this,arguments);if(a==="disabled")c?this.element.propAttr("disabled",true):this.element.propAttr("disabled",false);else this._resetButton()},refresh:function(){var a=this.element.is(":disabled");a!==this.options.disabled&&this._setOption("disabled",a);if(this.type==="radio")k(this.element[0]).each(function(){b(this).is(":checked")?b(this).button("widget").addClass("ui-state-active").attr("aria-pressed", +"true"):b(this).button("widget").removeClass("ui-state-active").attr("aria-pressed","false")});else if(this.type==="checkbox")this.element.is(":checked")?this.buttonElement.addClass("ui-state-active").attr("aria-pressed","true"):this.buttonElement.removeClass("ui-state-active").attr("aria-pressed","false")},_resetButton:function(){if(this.type==="input")this.options.label&&this.element.val(this.options.label);else{var a=this.buttonElement.removeClass("ui-button-icons-only ui-button-icon-only ui-button-text-icons ui-button-text-icon-primary ui-button-text-icon-secondary ui-button-text-only"), +c=b("<span></span>",this.element[0].ownerDocument).addClass("ui-button-text").html(this.options.label).appendTo(a.empty()).text(),e=this.options.icons,f=e.primary&&e.secondary,d=[];if(e.primary||e.secondary){if(this.options.text)d.push("ui-button-text-icon"+(f?"s":e.primary?"-primary":"-secondary"));e.primary&&a.prepend("<span class='ui-button-icon-primary ui-icon "+e.primary+"'></span>");e.secondary&&a.append("<span class='ui-button-icon-secondary ui-icon "+e.secondary+"'></span>");if(!this.options.text){d.push(f? +"ui-button-icons-only":"ui-button-icon-only");this.hasTitle||a.attr("title",c)}}else d.push("ui-button-text-only");a.addClass(d.join(" "))}}});b.widget("ui.buttonset",{options:{items:":button, :submit, :reset, :checkbox, :radio, a, :data(button)"},_create:function(){this.element.addClass("ui-buttonset")},_init:function(){this.refresh()},_setOption:function(a,c){a==="disabled"&&this.buttons.button("option",a,c);b.Widget.prototype._setOption.apply(this,arguments)},refresh:function(){var a=this.element.css("direction")=== +"rtl";this.buttons=this.element.find(this.options.items).filter(":ui-button").button("refresh").end().not(":ui-button").button().end().map(function(){return b(this).button("widget")[0]}).removeClass("ui-corner-all ui-corner-left ui-corner-right").filter(":first").addClass(a?"ui-corner-right":"ui-corner-left").end().filter(":last").addClass(a?"ui-corner-left":"ui-corner-right").end().end()},destroy:function(){this.element.removeClass("ui-buttonset");this.buttons.map(function(){return b(this).button("widget")[0]}).removeClass("ui-corner-left ui-corner-right").end().button("destroy"); +b.Widget.prototype.destroy.call(this)}})})(jQuery);
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Blast output page example_files/jquery_009.js Tue May 06 17:05:58 2014 +0200 @@ -0,0 +1,46 @@ +document.times=0; +jQuery.widget("ui.ncbipopper",{destTextCallbackCalledCount:0,options:{openMethod:"",openEvent:"mouseover",openAnimation:"slideDown",openAnimationTime:290,closeMethod:"",closeEvent:"mouseout",closeAnimation:"slideUp",closeAnimationTime:150,isEscapeKeyClose:true,isSourceElementCloseClick:false,isTriggerElementCloseClick:true,isTargetElementCloseClick:false,isDestElementCloseClick:false,isDocumentCloseClick:true,addCloseButton:false,adjustFit:"autoAdjust",delayTimeout:300,sourcePosition:"",destPosition:"top left", +sourceSelector:"",destSelector:"",targetPosition:"",triggerPosition:"bottom right",sourceText:null,destText:null,multipleHandlesSelector:"",openAtTarget:false,hasArrow:false,arrowDirection:"left",groupName:null,width:null,height:null,cssClass:null,excludeBasicCssStyles:false,wrapElement:false,loadingText:"loading...",showLoadingMessage:true,isDestTextCacheable:true,resizable:false,openAtMousePosition:false},_create:function(){this._setUpDestElem();this._addEventHandlers();this._addEscapeListener(); +this._addDocumentClickListener();this._addResizeListener();this._addCloseButton();this._addSharingDetails();this._addPopperHover();this.addTriggerAria()},updateTriggers:function(){this._addEventHandlers();this._addDocumentClickListener();this.addTriggerAria()},destroy:function(){jQuery.Widget.prototype.destroy.apply(this,arguments);var a=this.isPopperShared();this._destroyDestAria();this._destroyTriggerAria();this._removeSharingDetails();this._destroyCloseButton(a);this._destroyResizeListener();this._destroyDocumentClickListener(); +this._destroyEscapeListener();this._removeEventHandlers();this._destroyDestElem(a)},getDestElement:function(a){var b=this.destElem;if(!this.origDestElem)this.origDestElem=b;if(b){if(a&&this._isWaitingToBeAddedToDom){a=jQuery("div.grid");a=a.length===1?a:jQuery(document.body);b.appendTo(a);this._isWaitingToBeAddedToDom=true;this._getActualText(b)}}else{b=this.options.destSelector||this.options.sourceSelector||this.element.prop("hash");a=this.options.destText||this.options.sourceText;if(b){b=jQuery(b); +if(b.length===0)b=this._createTextHolder()}else if(a)b=this._createTextHolder();else throw"The popper can not find the popper element or text to display";if(this.options.wrapElement){if(!b.parent().hasClass("ui-ncbipopper-wrapper")){b.wrap('<div style="display:none"></div>');b.show()}if(!this.origDestElem)this.origDestElem=b;b=b.parent()}this.destElem=b;this._addDestAria()}if(!this.origDestElem)this.origDestElem=this.destElem;return b},_createTextHolder:function(){var a=jQuery('<div><div class="ui-ncbipopper-content"></div></div>'); +this._isWaitingToBeAddedToDom=true;return a},_getActualText:function(a){if(!this.isFunctionResultCached){var b=this.options.destText||this.options.sourceText,c=this._getFunction(b);if(typeof c==="function")b=this._getText(c);a.css("display","none").attr("generated","true").find(".ui-ncbipopper-content").html(b)}},_getFunction:function(a){var b=null;if(jQuery.ui.jig&&jQuery.ui.jig._getFncFromStr)b=jQuery.ui.jig._getFncFromStr(a);else if(typeof a==="function")b=a;return b},getDestTextCallbackCalledCount:function(){return this.destTextCallbackCalledCount}, +_getText:function(a){if(!(this.options.isDestTextCacheable&&this.getTextCalled||this.callbackInProgress)){this.getTextCalled=true;a||(a=this._getFunction(this.options.destText||this.options.sourceText));var b=this;this.callbackInProgress=true;a=a.call(this.element[0],function(c){b._setHTML(c);b.destTextCallbackCalledCount++;b.callbackInProgress=false})||this.options.loadingText;if(a!==this.options.loadingText)this.isFunctionResultCached=this.options.isDestTextCacheable;return a}},reloadContent:function(){var a= +this._getText(),b=this.getDestElement().find(".ui-ncbipopper-content");b&&b.html(a);return this.element},_setHTML:function(a){var b=this.getDestElement().find(".ui-ncbipopper-content");if(b){b.html(a);this.isFunctionResultCached=this.options.isDestTextCacheable;!this.options.showLoadingMessage&&!this.isPopperDisplayed&&this._openAnimation()}},_setUpDestElem:function(){var a=this.getDestElement().addClass("ui-ncbipopper-wrapper");this.options.excludeBasicCssStyles||a.addClass("ui-ncbipopper-basic"); +this.options.resizable&&a.resizable();var b=this.options.cssClass;b&&a.addClass(b);this.options.width!==null&&a.width(this.options.width);this.options.height!==null&&a.height(this.options.height);this._resetElementPosition(a);a.removeClass("offscreen_noflow").hide();a.data("isOpen",false)},_setArrowDirection:function(){if(this.options.hasArrow){var a=this.options.arrowDirection;this._arrow&&this._arrow.removeClass("ui-ncbipopper-arrow-top ui-ncbipopper-arrow-bottom ui-ncbipopper-arrow-left ui-ncbipopper-arrow-right").addClass("ui-ncbipopper-arrow-"+ +a)}},_setUpArrow:function(a,b,c){if(this.options.hasArrow){var d=this.options.arrowDirection;if(this._arrow)this._arrow.removeClass("ui-ncbipopper-arrow-top ui-ncbipopper-arrow-bottom ui-ncbipopper-arrow-left ui-ncbipopper-arrow-right").addClass("ui-ncbipopper-arrow-"+d);else this._arrow=jQuery('<div class="ui-ncbipopper-arrow-image ui-ncbipopper-arrow-'+d+'"> </div>').appendTo(document.body);a=this._getPositionSettings(a,"arrow",c);this._arrow.show().position({my:a.dest,of:this._activeTrigger|| +a.triggerElement||this.element,at:a.trigger,offset:a.offset,collision:"none"});if(b||this._arrowOverlapsPopper())this._arrow.hide()}},_destroyDestElem:function(a){a||this.getDestElement().removeClass("ui-ncbipopper-wrapper ui-ncbipopper-basic ui-ncbipopper-wrapper-relative-parent").attr("style","").show();this.options.wrapElement&&this.origDestElem.unwrap();this.destElem=null},_addEventHandlers:function(){var a=this,b=this.element,c=this.options.multipleHandlesSelector;if(c&&c.length>0)b=b.add(c); +var d=this.options.openMethod||this.options.openEvent,e=this.options.closeMethod||this.options.closeEvent;if(d===e&&e==="click"){this._openFunction=function(f){a._toggle(f,f.currentTarget);f.preventDefault()};b.on("click",this._openFunction)}else{c={timeout:this.options.delayTimeout};if(d==="mouseover")c.over=function(f){a._isOverTrigger=true;a.open(f,this)};else{c.over=function(){a._isOverTrigger=true};this._openFunction=function(f){if(d==="click")if(a.option.isTriggerElementCloseClick){a._toggle(f, +this);f.preventDefault()}else{a.isOpen(this)||f.preventDefault();a.open(f,this)}else a.open(f,this)};b.on(d,this._openFunction)}if(e==="mouseout")c.out=function(){a._isOverTrigger=false;a.isOpen(this)&&!a._isOverPopper&&a.close()};else{c.out=function(){};this._closeFunction=function(f){a.close();e==="click"&&f.preventDefault()};b.on(e,this._closeFunction)}if(d==="mouseover"||e==="mouseout")b.hoverIntent(c);if(this.options.isTriggerElementCloseClick&&e!=="click"&&d!=="click"){this._closeFunction2= +function(f){a.isOpen(b)&&a.close();f.preventDefault()};b.on("click",this._closeFunction2)}}if(this.options.isDestElementCloseClick){this._closeFunctionPopper=function(f){a.isOpen(b)&&a.close();f.preventDefault()};this.getDestElement().on("click",this._closeFunctionPopper)}},_removeEventHandlers:function(){var a=this.element,b=this.getDestElement(),c=this.options.multipleHandlesSelector;if(c&&c.length>0)a=a.add(c);a.off("mouseover mouseout");if(this._openFunction){a.off(this.options.openMethod||this.options.openEvent, +this._openFunction);this._openFunction=null}if(this._closeFunction){a.off(this.options.closeMethod||this.options.closeEvent,this._closeFunction);this._closeFunction=null}if(this._closeFunction2){a.off("click",this._closeFunction2);this._closeFunction2=null}if(this._closeFunctionPopper){b.off("click",this._closeFunctionPopper);this._closeFunctionPopper=null}},_toggle:function(a,b){this.isOpen(b)?this.close():this.open(a,b);a&&a.preventDefault&&a.preventDefault();return this.element},_arrowOverlapsPopper:function(){var a= +this.getDestElement(),b=Math.floor(a.position().top),c=Math.floor(a.position().left),d=Math.floor(c+a.outerWidth());a=Math.floor(b+a.height());var e=this._arrow,f=Math.floor(e.position().top),g=Math.floor(e.position().left);Math.floor(g+e.width());var h=Math.floor(f+e.height());c=g>c&&g<d||g+e.css("width")>c&&g+e.css("width")<d;b=f>b&&f<a||f+e.css("height")>b&&h+e.css("height")<a;return c&&b?true:false},_openAnimation:function(a){function b(){var k=d.outerHeight(),l=jQuery(window).height();k>l&&d.css({"max-height":l- +45+"px",overflow:"auto"});jQuery(window).trigger("resize")}var c=this,d=this.getDestElement().data("isOpening",this.element).stop(true,true),e=this._arrow,f=this.options.openAnimation,g=function(){c._trigger("opencomplete");c.getDestElement().data("isOpening",null);jQuery.browser.msie&&parseInt(jQuery.browser.version,10)<=7&&c._positionPopper(a,false,true);b()},h=function(k){e.fadeTo(0,0);window.setTimeout(function(){e.stop(true,true).show();c._arrowOverlapsPopper()||e.css("opacity",1)},k)};if(f=== +"none"||this.isOpen()){d.show();e&&h(0);g()}else{var j=this.options.openAnimationTime;if(e){var i=0;if(e==="top")i=0;else if(e==="bottom")i=j;else{i=parseInt(e.css("top"),10)-parseInt(d.css("top"),10);var m=d.height()||i;i=i/m*j;if(i>j)i=j}h(i)}d[f](j,g)}},open:function(a,b){if(!b)b=this.element;if(this.options.openAtTarget){if(this._activeTrigger!==b){this.getDestElement().hide();this.getDestElement().data("isOpen",false)}this._activeTrigger=b}else this._activeTrigger=this.element;b=this.getDestElement(); +var c=b.data("isOpening");if(c&&c[0]!==this.element[0])(b.data("closeFnc")||function(){})(true);this._handleSharedPoppersOpen();this._handleGroupsOpen();b.data("isOpening",this.element);this._setUpArrow(a,true,true);jQuery.browser.msie&&this._positionPopper(a,true,true);this._setParentsZIndex(11);this._positionPopper(a,true,true);this._trigger("open");this.options.destText&&!this.options.showLoadingMessage&&!this.isFunctionResultCached||this._openAnimation(a);this._setAriaState(true);this.getDestElement().data("isOpen", +true);return this.element},_handleGroupsOpen:function(){var a=this.options.groupName;if(a){this.closeGroup(a);jQuery.ui.ncbipopper.openGroups[a]=this.element}},_closeAnimation:function(a){var b=this,c=function(){b._setParentsZIndex(1);b._trigger("closecomplete")},d=this.getDestElement().data("isOpening");if(d&&this.element[0]!=d[0])c();else{d=this.getDestElement().stop(true,true);var e=this.options.closeAnimation;if(e==="none"||a){d.hide();this._resetElementPosition(d);c()}else{var f=d;d[e](this.options.closeAnimationTime, +function(){b._resetElementPosition(f);c()})}}a=this.getDestElement().data("popperTriggers");for(e=0;e<a.length;e++){d=jQuery.ui.jig.getElementWidgets(a[e],"ncbipopper")[0];var g=d._arrow;if(g){g.stop(true,true).hide();d._resetElementPosition(g)}}},close:function(a){if(this.isOpen(this._activeTrigger)){this._handleGroupsClose(a);this._trigger("close");this._activeTrigger=null;this._closeAnimation(a);this._setAriaState(false);this.getDestElement().data("isOpen",false);return this.element}},closeGroup:function(a){if(a= +a||this.options.groupName)(a=jQuery.ui.ncbipopper.openGroups[a])&&jQuery.ui.jig.getElementWidgets(a,"ncbipopper")[0].close(true);return this.element},_handleGroupsClose:function(a){var b=this.options.groupName;if(!a&&b)jQuery.ui.ncbipopper.openGroups[b]=null},_determineAutoPosition:function(a){var b=jQuery(this._activeTrigger||this.element),c=b.offset(),d=this.getDestElement(true),e=jQuery(window);if(a){a=e.width();d=d.outerWidth();b=b.width();e=e.scrollLeft();if(d+b+c.left<a+e){c="right";b=e="left"}else{c= +"left";b=e="right"}}else{a=e.height();d=d.outerHeight();b=b.height();e=e.scrollTop();if(d+b+c.top<a+e){c="bottom";b=e="top"}else{c="top";b=e="bottom"}}return{posT:c,posP:e,arrow:b}},_getPositionSettings:function(a,b,c){var d=this.options.sourcePosition||this.options.destPosition,e=this.options.targetPosition||this.options.triggerPosition;d=d.split(/\s/);e=e.split(/\s/);if(d[0]==="middle")d[0]="center";if(d[1]==="middle")d[1]="center";if(e[0]==="middle")e[0]="center";if(e[1]==="middle")e[1]="center"; +this.options.sourcePosition=null;this.options.destPosition=d.join(" ");this.options.targetPosition=null;this.options.triggerPosition=e.join(" ");var f;if(d[0]==="auto"){f=this._determineAutoPosition(false);d[0]=f.posP;e[0]=f.posT;this.options.arrowDirection=f.arrow;this._setArrowDirection(f.arrow)}if(d[1]==="auto"){f=this._determineAutoPosition(true);d[1]=f.posP;e[1]=f.posT;this.options.arrowDirection=f.arrow;this._setArrowDirection(f.arrow)}f=d[1]+" "+d[0];var g=e[1]+" "+e[0],h="0px 0px";if(this.options.hasArrow)h= +b==="popper"?this._getPopperOffsets(d[0],d[1]):this._getArrowOffsets(d[0],d[1]);if(this.options.openAtMousePosition&&c){h.xOffset=a.pageX-jQuery(a.target).offset().left+(h.xOffset-0)+1;h.yOffset=a.pageY-jQuery(a.target).offset().top+(h.yOffset-0)}if(this._isArea===undefined)this._isArea=((this._activeTrigger?this._activeTrigger[0]:false)||this.element[0]).nodeName.toUpperCase()==="AREA";if(this._isArea){a=this._areaElementAdjustment(h,e);triggerElement=a.positionElement;h=a.offset;g="left top"}else triggerElement= +null;if(this.options.openAtMousePosition&&c)g="left top";return{dest:f,trigger:g,offset:typeof h=="string"?h:h.xOffset+"px "+h.yOffset+"px",triggerElement:triggerElement}},_getArrowOffsets:function(a,b){var c="0",d="0";switch(this.options.arrowDirection){case "left":case "right":switch(a){case "top":d="-13";break;case "center":d="0";break;case "bottom":d="13";break;default:d="0";break}break;case "top":case "bottom":switch(b){case "left":c="-13";break;case "center":c="0";break;case "right":c="13"; +break;default:c="0";break}break;default:throw"Valid arrow directions are top, bottom, left, right";}return{xOffset:c,yOffset:d}},_getPopperOffsets:function(a,b){var c="0",d="0";c=this.options.arrowDirection;switch(c){case "left":case "right":c=c==="left"?"7":"-7";switch(a){case "top":d="-13";break;case "center":d="0";break;case "bottom":d="13";break;default:d="0";break}break;case "top":case "bottom":d=c==="top"?"7":"-7";switch(b){case "left":c="-13";break;case "center":c="0";break;case "right":c= +"13";break;default:c="0";break}break;default:throw"Valid arrow directions are top, bottom, left, right";}return{xOffset:c,yOffset:d}},_areaElementAdjustment:function(a,b){a=typeof a=="string"?a.split(" "):[a.xOffset,a.yOffset];var c=parseInt(a[0],10);a=parseInt(a[1],10);var d=jQuery(this._activeTrigger||this.element).parent(),e=jQuery(this._activeTrigger||this.element[0])[0];d=jQuery("img[usemap='#"+(d[0].name||d[0].id)+"']");var f=e.shape||"rect";e=(e.coords||"").split(/\s?,\s?/g);d=d;var g=0,h= +0;if(f==="circle"){if(b[0]=="top")h=parseFloat(e[1])-parseFloat(e[2]);else if(b[0]=="bottom")h=e[3]+parseFloat(e[2]);else if(b[0]=="center")h=parseFloat(e[1]);if(b[1]==="left")g=e[0]-parseFloat(e[2]);else if(b[1]==="right")g=e[2]+parseFloat(e[2]);else if(b[1]==="center")g=parseFloat(e[0])}else{if(b[0]=="top")h=parseFloat(e[1]);else if(b[0]=="bottom")h=parseFloat(e[3]);else if(b[0]=="center")h=(parseFloat(e[1])+parseFloat(e[3]))/2;if(b[1]==="left")g=parseFloat(e[0]);else if(b[1]==="right")g=parseFloat(e[2]); +else if(b[1]==="center")g=(parseFloat(e[0])+parseFloat(e[2]))/2}g+=c;h+=a;return{positionElement:d,offset:g+"px "+h+"px"}},_getCollisionSetting:function(){var a=this.options.adjustFit;return a=a==="autoAdjust"||a==="slide"?"fit":"none"},_resetElementPosition:function(a){a.css("top","-100px").css("left","-100px")},_positionPopper:function(a,b,c){a=this._getPositionSettings(a,"popper",c);c=this._getCollisionSetting();var d=a.triggerElement||this.options.openAtTarget&&this._activeTrigger||this.element; +a=this.getDestElement(true).stop().show().position({my:a.dest,of:d,at:a.trigger,offset:a.offset,collision:c}).data("attached-to",d);b&&a.hide();document.times++},_addEscapeListener:function(){if(this.options.isEscapeKeyClose){this._registerGlobalEscapeListener();var a=this;this._ncbipopperescapepressedFunction=function(){a.close()};jQuery(document).bind("ncbipopperescapepressed",this._ncbipopperescapepressedFunction)}},_destroyEscapeListener:function(){if(this._ncbipopperescapepressedFunction){jQuery(document).unbind("ncbipopperescapepressed", +this._ncbipopperescapepressedFunction);this._ncbipopperescapepressedFunction=null}},_registerGlobalEscapeListener:function(){if(!jQuery.ui.ncbipopper.globalEvents.isGlobalEscapeRegistered){jQuery.ui.ncbipopper.globalEvents.isGlobalEscapeRegistered=true;var a=document,b="keypress";if(!jQuery.browser.msie&&!jQuery.browser.mozilla){a=window;b="keydown"}jQuery(a)[b](function(c){c.keyCode===27&&jQuery(document).trigger("ncbipopperescapepressed")})}},_addDocumentClickListener:function(){if(this.options.isDocumentCloseClick){this._registerGlobalClickListener(); +var 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e=jQuery(d.target||d.srcElement);if(e.hasClass("ui-ncbipopper-wrapper")||e.hasClass("ui-ncbipopper-arrow-image"))if(e.find(d.relatedTarget).length=== +0){b._isOverPopper=false;b._outTimer=window.setTimeout(function(){b._overPopper(false)},200)}})}},_destroyPopperHover:function(){var a=jQuery(this.getDestElement());a.unbind("mouseenter").unbind("mouseleave");a.removeProp("hoverIntent_t");a.removeProp("hoverIntent_s")},_overPopper:function(a){this._outTimer&&window.clearInterval(this._outTimer);if(a)this._pTimer=new Date;this._isOverPopper=a;if(!a)if(this._isOverTrigger){var b=this;window.setTimeout(function(){!b._isOverPopper&&!b._isOverTrigger&& +b._overPopper(false)},300)}else this.close()},isOpen:function(a){if(!a)a=this._activeTrigger;a=jQuery(a);var b=jQuery(this._activeTrigger),c=this.getDestElement().data("popperTriggers");a=this.options.openAtTarget||c.length>1?a&&a.length&&b&&b.length&&b[0]===a[0]:true;return this.getDestElement().data("isOpen")&&a?true:false},_setParentsZIndex:function(a){if(jQuery.browser.msie&&parseInt(jQuery.browser.version,10)<=7){var b=this.getDestElement().parents(),c=0;if(b.length>1){b.each(function(e){if(jQuery(this).css("position")=== +"relative"){c=e===0?0:e+1;return false}});b=b.eq(c);var d=b.css("position");b.data("orgPosition")||b.data("orgPosition",d);if(d==="static"||d==="relative"){d=a===1?b.data("orgPosition"):"relative";b.css({position:d,"z-index":a})}}}},addTriggerAria:function(a){var b=a;if(!a){b=this.element;if((a=this.options.multipleHandlesSelector)&&a.length>0)b=b.add(a)}b.attr("role","button").attr("aria-expanded",false).attr("aria-haspopup",true)},_destroyTriggerAria:function(){var a=this.element,b=this.options.multipleHandlesSelector; +if(b&&b.length>0)a=a.add(b);a.removeAttr("role aria-expanded aria-haspopup")},_addDestAria:function(){this.getDestElement().attr("aria-live","assertive").attr("aria-hidden",true).addClass("ui-helper-reset")},_destroyDestAria:function(){this.getDestElement().removeAttr("aria-live aria-hidden").removeClass("ui-helper-reset")},_setAriaState:function(a,b,c){b=b?b:this.element;c=c?c:this.getDestElement();b.attr("aria-expanded",a);c.attr("aria-hidden",!a)}});jQuery.ui.ncbipopper.openGroups={}; +jQuery.ui.ncbipopper.globalEvents={isGlobalEscapeRegistered:false,isGlobalClickRegistered:false,isGlobalResizeRegistered:false};
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Blast output page example_files/main.css Tue May 06 17:05:58 2014 +0200 @@ -0,0 +1,337 @@ +/* +LEGAL +===== +Copyright: Daemon Pty Limited 1995-2006, http://www.daemon.com.au & http://www.mollio.org/ +License: Released Under the "Common Public License 1.0", http://www.opensource.org/licenses/cpl.php +Version: 010306 +*/ +body {padding: 0 0 10px;background: #fff url("images/body_bg-ncbi.gif") repeat-x 0 100%;color:#333;font:83%/1.5 arial,tahoma,verdana,sans-serif;} +body { margin: 0; padding: 0; } +/* LINKS */ +a,a:link,a:link,a:link,a:hover {text-decoration:underline;cursor:pointer} +a:link {color:#369} +/* Original: a:visited {color:#999} */ +a:visited {color:#664E99;} +a:hover,a:active {color:#069} +/* FORMS */ +form {margin: 0 0 1.5em} +input {font-family: arial,tahoma,verdana,sans-serif;margin: 2px 0 0} +label {display:block;padding: 5px 0} +label br {clear:left} +#desc {font-weight: bold;margin-bottom: 5px;} +#desc a {font-weight: normal;} +#logolink, #logolink img {float: left;border: 0;margin: 0;} + +/* TYPOGRAPHY */ +p, ul, ol {margin: 0 0 1.5em} +/* Original: h1, h2, h3, h4, h5, h6 {letter-spacing: -1px;font-family: arial,verdana,sans-serif;margin: 1.2em 0 .3em;color:#000;border-bottom: 1px solid #eee;padding-bottom: .1em}*/ +h1, h2, h3, h4, h5, h6 { letter-spacing: -1px;font-family: arial,verdana,sans-serif;margin: 1.2em 0 .3em;color:#2A6979;border-bottom: 1px solid #ccc;padding-bottom: .1em} +h1 {font-size: 196%;margin-top:.6em} +h2 {font-size: 136%} +h3 {font-size: 126%} +h4 {font-size: 116%} +h5 {font-size: 106%} +h6 {font-size: 96%} +.highlight {color:#4E8999; padding: 3px; border: solid 1px #ccc;} +.featured { background-color: #ffc; padding: 0.25em 0.5em;margin:0; } +.subdued {color:#999} + +small {font-size:11px} + +/* LISTS */ +ul {margin: .3em 0 1.5em 0;list-style-type:none} +ul.related {margin-top: -1em} +ol {margin: .5em .5em 1.5em} +ol li {margin-left: 1.4em;padding-left: 0;background: none; list-style-type: decimal} +.section li {line-height: 1.4em;padding-left: 25px;background: transparent url("images/sprites-ncbi.gif") no-repeat 0 0}*/ +li.doc {background-position: 3px -500px} +ul.nomarker li {background:none;padding-left:0} +dl {margin: 0 0 1em 0} +dt {font-weight:bold;margin-top: 1.3em} +dl dl {margin: 0 0 1.5em 30px} + +/* GENERAL */ +/*img {border:none} */ +hr {margin: 1em 0;background:#f2f2f2;height:1px;color:#f2f2f2;border:none;clear:both} +.clear {clear:both;position:relative;font-size:0px;height:0px;line-height:0px} +/* LAYOUT - HEADER */ +#header {background: #204174 url("images/sprites-ncbi.gif") repeat-x 0 100%;margin: 0 0 3px;padding: 0 0 8px;white-space:nowrap;} +#header #site-name {font: 120% arial;letter-spacing: -.05em;margin: 0 ;padding:3px 0; color:#ffffff;font-weight: bold;} +#header #site-name h1 {font-style: italic; letter-spacing: 0; color: #68a; margin:0 0 0 5em; position: relative; left: 200px;font-size:85%;border:none;padding-bottom:0;display:inline;} +#header {min-width:770px;position:relative;} +/* NAV - top horizontal nav */ +#nav, #nav ul {padding: 0;margin: 0;list-style: none} +#nav {font-weight:bold;height:2.09em;font: bold 95% arial;margin: 0 105px 0 40px; width: 430px;} +#nav li {background: #999;float: left;width: auto;display:block;margin: 0;border-bottom: 3px solid #666;border-right: 3px solid #252525;padding:0} +#nav a, #nav a:link, #nav a:visited, #nav a:hover, #nav a:active {text-decoration:none;cursor:pointer;color:#fff;display: block;padding: 4px 10px 2px} +#nav a:hover {color:#000} +#nav li ul {border-left: 1px solid #ccc;background: #eee;width:22.8em;font-size:90%;margin-top:3px;position: absolute;font-weight:normal;left: -999em} +#nav li:hover ul, #nav li.sfhover ul {left: 0;z-index:99999;} +#nav li li {background:none;float:none;border:none;border: 1px solid #999;border-top:1px solid #fff;border-right:solid 1px #ccc;border-left:none;padding-left:0} +#nav li li.last {border-bottom:solid 1px #ccc;} +#nav li li a, #nav li li a:link, #nav li li a:visited, #nav li li a:hover {color:#000;padding: 3px 10px 2px;width:21em} +#nav li li a:hover {color:#fff;background:#4E8999} +#nav li.active {background: #4E8999;border-bottom: 3px solid #4E8999} +#nav li.active a:link, #nav li.active a:visited, #nav li.active a:hover, #nav li.active a:active {} +#nav li.active a:hover {color:#000} +#nav li.active li {border:none;border-top: 1px solid #ccc;border-bottom: 1px solid #ccc;} +#nav li.active li {border: solid 1px #ccc;border-right: solid 1px #4E8999;border-left: solid 1px #4E8999;} +#nav li.active li.last {border-bottom: solid 1px #4E8999;} +#nav li.active li a:link, #nav li.active li a:visited, #nav li.active li a:hover, #nav li.active li a:active {color:#000} +#nav li.active li a:hover {background: #666 url("images/sprites-ncbi.gif") repeat-x 0 99%;color:#fff; filter:progid:DXImageTransform.Microsoft.AlphaImageLoader (src='images/sprites-ncbi.gif', sizingMethod='crop');} +#nav li.active li.active a:link, #nav li.active li.active a:visited, #nav li.active li.active a:hover, #nav li.active li.active a:active {color:#fff;font-weight:bold;background: #666 url("images/sprites-ncbi.gif") repeat-x 0 99%; filter:progid:DXImageTransform.Microsoft.AlphaImageLoader (src='images/sprites-ncbi.gif', sizingMethod='crop');} + +/* hide from IE mac \*/ +#nav li {width:auto} +/* end hiding from IE5 mac */ + +/* SEARCH */ +#search {color:#fff;font-weight:bold;position:absolute;top:10px;right:4em} +#search form {margin:0} +#search input {width:8em;margin: 0 0 -1px;height:1.2em} +#search label {padding:5px 0 0;display:inline} +#search input.f-submit {width:auto;font-size:81%;margin:0 0 -.15em;height:1.95em} +#content {margin: 0;} +#type-d #content {margin: 0 0 0 40px;} +#breadcrumb {margin-top:-5px;font-size:93%;font-weight:bold; margin-left: 1em; margin-bottom: 0; padding: 0 6px 0 12px;; background: url("images/right-arrow.gif") no-repeat center left;display:inline;} +#breadcrumb strong{font-weight:bold;} +#breadcrumb a:link, #breadcrumb a:visited {text-decoration:none} +#breadcrumb a:hover, #breadcrumb a:active {text-decoration:underline} +/* CODE - formatting for code inserted into body - more here: http://dizque.lacalabaza.net/temp/lipt/ */ +ol.code {font-family: monospace;position:relative} +ol.code li {color: #666;margin-bottom: 1px} +ol.code code {color: #000;display: block} +ol.code .cmt {color: #4077d2} +li.tab0 code {padding-left: 4em} +li.tab1 code {padding-left: 8em} +li.tab2 code {padding-left: 12em} +li.tab3 code {padding-left: 16em} +li.tab4 code {padding-left: 20em} +li.tab5 code {padding-left: 24em} +ol.code li {background: #f3f3f3} +p.note {margin: 1em;border: 1px solid #ddd;background: #f0f0f0;padding: 1em} + +/* LAYOUT TYPE A */ +#type-a #content-wrap { width: 100%; margin: 0; padding: 0; white-space:nowrap;margin-top:-0.3em;} +#type-a #content { margin: 0 40px; } +/* LAYOUT - FOOTER */ +#footer p {margin:0; padding: 0;padding-bottom:1.5em;} + +#footer a:link {color:#999} +#footer {clear:both;border-top: 1px solid #E3E8EE;padding: 4px 10px 0 10px;font-size:86%;color:#999; margin: 0;} +#breadcrumb a.help {margin-left: 1em;font-weight:normal;text-decoration: underline;} +div#search {border: solid 1px #aaa;} +div#search td{padding: 1px;} +/* Mozilla-only rule */ +html > body div#search td{padding: 2px;font-weight: bold;font-size: 80%;} +div#search {background-color: white;position: absolute;right: 4px;top: 4px;color: #369; /* new rule: text by default is white */} +#jtitle{margin-left:1em;} +.hidden {display: none;} +.shown {display: block;} +a#moreHelp {font-weight:bold;text-decoration:underline;font-size:80%;padding-left:5px;background:none;} +/* These next two rules replace the text of <a class="helplink"><span>[?]</span></a> + * with a 16x16 help link image with transparent background + */ +.helpbox, .resBox {font-size: 95%;color: #666;border: solid 1px #ccc;background-color: #def;margin-left: 1em;padding: 0.5em;margin-bottom: 0.5em;zoom:1;} +.help, .helpbox, .resBox {font-size: 95%;color: #666;white-space:normal;} +.helplink {padding-left: 16px;background:transparent url(images/help.gif) center left no-repeat;list-style: none;} +.helplink span {visibility: hidden;} +a.helplink {text-decoration: none;} +.helpbox a {background:none;text-decoration:underline;font-size:90%;} +a.arrowlink:hover {text-decoration: underline;} +a.arrowlink{ + padding-left: 16px; + background-image: url(images/right.gif); + background-repeat: no-repeat; + background-position: center left; + -moz-outline-style: none; + text-decoration: none; + text-decoration: underline; +} + +#orgns {float: right;} + +ul.msg, ul.msg li { +padding:0; +text-indent:0; +margin: 0; +} + +ul.msg { +margin-top: 1em; +} + +ul.msg li { +margin-bottom: 3px; +display: none; +font-weight: bold; +background: transparent url(images/gradient30down.png) repeat-x top left; +} +/* IE6 doesn't have alpha transparency, so hack it out */ +* html ul.msg li { +background-image: none; +} + +ul.msg li p, ul.msg li div.msInf { +padding: 3px; +padding-left: 28px; +margin:0; +white-space:normal; +} + +ul.msg li a.small { +font-weight: normal; +font-size: 90%; +} + +ul.msg li.error { +background-color: #fbb; +border: solid 1px #c00; +color: #c00; +} + +ul.msg li.error p, ul.msg li.error div.msInf{ +background: transparent url(images/error.png) no-repeat 6px center; +} + +ul.msg li.warning { +background-color: #ffc; +border: solid 1px #cc0; +color: #444; +} + +ul.msg li.warning p, ul.msg li.warning div.msInf { +background: transparent url(images/warn.png) no-repeat 6px center; +} + +ul.msg li.success { +background-color: #dfd; +border: solid 1px #0d0; +color: #060; +} + +ul.msg li.success p,ul.msg li.success div.msInf { +background: transparent url(images/ok.png) no-repeat 6px center; +} + +ul.msg li.info { +background-color: #ace; +color: #444; +border: solid 1px #369; +padding: 1px; +} + +ul.msg li.info p,ul.msg li.info div.msInf { +background: transparent url(images/info.png) no-repeat 6px center; +} + +ul.msg li.warning,ul.msg li.error,ul.msg li.success,ul.msg li.info +{ + display:block; +} +ul.msg li p +{ + display:block; +} + +ul.msg li.error p.warning { +background: transparent url(images/warn.png) no-repeat 6px center; +} + +ul.msg li .helpbox +{ + font-weight:normal; + margin-left:0; +} + +a.errorHelp +{ +/*float:right; +margin-right:2em; +margin-top:-2em;*/ +margin-left:0.5em; +} + +.msInf a.shown +{ + display:inline; +} + +#tryNew +{ + color:Red; +} +.orgHint +{ + color:#AAAAAA; +} + + +span.acPromt,.skp +{ + position:absolute; + left:-9999px; +} + + + +#rgs +{ + margin-left:35em; + white-space:nowrap; +} + +#trdm +{ + vertical-align:super; + font-size:small; +} + +.print-log-res { position:absolute;left:-10000px;top:auto;width:1px;height:1px;overflow:hidden; } +.print-log-res li { list-style-image: none; } + +/* jig toggler adjustments */ +#content .ui-ncbitoggler.ui-widget, #content a.ui-ncbitoggler-open, #content a.ui-ncbitoggler-slave-open +{ + font-size:100%; +} + +.helplink.ui-widget +{ + display:inline; +} + + +#content a.ui-ncbitoggler.ui-widget, #content a.ui-ncbitoggler-open +{ +color:#336699; +} + +#moreHelp span +{ + visibility:visible; +} + + +#content #moreHelp.ui-ncbitoggler, #content #moreHelp.ui-ncbitoggler-open +{ + font-size:80%; +} + +#content .ui-ncbitoggler-slave-open +{ + line-height:1.4em; +} + +div.ui-ncbiautocomplete-holder { + font-size: 80%; +} +ul.ui-ncbiautocomplete-options li span{ color: red;} +.ytb,.section a.ytb +{ + margin-bottom:-5px; + background: url("/core/assets/guide/images/YouTube.png") no-repeat scroll left center transparent !important; + height:22px; + padding-left:55px; + font-weight:normal; +} \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Blast output page example_files/plinkcgi.html Tue May 06 17:05:58 2014 +0200 @@ -0,0 +1,11 @@ +<html xmlns:xs="http://www.w3.org/2001/XMLSchema"><head> +<meta http-equiv="content-type" content="text/html; charset=UTF-8"> + </head><body> + <p class="featured" id="prlink"> + <a href="http://www.ncbi.nlm.nih.gov/projects/primer-blast/index.cgi?LINK_LOC=BlastDescAd" target="pr_win"> + <img src="plinkcgi_data/primerAd.png" alt="New" border="0"> + </a> + </p> + + +</body></html> \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Blast output page example_files/plinkcgi_002.html Tue May 06 17:05:58 2014 +0200 @@ -0,0 +1,11 @@ +<html xmlns:xs="http://www.w3.org/2001/XMLSchema"><head> +<meta http-equiv="content-type" content="text/html; charset=UTF-8"> + </head><body> + <p class="featured" id="prlink"> + <a href="http://www.ncbi.nlm.nih.gov/projects/primer-blast/index.cgi?LINK_LOC=BlastAlnAd" target="pr_win"> + <img src="plinkcgi_data/primerAd.png" alt="New" border="0"> + </a> + </p> + + +</body></html> \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Blast output page example_files/print.css Tue May 06 17:05:58 2014 +0200 @@ -0,0 +1,305 @@ +/* +LEGAL +===== +Copyright: Daemon Pty Limited 1995-2006, http://www.daemon.com.au & http://www.mollio.org/ +License: Released Under the "Common Public License 1.0", http://www.opensource.org/licenses/cpl.php +Version: 010306 +*/ + + +body {font: 10pt arial,tahoma,verdana,sans-serif} +h1, h2, h3, h4, h5, h6 {margin: 1em 0 .2em;font-family: arial,tahoma,verdana,sans-serif} + +* {float:none;position:static;background:#fff} +p {margin: 0 0 1em} +dt {font-weight:bold} + +#nav, #search, #nav-secondary, #poweredby {display:none} + +/* =LINKS */ +a {border:none} +a,a:link,a:link,a:link,a:hover {background:transparent;text-decoration:underline;cursor:pointer} +a:link {color:#5291c4} +a:visited {color:#666} +a:hover {color:#ff9900;border:none} +a:active {color:#0066cc} + +.teaserBox {clear:both;margin: 0 0 1em} + +.sponsors img {margin: .5em 0} + +#footer {margin: 1em 0} + +#jtitle { +border-bottom:2px solid black; +margin-top:0.25em;; +margin-left:-1.5em;; +margin-bottom: 2em;; +font-size: 110%;; +padding-bottoM:0.5em;; +} + +/* TABLES */ +table {font-size: 9pt;margin: 0 0 1em;border-collapse:collapse;} + + table th {border-bottom: 3px solid #000;vertical-align:top;padding: 1.5em 3px 3px;line-height:1.1;font: bold 145% arial;letter-spacing:0;text-align:left} + .table1 th.time {border-bottom: none;font: bold 89% verdana;color:#ff9c00;vertical-align:top;padding: 3px} + .table1 td {border: 1px solid #ddd;font-size: 9pt;padding: 3px;vertical-align:top} + .table1 td a {display:block;width:auto;font-weight:bold} + .table1 td a:link, .table1 td a:visited, .table1 td a:hover, .table1 td a:active {border:none;text-decoration:none} + .table1 th.sub {background: #aaa} + .table1 th.sub2 {background: #bbb;color:#000} + .table1 td ul li {background: #fff} + + +#logolink img { +display: none; +} + +#site-name { +font-size: 140%; +font-weight: bold; +padding: 3px; +text-align:center; +} + +div.resHeader { +display: none; +} + +#content-wrap { +margin : 0 0.25in; +} + +#blHeader pre, #query pre { +white-space: normal; +} + +#blHeader pre p { +display: none; /* Get rid of pointer to BLAST FAQs */ +} + +#graphic input { +display: none; +} + +#descs td { vertical-align: top; } +td.lim { white-space: normal; padding-bottom: 0.5em;} +#descs td { vertical-align: top; border-bottom: solid 1px #888; border-collapse: collapse; padding-top: 0;} + +#descs a { +text-decoration: none; +color: black; +padding: 0; +margin: 0; +} + +#descs th { +font-size: 110%; +} + +#graphic table { +margin: 0; +} + +input { +display: none; +} + +#graphic h3 a { +border-bottom:2px solid black; +color:black; +display:block; +margin-bottom:2em; +margin-top:3em; +text-align:left; +text-decoration:none; +margin-left: -1.5em; +} + + +#graphic {page-break-after: always; } + +td.l a { padding: 0; margin-right: 1em !important; font-weight:bold;} +#descs td {color: black;} + +/* Get rid of stupid long headers */ +#desctbl { margin-top: 1em; border-top: solid 1px #ccc; page-break-after: always;} +#desctbl table thead { display: none; margin-top: 1em;} +#desctbl table tr td { width: 4em; } +#desctbl table td.lim { width: 40em; } + +#alignments { line-height: 0.9em; } +#alignments center b { + display: block; z-index: 100; position: relative; +} +#alignments center b font { color: black; display: block; text-align: left; font-size: 120%; padding: 0 0 3px; border-bottom: solid 2px #444; margin-left: -1.5em; } + +div#alignments.blRes a { text-decoration: none; color: black; font-weight: bold; } + +#footer { +display: none; +} + +h1 +{ +font-size:120%; +font-weight:bold; +} +#FormatForm,#FormatDownload,#showDetails,#queryHelp,#dbDetails,.reslink +{ + display:none; +} +#multipleSeqs,#queryInfo,.skp,.resLink,.seqlinks,.msg +{ + display:none; +} + +#dbDetails,#refInfo,#seealso,#resStat,#showRefs,dd.hidden +{ + display:none; +} +/* +#querysummary dl +{ + line-height:1.4em; +} + +#querysummary dd +{ + margin-left:20%; + margin-top:-1.2em; +} + +#querysummary dd a +{ + display:none; +} +*/ + +#summary { +font-size:1.2em; +} +#summary { +margin-top:0pt; +padding-bottom:1em; +padding-top:0.5em; +font-family:Verdana,Arial,Sans-Serif; +font-size:90%; + +} +#summarylists { +margin:1em 0pt 0pt; +overflow:hidden; +} +#querysummary { +float:left; +padding:0pt; +width:49%; +} + +#dbsummary { +margin-left:51%; +padding:0pt; +} +#summary dl { +margin:0pt 0pt 0.5em; +padding:0pt; +} +#summary dt, #summary dd { +line-height:1.4em; +} +#summary dt { +float:left; +font-weight:bold; +text-align:right; +width:10em; +margin-top:0; +} +#summary dd { +margin-left:11em; +white-space:normal !important; +} +#summary h3 { +color:#444444; +font-style:italic; +margin-bottom:-0.5em; +margin-top:0pt; +text-align:center; +} +#ht,#graphic,#cddDesc +{ + text-align:center; +} + +#ht +{ + font-weight:bold; +} + +#graphic h3 a,#ovrInfo,#showCDD,.psiInp,.defln caption,#grView.hidden,#RSIFrameDesc +{ + display:none; +} + + +#grView.hidden.shown +{ + display:block; +} + +.print-log-res { position:absolute;left:-10000px;top:auto;width:1px;height:1px;overflow:hidden; } +.print-log-res li { list-style-image: url("images/img_blast_results_gif"); } + +#SwitchDesign,#ytb,.fdb,#debug,.moreHsps,.shcl,#cntDesc,#descTblCtrl,.hdnHeader,td.c0,th.c0,.alnMsgS,.alnHdr,.relInf +{ + display:none; +} + +h3.cap,#RSIFrameAln,.alnRn span, div.hsp .alnParLinks,.ui-ncbiautocomplete-link-pref,.ui-ncbiautocomplete-link-off +{ + display:none; +} + +.alnAll +{ + margin-top:0.5emem; +} +.dlfRow +{ + line-height:1.5em; +} + +span.r label +{ + margin-left:0.5em; +} +td.l a.deflnDesc +{ + font-weight:normal; + text-decoration:none; + color:inherit; +} + +table.alnParams +{ + width:50em; +} +table.alnParams th +{ + font-size:100%; +} + +table.alnParams td +{ + font-size:110%; + padding-top:0.5em; +} + +.oneSeqAln +{ + border-top:1px solid gery; + margin-top:1em; + padding-top:1em; + width:60em; +}
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Blast output page example_files/remote_data_provider.js Tue May 06 17:05:58 2014 +0200 @@ -0,0 +1,79 @@ +//========================================================================================================= +function RemoteDataProvider(sUrl) { + this.iActiveRequests = 0; + this.sUrl = sUrl; +} + +//------------------------------------------------------------------------------------------------------------- +RemoteDataProvider.prototype.GetHttpObj = function() { + var oHttpObj = null; + try { + oHttpObj = new ActiveXObject("Msxml2.XMLHTTP"); + } catch(e) { + try { + oHttpObj = new ActiveXObject("Microsoft.XMLHTTP") + } catch(oc) { + oHttpObj = null; + } + } + if (!oHttpObj && typeof XMLHttpRequest != "undefined") { + oHttpObj = new XMLHttpRequest(); + } + return oHttpObj; +} + +//------------------------------------------------------------------------------------------------------------- +RemoteDataProvider.prototype.Request = function(sRequest, method) { + var oHttpObj = this.GetHttpObj(); + if (null == oHttpObj) return; + + method = (!method) ? "GET" : "POST"; + var sURL = (method == "GET") ? this.sUrl + "?" + sRequest : this.sUrl; //alert(sURL); + this.iActiveRequests++; + var oThis = this; + oHttpObj.onreadystatechange = function () { + if (oHttpObj.readyState == 4 && oHttpObj.status == 200) { + oThis.onSuccess(oHttpObj); + oThis.iActiveRequests--; + oThis.onStop(); + } else if(oHttpObj.readyState == 4 && oHttpObj.status != 200) { + oThis.onError(oHttpObj); + oThis.iActiveRequests--; + oThis.onStop(); + } + }; + + if (oHttpObj.readyState != 0) oHttpObj.abort(); + this.onStart(); + oHttpObj.open(method, sURL, true); +// oHttpObj.setRequestHeader('Cache-Control', 'no-cache'); + var params = (method == "GET") ? null : sRequest; + if (params) { + oHttpObj.setRequestHeader("Content-type", "application/x-www-form-urlencoded"); + oHttpObj.setRequestHeader("Content-length", params.length); + oHttpObj.setRequestHeader("Connection", "close"); + } + oHttpObj.send(params); +} + +//------------------------------------------------------------------------------------------------------------- +RemoteDataProvider.prototype.onSuccess = function(obj) { + alert(["success:", this.iActiveRequests, obj.responseText]); +} + +//------------------------------------------------------------------------------------------------------------- +RemoteDataProvider.prototype.onStart = function() { +// alert(["start:", this.iActiveRequests]); +} + +//------------------------------------------------------------------------------------------------------------- +RemoteDataProvider.prototype.onStop = function() { +// alert(["start:", this.iActiveRequests]); +} + +//------------------------------------------------------------------------------------------------------------- +RemoteDataProvider.prototype.onError = function(obj) { + //alert(["error:", this.iActiveRequests, obj.status]); +} + +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Blast output page example_files/results.css Tue May 06 17:05:58 2014 +0200 @@ -0,0 +1,1224 @@ +#summary { +font-size:1.2em; +} +#summary { +margin-top:0pt; +padding-bottom:1em; +padding-top:0.5em; +font-family:Verdana,Arial,Sans-Serif; +font-size:90%; + +} +#summarylists { +margin:1em 0pt 0pt; +overflow:hidden; +} +#seealso { +margin-left:2em; +} +#querysummary { +float:left; +padding:0pt; +width:49%; +} +#dbsummary { +margin-left:51%; +padding:0pt; +} +#summary dl { +margin:0pt 0pt 0.5em; +padding:0pt; +} +#summary dt, #summary dd { +line-height:1.4em; +} +#summary dt { +float:left; +font-weight:bold; +text-align:right; +width:10em; +margin-top:0; +} +#summary dd { +margin-left:11em; +white-space:normal !important; +overflow:hidden; +} +#summary h3 { +color:#444444; +font-style:italic; +margin-bottom:-0.5em; +margin-top:0pt; +text-align:center; +} + +#multipleSeqs { +font-weight: bold; +} +#multipleSeqs a { +font-size:80%; +font-weight:normal; +} +#breadcrumb { +background:transparent url(images/right-arrow.gif) no-repeat scroll left center; +font-size:93%; +font-weight:bold; +margin-top:-5px; +padding:0pt 6px 0pt 12px; +} +#breadcrumb a { +color:#336699; +} + +#jobTitle +{ +color:#669; +/*color:#2A6980;*/ +font-weight:bold; +margin-bottom:-0.5em; +} + +#type-a #content-wrap {white-space:normal; padding-bottom:2em;} + +#statInfo +{ + font-size:100%; +} + + +#resMsg +{ +background-color:#FFFFCC; +font-size:110%; +/*margin-top:4em; +padding-left:0.5em;*/ +text-align:center; +} + +#seealso label +{ + display:inline; +} + +#seealso a +{ + padding: 0,4px; +} + +a.shown +{ + display:inline; +} + + +table.dbInfo +{ + width:50%; + border:solid 1px gray; + font-size:100%; + border-collapse:collapse; + margin-top:1em; +} +table.dbInfo td, +table.dbInfo caption +{ + border:solid 1px gray; + padding: 1px 4px; +} +table.dbInfo caption { + background-color:#acf; + text-align:center; + border-bottom:none; + margin-bottom:-0.2em; + font-weight:bold; + margin-top:1em; +} +#resStat, #dbDetails +{ + padding-left:25%; +} + +table.dbInfo td +{ + text-align:left; +} + +table.dbInfo th { +visibility:hidden; +/*padding:0;*/ +} + + +table.dbInfo th div { +height:0; +} + +table#Kappa pre +{ + font-size:120%; +} + + +/****** Mark new rules ************/ +/* override main.css rules */ +#type-a #content { +margin: 0 2em; +} + +#type-a h1 { +font-size: 150%; +margin-bottom: 1em; +border-top: solid 1px #ccc; +} + +#type-a h2 { +font-size: 125%; +color: #666; +} + +#type-a h3 { +border: none; +font-size: 110%; +} +#graphic { +text-align: center; +margin: auto; +} + +#multipleSeqs label { +width: 9em; +height: 1em; +text-align: right; +margin-right: 0; +padding: 0 1em; +float: left; +} +#multipleSeqs select { +margin-right: 1em; +font-size: 95%; +} +#multipleSeqs input { +font-size: 95%; +margin-top: -0.25em; +margin-right: 1em; +} +label.other { +font-size: 110%; +font-weight: bold; +} +form#results +{ + display:none; +} + +#hdLink +{ + margin-top:-1.2em; + float:right; +} + +#hdTitle +{ + margin-left:5em; +} +.shownInl +{ + display:inline; +} + +#psiHd +{ + margin-top:1em; +} + +#phiInfo +{ + text-align:center; + color:Green; + font-size:110%; + margin-top:1em; +} +#ht +{ +font-weight:bold; +margin-bottom:-0.9em; +margin-top:0.2em; +text-align:center; +} + +.psiThresh +{ + text-align:center; + color:Green; + font-weight:bold; +} + +#psiThreshA span.shown,#psiThreshB span.shown +{ + display:inline; +} + +a.resArr +{ + color:#666; + font-size:120%; + font-weight:bold; +} + +a.arrowlink.showing +{ + background-image: url(images/down.gif); +} + +#graphic table +{ + background-color:White; +} + +#type-a #content +{ + background-color:#D3DFF5; + border:1px solid #888888; + padding:0 0.5em; + zoom:1; +} + +.resBox +{ + background-color:#eee; + margin-right:1em; + color:#222; + zoom:1; +} + +.resBox1 +{ + background-color:white; +} + +#tryNew,.hl +{ + color:Red; +} + +/*#tryNew +{ + margin-right:20em; +}*/ + + +div#vecSrceen { +margin-bottom:0pt; +margin-left:17%; +margin-top:0pt; +padding-left:2em; +white-space:pre; +width:64%; +zoom:1; +} + +.psiInp +{ + white-space:normal; + margin-bottom:1.5em; +} + +.seqlinks label +{ + display:inline; +} + +.seqlinks input +{ + margin-left:1em; +} +.seqlinks a.ln +{ + margin-left:2em; +} + +.seqlinks a.lnt +{ + margin-left:0.5em; +} + +form.getseq +{ + margin:0; +} + +#queryList option.nohits +{ + color:Gray; +} + +#queryList +{ + float:left; +} + +p#qb +{ + margin-top:0; + margin-bottom:0; +} + +#dn +{ + margin-left:5em; +} + +#dnf +{ + font-size:80%; +} + +/*#FormatForm +{ + margin-left:2em; +}*/ +table.options +{ + width:80%; + margin-top:0.5em; + margin-left:10%; + border-collapse:collapse; + max-width:70em; +} + +form.resbox label +{ + display:inline; +} + +#onPageReformat +{ + position:absolute; + right:0.5em; + border:none; + padding-bottom:1px; + bottom:0.1em; +} + +table.dwnl +{ + width:60%; + margin-left:20%; + height:3em; +} +table.dwnl td +{ + padding-right:0.5em; +} +/* +a#showStat +{ + margin-left:-0.4em; +} +*/ +a.resArrowLinkB:hover,a.resArrowLinkW:hover {text-decoration: underline;} +a.resArrowLinkB,a.resArrowLinkW{ + padding-left: 12px; + background-image: url(images/rightSmallArrow.gif); + background-repeat: no-repeat; + background-position: center left; + -moz-outline-style: none; + text-decoration: none; + text-decoration: underline; +} +a.resArrowLinkB.showing +{ + background-image: url(images/downSmallArrow.gif); +} + +a.resArrowLinkW{ + background-image: url(images/rightSmallWArrow.gif); +} + +a.resArrowLinkW.showing +{ + background-image: url(images/downSmallWArrow.gif); +} +td.dnl +{ + border-left:solid 1px gray; +} +.dnLinks a +{ + margin-left:1em; +} + +.dnLinks +{ + text-align:center; +} +#tdal +{ + width:30em; +} + +.dnHeader +{ + font-size:100%; + font-weight:bold; + text-align:center; +} +#dnHelp +{ + display:inline; + position:relative; + padding-left:0; +} + +table td.frh +{ + background-color:#E0E0E0; + color:Gray; + text-align:center; +} + +#type-a h3.tb,#type-a div.tb +{ + display:inline; + color:Gray; + letter-spacing:normal; + font-size:120%; + font-weight:bold; +} + +#content a.resLink +{ + display:inline; +} + +#content a.resLink.hide +{ + display:none; +} + +ul.msg li p.info { +background: transparent url(images/info.png) no-repeat 6px center; +} + +.blRes +{ + background-color:White; + border:solid 1px #CCCCCC; + padding: 1em; + margin:1em; + /*font-size:110%;*/ + zoom:1; +} +/* Check this for many results */ +div#content +{ + min-width:80em; +} +#hitmtImg +{ + + padding:1em; + border:solid 2px gray; + padding-bottom:2em; +} +#qgr +{ + margin-top:-1.8em; + /*writing-mode:tb-rl;*/ +} +#htmb +{ + margin-top:-2em; + margin-left:11em; + border:solid 1px gray; +} + +#hitMatrixView +{ + margin-top:1em; +} + +#hitMatrixInfo +{ + text-align:center; +} + +#bl2ovrInfo +{ + text-align:left; +} + +.newMln +{ + height:12px; + margin-left:-0.5em; +} + +/***** New staff neew to remove all table#descs from blastRes.css, a.resArr, .psiThresh after formatter upadte *******/ + +h2.resArr a +{ + color:#666; + font-size:105%; + font-weight:bold; + font-family:arial,tahoma,verdana,sans-serif; + white-space:nowrap; +} + +h2.resArr +{ + border-bottom:none; + letter-spacing:normal; + margin:0; + padding:0; + width:15%; +} + +.psiThresh h3 +{ + text-align:center; + color:Green; + font-weight:bold; +} + +/*#alignments +{ + font-size:115%; + font-family:Monospace; + white-space:pre; + line-height:1; +} +*/ +table.defln +{ +font-family: Verdana, Sans-Serif; +font-size: 80%; +_font-size: 86%; +border-collapse: collapse; +width: 100%; +border-bottom:1px solid #018AAC; +} + +table.defln caption +{ +font-weight:bold; +text-align:left; +} + +table.hideCap caption +{ +visibility:hidden; +height:0; +font-size:1%; +} + +table.defln th a { +/*text-decoration: none;*/ +color: #00c; +} + +table.defln th a:visited { +color: #00c; +} + +table.defln th a:hover {position: relative; +text-decoration: underline; +} + +table.defln tr th.l, +table.defln tr td.l { +text-align: left; +} + +table.defln tr th.sp { +background-color: #def; +} + +table.defln tr th, +table.defln tr td { +text-align: center; +padding: 1px 4px; +} + +table.defln tr.first th { +padding-left:18px; +border-left: solid 1px #A0ceff; +border-top: solid 1px #A0ceff; +border-bottom: solid 1px #018aac; +border-right: solid 1px #018aac; +border-top: 1px solid #018AAC; +padding-right: 8px; +padding-bottom: 3px; +background-color: #9cf; +white-space:normal; +line-height: 1.2em +} + + +table.defln td { +border: solid 1px #ccc; +border-width: 0px 1px; +white-space:nowrap; +overflow: hidden; +} + +table.defln tr.first th.sel { +background: #9cf url(images/up.gif) no-repeat center left; +padding-left: 18px; +padding-right: 18px; +} + +table.defln tr:hover { +/*background-color: #def;*/ +} + +/* accessebility styles */ +table.defln.noCaption caption +{ + display:none; +} + + +/* accessebility styles */ +.hdnHeader { +/*visibility:hidden;*/ +font-size:0; +height:0; +} + +div.chs +{ + margin-bottom: -1em; +} + +.psiInp label +{ + display:inline; +} + +h3.tgl +{ + letter-spacing:normal; + margin:0; +} +h3.tgl a +{ + font-size:80%; + color:#222222; + font-family:Verdana,Sans-Serif; +} +div.tgl +{ + margin-top:0; + background-color:White; + border:none; +} +div.tgl table.defln a +{ + font-size:100%; +} + +/************ new alignment styles ************/ + +.sumN, .aln_frame +{ + display: none; +} + +table.alnParams +{ + border:solid 1px #a0a0a0; + border-collapse:collapse; + font-family:Verdana,Arial,Sans-Serif; + font-size:87%; + width:60%; + margin-bottom:1em; +} + +table.alnParams th +{ + background-color:#e8e8e8; + color:#606060; + border:solid 1px #a0a0a0; + padding: 1px 4px; + font-size:86%; +} + +table.alnParams td +{ + border:solid 1px #a0a0a0; + padding: 1px 4px; + white-space:nowrap; +} + + +.aln_feat.hidden +{ +width:0; +padding:0; +} + +a.sortAlnArrowLinkB +{ + padding-left: 12px; + background-image: url(images/downSmallArrow.gif); + background-repeat: no-repeat; + background-position: center left; +} + +a.sortAlnArrowLinkW +{ + padding-left: 12px; + background-image: url(images/downSmallWArrow.gif); + background-repeat: no-repeat; + background-position: center left; +} + +.seqlinks span +{ + margin-left:1em; +} + +.alnSortSeq +{ + margin-bottom:2em; + display:inline; +} + +.alnSortSeq a +{ + font-size:90%; +} +table.alnParams a +{ + display:block; + padding:3px 3px; + font-size:90%; +} + +table.alSeqInf td +{ +vertical-align:top; +} +td.alSeq +{ +padding-left:1em; +} + +td.alSeq.alFirst +{ +white-space:nowrap; +padding-left:0; +} + +td.alTitle +{ +font-size:90%; +} + +img.imn +{ +/* width:30px; + height:15px; +*/ +} + +img.imc +{ + width:15px; + height:15px; +} +td.l img.hidden +{ + display:inline; + visibility:hidden; +} + + +.dflLnk a +{ + padding-left:1em; + font-size:110%; +} + +table.defln td.dflLnk +{ + text-align:left; + padding-bottom:0.5em; + font-size:11px; +} + +.dflLnk label +{ + font-weight:bold; + display:inline; +} +.oneSeqAln .dflLnk +{ +font-family: Verdana, Sans-Serif; +font-size: 80%; +padding-bottom:1em; +width:60%; +} + +table.alnDefln tr td.l +{ + text-align:left; +} + +table.alnDefln td +{ + /*overflow:hidden;*/ + white-space:nowrap; + vertical-align:top; +} + +table.alnDefln td.lim +{ + white-space:normal; + font-size:98%; +} + +/* check specific browser file */ +table.alnDefln div.lim +{ + width:35em; +} + +table.defln tr.dflnAln.shown +{ + display:table-row; +} + +table.alnDefln tr.shown +{ + display:table-row; +} + +.alnDflLn label +{ + font-weight:bold; + display:inline; + font-size:80%; + color:#444444; + padding-right:3px; + padding-left:3px; +} + +.alnDflLn +{ + margin-left:2em; +} + +.alnSortSeq.alnDflLn +{ + margin-left:0.5em; + float:left; + position:absolute; +} + +.alnDflLn input +{ + margin-left:1em; + border:none; +} +.alnDflLn label.hidden +{ + display:none; +} + +h3.sAlnHdr +{ + color:#444444; + display:inline; + letter-spacing:normal; +} + +h3.sAlnHdr a +{ + color:#444444; + text-decoration:none; + margin-left:2em; + font-size:85%; +} + +.alnHdr +{ + padding-top:0.1em; + padding-bottom:0.1em; +} + +.oneSeqAln +{ + padding-left:1em; + padding-top:0.2em; +} + +table.defln tr.dflnAln td +{ + text-align:left; + border:none; + background-color:White; +} + +table.defln tr.dflnAln td input.ch,table.defln tr.dflnAln td h3 +{ + display:none; +} + + +tr.dflnAln .oneSeqAln +{ + font-size:120%; +} + +tr.dflnAln .alnDflLn{ + + margin-left:0; +} + +tr.dflnAln .alnHdr +{ + padding:0; +} + +tr.dflnAln .alnHdr label +{ + font-size:90%; +} +.hil +{ +background-color: #def; +} + + +table.defln tr.odd +{ + background-color:#f8f8f8; +} + +table.defln tr.even +{ + background-color:#e8e8e8; +} +a.dflSeq +{ + color:Gray; + font-weight:bold; + text-decoration:none; + padding-left:0; + display:inline-block; + width:13em; +} +a.dflSeq.nogi +{ + color:#336699; + text-decoration:underline; +} +td.lim +{ + font-size:13px; +} + +.ldsb +{ + padding-left:1em; + color:Gray; + font-size:110%; +} + +a.spr +{ + padding-right:3px; + border-right:solid 1px; +} + + + +#hlp11 +{ + width:60%; + margin-left:22%; + margin-top:0.5em; +} + +/* jig toggler styles */ +a.resLink.ui-ncbitoggler, a.jtg.ui-ncbitoggler,a.resLink.ui-ncbitoggler-open, a.jtg.ui-ncbitoggler-open +{ +padding-left:13px; +color:#336699; +} + +a.resLink.ui-ncbitoggler,a.resLink.ui-ncbitoggler-open +{ + font-size:100%; +} + + +table.options .helplink +{ + font-size:100%; + display:inline; +} + + +span.ui-icon.ui-icon-triangle-1-e,span.ui-icon.ui-icon-triangle-1-s +{ + padding-left: 12px; + background-repeat: no-repeat; + -moz-outline-style: none; + text-decoration: underline; + /*height:18px; + width:20px; */ +} + + + +span.ui-icon.ui-icon-triangle-1-e +{ + background-image: url(images/rightSmallArrow.gif); +} + +span.ui-icon.ui-icon-triangle-1-s +{ + background-position: center left; + background-image: url(images/downSmallArrow.gif); +} + +table.dbInfo.shown +{ + display:table; +} + +#seealso a.hidden +{ + display:none; +} + +#seealso a, #seealso a.hidden.shown +{ + display:inline-block; +} + + +a.ui-ncbitoggler.hidden.shown.jtg, a.ui-ncbitoggler-open.hidden.shown.jtg +{ + display:inline; +} +/**Comment those line to display ncbi-toggler native icon - begin * +a.ui-ncbitoggler span.ui-icon-plus-minus-big, a.ui-ncbitoggler-open span.ui-icon-plus-minus-big-open +{ + padding-left: 16px; + background-image: url(images/down.gif); + background-repeat: no-repeat; + background-position: center left; + -moz-outline-style: none; + text-decoration: none; + text-decoration: underline; +} + +a.ui-ncbitoggler span.ui-icon-plus-minus-big +{ + background-image: url(images/right.gif); +} + +a.ui-ncbitoggler-open span.ui-icon-plus-minus-big-open +{ + background-image: url(images/down.gif); +} +*Comment those line to diplay ncbi-toggler native icon - end **/ + +a.ui-ncbitoggler span.ui-icon-plus-minus-big, a.ui-ncbitoggler-open span.ui-icon-plus-minus-big-open { + background-image: url("images/ncbitoggler-plus-minus-big.gif"); +} +a.helplink{display:inline} +#summary .ui-widget +{ +font-family:Verdana,Arial,Sans-Serif !important; +font-size:100%; +} +.resBox.ui-widget,.resbox.ui-widget +{ + font-size:100%; +} + +.resetAll +{ + position:absolute; + padding:0; + right:0; + margin-right:5em; +} + +#nft +{ + padding-right:1em; + vertical-align:baseline; +} +#advView +{ + margin-left:3em; +} +#SwitchDesign, a.fdb +{ + color:Red; +} +a.fdb +{ + margin-top: -1.5em; + float:right; + margin-right:5%; +} +#SwitchDesign +{ + left:50em; + right:10em; + position:absolute; + white-space:nowrap; +} + + +#brFtp +{ + margin-left:1em; +} + +#hnr +{ + float:right; +} + +#topLinks +{ + float:left; +} +#topLinksLeft +{ + float:right; +} + +#summary h1 +{ + border-top:none; +} + +#dbPlusSpecies > div { + width: 50%; + margin-top:0.5em; + padding-bottom:0.1em; +} + +#nextDbSet,#lastDbSet { + float: right; +} +#prevDbSet,#lastDbSet { + padding-left:0.5em; +} +#dbSpecies,#dbSpecies caption +{ + margin-top:auto; +} +.cpAdd +{ + font-size:80%; +}
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Blast output page example_files/results.js Tue May 06 17:05:58 2014 +0200 @@ -0,0 +1,649 @@ +// JScript source code + +//Display Reformat page button only after the whole page is loaded + +function ReformatPageEvent() +{ + var refPageLink = document.getElementById("refPage"); + + //alert(refPageLink); + //alert(refPageLink.getAttribute("submitForm")); + var submitForm = refPageLink.getAttribute("submitForm"); + alert(submitForm); + if(refPageLink && submitForm) { + utils.addEvent(refPageLink, + "click", + function() { + document.getElementById(submitForm).submit(); + }, + false); + } +} + + +function SubmitEvent(linkID) +{ + + var link = document.getElementById(linkID); + //alert(link.getAttribute("submitForm")); + var submitForm = link.getAttribute("submitForm"); + if(link && submitForm) { + utils.addEvent(link, + "click", + function() { + document.getElementById(submitForm).submit(); + }, + false); + } +} + + +function SubmitEventSave(linkID) +{ + + var link = document.getElementById(linkID); + //alert(link.getAttribute("submitForm")); + var submitForm = link.getAttribute("submitForm"); + if(link && submitForm) { + utils.addEvent(link, + "click", + function() { + //$(submitForm).CMD.value = "GetSaved"; + document.getElementById(submitForm).submit(); + }, + false); + } +} + + + + +//This function creates submit form event on click +//form submitted is defined in submitForm attribute +//It also copies params from forms[0] (search paramateres) created by formatter +function SubmitEventNew(linkID) +{ + + var link = document.getElementById(linkID); + //alert(link.getAttribute("submitForm")); + if(!link) return; + var submitForm = link.getAttribute("submitForm"); + if(link && submitForm) { + utils.addEvent(link, + "click", + function() { + document.forms[0].CMD.value = ""; + if(document.forms[0].PAGE_TYPE) { + document.forms[0].PAGE_TYPE.value = ""; + } + var s = document.forms[0].innerHTML; + var form = $(submitForm); + form.innerHTML = s + form.innerHTML; + form.submit(); + }, + false); + } +} + +function GetResults() +{ + form = $("results"); + form.QUERY_INDEX.value = $("queryList")[$("queryList").selectedIndex].value; + form.submit(); +} + +function isIdIn(id, idArray){ + var idSeen=false; + + for(i=0; i<idArray.length; i++){ + if(id==idArray[i]){ + idSeen=true; + break; + } + } + return idSeen; +} + +function GetSelectedSeqString(formName) +{ + var selSeqs = ""; + var idArray=new Array(); + forms = document.getElementsByName(formName); + for(var j=0; j < forms.length; j++){ + for(var i=0; i < forms[j].elements.length; i++){ + var theElem=forms[j].elements[i]; + if(theElem.type=="checkbox"&&theElem.name=="getSeqGi"&&theElem.checked){ + if(!isIdIn(theElem.value, idArray)){ + idArray[idArray.length]=theElem.value; + } + } + } + } + selSeqs = idArray.join(); + return selSeqs; +} + +function ViewSelectedSeqs(e) +{ + var submitForm = $("submitterTop"); + var targetForm = submitForm.getAttribute("seqsForm"); + $("selSeqs").value = GetSelectedSeqString(targetForm); + submitForm.submit(); + utils.preventDefault(e); +} + + +function ViewSelectedSeqTree() +{ + var submitForm = $("treesubmitterTop"); + var targetForm = submitForm.getAttribute("seqsForm"); + $("seqSet").value = GetSelectedSeqString(targetForm); + $("scrWidth").value = screen.width; + $("scrHeight").value = screen.height; + submitForm.submit(); +} + +function ViewTree(linkID) { + link = document.getElementById(linkID); + var target = link.target; + winRef = window.open(link.href + "&screenWidth=" + screen.width + "&screenHeight=" + screen.height, target); +} + +function ViewSelectedSeqMultiAlign() +{ + var submitForm = $("multisubmitterTop"); + var targetForm = submitForm.getAttribute("seqsForm"); + $("seqSetM").value = GetSelectedSeqString(targetForm); + submitForm.submit(); +} + + + +function selectAllSeqs() +{ + var formName = this.getAttribute("seqsForm"); + forms = document.getElementsByName(formName); + for(var j=0; j < forms.length; j++){ + for(var i=0; i < forms[j].elements.length; i++){ + //for(var i=0; i < document.forms[formName].elements.length; i++){ + var theElem=forms[j].elements[i]; + if(theElem.type=="checkbox"&&theElem.name=="getSeqGi"){ + theElem.checked=this.checked; + } + } + } + links = document.getElementsByName("selectAll"); + for(var i=0; i < links.length;i++) { + if(links[i] != this) links[i].checked = this.checked; + } +} + + +function InitSeqAlignLinks() +{ + var links = document.getElementsByName("getSeqs"); + for(var i=0; i < links.length;i++) { + utils.addEvent(links[i],"click",ViewSelectedSeqs,false); + } + links = document.getElementsByName("treeView"); + for(var i=0; i < links.length;i++) { + utils.addEvent(links[i],"click",ViewSelectedSeqTree,false); + } + links = document.getElementsByName("mltiAln"); + for(var i=0; i < links.length;i++) { + utils.addEvent(links[i],"click",ViewSelectedSeqMultiAlign,false); + } + links = document.getElementsByName("selectAll"); + for(var i=0; i < links.length;i++) { + utils.addEvent(links[i],"click",selectAllSeqs,false); + } + + if($("showAlign")) + utils.addEvent($("showAlign"),"click",showHideLinks,false); +} + +function InitDownLoad() +{ + var deltaBlast = ($("diThresh") && $("diThresh").value != "") ? true : false; + if (!deltaBlast && ($("stepNumber").value == "" || $("stepNumber").value < 2)) { + utils.addClass($("dnPSSMPar"),"hidden"); + } +} +function Reformat() +{ + if(utils.hasClass($("FormatForm").FORMAT_ORGANISM,"orgHint")) $("FormatForm").FORMAT_ORGANISM.value = ""; + + $("FormatForm").submit(); +} +function InitCustomButton(bn) +{ + utils.addEvent(bn, "mouseover", function() {this.src = this.getAttribute("mouseovImg");}, false); + utils.addEvent(bn, "mouseout", function() {this.src = this.getAttribute("mouseoutImg");}, false); + utils.addEvent(bn, "mousedown", function() {this.src = this.getAttribute("mousedownImg");}, false); + utils.addEvent(bn, "mouseup", function() {this.src = this.getAttribute("mouseupImg");}, false); +} + +function InitAllCustomButtons() +{ + if($("go")) InitCustomButton($("go")); + if($("dn")) InitCustomButton($("dn")); + if($("onPageReformat")) InitCustomButton($("onPageReformat")); +} +function showHideLinks() +{ + var links = document.getElementsByName("selectAll"); + for(var i=0; i < links.length;i++) { + //This is done since IE does not recognize getElementsByName for span elem + var allLinks = utils.getParent(links[i]); + var removeClass,addClass; + if(utils.hasClass(allLinks,"shownInl")) { + removeClass="shownInl"; + addClass="hidden"; + } + else { + removeClass="hidden"; + addClass="shownInl"; + } + utils.removeClass(allLinks,removeClass); + utils.addClass(allLinks,addClass); + } +} +/*remove this function */ +function InitHelpLinks() +{ + for(var i=1; i <= 11;i++) { + InitToggleEvent($("hlp" + i)); + } +} +//This function is used for collapsible deflines onmouseover="showInfo(this)" +//Initialized in showdefline.cpp +function showInfo(elem) +{ + var targetElem = $("info_" + elem.id); + if(!targetElem) return; + if(elem.getAttribute("init") == "on") return; + + Toggle.addTarget(elem, targetElem); + elem.setAttribute("init","on"); +} + +function InitPsiBlast() +{ + //utils.addEvent($("ttt"),"keyup",SetHitlistSize,false); + var hts = document.getElementsByName("HITLIST_SIZE"); + for(var i=0; i < hts.length;i++) { + utils.addEvent(hts[i],"keyup",SetHitlistSize,false); + } + if($("psiInp")) { + var numSubsets = $("psiInp").getAttribute("numSubsets"); + for(var i=1; i <= numSubsets;i++) { + if ($("alnPos" + i)) InitToggleEvent($("alnPos" + i)); + if ($("deflnG" + i)) InitToggleEvent($("deflnG" + i)); + if ($("deflnB" + i)) InitToggleEvent($("deflnB" + i)); + } + } +} + +function SetHitlistSize() +{ + var hts = document.getElementsByName("HITLIST_SIZE"); + for(var i=0; i < hts.length;i++) { + if(this != hts[i]) { + hts[i].value = this.value; + } + } +} +function InitToggleEvent(toggleNode) +{ + if(toggleNode) { + var srcid = toggleNode.getAttribute("toggle"); + if(srcid) Toggle.addTarget(srcid, toggleNode); + } +} + +function InitIFrameLinks() +{ + CheckIframe($("RSIFrameNoRes"),"prlink"); + CheckIframe($("RSIFrameDesc"),"prlink"); + CheckIframe($("RSIFrameAln"),"prlink"); +} + +function CheckIframe(iframe,contentElemID) +{ + if(!iframe) return; + + var iframeDoc; + + if(iframe.contentDocument) {//Firefox + iframeDoc = iframe.contentDocument; + } + else if (iframe.contentWindow) {//IE + iframeDoc = iframe.contentWindow.document; + } + else if(iframe.document) { + iframeDoc = iframe.document; + } + if(iframeDoc){ + if(iframeDoc.getElementById(contentElemID)) { + utils.addClass(iframe,"shown"); + utils.removeClass(iframe,"hidden"); + } + } +} + + +function InitHitMatrix() +{ + if($("bl2seImg")) { + + utils.addEvent($("hitmtImg"),"load", + function() { + utils.addClass($("bl2seImg"),"shown"); + utils.removeClass($("bl2seImg"),"hidden"); + + }, + false); + utils.addEvent($("showHitMatrix"),"click", + function() { + $("hitmtImg").src= $("hitmtImg").getAttribute("imgsrc"); + if(utils.hasClass($("htmb"),"shown")) { + utils.addClass($("htmb"),"hidden"); + utils.removeClass($("htmb"),"shown"); + } + else { + utils.addClass($("htmb"),"shown"); + utils.removeClass($("htmb"),"hidden"); + } + }, + false); + + if($("blastSpec") && $("blastSpec").value=="GlobalAln") { + $("hitmtImg").src= $("hitmtImg").getAttribute("imgsrc"); + } + } +} + + + + + +function SetFormSubmitEvent() +{ + var el = $("refPage"); + if(el) { + SubmitEventNew("refPage"); + } + SubmitEventNew("frmPage"); + el = $("searchOptions"); + if(el) { + SubmitEventNew("searchOptions"); + } + el = $("saveSearchOptions"); + if(el) { + SubmitEventNew("saveSearchOptions"); + } + //SubmitEventNew("breadCrSearchOptions"); + list = $("queryList"); + if(list) { + utils.addEvent(list,"change",GetResults,false); + } + + list = $("go"); + if(list) { + utils.addEvent(list,"click",GetResults,false); + } + + + list= $("onPageReformat"); + if(list) { + utils.addEvent(list,"click",Reformat,false); + } + + if ($("cddResults") && $("statInfo")) { + jQuery($("cddResults")).ncbitoggler('toggle'); + } + //New design still uses toggle + if ($("showCDD")) { + InitToggleEvent($("cddInfo")); + } + InitToggleEvent($("refInfo")); + InitToggleEvent($("resStat")); + InitToggleEvent($("dbDetails")); + InitToggleEvent($("graphicInfo")); + InitToggleEvent($("descrInfo")); + InitToggleEvent($("alignInfo")); + InitToggleEvent($("ovrInfo")); + InitToggleEvent($("queryInfo")); + InitToggleEvent($("hitMatrixInfo")); + InitToggleEvent($("bl2ovrInfo")); + //Init only for PSI blastfse + if($("prevRID")) InitPsiBlast(); + InitSeqAlignLinks(); + InitAllCustomButtons(); + if($("dnPSSMPar")) InitDownLoad(); + InitHitMatrix(); + if($("noRes")) { + if($("hitCvs")) utils.addClass($("hitCvs"),"hidden"); + if($("hitText")) utils.addClass($("hitText"),"hidden"); + } + InitIFrameLinks(); + showDbDetails(); //fill behind the scene + if ($("showDetails") && utils.hasClass($("showDetails"), "shown")) { + utils.addEvent($("showDetails"), "click", showDbDetails, false); + } + initContentWidth(); +} + +function initContentWidth() { + var lineLengthElem = $("FormatForm").LINE_LENGTH; + if (lineLengthElem) { + var lineLength = parseInt(lineLengthElem[lineLengthElem.selectedIndex].value); + if (parseInt(lineLengthElem.getAttribute("defval")) == lineLength) return; + + var charWidth = (navigator.userAgent.match(/ie/i)) ? 8 : 7; + var minWidth = (lineLength + parseInt(17)) * charWidth; + + + var alignView = $("FormatForm").ALIGNMENT_VIEW; + var formatType = $("FormatForm").FORMAT_TYPE; + var queryAnch = formatType[formatType.selectedIndex].value == "HTML" && (alignView[alignView.selectedIndex].value != "Pairwise" && alignView[alignView.selectedIndex].value != "PairwiseWithIdentities"); + + var addWidth = ($("FormatForm").OLD_VIEW.checked || queryAnch) ? 250 : 350; + + minWidth = minWidth + parseInt(addWidth) + "px"; + jQuery($("content")).css("min-width", minWidth); + } + +} + + + + + +function ShowHideAlnDeflines(alnID, checkbx) { + var dflTableID = "dln_" + alnID; + if ($(dflTableID)) { + var rmClass, addClass; + if (checkbx.checked) { + rmClass = "hidden"; + addClass = "shown"; + } + else { + rmClass = "shown"; + addClass = "hidden"; + } + var elems = $C(rmClass, "class", $(dflTableID), "tr"); + if (elems) { + //alert(elems.length); + for (var i = 0; i < elems.length; i++) { + utils.removeClass(elems[i], rmClass); + utils.addClass(elems[i], addClass); + } + } + } +} + +function SortAln(e, sortLink, sortItem) { + var p = utils.getParent(sortLink); + var p = utils.getParent(p); + p_TD = utils.getParent(p); + p_TR = utils.getParent(p_TD); + if (utils.hasClass(p_TR, "dflnAln")) { + p_TD.innerHTML = "Reading seqaligns..."; + var gi = p_TD.id.substr(2); + var rid = p_TD.getAttribute("rid"); + getAlignSort(rid, gi, p_TD, sortItem); + e = e || window.event; + utils.preventDefault(e); + return; + } + var links = document.getElementsByName("alnSort"); + if (links.length >= sortItem) { + var href = links[sortItem].href.replace(new RegExp("selectAllTop.*(&|$)"), ""); + var hrefLn = sortLink.href.replace(new RegExp(".*#"), ""); + sortLink.href = href + hrefLn; + } +} + + + +var fullArr; +var numDbs; +function showDbDetails(e,dbSetIndex) +{ + if (!($("dbPlusSpecies"))) return; //No org display + if ($("dbPlusSpecies").getAttribute("init") == "on" && dbSetIndex == null) return; + $("dbPlusSpecies").setAttribute("init", "on"); + + dbInfoUrl = "getDBInfo.cgi"; + var rp = new RemoteDataProvider(dbInfoUrl); + rp.minArr = 10; + + if (!fullArr) { + var arr = $("results").DATABASE.value.split(" "); + numDbs = arr.length; + if (arr.length > rp.minArr) { + fullArr = new Array(); + while (arr.length > 1) { + var arrNew = arr.splice(0, rp.minArr); //does not include stopindex + fullArr.push(arrNew); + } + if (!dbSetIndex) dbSetIndex = 0; + } + } + + rp.onSuccess = function(obj) { + var navDB = document.createElement("div"); + if (fullArr) { + var prevLink, nextLink, firstLink, lastLink; + if (this.currDbSetIndex >= 1) { + var firstStart = 1; + var firstEnd = firstStart + fullArr[0].length - 1; + firstLink = document.createElement("a"); + jQuery(firstLink).attr("href", "#"); + jQuery(firstLink).attr("id", "firstDbSet"); + jQuery(firstLink).attr("onclick", "showDbDetails(event,0);"); + jQuery(firstLink).attr("title", "Databases " + firstStart + "-" + firstEnd); + jQuery(firstLink).html("First " + this.minArr + " dbs"); + + } + if (this.currDbSetIndex >= 1) { + var prevStart = (this.currDbSetIndex - 1) * this.minArr + 1; + var prevEnd = prevStart + fullArr[this.currDbSetIndex - 1].length - 1; + prevLink = document.createElement("a"); + jQuery(prevLink).attr("href", "#"); + jQuery(prevLink).attr("id", "prevDbSet"); + jQuery(prevLink).attr("onclick", "showDbDetails(event," + (this.currDbSetIndex - 1) + ");"); + jQuery(prevLink).attr("title", "Databases " + prevStart + "-" + prevEnd); + jQuery(prevLink).html("Prev " + this.minArr + " dbs"); + } + + if (this.currDbSetIndex < fullArr.length - 1) { + var nextStart = (this.currDbSetIndex + 1) * this.minArr + 1; + var nextEnd = nextStart + fullArr[this.currDbSetIndex + 1].length - 1; + nextLink = document.createElement("a"); + jQuery(nextLink).attr("href", "#"); + jQuery(nextLink).attr("id", "nextDbSet"); + jQuery(nextLink).attr("onclick", "showDbDetails(event," + (this.currDbSetIndex + 1) + ");"); + jQuery(nextLink).attr("title", "Databases " + nextStart + "-" + nextEnd); + jQuery(nextLink).html("Next " + this.minArr + " dbs"); + } + if (this.currDbSetIndex < fullArr.length - 1) { + var lastInd = fullArr.length - 1; + var lastStart = numDbs - fullArr[lastInd].length; + var lastEnd = numDbs; + lastLink = document.createElement("a"); + jQuery(lastLink).attr("href", "#"); + jQuery(lastLink).attr("id", "lastDbSet"); + jQuery(lastLink).attr("onclick", "showDbDetails(event," + lastInd + ");"); + jQuery(lastLink).attr("title", "Databases " + lastStart + "-" + lastEnd); + jQuery(lastLink).html("Last " + this.minArr + " dbs"); + } + + + jQuery(navDB).attr("id", "addDbSet"); + if (firstLink) jQuery(navDB).append(firstLink); + if (prevLink) jQuery(navDB).append(prevLink); + if (lastLink) jQuery(navDB).append(lastLink); + if (nextLink) jQuery(navDB).append(nextLink); + } + + jQuery($("dbPlusSpecies")).html(navDB); + jQuery(navDB).after(obj.responseText); + if (fullArr) { + var cap = jQuery($("dbSpecies")).find("caption"); + if (cap) { + var currStart = (this.currDbSetIndex) * this.minArr + 1; + var currEnd = currStart + fullArr[this.currDbSetIndex].length - 1; + var capText = cap.html() + "<div class=\"cpAdd\"> Databases " + currStart + "-" + currEnd; + cap.html(capText); + } + } + }; + rp.onError = function(obj) { + $("dbPlusSpecies").innerHTML += "error, requests:" + this.iActiveRequests + " status:" + obj.status; + } + var dbs; + if (fullArr) { + rp.currDbSetIndex = dbSetIndex; + var currArr = fullArr[dbSetIndex]; + dbs = currArr.join(","); + } + else { + dbs = $("results").DATABASE.value.replace(/ /g, ","); + } + + rp.Request("CMD=getDBOrg&DATABASE=" + dbs, "POST"); + if(e) utils.preventDefault(e); +} + +function synchronizeCheck(id, formName, inputName, isChecked) { + + for (var i = 0; i < document.forms[formName].elements.length; i++) { + var theElem = document.forms[formName].elements[i]; + if (theElem.type == "checkbox" && theElem.name == inputName && id == theElem.value) { + theElem.checked = isChecked; + + } + } + +} + +utils.addEvent(window, + "load", SetFormSubmitEvent, + false); + + +/* If user agent has "safari" in it, include safari-specific stylesheet. */ +if (navigator.userAgent.match(/safari/i) || navigator.userAgent.match(/opera/i)) { +document.write("<link rel='stylesheet' type='text/css' href='css/safari-descriptions.css' media='screen'/>"); +} +if (navigator.userAgent.match(/opera/i)) { +document.write("<link rel='stylesheet' type='text/css' href='css/opera-descriptions.css' media='screen'/>"); +} +if (navigator.userAgent.match(/firefox/i) || navigator.userAgent.match(/safari/i)) { +document.write("<link rel='stylesheet' type='text/css' href='css/firefox-descriptions.css' media='screen'/>"); +} + + +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Blast output page example_files/toggle.js Tue May 06 17:05:58 2014 +0200 @@ -0,0 +1,174 @@ + +Toggle = function(node) { + this.init(node); +} + +/** +* @class Creates a new Toggle class with "node" as src +* @return Reutrns a new toggle instance +*/ +Toggle.prototype = { + + init: function(node) { + + // Subclass instance? + if (typeof(arguments[0]) == 'undefined') return; + + var oThis = this; + this.node = node; + + // Initialize "showing" variable based on presence of "showing" or + // "hiding" class. If neither, then showing. Be sure class is + // set to reflect variable value + node.showing = + utils.hasClass(node, "showing") || !utils.hasClass(node, "hiding"); + utils.addClass(node, node.showing ? "showing" : "hiding"); + + // Set notifier for node + utils.addEvent(node, "click", function(e) { + e = e || window.event; + utils.preventDefault(e); + + var theNode = utils.getTargetObj(e); + + // Send message to global notifier, if one exists + if (typeof(Notifier) != 'undefined') { + var notifier = Notifier.getInstance(); + // Notify before change + notifier.Notify(oThis, "change:" + theNode.id, !this.showing); + } + + // Hide or show based on current state + if (this.showing) { + oThis.hide(); + } else { + oThis.show(); + } + + }, false); + + utils.addEvent(node, "selectstart", function(e) { utils.preventDefault(e); }, true); + utils.addEvent(node, "drag", function(e) { utils.preventDefault(e); }, true); + + // Cache "this" for ID lookup + if (!node.id) { + node.id = utils.createNewId(); + } + var m = Toggle.getSrcs(); + m[node.id] = this; + }, + + // Hide targets, and set self to hiding. + hide: function() { + var oThis = this; + + oThis.setHiding(); + if (oThis.listeners) { + forEach(oThis.listeners, function(l) { + oThis.hideTarget(l); + }); + } + }, + + // Show targets, and set self to showing. + show: function() { + var oThis = this; + + oThis.setShowing(); + if (oThis.listeners) { + forEach(oThis.listeners, function(l) { + oThis.showTarget(l); + }); + } + }, + + // Set own presentation to "showing" + setShowing: function() { + utils.addClass(this.node, "showing"); + utils.removeClass(this.node, "hiding"); + this.node.showing = true; + }, + + // Set own presentation to "hiding" + setHiding: function() { + utils.addClass(this.node, "hiding"); + utils.removeClass(this.node, "showing"); + this.node.showing = false; + }, + + // Show a target + showTarget: function(l) { + utils.addClass(l, "shown"); + utils.removeClass(l, "hidden"); + }, + + // Hide a target + hideTarget: function(l) { + utils.addClass(l, "hidden"); + utils.removeClass(l, "shown"); + }, + + // Add a target to this toggle. + add: function(target) { + if (!this.listeners) { + this.listeners = new Array(); + } + this.listeners[this.listeners.length] = target; + + if (utils.hasClass(target, "hidden")) { + this.setHiding(); + this.node.showing = false; + } else { + this.setShowing(); + this.node.showing = true; + } + } +} + +// Show/hide a "target" (a node controlled by the node with the given ID) +Toggle.addTarget = function(srcid, target) { + var tn = Toggle.findOrMake(srcid); + tn.add(target); +} + +// Assoc array of srcs indexed by their ids +Toggle.getSrcs = function() { + if (!Toggle.srcs) { + Toggle.srcs = new Object(); + } + return Toggle.srcs; +} + +// Find or make toggle for given id +Toggle.findOrMake = function(srcid) { + var ts = Toggle.getSrcs(); + var tn = ts[srcid]; + if (!tn) { + tn = new Toggle($(srcid)); + } + return tn; +} + +// This dispatches the call to Toggle.onload, which may be +// overridden by instances (subclasses) +Toggle._onload = function() { + Toggle.onload(); +} + +// A toggle source node controls other nodes that reference it by id using +// their toggle= attribute. A node may be both a toggle source and destination. +Toggle.onload = function() { +//alert("toggle start"); + if(utils.hasClass(document.body,"noToggleCheck")) return; + + shnodes = jQuery("[toggle]"); + // Now hook up dst nodes + forEach(shnodes, function(node) { + // Link toggle node to its source + var srcid = node.getAttribute("toggle"); + Toggle.addTarget(srcid, node); + }); + //alert("toggle 2 end"); +} + +utils.addEvent(window, 'load', Toggle._onload, false);
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Blast output page example_files/utils.js Tue May 06 17:05:58 2014 +0200 @@ -0,0 +1,633 @@ +// $Id: utils.js,v 1.4 2014/02/26 14:47:32 zaretska Exp $ + +utils = { + +KeyCode_TAB: 9, +KeyCode_DELETE: 46, +KeyCode_BACKSPACE: 8, +KeyCode_LEFT_ARROW: 37, +KeyCode_RIGHT_ARROW: 39, +KeyCode_HOME: 36, +KeyCode_END: 35, +KeyCode_PAGE_UP: 33, +KeyCode_PAGE_DOWN: 34, +KeyCode_UP_ARROW: 38, +KeyCode_DOWN_ARROW: 40, +KeyCode_ESC: 27, +KeyCode_ENTER: 13, +KeyCode_SPACE: 32, +KeyCode_SHIFT_KEY: 16, +KeyCode_CTRL_KEY: 17, +KeyCode_ALT_KEY: 18, +KeyCode_LEFT_MS_WINDOWS_KEY: 91, +KeyCode_RIGHT_MS_WINDOWS_KEY: 92, +KeyCode_MS_MENU_KEY: 93, + +isObject: function(a) { return (a && typeof a == 'object'); }, + +isArray: function(a) { return this.isObject(a) && a.constructor == Array; }, + +insertInHtml: function(text, obj) { + if (document.all) { + obj.innerHTML += text; + } else { + var range = document.createRange(); + range.setStartAfter(obj); + var docFrag = range.createContextualFragment(text); + obj.appendChild(docFrag); + } + +}, + +replaceInHtml: function(text, obj) { + if (document.all) { + obj.innerHTML = text; + } else { + while (obj.hasChildNodes()) obj.removeChild(obj.firstChild); + var range = document.createRange(); + range.setStartAfter(obj); + var docFrag = range.createContextualFragment(text); + obj.appendChild(docFrag); + } +}, + + +getTargetObj: function(eEvent) { + var oTarget; + var e = eEvent || window.event; + if (e == null) return null; + if (e.srcElement == null) { + oTarget = e.target; + } else { + oTarget = e.srcElement; + } + while ( oTarget && oTarget.nodeType != 1 ) oTarget = oTarget.parentNode; + return oTarget; +}, + + + + +getParent: function(obj) { + if (obj) { + var result = obj.parentNode; + while (result && result.nodeType != 1) result = result.nextSibling; + if (result) return result; + } + return null; +}, + +getFirstChild: function(obj) { + if (obj) { + var result = obj.firstChild; + while (result && result.nodeType != 1) result = result.nextSibling; + if (result) return result; + } + return null; +}, + +getNextSibling: function(obj, tagName) { + if (obj) { + var result = obj.nextSibling; + if (tagName) { + var tn = tagName.toUpperCase(); + while (result && result.tagName != tn) result = result.nextSibling; + } else { + while (result && result.nodeType != 1) result = result.nextSibling; + } + return result; + } + return null; +}, + +getPreviousSibling: function(obj, tagName) { + if (obj) { + var result = obj.previousSibling; + if (tagName) { + var tn = tagName.toUpperCase(); + while (result && result.tagName != tn) result = result.previousSibling; + } else { + while (result && result.nodeType != 1) result = result.previousSibling; + } + return result; + } + return null; +}, + +removeChildren: function(oObj) { + if (!oObj || typeof oObj != "object") return; + while(oObj.hasChildNodes()) oObj.removeChild(oObj.firstChild) +}, + +insertAfter: function(parent, node, referenceNode) { + parent.insertBefore(node, referenceNode.nextSibling); +}, + +nextItem: function(item, nodeName) { + if (item == null) return; + var next = item.nextSibling; + while (next != null) { + if (next.nodeName == nodeName) return next; + next = next.nextSibling; + } + return null; +}, + +previousItem: function(item, nodeName) { + var previous = item.previousSibling; + while (previous != null) { + if (previous.nodeName == nodeName) return previous; + previous = previous.previousSibling; + } + return null +}, + +moveBefore: function(item1, item2) { + var parent = item1.parentNode; + parent.removeChild(item1); + parent.insertBefore(item1, item2); +}, + +moveAfter: function(item1, item2) { + var parent = item1.parentNode; + parent.removeChild(item1); + parent.insertBefore(item1, item2 ? item2.nextSibling : null); +}, + + + + +createCookie: function(name, value, days) { + if (days) { + var date = new Date(); + date.setTime(date.getTime() + (days * 24 * 60 * 60 * 1000)); + var expires = '; expires=' + date.toGMTString(); + } else expires = ''; + document.cookie = name + '=' + value + expires + '; path=/'; +}, + +readCookie: function(name) { + var nameEQ = name + '='; + var ca = document.cookie.split(';'); + for (var i = 0; i < ca.length; i++) { + var c = ca[i]; + while (c.charAt(0)==' ') c = c.substring(1, c.length); + if (c.indexOf(nameEQ) == 0) return c.substring(nameEQ.length, c.length); + } + return ""; +}, + +eraseCookie: function(name) { + document.cookie = name + "=null; expires=Thu, 01-Jan-1970 00:00:01 GMT; domain=nih.gov; path=/"; + document.cookie = name + "; expires=Thu, 01-Jan-1970 00:00:01 GMT; domain=nih.gov; path=/"; +}, + +addClass: function(element, className) { + if (!this.hasClass(element, className)) { + if (element.className) element.className += " " + className; + else element.className = className; + } +}, + +removeClass: function(element, className) { + var regexp = new RegExp("(^|\\s)" + className + "(\\s|$)"); + element.className = element.className.replace(regexp, "$2"); +}, + +hasClass: function(element, className) { + var regexp = new RegExp("(^|\\s)" + className + "(\\s|$)"); + return regexp.test(element.className); +}, + + +getXY: function (obj){ + /* + +------------- w ---- + | (x,y) + | + h + | + */ + var b={x:0, y:0, w:obj.offsetWidth, h:obj.offsetHeight}; + + if (obj.offsetParent) { + while(obj) { + b.x += obj.offsetLeft; + b.y += obj.offsetTop; + obj = obj.offsetParent; + } + } else if (obj.x) { + b.x = obj.x; + b.y = obj.y; + } + return b; +}, + +/* Based on ppk (untested) */ +getEventXY: function(e) { + var xpos = 0; + var ypos = 0; + e = e || window.event; + xpos = e.pageX || (e.clientX + document.body.scrollLeft + + document.documentElement.scrollLeft); + ypos = e.pageY || (e.clientY + document.body.scrollTop + + document.documentElement.scrollTop); + return {x: xpos, y: ypos}; +}, + +drawText: function (sText, sId, add) { + if (!sId) sId = "debug"; + var obj = document.getElementById(sId); + if (obj) { + if (add) + this.insertInHtml("<br/>" + sText, obj); + else + this.replaceInHtml(sText, obj); + } +}, + + +selectRange: function (oObj /*:object*/, iStart /*:int*/, iLength /*:int*/) { + if (!(oObj && oObj.value)) return; + + if (oObj.createTextRange) { + //use text ranges for Internet Explorer + var oRange = oObj.createTextRange(); + oRange.moveStart("character", iStart); + oRange.moveEnd("character", iLength - oObj.value.length); + oRange.select(); + } else if (oObj.setSelectionRange) { + //use setSelectionRange() for Mozilla + oObj.setSelectionRange(iStart, iLength); + } + //set focus back to the textbox + oObj.focus(); +}, + +getSelection: function() { + var text = ""; + if (window.getSelection) { + text += window.getSelection(); + } else if (document.getSelection) { + text += document.getSelection(); + } else if (document.selection){ //IE + text += document.selection.createRange().text; + } + return text; +}, + + + + +// http://ejohn.org/apps/jselect/event.html +addEvent: function(obj, type, fn, b) { + if (obj.attachEvent) { + var name = "" + type + fn; +// name = name.substring(0, name.indexOf("\n")); // IE This doesn't work + obj["e" + name] = fn; + obj[name] = function(){ obj["e" + name](window.event);} + obj.attachEvent("on" + type, obj[name]); + } else { + obj.addEventListener(type, fn, b); + return true; + } +}, + + +removeEvent: function(obj, type, fn, b) { + if (obj.detachEvent) { + var name = "" + type + fn; +// name = name.substring(0, name.indexOf("\n")); //IE This doesn't work + if ("function" == typeof obj[name]) { + obj.detachEvent("on" + type, obj[name]); + obj[name] = null; + obj["e" + name] = null; + } + } else { + obj.removeEventListener(type, fn, b); + return true; + } +}, + +noBubbleEvent: function(e) { + if (e && e.stopPropagation) e.stopPropagation(); + else window.event.cancelBubble = true; +}, + +targetEvent: function(e) { + if (e.srcElement == null) { + return e.target; + } else { + return window.event.srcElement; + } +}, + +preventDefault: function(e) { + if (e.preventDefault) e.preventDefault(); + else window.event.returnValue = false; +}, + +relatedTarget: function(e) { + if (!e) var e = window.event; + if (e.relatedTarget) return e.relatedTarget; + else if (e.toElement) return e.toElement; + else if (e.fromElement) return e.fromElement; +}, + +readStyle: function(element, property) { + if (element.style[property]) { + return element.style[property]; + } else if (element.currentStyle) { + return element.currentStyle[property]; + } else if (document.defaultView && document.defaultView.getComputedStyle) { + var style = document.defaultView.getComputedStyle(element, null); + if (style) return style.getPropertyValue(property); + } + return ""; +}, + + +printObj: function (oObj, iLevel) { + var s = ""; + var sIdent = ""; + if (!iLevel) iLevel = 0; + for (var i = 0; i < iLevel; i++) { + sIdent += "__"; + } + for (var i in oObj) { + var ss = []; + if ("string" == typeof oObj[i]) { + ss = oObj[i].split("<"); + } + s += sIdent + " " + i + " : [" + (typeof oObj[i]) + "] : " + ss.join("<") + "<br/>"; + // if (oObj[i] && "object" == typeof oObj[i] && iLevel < 2) { + // s+= "<br/>-----" + typeof oObj[i] + " --- " + iLevel + "</br>"; + // s += this.printObj(oObj[i], iLevel + 1); + // } + } + return s; +}, + +jsLoader: { + sBase: "", /* Base is this directory */ + oLoaded: [], + load: function (aScripts) { + + var oS = document.getElementsByTagName("script"); + var k = 0; + for (var j = 0; j < oS.length; j++) { + if (oS[j].src == "") continue; + this.oLoaded[k++] = oS[j].src; + } + + var oHead = document.getElementsByTagName("head")[0]; + + for (var i = 0; i < aScripts.length; i++) { + var sNewSrc = this.sBase + aScripts[i]; + var oS = document.getElementsByTagName("script"); + var b = true; + for (var j = 0; j < this.oLoaded.length; j++) { + if (sNewSrc == this.oLoaded[j]) { +// alert(sNewSrc + " : already loaded"); + b = false; + } + } + + if (b) { + var oScript = document.createElement("script"); + oScript.src = sNewSrc; + oScript.setAttribute("type", "text/javascript"); + oHead.appendChild(oScript); + this.oLoaded[this.oLoaded.length] = sNewSrc; + } + } + } +}, + +// Create an id that doesn't exist in this document +createNewId: function() +{ + var newid = null + + while (!newid || document.getElementById(newid)) { + newid = "XID" + Math.round(Math.random() * 65536).toString(16) + } + return newid +} + +}; + + +String.prototype.trimSpaces = function(trimMode) { + // 0 = trim begin and end + // 1 = trim begin only + // 2 = trim after only + + var targetString = this; + var iPos = 0; + if (!trimMode) trimMode = 0; + + if (trimMode==0 || trimMode==1) { + if (targetString.charAt(iPos)==" ") { + while(targetString.charAt(iPos)==" ") iPos++; + targetString = targetString.substr(iPos); + } + } + + iPos = targetString.length-1; + if (trimMode==0 || trimMode==2) { + if (targetString.charAt(iPos) == " ") { + while(targetString.charAt(iPos) == " ") iPos--; + targetString = targetString.substr(0, iPos + 1); + } + } + return targetString; +} + + + + +/* Shortcuts */ + +// Get elements by Id's +function $() { + var elements = new Array(); + + for (var i = 0; i < arguments.length; i++) { + var element = arguments[i]; + if (typeof element == 'string') + element = document.getElementById(element); + + if (arguments.length == 1) + return element; + + elements.push(element); + } + + return elements; +} + +// Get elements by AttributeValue for Attributename +// http://www.dustindiaz.com/top-ten-javascript/ (but has some errors) +function $C(attrValue, attrName, node, tag) { + //alert([attrValue, attrName, node, tag]) + if ("*" == attrValue) { + return $AN(attrName, node, tag); + } + var oElements = new Array(); + if (!node) node = document; + if (!tag) tag = '*'; + if (!attrName) attrName = 'class'; + + var els = node.getElementsByTagName(tag); + var elsLen = els.length; + var pattern = new RegExp("(^|\\s)" + attrValue + "(\\s|$)"); + var j = 0; + for (i = 0; i < elsLen; i++) { + if (attrName == "class" && pattern.test(els[i].className)) { + // IE behavior +// oElements.push(els[i]); + oElements[j++] = els[i]; + } else if (pattern.test(els[i].getAttribute(attrName))) { + oElements[j++] = els[i]; +// oElements.push(els[i]); + } + } + return oElements; +} + + +function $AN(attrName, node, tag) { + var oElements = new Array(); + if (node == null) node = document; + if (tag == null)tag = '*'; + var els = node.getElementsByTagName(tag); + for (i = 0; i < els.length; i++) { + if (els[i].getAttribute(attrName) != null) { + oElements.push(els[i]); + } + } + return oElements; +} + +function dump(aMessage) { + var consoleService = Components.classes["@mozilla.org/consoleservice;1"] + .getService(Components.interfaces.nsIConsoleService); + consoleService.logStringMessage(aMessage); +} + + +// forEach iterators from Dean Edwards: http://dean.edwards.name/weblog/2006/07/enum/ +// generic enumeration +Function.prototype.forEach = function(object, block, context) { + for (var key in object) { + if (typeof this.prototype[key] == "undefined") { + block.call(context, object[key], key, object); + } + } +}; + +// globally resolve forEach enumeration +var forEach = function(object, block, context) { + if (object) { + var resolve = Object; // default + if (object instanceof Function) { + // functions have a "length" property + resolve = Function; + } else if (object.forEach instanceof Function) { + // the object implements a custom forEach method so use that + object.forEach(block, context); + return; + } else if (typeof object.length == "number") { + // the object is array-like + resolve = Array; + } + resolve.forEach(object, block, context); + } +}; + +// +// Update Array class to JS 1.5 if not yet there. +// + +// array-like enumeration +if (!Array.forEach) { // mozilla already supports this + Array.forEach = function(object, block, context) { + for (var i = 0; i < object.length; i++) { + block.call(context, object[i], i, object); + } + }; +} + +if (!Array.prototype.indexOf) + Array.prototype.indexOf = function(item, startIndex) { + var len = this.length; + if (startIndex == null) + startIndex = 0; + else if (startIndex < 0) { + startIndex += len; + if (startIndex < 0) + startIndex = 0; + } + for (var i = startIndex; i < len; i++) { + var val = this[i] || this.charAt && this.charAt(i); + if (val == item) + return i; + } + return -1; + }; + +if (!Array.prototype.lastIndexOf) + Array.prototype.lastIndexOf = function(item, startIndex) { + var len = this.length; + if (startIndex == null || startIndex >= len) + startIndex = len - 1; + else if (startIndex < 0) + startIndex += len; + for (var i = startIndex; i >= 0; i--) { + var val = this[i] || this.charAt && this.charAt(i); + if (val == item) + return i; + } + return -1; + }; + +if (!Array.prototype.map) + Array.prototype.map = function(func, thisVal) { + var len = this.length; + var ret = new Array(len); + for (var i = 0; i < len; i++) + ret[i] = func.call(thisVal, this[i] || this.charAt && this.charAt(i), i, this); + return ret; + }; + +if (!Array.prototype.filter) + Array.prototype.filter = function(func, thisVal) { + var len = this.length; + var ret = new Array(); + for (var i = 0; i < len; i++) { + var val = this[i] || this.charAt && this.charAt(i); + if(func.call(thisVal, val, i, this)) + ret[ret.length] = val; + } + return ret; + }; + +if (!Array.prototype.every) + Array.prototype.every = function(func, thisVal) { + var len = this.length; + for (var i = 0; i < len; i++) + if (!func.call(thisVal, this[i] || this.charAt && this.charAt(i), i, this)) + return false; + return true; + }; + +if (!Array.prototype.some) + Array.prototype.some = function(func, thisVal) { + var len = this.length; + for (var i = 0; i < len; i++) + if (func.call(thisVal, this[i] || this.charAt && this.charAt(i), i, this)) + return true; + return false; + }; +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/blast xml example1.xml Tue May 06 17:05:58 2014 +0200 @@ -0,0 +1,6548 @@ +<?xml version="1.0"?> +<!DOCTYPE BlastOutput PUBLIC "-//NCBI//NCBI BlastOutput/EN" "http://www.ncbi.nlm.nih.gov/dtd/NCBI_BlastOutput.dtd"> +<BlastOutput> + <BlastOutput_program>blastn</BlastOutput_program> + <BlastOutput_version>BLASTN 2.2.29+</BlastOutput_version> + <BlastOutput_reference>Stephen F. Altschul, Thomas L. Madden, Alejandro A. Sch&auml;ffer, 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.</BlastOutput_reference> + <BlastOutput_db>pdb</BlastOutput_db> + <BlastOutput_query-ID>106397</BlastOutput_query-ID> + <BlastOutput_query-def>No definition line</BlastOutput_query-def> + <BlastOutput_query-len>16</BlastOutput_query-len> + <BlastOutput_param> + <Parameters> + <Parameters_expect>1000</Parameters_expect> + <Parameters_sc-match>1</Parameters_sc-match> + <Parameters_sc-mismatch>-3</Parameters_sc-mismatch> + <Parameters_gap-open>5</Parameters_gap-open> + <Parameters_gap-extend>2</Parameters_gap-extend> + <Parameters_filter>F</Parameters_filter> + </Parameters> + </BlastOutput_param> +<BlastOutput_iterations> +<Iteration> + <Iteration_iter-num>1</Iteration_iter-num> + <Iteration_query-ID>106397</Iteration_query-ID> + <Iteration_query-def>No definition line</Iteration_query-def> + <Iteration_query-len>16</Iteration_query-len> +<Iteration_hits> +<Hit> + <Hit_num>1</Hit_num> + <Hit_id>gi|557804730|pdb|3J5K|A</Hit_id> + <Hit_def>Chain A, E. Coli 70s-fmetval-trnaval Post-translocation Complex (post4, 50s Subunit)</Hit_def> + <Hit_accession>3J5K_A</Hit_accession> + <Hit_len>2903</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>32.2105</Hsp_bit-score> + <Hsp_score>16</Hsp_score> + <Hsp_evalue>0.000791334</Hsp_evalue> + <Hsp_query-from>1</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>961</Hsp_hit-from> + <Hsp_hit-to>976</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>16</Hsp_identity> + <Hsp_positive>16</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>16</Hsp_align-len> + <Hsp_qseq>CGTCCGTCGTGAAGAG</Hsp_qseq> + <Hsp_hseq>CGTCCGTCGTGAAGAG</Hsp_hseq> + <Hsp_midline>||||||||||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2591</Hsp_hit-from> + <Hsp_hit-to>2598</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>13</Hsp_query-to> + <Hsp_hit-from>839</Hsp_hit-from> + <Hsp_hit-to>845</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TCGTGAA</Hsp_qseq> + <Hsp_hseq>TCGTGAA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>4</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2027</Hsp_hit-from> + <Hsp_hit-to>2033</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTGAAGA</Hsp_qseq> + <Hsp_hseq>GTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>2</Hit_num> + <Hit_id>gi|557804675|pdb|3J5I|A</Hit_id> + <Hit_def>Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Intermediate Post- Translocation State (post3b, 50s Subunit)</Hit_def> + <Hit_accession>3J5I_A</Hit_accession> + <Hit_len>2903</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>32.2105</Hsp_bit-score> + <Hsp_score>16</Hsp_score> + <Hsp_evalue>0.000791334</Hsp_evalue> + <Hsp_query-from>1</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>961</Hsp_hit-from> + <Hsp_hit-to>976</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>16</Hsp_identity> + <Hsp_positive>16</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>16</Hsp_align-len> + <Hsp_qseq>CGTCCGTCGTGAAGAG</Hsp_qseq> + <Hsp_hseq>CGTCCGTCGTGAAGAG</Hsp_hseq> + <Hsp_midline>||||||||||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2591</Hsp_hit-from> + <Hsp_hit-to>2598</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>13</Hsp_query-to> + <Hsp_hit-from>839</Hsp_hit-from> + <Hsp_hit-to>845</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TCGTGAA</Hsp_qseq> + <Hsp_hseq>TCGTGAA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>4</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2027</Hsp_hit-from> + <Hsp_hit-to>2033</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTGAAGA</Hsp_qseq> + <Hsp_hseq>GTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>3</Hit_num> + <Hit_id>gi|557804619|pdb|3J5G|A</Hit_id> + <Hit_def>Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Intermediate Post- Translocation State (post3a, 50s Subunit)</Hit_def> + <Hit_accession>3J5G_A</Hit_accession> + <Hit_len>2903</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>32.2105</Hsp_bit-score> + <Hsp_score>16</Hsp_score> + <Hsp_evalue>0.000791334</Hsp_evalue> + <Hsp_query-from>1</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>961</Hsp_hit-from> + <Hsp_hit-to>976</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>16</Hsp_identity> + <Hsp_positive>16</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>16</Hsp_align-len> + <Hsp_qseq>CGTCCGTCGTGAAGAG</Hsp_qseq> + <Hsp_hseq>CGTCCGTCGTGAAGAG</Hsp_hseq> + <Hsp_midline>||||||||||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2591</Hsp_hit-from> + <Hsp_hit-to>2598</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>13</Hsp_query-to> + <Hsp_hit-from>839</Hsp_hit-from> + <Hsp_hit-to>845</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TCGTGAA</Hsp_qseq> + <Hsp_hseq>TCGTGAA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>4</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2027</Hsp_hit-from> + <Hsp_hit-to>2033</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTGAAGA</Hsp_qseq> + <Hsp_hseq>GTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>4</Hit_num> + <Hit_id>gi|557804563|pdb|3J5E|A</Hit_id> + <Hit_def>Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Intermediate Post- Translocation State (post2b, 50s Subunit)</Hit_def> + <Hit_accession>3J5E_A</Hit_accession> + <Hit_len>2903</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>32.2105</Hsp_bit-score> + <Hsp_score>16</Hsp_score> + <Hsp_evalue>0.000791334</Hsp_evalue> + <Hsp_query-from>1</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>961</Hsp_hit-from> + <Hsp_hit-to>976</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>16</Hsp_identity> + <Hsp_positive>16</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>16</Hsp_align-len> + <Hsp_qseq>CGTCCGTCGTGAAGAG</Hsp_qseq> + <Hsp_hseq>CGTCCGTCGTGAAGAG</Hsp_hseq> + <Hsp_midline>||||||||||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2591</Hsp_hit-from> + <Hsp_hit-to>2598</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>13</Hsp_query-to> + <Hsp_hit-from>839</Hsp_hit-from> + <Hsp_hit-to>845</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TCGTGAA</Hsp_qseq> + <Hsp_hseq>TCGTGAA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>4</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2027</Hsp_hit-from> + <Hsp_hit-to>2033</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTGAAGA</Hsp_qseq> + <Hsp_hseq>GTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>5</Hit_num> + <Hit_id>gi|557804507|pdb|3J5C|A</Hit_id> + <Hit_def>Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Intermediate Post- Translocation State (post2a, 50s Subunit)</Hit_def> + <Hit_accession>3J5C_A</Hit_accession> + <Hit_len>2903</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>32.2105</Hsp_bit-score> + <Hsp_score>16</Hsp_score> + <Hsp_evalue>0.000791334</Hsp_evalue> + <Hsp_query-from>1</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>961</Hsp_hit-from> + <Hsp_hit-to>976</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>16</Hsp_identity> + <Hsp_positive>16</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>16</Hsp_align-len> + <Hsp_qseq>CGTCCGTCGTGAAGAG</Hsp_qseq> + <Hsp_hseq>CGTCCGTCGTGAAGAG</Hsp_hseq> + <Hsp_midline>||||||||||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2591</Hsp_hit-from> + <Hsp_hit-to>2598</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>13</Hsp_query-to> + <Hsp_hit-from>839</Hsp_hit-from> + <Hsp_hit-to>845</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TCGTGAA</Hsp_qseq> + <Hsp_hseq>TCGTGAA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>4</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2027</Hsp_hit-from> + <Hsp_hit-to>2033</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTGAAGA</Hsp_qseq> + <Hsp_hseq>GTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>6</Hit_num> + <Hit_id>gi|557804451|pdb|3J5A|A</Hit_id> + <Hit_def>Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Classic Post- Translocation State (post1, 50s Subunit)</Hit_def> + <Hit_accession>3J5A_A</Hit_accession> + <Hit_len>2903</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>32.2105</Hsp_bit-score> + <Hsp_score>16</Hsp_score> + <Hsp_evalue>0.000791334</Hsp_evalue> + <Hsp_query-from>1</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>961</Hsp_hit-from> + <Hsp_hit-to>976</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>16</Hsp_identity> + <Hsp_positive>16</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>16</Hsp_align-len> + <Hsp_qseq>CGTCCGTCGTGAAGAG</Hsp_qseq> + <Hsp_hseq>CGTCCGTCGTGAAGAG</Hsp_hseq> + <Hsp_midline>||||||||||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2591</Hsp_hit-from> + <Hsp_hit-to>2598</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>13</Hsp_query-to> + <Hsp_hit-from>839</Hsp_hit-from> + <Hsp_hit-to>845</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TCGTGAA</Hsp_qseq> + <Hsp_hseq>TCGTGAA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>4</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2027</Hsp_hit-from> + <Hsp_hit-to>2033</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTGAAGA</Hsp_qseq> + <Hsp_hseq>GTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>7</Hit_num> + <Hit_id>gi|557804395|pdb|3J58|A</Hit_id> + <Hit_def>Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Hybrid Pre- Translocation State (pre5b, 50s Subunit)</Hit_def> + <Hit_accession>3J58_A</Hit_accession> + <Hit_len>2903</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>32.2105</Hsp_bit-score> + <Hsp_score>16</Hsp_score> + <Hsp_evalue>0.000791334</Hsp_evalue> + <Hsp_query-from>1</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>961</Hsp_hit-from> + <Hsp_hit-to>976</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>16</Hsp_identity> + <Hsp_positive>16</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>16</Hsp_align-len> + <Hsp_qseq>CGTCCGTCGTGAAGAG</Hsp_qseq> + <Hsp_hseq>CGTCCGTCGTGAAGAG</Hsp_hseq> + <Hsp_midline>||||||||||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2591</Hsp_hit-from> + <Hsp_hit-to>2598</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>13</Hsp_query-to> + <Hsp_hit-from>839</Hsp_hit-from> + <Hsp_hit-to>845</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TCGTGAA</Hsp_qseq> + <Hsp_hseq>TCGTGAA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>4</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2027</Hsp_hit-from> + <Hsp_hit-to>2033</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTGAAGA</Hsp_qseq> + <Hsp_hseq>GTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>8</Hit_num> + <Hit_id>gi|557804339|pdb|3J56|A</Hit_id> + <Hit_def>Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Hybrid Pre- Translocation State (pre5a, 50s Subunit)</Hit_def> + <Hit_accession>3J56_A</Hit_accession> + <Hit_len>2903</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>32.2105</Hsp_bit-score> + <Hsp_score>16</Hsp_score> + <Hsp_evalue>0.000791334</Hsp_evalue> + <Hsp_query-from>1</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>961</Hsp_hit-from> + <Hsp_hit-to>976</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>16</Hsp_identity> + <Hsp_positive>16</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>16</Hsp_align-len> + <Hsp_qseq>CGTCCGTCGTGAAGAG</Hsp_qseq> + <Hsp_hseq>CGTCCGTCGTGAAGAG</Hsp_hseq> + <Hsp_midline>||||||||||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2591</Hsp_hit-from> + <Hsp_hit-to>2598</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>13</Hsp_query-to> + <Hsp_hit-from>839</Hsp_hit-from> + <Hsp_hit-to>845</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TCGTGAA</Hsp_qseq> + <Hsp_hseq>TCGTGAA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>4</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2027</Hsp_hit-from> + <Hsp_hit-to>2033</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTGAAGA</Hsp_qseq> + <Hsp_hseq>GTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>9</Hit_num> + <Hit_id>gi|557804283|pdb|3J54|A</Hit_id> + <Hit_def>Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Hybrid Pre- Translocation State (pre4, 50s Subunit)</Hit_def> + <Hit_accession>3J54_A</Hit_accession> + <Hit_len>2903</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>32.2105</Hsp_bit-score> + <Hsp_score>16</Hsp_score> + <Hsp_evalue>0.000791334</Hsp_evalue> + <Hsp_query-from>1</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>961</Hsp_hit-from> + <Hsp_hit-to>976</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>16</Hsp_identity> + <Hsp_positive>16</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>16</Hsp_align-len> + <Hsp_qseq>CGTCCGTCGTGAAGAG</Hsp_qseq> + <Hsp_hseq>CGTCCGTCGTGAAGAG</Hsp_hseq> + <Hsp_midline>||||||||||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2591</Hsp_hit-from> + <Hsp_hit-to>2598</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>13</Hsp_query-to> + <Hsp_hit-from>839</Hsp_hit-from> + <Hsp_hit-to>845</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TCGTGAA</Hsp_qseq> + <Hsp_hseq>TCGTGAA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>4</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2027</Hsp_hit-from> + <Hsp_hit-to>2033</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTGAAGA</Hsp_qseq> + <Hsp_hseq>GTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>10</Hit_num> + <Hit_id>gi|557804227|pdb|3J52|A</Hit_id> + <Hit_def>Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Classic Pre- Translocation State (pre1a, 50s Subunit)</Hit_def> + <Hit_accession>3J52_A</Hit_accession> + <Hit_len>2903</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>32.2105</Hsp_bit-score> + <Hsp_score>16</Hsp_score> + <Hsp_evalue>0.000791334</Hsp_evalue> + <Hsp_query-from>1</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>961</Hsp_hit-from> + <Hsp_hit-to>976</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>16</Hsp_identity> + <Hsp_positive>16</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>16</Hsp_align-len> + <Hsp_qseq>CGTCCGTCGTGAAGAG</Hsp_qseq> + <Hsp_hseq>CGTCCGTCGTGAAGAG</Hsp_hseq> + <Hsp_midline>||||||||||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2591</Hsp_hit-from> + <Hsp_hit-to>2598</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>13</Hsp_query-to> + <Hsp_hit-from>839</Hsp_hit-from> + <Hsp_hit-to>845</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TCGTGAA</Hsp_qseq> + <Hsp_hseq>TCGTGAA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>4</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2027</Hsp_hit-from> + <Hsp_hit-to>2033</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTGAAGA</Hsp_qseq> + <Hsp_hseq>GTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>11</Hit_num> + <Hit_id>gi|557804195|pdb|3J51|A</Hit_id> + <Hit_def>Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Intermediate Pre- Translocation State (pre3, 50s Subunit)</Hit_def> + <Hit_accession>3J51_A</Hit_accession> + <Hit_len>2903</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>32.2105</Hsp_bit-score> + <Hsp_score>16</Hsp_score> + <Hsp_evalue>0.000791334</Hsp_evalue> + <Hsp_query-from>1</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>961</Hsp_hit-from> + <Hsp_hit-to>976</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>16</Hsp_identity> + <Hsp_positive>16</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>16</Hsp_align-len> + <Hsp_qseq>CGTCCGTCGTGAAGAG</Hsp_qseq> + <Hsp_hseq>CGTCCGTCGTGAAGAG</Hsp_hseq> + <Hsp_midline>||||||||||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2591</Hsp_hit-from> + <Hsp_hit-to>2598</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>13</Hsp_query-to> + <Hsp_hit-from>839</Hsp_hit-from> + <Hsp_hit-to>845</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TCGTGAA</Hsp_qseq> + <Hsp_hseq>TCGTGAA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>4</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2027</Hsp_hit-from> + <Hsp_hit-to>2033</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTGAAGA</Hsp_qseq> + <Hsp_hseq>GTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>12</Hit_num> + <Hit_id>gi|557804163|pdb|3J50|A</Hit_id> + <Hit_def>Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Intermediate Pre- Translocation State (pre2, 50s Subunit)</Hit_def> + <Hit_accession>3J50_A</Hit_accession> + <Hit_len>2903</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>32.2105</Hsp_bit-score> + <Hsp_score>16</Hsp_score> + <Hsp_evalue>0.000791334</Hsp_evalue> + <Hsp_query-from>1</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>961</Hsp_hit-from> + <Hsp_hit-to>976</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>16</Hsp_identity> + <Hsp_positive>16</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>16</Hsp_align-len> + <Hsp_qseq>CGTCCGTCGTGAAGAG</Hsp_qseq> + <Hsp_hseq>CGTCCGTCGTGAAGAG</Hsp_hseq> + <Hsp_midline>||||||||||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2591</Hsp_hit-from> + <Hsp_hit-to>2598</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>13</Hsp_query-to> + <Hsp_hit-from>839</Hsp_hit-from> + <Hsp_hit-to>845</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TCGTGAA</Hsp_qseq> + <Hsp_hseq>TCGTGAA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>4</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2027</Hsp_hit-from> + <Hsp_hit-to>2033</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTGAAGA</Hsp_qseq> + <Hsp_hseq>GTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>13</Hit_num> + <Hit_id>gi|557804083|pdb|3J4X|A</Hit_id> + <Hit_def>Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Classic Pre- Translocation State (pre1b, 50s Subunit)</Hit_def> + <Hit_accession>3J4X_A</Hit_accession> + <Hit_len>2903</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>32.2105</Hsp_bit-score> + <Hsp_score>16</Hsp_score> + <Hsp_evalue>0.000791334</Hsp_evalue> + <Hsp_query-from>1</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>961</Hsp_hit-from> + <Hsp_hit-to>976</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>16</Hsp_identity> + <Hsp_positive>16</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>16</Hsp_align-len> + <Hsp_qseq>CGTCCGTCGTGAAGAG</Hsp_qseq> + <Hsp_hseq>CGTCCGTCGTGAAGAG</Hsp_hseq> + <Hsp_midline>||||||||||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2591</Hsp_hit-from> + <Hsp_hit-to>2598</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>13</Hsp_query-to> + <Hsp_hit-from>839</Hsp_hit-from> + <Hsp_hit-to>845</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TCGTGAA</Hsp_qseq> + <Hsp_hseq>TCGTGAA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>4</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2027</Hsp_hit-from> + <Hsp_hit-to>2033</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTGAAGA</Hsp_qseq> + <Hsp_hseq>GTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>14</Hit_num> + <Hit_id>gi|474452808|pdb|3J37|A</Hit_id> + <Hit_def>Chain A, Tetracycline Resistance Protein Tet(o) Bound To The Ribosome</Hit_def> + <Hit_accession>3J37_A</Hit_accession> + <Hit_len>2904</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>32.2105</Hsp_bit-score> + <Hsp_score>16</Hsp_score> + <Hsp_evalue>0.000791334</Hsp_evalue> + <Hsp_query-from>1</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>961</Hsp_hit-from> + <Hsp_hit-to>976</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>16</Hsp_identity> + <Hsp_positive>16</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>16</Hsp_align-len> + <Hsp_qseq>CGTCCGTCGTGAAGAG</Hsp_qseq> + <Hsp_hseq>CGTCCGTCGTGAAGAG</Hsp_hseq> + <Hsp_midline>||||||||||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2591</Hsp_hit-from> + <Hsp_hit-to>2598</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>13</Hsp_query-to> + <Hsp_hit-from>839</Hsp_hit-from> + <Hsp_hit-to>845</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TCGTGAA</Hsp_qseq> + <Hsp_hseq>TCGTGAA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>15</Hit_num> + <Hit_id>gi|326634210|pdb|3IZT|B</Hit_id> + <Hit_def>Chain B, Structural Insights Into Cognate Vs. Near-Cognate Discrimination During Decoding. This Entry Contains The Large Subunit Of A Ribosome Programmed With A Near-Cognate Codon. >gi|326634243|pdb|3IZU|B Chain B, Structural Insights Into Cognate Vs. Near-Cognate Discrimination During Decoding. This Entry Contains The Large Subunit Of A Ribosome Programmed With A Cognate Codon >gi|380763703|pdb|3J0T|B Chain B, Structural Characterization Of Mrna-Trna Translocation Intermediates (50s Ribosome Of Class2 Of The Six Classes) >gi|380763785|pdb|3J0W|B Chain B, Structural Characterization Of Mrna-Trna Translocation Intermediates (50s Ribosome Of Class 4a Of The Six Classes) >gi|380763843|pdb|3J0Y|B Chain B, Structural Characterization Of Mrna-Trna Translocation Intermediates (50s Ribosome Of Class 4b Of The Six Classes) >gi|380763925|pdb|3J11|B Chain B, Structural Characterization Of Mrna-Trna Translocation Intermediates (50s Ribosome Of Class 3 Of The Six Classes) >gi|380763959|pdb|3J12|B Chain B, Structural Characterization Of Mrna-Trna Translocation Intermediates (50s Ribosome Of Class 5 Of The Six Classes) >gi|380764016|pdb|3J14|B Chain B, Structural Characterization Of Mrna-Trna Translocation Intermediates (50s Ribosome Of Class 6 Of The Six Classes)</Hit_def> + <Hit_accession>3IZT_B</Hit_accession> + <Hit_len>2904</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>32.2105</Hsp_bit-score> + <Hsp_score>16</Hsp_score> + <Hsp_evalue>0.000791334</Hsp_evalue> + <Hsp_query-from>1</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>961</Hsp_hit-from> + <Hsp_hit-to>976</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>16</Hsp_identity> + <Hsp_positive>16</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>16</Hsp_align-len> + <Hsp_qseq>CGTCCGTCGTGAAGAG</Hsp_qseq> + <Hsp_hseq>CGTCCGTCGTGAAGAG</Hsp_hseq> + <Hsp_midline>||||||||||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2591</Hsp_hit-from> + <Hsp_hit-to>2598</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>13</Hsp_query-to> + <Hsp_hit-from>839</Hsp_hit-from> + <Hsp_hit-to>845</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TCGTGAA</Hsp_qseq> + <Hsp_hseq>TCGTGAA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>16</Hit_num> + <Hit_id>gi|224510767|pdb|3FIK|B</Hit_id> + <Hit_def>Chain B, Ternary Complex-Bound E.Coli 70s Ribosome. This Entry Consists Of The 50s Subunit. >gi|257097373|pdb|3I1N|A Chain A, Crystal Structure Of The E. Coli 70s Ribosome In An Intermediate State Of Ratcheting >gi|257097425|pdb|3I1P|A Chain A, Crystal Structure Of The E. Coli 70s Ribosome In An Intermediate State Of Ratcheting >gi|257097479|pdb|3I1R|A Chain A, Crystal Structure Of The E. Coli 70s Ribosome In An Intermediate State Of Ratcheting >gi|257097533|pdb|3I1T|A Chain A, Crystal Structure Of The E. Coli 70s Ribosome In An Intermediate State Of Ratcheting >gi|257097588|pdb|3I20|A Chain A, Crystal Structure Of The E. Coli 70s Ribosome In An Intermediate State Of Ratcheting >gi|257097643|pdb|3I22|A Chain A, Crystal Structure Of The E. Coli 70s Ribosome In An Intermediate State Of Ratcheting >gi|294662251|pdb|2WWQ|B Chain B, E.Coli 70s Ribosome Stalled During Translation Of Tnac Leader Peptide. This File Contains The 50s, The P-Site Trna And The Tnac Leader Peptide (Part 2 Of 2). >gi|309320065|pdb|3OFC|A Chain A, Crystal Structure Of The E. Coli Ribosome Bound To Chloramphenicol. This File Contains The 50s Subunit Of The First 70s Ribosome With Chloramphenicol Bound. >gi|309320169|pdb|3OFZ|A Chain A, Crystal Structure Of The E. Coli Ribosome Bound To Clindamycin. This File Contains The 50s Subunit Of The First 70s Ribosome Bound To Clindamycin. >gi|309320200|pdb|3OG0|A Chain A, Crystal Structure Of The E. Coli Ribosome Bound To Clindamycin. This File Contains The 50s Subunit Of The Second 70s Ribosome. >gi|315113654|pdb|3OAS|A Chain A, Crystal Structure Of The E. Coli Ribosome Bound To Telithromycin. This File Contains The 50s Subunit Of The Second 70s Ribosome. >gi|315113685|pdb|3OAT|A Chain A, Crystal Structure Of The E. Coli Ribosome Bound To Telithromycin. This File Contains The 50s Subunit Of The First 70s Ribosome With Telithromycin Bound. >gi|334359437|pdb|3R8S|A Chain A, Structures Of The Bacterial Ribosome In Classical And Hybrid States Of Trna Binding >gi|334359468|pdb|3R8T|A Chain A, Structures Of The Bacterial Ribosome In Classical And Hybrid States Of Trna Binding >gi|371927526|pdb|3SGF|A Chain A, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp State On A Rotated Conformation Of The Ribosome >gi|371927651|pdb|3UOS|A Chain A, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp State On A Rotated Conformation Of The Ribosome (Without Viomycin) >gi|386783121|pdb|3J19|A Chain A, Structure Of The Bacterial Ribosome Complexed By Tmrna-Smpb And Ef-G During Translocation And Mld-Loading (50s Subunit) >gi|567754995|pdb|3J5U|A Chain A, Structure Of The Ribosome With Elongation Factor G Trapped In The Pre- Translocation State (pre-translocation 70s*trna Structure, 50s Subunit) >gi|567755029|pdb|3J5W|A Chain A, Structure Of The Ribosome With Elongation Factor G Trapped In The Pre- Translocation State (pre-translocation 70s*trna*ef-g Structure, 50s Subunit)</Hit_def> + <Hit_accession>3FIK_B</Hit_accession> + <Hit_len>2903</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>32.2105</Hsp_bit-score> + <Hsp_score>16</Hsp_score> + <Hsp_evalue>0.000791334</Hsp_evalue> + <Hsp_query-from>1</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>961</Hsp_hit-from> + <Hsp_hit-to>976</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>16</Hsp_identity> + <Hsp_positive>16</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>16</Hsp_align-len> + <Hsp_qseq>CGTCCGTCGTGAAGAG</Hsp_qseq> + <Hsp_hseq>CGTCCGTCGTGAAGAG</Hsp_hseq> + <Hsp_midline>||||||||||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2591</Hsp_hit-from> + <Hsp_hit-to>2598</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>13</Hsp_query-to> + <Hsp_hit-from>839</Hsp_hit-from> + <Hsp_hit-to>845</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TCGTGAA</Hsp_qseq> + <Hsp_hseq>TCGTGAA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>4</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2027</Hsp_hit-from> + <Hsp_hit-to>2033</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTGAAGA</Hsp_qseq> + <Hsp_hseq>GTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>17</Hit_num> + <Hit_id>gi|256032374|pdb|3E1B|B</Hit_id> + <Hit_def>Chain B, Structure Of The 50s Subunit Of E. Coli Ribosome In Pre-Accommodation State >gi|256032431|pdb|3E1D|B Chain B, Structure Of The 50s Subunit Of E. Coli Ribosome In Post-Accommodation State</Hit_def> + <Hit_accession>3E1B_B</Hit_accession> + <Hit_len>2903</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>32.2105</Hsp_bit-score> + <Hsp_score>16</Hsp_score> + <Hsp_evalue>0.000791334</Hsp_evalue> + <Hsp_query-from>1</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>961</Hsp_hit-from> + <Hsp_hit-to>976</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>16</Hsp_identity> + <Hsp_positive>16</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>16</Hsp_align-len> + <Hsp_qseq>CGTCCGTCGTGAAGAG</Hsp_qseq> + <Hsp_hseq>CGTCCGTCGTGAAGAG</Hsp_hseq> + <Hsp_midline>||||||||||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2591</Hsp_hit-from> + <Hsp_hit-to>2598</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>13</Hsp_query-to> + <Hsp_hit-from>839</Hsp_hit-from> + <Hsp_hit-to>845</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TCGTGAA</Hsp_qseq> + <Hsp_hseq>TCGTGAA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>4</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2027</Hsp_hit-from> + <Hsp_hit-to>2033</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTGAAGA</Hsp_qseq> + <Hsp_hseq>GTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>18</Hit_num> + <Hit_id>gi|157883716|pdb|2GYC|0</Hit_id> + <Hit_def>Chain 0, Structure Of The 50s Subunit Of A Secm-Stalled E. Coli Ribosome Complex Obtained By Fitting Atomic Models For Rna And Protein Components Into Cryo-Em Map Emd-1143</Hit_def> + <Hit_accession>2GYC_0</Hit_accession> + <Hit_len>2740</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>32.2105</Hsp_bit-score> + <Hsp_score>16</Hsp_score> + <Hsp_evalue>0.000791334</Hsp_evalue> + <Hsp_query-from>1</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>889</Hsp_hit-from> + <Hsp_hit-to>904</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>16</Hsp_identity> + <Hsp_positive>16</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>16</Hsp_align-len> + <Hsp_qseq>CGTCCGTCGTGAAGAG</Hsp_qseq> + <Hsp_hseq>CGTCCGTCGTGAAGAG</Hsp_hseq> + <Hsp_midline>||||||||||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2453</Hsp_hit-from> + <Hsp_hit-to>2460</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>13</Hsp_query-to> + <Hsp_hit-from>776</Hsp_hit-from> + <Hsp_hit-to>782</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TCGTGAA</Hsp_qseq> + <Hsp_hseq>TCGTGAA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>4</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>1910</Hsp_hit-from> + <Hsp_hit-to>1916</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTGAAGA</Hsp_qseq> + <Hsp_hseq>GTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>19</Hit_num> + <Hit_id>gi|157883710|pdb|2GYA|0</Hit_id> + <Hit_def>Chain 0, Structure Of The 50s Subunit Of A Pre-Translocational E. Coli Ribosome Obtained By Fitting Atomic Models For Rna And Protein Components Into Cryo-Em Map Emd-1056</Hit_def> + <Hit_accession>2GYA_0</Hit_accession> + <Hit_len>2740</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>32.2105</Hsp_bit-score> + <Hsp_score>16</Hsp_score> + <Hsp_evalue>0.000791334</Hsp_evalue> + <Hsp_query-from>1</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>889</Hsp_hit-from> + <Hsp_hit-to>904</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>16</Hsp_identity> + <Hsp_positive>16</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>16</Hsp_align-len> + <Hsp_qseq>CGTCCGTCGTGAAGAG</Hsp_qseq> + <Hsp_hseq>CGTCCGTCGTGAAGAG</Hsp_hseq> + <Hsp_midline>||||||||||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2453</Hsp_hit-from> + <Hsp_hit-to>2460</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>13</Hsp_query-to> + <Hsp_hit-from>776</Hsp_hit-from> + <Hsp_hit-to>782</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TCGTGAA</Hsp_qseq> + <Hsp_hseq>TCGTGAA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>4</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>1910</Hsp_hit-from> + <Hsp_hit-to>1916</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTGAAGA</Hsp_qseq> + <Hsp_hseq>GTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>20</Hit_num> + <Hit_id>gi|122922257|pdb|2I2V|B</Hit_id> + <Hit_def>Chain B, Crystal Structure Of Ribosome With Messenger Rna And The Anticodon Stem-Loop Of P-Site Trna. This File Contains The 50s Subunit Of One 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes And Is Described In Remark 400.</Hit_def> + <Hit_accession>2I2V_B</Hit_accession> + <Hit_len>2904</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>32.2105</Hsp_bit-score> + <Hsp_score>16</Hsp_score> + <Hsp_evalue>0.000791334</Hsp_evalue> + <Hsp_query-from>1</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>961</Hsp_hit-from> + <Hsp_hit-to>976</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>16</Hsp_identity> + <Hsp_positive>16</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>16</Hsp_align-len> + <Hsp_qseq>CGTCCGTCGTGAAGAG</Hsp_qseq> + <Hsp_hseq>CGTCCGTCGTGAAGAG</Hsp_hseq> + <Hsp_midline>||||||||||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2591</Hsp_hit-from> + <Hsp_hit-to>2598</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>13</Hsp_query-to> + <Hsp_hit-from>839</Hsp_hit-from> + <Hsp_hit-to>845</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TCGTGAA</Hsp_qseq> + <Hsp_hseq>TCGTGAA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>4</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2027</Hsp_hit-from> + <Hsp_hit-to>2033</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTGAAGA</Hsp_qseq> + <Hsp_hseq>GTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>21</Hit_num> + <Hit_id>gi|83754062|pdb|2AW4|B</Hit_id> + <Hit_def>Chain B, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli At 3.5 A Resolution. This File Contains The 50s Subunit Of One 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes And Is Described In Remark 400. >gi|122922241|pdb|2I2T|B Chain B, Crystal Structure Of Ribosome With Messenger Rna And The Anticodon Stem-Loop Of P-Site Trna. This File Contains The 50s Subunit Of One 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes And Is Described In Remark 400. >gi|157836046|pdb|2QOV|B Chain B, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli In Complex With Spectinomycin. This File Contains The 50s Subunit Of The First 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes. >gi|157836098|pdb|2QOX|B Chain B, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli In Complex With Spectinomycin. This File Contains The 50s Subunit Of The Second 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes. >gi|157836150|pdb|2QOZ|B Chain B, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli In Complex With Spectinomycin And Neomycin. This File Contains The 50s Subunit Of The First 70s Ribosome, With Neomycin Bound. The Entire Crystal Structure Contains Two 70s Ribosomes. >gi|157836202|pdb|2QP1|B Chain B, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli In Complex With Spectinomycin And Neomycin. This File Contains The 50s Subunit Of The Second 70s Ribosome, With Neomycin Bound. The Entire Crystal Structure Contains Two 70s Ribosomes. >gi|158429721|pdb|2QAM|B Chain B, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli In Complex With Neomycin. This File Contains The 50s Subunit Of The First 70s Ribosome, With Neomycin Bound. The Entire Crystal Structure Contains Two 70s Ribosomes And Is Described In Remark 400. >gi|158429773|pdb|2QAO|B Chain B, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli In Complex With Neomycin. This File Contains The 50s Subunit Of The Second 70s Ribosome, With Neomycin Bound. The Entire Crystal Structure Contains Two 70s Ribosomes And Is Described In Remark 400. >gi|158429831|pdb|2QBA|B Chain B, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli In Complex With Gentamicin. This File Contains The 50s Subunit Of The First 70s Ribosome, With Gentamicin Bound. The Entire Crystal Structure Contains Two 70s Ribosomes And Is Described In Remark 400. >gi|158429883|pdb|2QBC|B Chain B, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli In Complex With Gentamicin. This File Contains The 50s Subunit Of The Second 70s Ribosome, With Gentamicin Bound. The Entire Crystal Structure Contains Two 70s Ribosomes And Is Described In Remark 400. >gi|158429935|pdb|2QBE|B Chain B, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli In Complex With Ribosome Recycling Factor (Rrf). This File Contains The 50s Subunit Of The First 70s Ribosome, With Rrf Bound. The Entire Crystal Structure Contains Two 70s Ribosomes And Is Described In Remark 400. >gi|158429988|pdb|2QBG|B Chain B, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli In Complex With Ribosome Recycling Factor (Rrf). This File Contains The 50s Subunit Of The Second 70s Ribosome, With Rrf Bound. The Entire Crystal Structure Contains Two 70s Ribosomes And Is Described In Remark 400. >gi|158430041|pdb|2QBI|B Chain B, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli In Complex With Gentamicin And Ribosome Recycling Factor (Rrf). This File Contains The 50s Subunit Of The First 70s Ribosome, With Gentamicin And Rrf Bound. The Entire Crystal Structure Contains Two 70s Ribosomes And Is Described In Remark 400. >gi|158430094|pdb|2QBK|B Chain B, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli In Complex With Gentamicin And Ribosome Recycling Factor (Rrf). This File Contains The 50s Subunit Of The Second 70s Ribosome, With Gentamicin And Rrf Bound. The Entire Crystal Structure Contains Two 70s Ribosomes And Is Described In Remark 400. >gi|158431394|pdb|2Z4L|B Chain B, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli In Complex With Paromomycin And Ribosome Recycling Factor (Rrf). This File Contains The 50s Subunit Of The First 70s Ribosome, With Paromomycin And Rrf Bound. The Entire Crystal Structure Contains Two 70s Ribosomes And Is Described In Remark 400. >gi|158431447|pdb|2Z4N|B Chain B, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli In Complex With Paromomycin And Ribosome Recycling Factor (Rrf). This File Contains The 50s Subunit Of The Second 70s Ribosome, With Paromomycin And Rrf Bound. The Entire Crystal Structure Contains Two 70s Ribosomes And Is Described In Remark 400. >gi|168988732|pdb|2VHM|B Chain B, Structure Of Pdf Binding Helix In Complex With The Ribosome (Part 1 Of 4) >gi|168988763|pdb|2VHN|B Chain B, Structure Of Pdf Binding Helix In Complex With The Ribosome. (Part 2 Of 4) >gi|169404603|pdb|2RDO|B Chain B, 50s Subunit With Ef-G(Gdpnp) And Rrf Bound >gi|197107301|pdb|3DF2|B Chain B, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli In Complex With Hygromycin B. This File Contains The 50s Subunit Of The First 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes. >gi|197107353|pdb|3DF4|B Chain B, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli In Complex With Hygromycin B. This File Contains The 50s Subunit Of The Second 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes. >gi|290560329|pdb|3KCR|8 Chain 8, Ribosome-Secy Complex. This Entry 3kcr Contains 50s Ribosomal Subnit. The 30s Ribosomal Subunit Can Be Found In Pdb Entry 3kc4 >gi|308198729|pdb|3ORB|A Chain A, Crystal Structure Of The E. Coli Ribosome Bound To Cem-101. This File Contains The 50s Subunit Of The First 70s Ribosome Bound To Cem-101. >gi|308388007|pdb|3OFQ|A Chain A, Crystal Structure Of The E. Coli Ribosome Bound To Erythromycin. This File Contains The 50s Subunit Of The Second 70s Ribosome. >gi|308388038|pdb|3OFR|A Chain A, Crystal Structure Of The E. Coli Ribosome Bound To Erythromycin. This File Contains The 50s Subunit Of The First 70s Ribosome With Erthromycin Bound. >gi|309320096|pdb|3OFD|A Chain A, Crystal Structure Of The E. Coli Ribosome Bound To Chloramphenicol. This File Contains The 50s Subunit Of The Second 70s Ribosome. >gi|329666014|pdb|3J01|8 Chain 8, Structure Of The Ribosome-Secye Complex In The Membrane Environment >gi|402550607|pdb|4GAR|A Chain A, Allosteric Control Of The Ribosome By Small-Molecule Antibiotics >gi|402550662|pdb|4GAU|A Chain A, Allosteric Control Of The Ribosome By Small-Molecule Antibiotics >gi|524934273|pdb|4KIX|A Chain A, Control Of Ribosomal Subunit Rotation By Elongation Factor G >gi|524934341|pdb|4KIZ|A Chain A, Control Of Ribosomal Subunit Rotation By Elongation Factor G >gi|524934404|pdb|4KJ1|A Chain A, Control Of Ribosomal Subunit Rotation By Elongation Factor G >gi|524934483|pdb|4KJ3|A Chain A, Control Of Ribosomal Subunit Rotation By Elongation Factor G >gi|524934551|pdb|4KJ5|A Chain A, Control Of Ribosomal Subunit Rotation By Elongation Factor G >gi|524934613|pdb|4KJ7|A Chain A, Control Of Ribosomal Subunit Rotation By Elongation Factor G >gi|524934678|pdb|4KJ9|A Chain A, Control Of Ribosomal Subunit Rotation By Elongation Factor G >gi|524934740|pdb|4KJB|A Chain A, Control Of Ribosomal Subunit Rotation By Elongation Factor G >gi|564730763|pdb|3J5O|A Chain A, Visualization Of Two Trnas Trapped In Transit During Ef-g-mediated Translocation (50s Subunit) >gi|597959819|pdb|3J5L|A Chain A, Structure Of The E. Coli 50s Subunit With Ermbl Nascent Chain</Hit_def> + <Hit_accession>2AW4_B</Hit_accession> + <Hit_len>2904</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>32.2105</Hsp_bit-score> + <Hsp_score>16</Hsp_score> + <Hsp_evalue>0.000791334</Hsp_evalue> + <Hsp_query-from>1</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>961</Hsp_hit-from> + <Hsp_hit-to>976</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>16</Hsp_identity> + <Hsp_positive>16</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>16</Hsp_align-len> + <Hsp_qseq>CGTCCGTCGTGAAGAG</Hsp_qseq> + <Hsp_hseq>CGTCCGTCGTGAAGAG</Hsp_hseq> + <Hsp_midline>||||||||||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2591</Hsp_hit-from> + <Hsp_hit-to>2598</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>13</Hsp_query-to> + <Hsp_hit-from>839</Hsp_hit-from> + <Hsp_hit-to>845</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TCGTGAA</Hsp_qseq> + <Hsp_hseq>TCGTGAA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>4</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2027</Hsp_hit-from> + <Hsp_hit-to>2033</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTGAAGA</Hsp_qseq> + <Hsp_hseq>GTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>22</Hit_num> + <Hit_id>gi|83754118|pdb|2AWB|B</Hit_id> + <Hit_def>Chain B, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli At 3.5 A Resolution. This File Contains The 50s Subunit Of The Second 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes And Is Described In Remark 400. >gi|126031747|pdb|2J28|B Chain B, Model Of E. Coli Srp Bound To 70s Rncs >gi|157880574|pdb|1VS8|B Chain B, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli In Complex With The Antibiotic Kasugamyin At 3.5a Resolution. This File Contains The 50s Subunit Of One 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes And Is Described In Remark 400.</Hit_def> + <Hit_accession>2AWB_B</Hit_accession> + <Hit_len>2904</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>32.2105</Hsp_bit-score> + <Hsp_score>16</Hsp_score> + <Hsp_evalue>0.000791334</Hsp_evalue> + <Hsp_query-from>1</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>961</Hsp_hit-from> + <Hsp_hit-to>976</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>16</Hsp_identity> + <Hsp_positive>16</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>16</Hsp_align-len> + <Hsp_qseq>CGTCCGTCGTGAAGAG</Hsp_qseq> + <Hsp_hseq>CGTCCGTCGTGAAGAG</Hsp_hseq> + <Hsp_midline>||||||||||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2591</Hsp_hit-from> + <Hsp_hit-to>2598</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>13</Hsp_query-to> + <Hsp_hit-from>839</Hsp_hit-from> + <Hsp_hit-to>845</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TCGTGAA</Hsp_qseq> + <Hsp_hseq>TCGTGAA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>4</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2027</Hsp_hit-from> + <Hsp_hit-to>2033</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTGAAGA</Hsp_qseq> + <Hsp_hseq>GTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>23</Hit_num> + <Hit_id>gi|157880571|pdb|1VS6|B</Hit_id> + <Hit_def>Chain B, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli In Complex With The Antibiotic Kasugamyin At 3.5a Resolution. This File Contains The 50s Subunit Of One 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes And Is Described In Remark 400. >gi|209870354|pdb|3BBX|B Chain B, The Hsp15 Protein Fitted Into The Low Resolution Cryo-Em Map 50s.Nc-Trna.Hsp15 Complex >gi|222447037|pdb|3DG0|B Chain B, Coordinates Of 16s And 23s Rrnas Fitted Into The Cryo-Em Map Of Ef-G-Bound Translocation Complex >gi|222447039|pdb|3DG2|B Chain B, Coordinates Of 16s And 23s Rrnas Fitted Into The Cryo-Em Map Of A Pretranslocation Complex >gi|222447041|pdb|3DG4|B Chain B, Coordinates Of 16s And 23s Rrnas Fitted Into The Cryo-Em Map Of Rf1-Bound Termination Complex >gi|222447043|pdb|3DG5|B Chain B, Coordinates Of 16s And 23s Rrnas Fitted Into The Cryo-Em Map Of Rf3-Bound Termination Complex >gi|308198355|pdb|1VT2|A Chain A, Crystal Structure Of The E. Coli Ribosome Bound To Cem-101. This File Contains The 50s Subunit Of The Second 70s Ribosome.</Hit_def> + <Hit_accession>1VS6_B</Hit_accession> + <Hit_len>2904</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>32.2105</Hsp_bit-score> + <Hsp_score>16</Hsp_score> + <Hsp_evalue>0.000791334</Hsp_evalue> + <Hsp_query-from>1</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>961</Hsp_hit-from> + <Hsp_hit-to>976</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>16</Hsp_identity> + <Hsp_positive>16</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>16</Hsp_align-len> + <Hsp_qseq>CGTCCGTCGTGAAGAG</Hsp_qseq> + <Hsp_hseq>CGTCCGTCGTGAAGAG</Hsp_hseq> + <Hsp_midline>||||||||||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2591</Hsp_hit-from> + <Hsp_hit-to>2598</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>13</Hsp_query-to> + <Hsp_hit-from>839</Hsp_hit-from> + <Hsp_hit-to>845</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TCGTGAA</Hsp_qseq> + <Hsp_hseq>TCGTGAA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>4</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2027</Hsp_hit-from> + <Hsp_hit-to>2033</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTGAAGA</Hsp_qseq> + <Hsp_hseq>GTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>24</Hit_num> + <Hit_id>gi|33357900|pdb|1P85|0</Hit_id> + <Hit_def>Chain 0, Real Space Refined Coordinates Of The 50s Subunit Fitted Into The Low Resolution Cryo-Em Map Of The Ef-G.Gtp State Of E. Coli 70s Ribosome >gi|33357927|pdb|1P86|0 Chain 0, Real Space Refined Coordinates Of The 50s Subunit Fitted Into The Low Resolution Cryo-Em Map Of The Initiation-Like State Of E. Coli 70s Ribosome</Hit_def> + <Hit_accession>1P85_0</Hit_accession> + <Hit_len>2904</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>32.2105</Hsp_bit-score> + <Hsp_score>16</Hsp_score> + <Hsp_evalue>0.000791334</Hsp_evalue> + <Hsp_query-from>1</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>961</Hsp_hit-from> + <Hsp_hit-to>976</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>16</Hsp_identity> + <Hsp_positive>16</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>16</Hsp_align-len> + <Hsp_qseq>CGTCCGTCGTGAAGAG</Hsp_qseq> + <Hsp_hseq>CGTCCGTCGTGAAGAG</Hsp_hseq> + <Hsp_midline>||||||||||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2591</Hsp_hit-from> + <Hsp_hit-to>2598</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>13</Hsp_query-to> + <Hsp_hit-from>839</Hsp_hit-from> + <Hsp_hit-to>845</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TCGTGAA</Hsp_qseq> + <Hsp_hseq>TCGTGAA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>4</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2027</Hsp_hit-from> + <Hsp_hit-to>2033</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTGAAGA</Hsp_qseq> + <Hsp_hseq>GTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>25</Hit_num> + <Hit_id>gi|7767146|pdb|1C2W|B</Hit_id> + <Hit_def>Chain B, 23s Rrna Structure Fitted To A Cryo-Electron Microscopic Map At 7.5 Angstroms Resolution</Hit_def> + <Hit_accession>1C2W_B</Hit_accession> + <Hit_len>2904</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>26.2635</Hsp_bit-score> + <Hsp_score>13</Hsp_score> + <Hsp_evalue>0.0488207</Hsp_evalue> + <Hsp_query-from>1</Hsp_query-from> + <Hsp_query-to>13</Hsp_query-to> + <Hsp_hit-from>961</Hsp_hit-from> + <Hsp_hit-to>973</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>13</Hsp_identity> + <Hsp_positive>13</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>13</Hsp_align-len> + <Hsp_qseq>CGTCCGTCGTGAA</Hsp_qseq> + <Hsp_hseq>CGTCCGTCGTGAA</Hsp_hseq> + <Hsp_midline>|||||||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>13</Hsp_query-to> + <Hsp_hit-from>839</Hsp_hit-from> + <Hsp_hit-to>845</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TCGTGAA</Hsp_qseq> + <Hsp_hseq>TCGTGAA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>26</Hit_num> + <Hit_id>gi|582044940|pdb|3J62|AA</Hit_id> + <Hit_def>Chain a, Model Of The Large Subunit Rna Based On A 5.5 A Cryo-em Map Of Triticum Aestivum Translating 80s Ribosome</Hit_def> + <Hit_accession>3J62_AA</Hit_accession> + <Hit_len>3391</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2961</Hsp_hit-from> + <Hsp_hit-to>2969</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>2</Hsp_query-from> + <Hsp_query-to>9</Hsp_query-to> + <Hsp_hit-from>177</Hsp_hit-from> + <Hsp_hit-to>170</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>-1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>GTCCGTCG</Hsp_qseq> + <Hsp_hseq>GTCCGTCG</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>10</Hsp_query-to> + <Hsp_hit-from>553</Hsp_hit-from> + <Hsp_hit-to>559</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>CCGTCGT</Hsp_qseq> + <Hsp_hseq>CCGTCGT</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>4</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>2</Hsp_query-from> + <Hsp_query-to>8</Hsp_query-to> + <Hsp_hit-from>2048</Hsp_hit-from> + <Hsp_hit-to>2042</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>-1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTCCGTC</Hsp_qseq> + <Hsp_hseq>GTCCGTC</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>5</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2211</Hsp_hit-from> + <Hsp_hit-to>2217</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTGAAGA</Hsp_qseq> + <Hsp_hseq>GTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>27</Hit_num> + <Hit_id>gi|567755268|pdb|4CE4|A</Hit_id> + <Hit_def>Chain A, 39s Large Subunit Of The Porcine Mitochondrial Ribosome</Hit_def> + <Hit_accession>4CE4_A</Hit_accession> + <Hit_len>1570</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>8</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>1020</Hsp_hit-from> + <Hsp_hit-to>1028</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CGTGAAGAG</Hsp_qseq> + <Hsp_hseq>CGTGAAGAG</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>28</Hit_num> + <Hit_id>gi|558704783|pdb|4BYP|5</Hit_id> + <Hit_def>Chain 5, Cryo-em Reconstruction Of The 80s-eif5b-met-itrnamet Eukaryotic Translation Initiation Complex</Hit_def> + <Hit_accession>4BYP_5</Hit_accession> + <Hit_len>3396</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2959</Hsp_hit-from> + <Hsp_hit-to>2967</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>8</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>1634</Hsp_hit-from> + <Hsp_hit-to>1627</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>-1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTGAAGA</Hsp_qseq> + <Hsp_hseq>CGTGAAGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>2435</Hsp_hit-from> + <Hsp_hit-to>2442</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>GTGAAGAG</Hsp_qseq> + <Hsp_hseq>GTGAAGAG</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>4</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>10</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>1100</Hsp_hit-from> + <Hsp_hit-to>1106</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TGAAGAG</Hsp_qseq> + <Hsp_hseq>TGAAGAG</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>5</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2216</Hsp_hit-from> + <Hsp_hit-to>2222</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTGAAGA</Hsp_qseq> + <Hsp_hseq>GTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>29</Hit_num> + <Hit_id>gi|558704825|pdb|4BYW|5</Hit_id> + <Hit_def>Chain 5, Cryo-em Reconstruction Of The 80s-eif5b-met-itrnamet Eukaryotic Translation Initiation Complex</Hit_def> + <Hit_accession>4BYW_5</Hit_accession> + <Hit_len>3396</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2959</Hsp_hit-from> + <Hsp_hit-to>2967</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>8</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>1634</Hsp_hit-from> + <Hsp_hit-to>1627</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>-1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTGAAGA</Hsp_qseq> + <Hsp_hseq>CGTGAAGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>2435</Hsp_hit-from> + <Hsp_hit-to>2442</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>GTGAAGAG</Hsp_qseq> + <Hsp_hseq>GTGAAGAG</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>4</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>10</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>1100</Hsp_hit-from> + <Hsp_hit-to>1106</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TGAAGAG</Hsp_qseq> + <Hsp_hseq>TGAAGAG</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>5</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2216</Hsp_hit-from> + <Hsp_hit-to>2222</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTGAAGA</Hsp_qseq> + <Hsp_hseq>GTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>30</Hit_num> + <Hit_id>gi|551701574|pdb|3J44|1</Hit_id> + <Hit_def>Chain 1, Structure Of The Methanococcus Jannaschii Ribosome-secyebeta Channel Complex (50s Ribosomal Subunit)</Hit_def> + <Hit_accession>3J44_1</Hit_accession> + <Hit_len>3049</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>1</Hsp_query-from> + <Hsp_query-to>13</Hsp_query-to> + <Hsp_hit-from>651</Hsp_hit-from> + <Hsp_hit-to>663</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>12</Hsp_identity> + <Hsp_positive>12</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>13</Hsp_align-len> + <Hsp_qseq>CGTCCGTCGTGAA</Hsp_qseq> + <Hsp_hseq>CGTCCGTCTTGAA</Hsp_hseq> + <Hsp_midline>|||||||| ||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2705</Hsp_hit-from> + <Hsp_hit-to>2713</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>31</Hit_num> + <Hit_id>gi|508123724|pdb|4HUB|0</Hit_id> + <Hit_def>Chain 0, The Re-refined Crystal Structure Of The Haloarcula Marismortui Large Ribosomal Subunit At 2.4 Angstrom Resolution: More Complete Structure Of The L7/l12 And L1 Stalk, L5 And Lx Proteins</Hit_def> + <Hit_accession>4HUB_0</Hit_accession> + <Hit_len>2910</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>298</Hsp_hit-from> + <Hsp_hit-to>290</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>-1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>TCGTGAAGA</Hsp_qseq> + <Hsp_hseq>TCGTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2618</Hsp_hit-from> + <Hsp_hit-to>2626</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>6</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2599</Hsp_hit-from> + <Hsp_hit-to>2605</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTCGTGA</Hsp_qseq> + <Hsp_hseq>GTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>32</Hit_num> + <Hit_id>gi|485601478|pdb|3J3F|5</Hit_id> + <Hit_def>Chain 5, Structure Of The H. Sapiens 60s Rrna</Hit_def> + <Hit_accession>3J3F_5</Hit_accession> + <Hit_len>5070</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>4536</Hsp_hit-from> + <Hsp_hit-to>4544</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>1</Hsp_query-from> + <Hsp_query-to>8</Hsp_query-to> + <Hsp_hit-from>765</Hsp_hit-from> + <Hsp_hit-to>772</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCCGTC</Hsp_qseq> + <Hsp_hseq>CGTCCGTC</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>1</Hsp_query-from> + <Hsp_query-to>8</Hsp_query-to> + <Hsp_hit-from>769</Hsp_hit-from> + <Hsp_hit-to>776</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCCGTC</Hsp_qseq> + <Hsp_hseq>CGTCCGTC</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>4</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>1</Hsp_query-from> + <Hsp_query-to>8</Hsp_query-to> + <Hsp_hit-from>773</Hsp_hit-from> + <Hsp_hit-to>780</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCCGTC</Hsp_qseq> + <Hsp_hseq>CGTCCGTC</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>5</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>1</Hsp_query-from> + <Hsp_query-to>8</Hsp_query-to> + <Hsp_hit-from>777</Hsp_hit-from> + <Hsp_hit-to>784</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCCGTC</Hsp_qseq> + <Hsp_hseq>CGTCCGTC</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>6</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>3939</Hsp_hit-from> + <Hsp_hit-to>3946</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>GTGAAGAG</Hsp_qseq> + <Hsp_hseq>GTGAAGAG</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>7</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>10</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>393</Hsp_hit-from> + <Hsp_hit-to>399</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TGAAGAG</Hsp_qseq> + <Hsp_hseq>TGAAGAG</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>8</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>3720</Hsp_hit-from> + <Hsp_hit-to>3726</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTGAAGA</Hsp_qseq> + <Hsp_hseq>GTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>33</Hit_num> + <Hit_id>gi|485601474|pdb|3J3E|5</Hit_id> + <Hit_def>Chain 5, Structure Of The D. Melanogaster 60s Rrna</Hit_def> + <Hit_accession>3J3E_5</Hit_accession> + <Hit_len>3970</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>3490</Hsp_hit-from> + <Hsp_hit-to>3498</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>2177</Hsp_hit-from> + <Hsp_hit-to>2184</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>GTGAAGAG</Hsp_qseq> + <Hsp_hseq>GTGAAGAG</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2594</Hsp_hit-from> + <Hsp_hit-to>2600</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTGAAGA</Hsp_qseq> + <Hsp_hseq>GTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>4</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>1</Hsp_query-from> + <Hsp_query-to>7</Hsp_query-to> + <Hsp_hit-from>3627</Hsp_hit-from> + <Hsp_hit-to>3633</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>CGTCCGT</Hsp_qseq> + <Hsp_hseq>CGTCCGT</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>34</Hit_num> + <Hit_id>gi|449802187|pdb|3ZEX|B</Hit_id> + <Hit_def>Chain B, High_resolution Cryo-electron Microscopy Structure Of The Trypanosoma Brucei Ribosome</Hit_def> + <Hit_accession>3ZEX_B</Hit_accession> + <Hit_len>1465</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>1334</Hsp_hit-from> + <Hsp_hit-to>1342</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>10</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>705</Hsp_hit-from> + <Hsp_hit-to>711</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TGAAGAG</Hsp_qseq> + <Hsp_hseq>TGAAGAG</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>35</Hit_num> + <Hit_id>gi|428697991|pdb|3J2L|1</Hit_id> + <Hit_def>Chain 1, Promiscuous Behavior Of Proteins In Archaeal Ribosomes Revealed By Cryo-em: Implications For Evolution Of Eukaryotic Ribosomes (50s Ribosomal Rna)</Hit_def> + <Hit_accession>3J2L_1</Hit_accession> + <Hit_len>3049</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>1</Hsp_query-from> + <Hsp_query-to>13</Hsp_query-to> + <Hsp_hit-from>651</Hsp_hit-from> + <Hsp_hit-to>663</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>12</Hsp_identity> + <Hsp_positive>12</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>13</Hsp_align-len> + <Hsp_qseq>CGTCCGTCGTGAA</Hsp_qseq> + <Hsp_hseq>CGTCCGTCTTGAA</Hsp_hseq> + <Hsp_midline>|||||||| ||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2705</Hsp_hit-from> + <Hsp_hit-to>2713</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>36</Hit_num> + <Hit_id>gi|392311504|pdb|3OW2|0</Hit_id> + <Hit_def>Chain 0, Crystal Structure Of Enhanced Macrolide Bound To 50s Ribosomal Subunit</Hit_def> + <Hit_accession>3OW2_0</Hit_accession> + <Hit_len>2902</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2613</Hsp_hit-from> + <Hsp_hit-to>2621</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>6</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2594</Hsp_hit-from> + <Hsp_hit-to>2600</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTCGTGA</Hsp_qseq> + <Hsp_hseq>GTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>37</Hit_num> + <Hit_id>gi|374977932|pdb|4ADX|0</Hit_id> + <Hit_def>Chain 0, The Cryo-em Structure Of The Archaeal 50s Ribosomal Subunit In Complex With Initiation Factor 6</Hit_def> + <Hit_accession>4ADX_0</Hit_accession> + <Hit_len>2923</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>305</Hsp_hit-from> + <Hsp_hit-to>297</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>-1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>TCGTGAAGA</Hsp_qseq> + <Hsp_hseq>TCGTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2625</Hsp_hit-from> + <Hsp_hit-to>2633</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>6</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2606</Hsp_hit-from> + <Hsp_hit-to>2612</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTCGTGA</Hsp_qseq> + <Hsp_hseq>GTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>38</Hit_num> + <Hit_id>gi|364506133|pdb|3U5F|6</Hit_id> + <Hit_def>Chain 6, The Structure Of The Eukaryotic Ribosome At 3.0 A Resolution. This Entry Contains Ribosomal Rna And Ions Of The 40s Subunit, Ribosome B</Hit_def> + <Hit_accession>3U5F_6</Hit_accession> + <Hit_len>1800</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>3</Hsp_query-from> + <Hsp_query-to>11</Hsp_query-to> + <Hsp_hit-from>1528</Hsp_hit-from> + <Hsp_hit-to>1536</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>TCCGTCGTG</Hsp_qseq> + <Hsp_hseq>TCCGTCGTG</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>10</Hsp_query-to> + <Hsp_hit-from>1006</Hsp_hit-from> + <Hsp_hit-to>1012</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>CCGTCGT</Hsp_qseq> + <Hsp_hseq>CCGTCGT</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>10</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>1569</Hsp_hit-from> + <Hsp_hit-to>1563</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>-1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TGAAGAG</Hsp_qseq> + <Hsp_hseq>TGAAGAG</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>39</Hit_num> + <Hit_id>gi|364506095|pdb|3U5B|2</Hit_id> + <Hit_def>Chain 2, The Structure Of The Eukaryotic Ribosome At 3.0 A Resolution. This Entry Contains Ribosomal Rna And Ions Of The 40s Subunit, Ribosome A >gi|558704782|pdb|4BYO|2 Chain 2, Cryo-em Reconstruction Of The 80s-eif5b-met-itrnamet Eukaryotic Translation Initiation Complex >gi|558704824|pdb|4BYV|2 Chain 2, Cryo-em Reconstruction Of The 80s-eif5b-met-itrnamet Eukaryotic Translation Initiation Complex</Hit_def> + <Hit_accession>3U5B_2</Hit_accession> + <Hit_len>1800</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>3</Hsp_query-from> + <Hsp_query-to>11</Hsp_query-to> + <Hsp_hit-from>1528</Hsp_hit-from> + <Hsp_hit-to>1536</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>TCCGTCGTG</Hsp_qseq> + <Hsp_hseq>TCCGTCGTG</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>10</Hsp_query-to> + <Hsp_hit-from>1006</Hsp_hit-from> + <Hsp_hit-to>1012</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>CCGTCGT</Hsp_qseq> + <Hsp_hseq>CCGTCGT</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>10</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>1569</Hsp_hit-from> + <Hsp_hit-to>1563</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>-1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TGAAGAG</Hsp_qseq> + <Hsp_hseq>TGAAGAG</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>40</Hit_num> + <Hit_id>gi|358440203|pdb|4A1D|1</Hit_id> + <Hit_def>Chain 1, T.Thermophila 60s Ribosomal Subunit In Complex With Initiation Factor 6. This File Contains 26s Rrna And Proteins Of Molecule 4.</Hit_def> + <Hit_accession>4A1D_1</Hit_accession> + <Hit_len>3119</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2280</Hsp_hit-from> + <Hsp_hit-to>2288</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>TCGTGAAGA</Hsp_qseq> + <Hsp_hseq>TCGTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2714</Hsp_hit-from> + <Hsp_hit-to>2722</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>8</Hsp_query-from> + <Hsp_query-to>14</Hsp_query-to> + <Hsp_hit-from>2838</Hsp_hit-from> + <Hsp_hit-to>2844</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>CGTGAAG</Hsp_qseq> + <Hsp_hseq>CGTGAAG</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>41</Hit_num> + <Hit_id>gi|358440111|pdb|4A18|1</Hit_id> + <Hit_def>Chain 1, T.Thermophila 60s Ribosomal Subunit In Complex With Initiation Factor 6. This File Contains 26s Rrna And Proteins Of Molecule 1</Hit_def> + <Hit_accession>4A18_1</Hit_accession> + <Hit_len>3354</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2513</Hsp_hit-from> + <Hsp_hit-to>2521</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>TCGTGAAGA</Hsp_qseq> + <Hsp_hseq>TCGTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2947</Hsp_hit-from> + <Hsp_hit-to>2955</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>8</Hsp_query-from> + <Hsp_query-to>14</Hsp_query-to> + <Hsp_hit-from>3071</Hsp_hit-from> + <Hsp_hit-to>3077</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>CGTGAAG</Hsp_qseq> + <Hsp_hseq>CGTGAAG</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>42</Hit_num> + <Hit_id>gi|358440157|pdb|4A1B|1</Hit_id> + <Hit_def>Chain 1, T.Thermophila 60s Ribosomal Subunit In Complex With Initiation Factor 6. This File Contains 26s Rrna And Proteins Of Molecule 3. >gi|359807703|pdb|4A19|1 Chain 1, T.Thermophila 60s Ribosomal Subunit In Complex With Initiation Factor 6. This File Contains 26s Rrna And Proteins Of Molecule 2.</Hit_def> + <Hit_accession>4A1B_1</Hit_accession> + <Hit_len>3354</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2513</Hsp_hit-from> + <Hsp_hit-to>2521</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>TCGTGAAGA</Hsp_qseq> + <Hsp_hseq>TCGTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2947</Hsp_hit-from> + <Hsp_hit-to>2955</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>8</Hsp_query-from> + <Hsp_query-to>14</Hsp_query-to> + <Hsp_hit-from>3071</Hsp_hit-from> + <Hsp_hit-to>3077</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>CGTGAAG</Hsp_qseq> + <Hsp_hseq>CGTGAAG</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>43</Hit_num> + <Hit_id>gi|357380452|pdb|3J0L|8</Hit_id> + <Hit_def>Chain 8, Core Of Mammalian 80s Pre-Ribosome In Complex With Trnas Fitted To A 9.8a Cryo-Em Map: Classic Pre State 1</Hit_def> + <Hit_accession>3J0L_8</Hit_accession> + <Hit_len>20</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>3</Hsp_hit-from> + <Hsp_hit-to>11</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>44</Hit_num> + <Hit_id>gi|357380483|pdb|3J0O|8</Hit_id> + <Hit_def>Chain 8, Core Of Mammalian 80s Pre-Ribosome In Complex With Trnas Fitted To A 9a Cryo-Em Map: Classic Pre State 2</Hit_def> + <Hit_accession>3J0O_8</Hit_accession> + <Hit_len>20</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>3</Hsp_hit-from> + <Hsp_hit-to>11</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>45</Hit_num> + <Hit_id>gi|315113523|pdb|3O58|1</Hit_id> + <Hit_def>Chain 1, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit Of The First 80s In The Asymmetric Unit. >gi|418837761|pdb|4B6B|5 Chain 5, Cryo-Em Structure Of The 60s Ribosomal Subunit In Complex With Arx1 And Rei1 >gi|597959861|pdb|3J64|1 Chain 1, Arx1 Pre-60s Particle. This Entry Contains The Rrna.</Hit_def> + <Hit_accession>3O58_1</Hit_accession> + <Hit_len>3396</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2959</Hsp_hit-from> + <Hsp_hit-to>2967</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>8</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>1634</Hsp_hit-from> + <Hsp_hit-to>1627</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>-1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTGAAGA</Hsp_qseq> + <Hsp_hseq>CGTGAAGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>2435</Hsp_hit-from> + <Hsp_hit-to>2442</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>GTGAAGAG</Hsp_qseq> + <Hsp_hseq>GTGAAGAG</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>4</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>10</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>1100</Hsp_hit-from> + <Hsp_hit-to>1106</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TGAAGAG</Hsp_qseq> + <Hsp_hseq>TGAAGAG</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>5</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2216</Hsp_hit-from> + <Hsp_hit-to>2222</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTGAAGA</Hsp_qseq> + <Hsp_hseq>GTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>46</Hit_num> + <Hit_id>gi|315113568|pdb|3O5H|1</Hit_id> + <Hit_def>Chain 1, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit Of The Second 80s In The Asymmetric Unit. >gi|364506130|pdb|3U5D|1 Chain 1, The Structure Of The Eukaryotic Ribosome At 3.0 A Resolution. This Entry Contains Ribosomal Rna And Ions Of The 60s Subunit, Ribosome A >gi|364506168|pdb|3U5H|5 Chain 5, The Structure Of The Eukaryotic Ribosome At 3.0 A Resolution. This Entry Contains Ribosomal Rna And Ions Of The 60s Subunit, Ribosome B</Hit_def> + <Hit_accession>3O5H_1</Hit_accession> + <Hit_len>3396</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2959</Hsp_hit-from> + <Hsp_hit-to>2967</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>8</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>1634</Hsp_hit-from> + <Hsp_hit-to>1627</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>-1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTGAAGA</Hsp_qseq> + <Hsp_hseq>CGTGAAGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>2435</Hsp_hit-from> + <Hsp_hit-to>2442</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>GTGAAGAG</Hsp_qseq> + <Hsp_hseq>GTGAAGAG</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>4</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>10</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>1100</Hsp_hit-from> + <Hsp_hit-to>1106</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TGAAGAG</Hsp_qseq> + <Hsp_hseq>TGAAGAG</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>5</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2216</Hsp_hit-from> + <Hsp_hit-to>2222</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTGAAGA</Hsp_qseq> + <Hsp_hseq>GTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>47</Hit_num> + <Hit_id>gi|315113447|pdb|3O2Z|1</Hit_id> + <Hit_def>Chain 1, Yeast 80s Ribosome. This Entry Consists Of The 40s Subunit Of The First 80s In The Asymmetric Unit.</Hit_def> + <Hit_accession>3O2Z_1</Hit_accession> + <Hit_len>1800</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>3</Hsp_query-from> + <Hsp_query-to>11</Hsp_query-to> + <Hsp_hit-from>1528</Hsp_hit-from> + <Hsp_hit-to>1536</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>TCCGTCGTG</Hsp_qseq> + <Hsp_hseq>TCCGTCGTG</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>10</Hsp_query-to> + <Hsp_hit-from>1006</Hsp_hit-from> + <Hsp_hit-to>1012</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>CCGTCGT</Hsp_qseq> + <Hsp_hseq>CCGTCGT</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>10</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>1569</Hsp_hit-from> + <Hsp_hit-to>1563</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>-1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TGAAGAG</Hsp_qseq> + <Hsp_hseq>TGAAGAG</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>48</Hit_num> + <Hit_id>gi|315113475|pdb|3O30|1</Hit_id> + <Hit_def>Chain 1, Yeast 80s Ribosome. This Entry Consists Of The 40s Subunit Of The Second 80s In The Asymmetric Unit.</Hit_def> + <Hit_accession>3O30_1</Hit_accession> + <Hit_len>1800</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>3</Hsp_query-from> + <Hsp_query-to>11</Hsp_query-to> + <Hsp_hit-from>1528</Hsp_hit-from> + <Hsp_hit-to>1536</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>TCCGTCGTG</Hsp_qseq> + <Hsp_hseq>TCCGTCGTG</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>10</Hsp_query-to> + <Hsp_hit-from>1006</Hsp_hit-from> + <Hsp_hit-to>1012</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>CCGTCGT</Hsp_qseq> + <Hsp_hseq>CCGTCGT</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>10</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>1569</Hsp_hit-from> + <Hsp_hit-to>1563</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>-1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TGAAGAG</Hsp_qseq> + <Hsp_hseq>TGAAGAG</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>49</Hit_num> + <Hit_id>gi|313103747|pdb|3IZF|A</Hit_id> + <Hit_def>Chain A, Model Of The Large Subunit Rna Based On A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae Translating 80s Ribosome (With Es27l-In Conformation)</Hit_def> + <Hit_accession>3IZF_A</Hit_accession> + <Hit_len>3396</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2959</Hsp_hit-from> + <Hsp_hit-to>2967</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>8</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>1634</Hsp_hit-from> + <Hsp_hit-to>1627</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>-1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTGAAGA</Hsp_qseq> + <Hsp_hseq>CGTGAAGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>2435</Hsp_hit-from> + <Hsp_hit-to>2442</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>GTGAAGAG</Hsp_qseq> + <Hsp_hseq>GTGAAGAG</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>4</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>10</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>1100</Hsp_hit-from> + <Hsp_hit-to>1106</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TGAAGAG</Hsp_qseq> + <Hsp_hseq>TGAAGAG</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>5</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2216</Hsp_hit-from> + <Hsp_hit-to>2222</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTGAAGA</Hsp_qseq> + <Hsp_hseq>GTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>50</Hit_num> + <Hit_id>gi|313103744|pdb|3IZE|A</Hit_id> + <Hit_def>Chain A, Model Of The Small Subunit Rna Based On A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae Translating 80s Ribosome</Hit_def> + <Hit_accession>3IZE_A</Hit_accession> + <Hit_len>1800</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>3</Hsp_query-from> + <Hsp_query-to>11</Hsp_query-to> + <Hsp_hit-from>1528</Hsp_hit-from> + <Hsp_hit-to>1536</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>TCCGTCGTG</Hsp_qseq> + <Hsp_hseq>TCCGTCGTG</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>10</Hsp_query-to> + <Hsp_hit-from>1006</Hsp_hit-from> + <Hsp_hit-to>1012</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>CCGTCGT</Hsp_qseq> + <Hsp_hseq>CCGTCGT</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>10</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>1569</Hsp_hit-from> + <Hsp_hit-to>1563</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>-1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TGAAGAG</Hsp_qseq> + <Hsp_hseq>TGAAGAG</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>51</Hit_num> + <Hit_id>gi|296278448|pdb|3KO2|I</Hit_id> + <Hit_def>Chain I, I-Msoi Re-Designed For Altered Dna Cleavage Specificity (-7c)</Hit_def> + <Hit_accession>3KO2_I</Hit_accession> + <Hit_len>24</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>19</Hsp_hit-from> + <Hsp_hit-to>11</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>-1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>52</Hit_num> + <Hit_id>gi|296278447|pdb|3KO2|H</Hit_id> + <Hit_def>Chain H, I-Msoi Re-Designed For Altered Dna Cleavage Specificity (-7c)</Hit_def> + <Hit_accession>3KO2_H</Hit_accession> + <Hit_len>24</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>6</Hsp_hit-from> + <Hsp_hit-to>14</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>53</Hit_num> + <Hit_id>gi|296278444|pdb|3KO2|D</Hit_id> + <Hit_def>Chain D, I-Msoi Re-Designed For Altered Dna Cleavage Specificity (-7c)</Hit_def> + <Hit_accession>3KO2_D</Hit_accession> + <Hit_len>24</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>19</Hsp_hit-from> + <Hsp_hit-to>11</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>-1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>54</Hit_num> + <Hit_id>gi|296278443|pdb|3KO2|C</Hit_id> + <Hit_def>Chain C, I-Msoi Re-Designed For Altered Dna Cleavage Specificity (-7c)</Hit_def> + <Hit_accession>3KO2_C</Hit_accession> + <Hit_len>24</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>6</Hsp_hit-from> + <Hsp_hit-to>14</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>55</Hit_num> + <Hit_id>gi|290790096|pdb|3I56|0</Hit_id> + <Hit_def>Chain 0, Co-Crystal Structure Of Triacetyloleandomcyin Bound To The Large Ribosomal Subunit</Hit_def> + <Hit_accession>3I56_0</Hit_accession> + <Hit_len>2923</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>305</Hsp_hit-from> + <Hsp_hit-to>297</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>-1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>TCGTGAAGA</Hsp_qseq> + <Hsp_hseq>TCGTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2625</Hsp_hit-from> + <Hsp_hit-to>2633</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>6</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2606</Hsp_hit-from> + <Hsp_hit-to>2612</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTCGTGA</Hsp_qseq> + <Hsp_hseq>GTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>56</Hit_num> + <Hit_id>gi|281500859|pdb|3JYX|5</Hit_id> + <Hit_def>Chain 5, Structure Of The 60s Rrna For Eukaryotic Ribosome Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome At 8.9a Resolution</Hit_def> + <Hit_accession>3JYX_5</Hit_accession> + <Hit_len>3170</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2740</Hsp_hit-from> + <Hsp_hit-to>2748</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>8</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>1587</Hsp_hit-from> + <Hsp_hit-to>1580</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>-1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTGAAGA</Hsp_qseq> + <Hsp_hseq>CGTGAAGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>2222</Hsp_hit-from> + <Hsp_hit-to>2229</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>GTGAAGAG</Hsp_qseq> + <Hsp_hseq>GTGAAGAG</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>4</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>6</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>1344</Hsp_hit-from> + <Hsp_hit-to>1350</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTCGTGA</Hsp_qseq> + <Hsp_hseq>GTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>5</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2003</Hsp_hit-from> + <Hsp_hit-to>2009</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTGAAGA</Hsp_qseq> + <Hsp_hseq>GTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>57</Hit_num> + <Hit_id>gi|281500807|pdb|3JYV|A</Hit_id> + <Hit_def>Chain A, Structure Of The 40s Rrna And Proteins And PE TRNA FOR EUKARYOTIC Ribosome Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome At 8.9a Resolution</Hit_def> + <Hit_accession>3JYV_A</Hit_accession> + <Hit_len>1761</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>3</Hsp_query-from> + <Hsp_query-to>11</Hsp_query-to> + <Hsp_hit-from>1492</Hsp_hit-from> + <Hsp_hit-to>1500</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>TCCGTCGTG</Hsp_qseq> + <Hsp_hseq>TCCGTCGTG</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>10</Hsp_query-to> + <Hsp_hit-from>981</Hsp_hit-from> + <Hsp_hit-to>987</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>CCGTCGT</Hsp_qseq> + <Hsp_hseq>CCGTCGT</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>10</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>1533</Hsp_hit-from> + <Hsp_hit-to>1527</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>-1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TGAAGAG</Hsp_qseq> + <Hsp_hseq>TGAAGAG</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>58</Hit_num> + <Hit_id>gi|259090425|pdb|1S1I|3</Hit_id> + <Hit_def>Chain 3, Structure Of The Ribosomal 80s-Eef2-Sordarin Complex From Yeast Obtained By Docking Atomic Models For Rna And Protein Components Into A 11.7 A Cryo-Em Map. This File, 1s1i, Contains 60s Subunit. The 40s Ribosomal Subunit Is In File 1s1h.</Hit_def> + <Hit_accession>1S1I_3</Hit_accession> + <Hit_len>2999</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2710</Hsp_hit-from> + <Hsp_hit-to>2718</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>6</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2691</Hsp_hit-from> + <Hsp_hit-to>2697</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTCGTGA</Hsp_qseq> + <Hsp_hseq>GTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>59</Hit_num> + <Hit_id>gi|208435493|pdb|2QEX|0</Hit_id> + <Hit_def>Chain 0, Negamycin Binds To The Wall Of The Nascent Chain Exit Tunnel Of The 50s Ribosomal Subunit</Hit_def> + <Hit_accession>2QEX_0</Hit_accession> + <Hit_len>2772</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2476</Hsp_hit-from> + <Hsp_hit-to>2484</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>6</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2457</Hsp_hit-from> + <Hsp_hit-to>2463</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTCGTGA</Hsp_qseq> + <Hsp_hseq>GTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>60</Hit_num> + <Hit_id>gi|194368703|pdb|3CPW|0</Hit_id> + <Hit_def>Chain 0, The Structure Of The Antibiotic Linezolid Bound To The Large Ribosomal Subunit Of Haloarcula Marismortui</Hit_def> + <Hit_accession>3CPW_0</Hit_accession> + <Hit_len>2922</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2624</Hsp_hit-from> + <Hsp_hit-to>2632</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>6</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2605</Hsp_hit-from> + <Hsp_hit-to>2611</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTCGTGA</Hsp_qseq> + <Hsp_hseq>GTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>61</Hit_num> + <Hit_id>gi|188596372|pdb|3CCV|0</Hit_id> + <Hit_def>Chain 0, Structure Of Anisomycin Resistant 50s Ribosomal Subunit: 23s Rrna Mutation G2616a >gi|188596403|pdb|3CD6|0 Chain 0, Co-cystal Of Large Ribosomal Subunit Mutant G2616a With Cc-puromycin</Hit_def> + <Hit_accession>3CCV_0</Hit_accession> + <Hit_len>2923</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>305</Hsp_hit-from> + <Hsp_hit-to>297</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>-1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>TCGTGAAGA</Hsp_qseq> + <Hsp_hseq>TCGTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2625</Hsp_hit-from> + <Hsp_hit-to>2633</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>6</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2606</Hsp_hit-from> + <Hsp_hit-to>2612</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTCGTGA</Hsp_qseq> + <Hsp_hseq>GTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>62</Hit_num> + <Hit_id>gi|188596341|pdb|3CCU|0</Hit_id> + <Hit_def>Chain 0, Structure Of Anisomycin Resistant 50s Ribosomal Subunit: 23s Rrna Mutation G2482c</Hit_def> + <Hit_accession>3CCU_0</Hit_accession> + <Hit_len>2923</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>305</Hsp_hit-from> + <Hsp_hit-to>297</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>-1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>TCGTGAAGA</Hsp_qseq> + <Hsp_hseq>TCGTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2625</Hsp_hit-from> + <Hsp_hit-to>2633</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>6</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2606</Hsp_hit-from> + <Hsp_hit-to>2612</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTCGTGA</Hsp_qseq> + <Hsp_hseq>GTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>63</Hit_num> + <Hit_id>gi|188596310|pdb|3CCS|0</Hit_id> + <Hit_def>Chain 0, Structure Of Anisomycin Resistant 50s Ribosomal Subunit: 23s Rrna Mutation G2482a</Hit_def> + <Hit_accession>3CCS_0</Hit_accession> + <Hit_len>2923</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>305</Hsp_hit-from> + <Hsp_hit-to>297</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>-1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>TCGTGAAGA</Hsp_qseq> + <Hsp_hseq>TCGTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2625</Hsp_hit-from> + <Hsp_hit-to>2633</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>6</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2606</Hsp_hit-from> + <Hsp_hit-to>2612</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTCGTGA</Hsp_qseq> + <Hsp_hseq>GTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>64</Hit_num> + <Hit_id>gi|188596279|pdb|3CCR|0</Hit_id> + <Hit_def>Chain 0, Structure Of Anisomycin Resistant 50s Ribosomal Subunit: 23s Rrna Mutation A2488c. Density For Anisomycin Is Visible But Not Included In The Model.</Hit_def> + <Hit_accession>3CCR_0</Hit_accession> + <Hit_len>2923</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>305</Hsp_hit-from> + <Hsp_hit-to>297</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>-1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>TCGTGAAGA</Hsp_qseq> + <Hsp_hseq>TCGTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2625</Hsp_hit-from> + <Hsp_hit-to>2633</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>6</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2606</Hsp_hit-from> + <Hsp_hit-to>2612</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTCGTGA</Hsp_qseq> + <Hsp_hseq>GTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>65</Hit_num> + <Hit_id>gi|188596248|pdb|3CCQ|0</Hit_id> + <Hit_def>Chain 0, Structure Of Anisomycin Resistant 50s Ribosomal Subunit: 23s Rrna Mutation A2488u</Hit_def> + <Hit_accession>3CCQ_0</Hit_accession> + <Hit_len>2923</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>305</Hsp_hit-from> + <Hsp_hit-to>297</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>-1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>TCGTGAAGA</Hsp_qseq> + <Hsp_hseq>TCGTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2625</Hsp_hit-from> + <Hsp_hit-to>2633</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>6</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2606</Hsp_hit-from> + <Hsp_hit-to>2612</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTCGTGA</Hsp_qseq> + <Hsp_hseq>GTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>66</Hit_num> + <Hit_id>gi|188596217|pdb|3CCM|0</Hit_id> + <Hit_def>Chain 0, Structure Of Anisomycin Resistant 50s Ribosomal Subunit: 23s Rrna Mutation G2611u</Hit_def> + <Hit_accession>3CCM_0</Hit_accession> + <Hit_len>2923</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>305</Hsp_hit-from> + <Hsp_hit-to>297</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>-1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>TCGTGAAGA</Hsp_qseq> + <Hsp_hseq>TCGTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2625</Hsp_hit-from> + <Hsp_hit-to>2633</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>67</Hit_num> + <Hit_id>gi|188596186|pdb|3CCL|0</Hit_id> + <Hit_def>Chain 0, Structure Of Anisomycin Resistant 50s Ribosomal Subunit: 23s Rrna Mutation U2535c. Density For Anisomycin Is Visible But Not Included In Model.</Hit_def> + <Hit_accession>3CCL_0</Hit_accession> + <Hit_len>2923</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>305</Hsp_hit-from> + <Hsp_hit-to>297</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>-1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>TCGTGAAGA</Hsp_qseq> + <Hsp_hseq>TCGTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2625</Hsp_hit-from> + <Hsp_hit-to>2633</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>6</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2606</Hsp_hit-from> + <Hsp_hit-to>2612</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTCGTGA</Hsp_qseq> + <Hsp_hseq>GTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>68</Hit_num> + <Hit_id>gi|188596155|pdb|3CCJ|0</Hit_id> + <Hit_def>Chain 0, Structure Of Anisomycin Resistant 50s Ribosomal Subunit: 23s Rrna Mutation C2534u</Hit_def> + <Hit_accession>3CCJ_0</Hit_accession> + <Hit_len>2923</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>305</Hsp_hit-from> + <Hsp_hit-to>297</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>-1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>TCGTGAAGA</Hsp_qseq> + <Hsp_hseq>TCGTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2625</Hsp_hit-from> + <Hsp_hit-to>2633</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>6</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2606</Hsp_hit-from> + <Hsp_hit-to>2612</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTCGTGA</Hsp_qseq> + <Hsp_hseq>GTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>69</Hit_num> + <Hit_id>gi|188596124|pdb|3CCE|0</Hit_id> + <Hit_def>Chain 0, Structure Of Anisomycin Resistant 50s Ribosomal Subunit: 23s Rrna Mutation U2535a</Hit_def> + <Hit_accession>3CCE_0</Hit_accession> + <Hit_len>2923</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>305</Hsp_hit-from> + <Hsp_hit-to>297</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>-1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>TCGTGAAGA</Hsp_qseq> + <Hsp_hseq>TCGTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2625</Hsp_hit-from> + <Hsp_hit-to>2633</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>6</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2606</Hsp_hit-from> + <Hsp_hit-to>2612</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTCGTGA</Hsp_qseq> + <Hsp_hseq>GTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>70</Hit_num> + <Hit_id>gi|188596093|pdb|3CC7|0</Hit_id> + <Hit_def>Chain 0, Structure Of Anisomycin Resistant 50s Ribosomal Subunit: 23s Rrna Mutation C2487u</Hit_def> + <Hit_accession>3CC7_0</Hit_accession> + <Hit_len>2923</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>305</Hsp_hit-from> + <Hsp_hit-to>297</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>-1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>TCGTGAAGA</Hsp_qseq> + <Hsp_hseq>TCGTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2625</Hsp_hit-from> + <Hsp_hit-to>2633</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>6</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2606</Hsp_hit-from> + <Hsp_hit-to>2612</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTCGTGA</Hsp_qseq> + <Hsp_hseq>GTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>71</Hit_num> + <Hit_id>gi|188596031|pdb|3CC2|0</Hit_id> + <Hit_def>Chain 0, The Refined Crystal Structure Of The Haloarcula Marismortui Large Ribosomal Subunit At 2.4 Angstrom Resolution With Rrna Sequence For The 23s Rrna And Genome-Derived Sequences For R-Proteins >gi|188596062|pdb|3CC4|0 Chain 0, Co-Crystal Structure Of Anisomycin Bound To The 50s Ribosomal Subunit >gi|206581937|pdb|3CMA|0 Chain 0, The Structure Of Cca And Cca-Phe-Cap-Bio Bound To The Large Ribosomal Subunit Of Haloarcula Marismortui >gi|206581970|pdb|3CME|0 Chain 0, The Structure Of Ca And Cca-Phe-Cap-Bio Bound To The Large Ribosomal Subunit Of Haloarcula Marismortui >gi|228312141|pdb|3G4S|0 Chain 0, Co-Crystal Structure Of Tiamulin Bound To The Large Ribosomal Subunit >gi|228312197|pdb|3G6E|0 Chain 0, Co-Crystal Structure Of Homoharringtonine Bound To The Large Ribosomal Subunit >gi|228312233|pdb|3G71|0 Chain 0, Co-crystal Structure Of Bruceantin Bound To The Large Ribosomal Subunit >gi|290790035|pdb|3I55|0 Chain 0, Co-Crystal Structure Of Mycalamide A Bound To The Large Ribosomal Subunit</Hit_def> + <Hit_accession>3CC2_0</Hit_accession> + <Hit_len>2923</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>305</Hsp_hit-from> + <Hsp_hit-to>297</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>-1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>TCGTGAAGA</Hsp_qseq> + <Hsp_hseq>TCGTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2625</Hsp_hit-from> + <Hsp_hit-to>2633</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>6</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2606</Hsp_hit-from> + <Hsp_hit-to>2612</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTCGTGA</Hsp_qseq> + <Hsp_hseq>GTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>72</Hit_num> + <Hit_id>gi|187609272|pdb|2ZKR|0</Hit_id> + <Hit_def>Chain 0, Structure Of A Mammalian Ribosomal 60s Subunit Within An 80s Complex Obtained By Docking Homology Models Of The Rna And Proteins Into An 8.7 A Cryo-Em Map</Hit_def> + <Hit_accession>2ZKR_0</Hit_accession> + <Hit_len>2903</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2623</Hsp_hit-from> + <Hsp_hit-to>2631</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>2111</Hsp_hit-from> + <Hsp_hit-to>2118</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>GTGAAGAG</Hsp_qseq> + <Hsp_hseq>GTGAAGAG</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>10</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>353</Hsp_hit-from> + <Hsp_hit-to>359</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TGAAGAG</Hsp_qseq> + <Hsp_hseq>TGAAGAG</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>4</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>1892</Hsp_hit-from> + <Hsp_hit-to>1898</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTGAAGA</Hsp_qseq> + <Hsp_hseq>GTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>73</Hit_num> + <Hit_id>gi|171848835|pdb|2QA4|0</Hit_id> + <Hit_def>Chain 0, A More Complete Structure Of The The L7L12 STALK OF THE Haloarcula Marismortui 50s Large Ribosomal Subunit</Hit_def> + <Hit_accession>2QA4_0</Hit_accession> + <Hit_len>2922</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2624</Hsp_hit-from> + <Hsp_hit-to>2632</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>6</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2605</Hsp_hit-from> + <Hsp_hit-to>2611</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTCGTGA</Hsp_qseq> + <Hsp_hseq>GTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>74</Hit_num> + <Hit_id>gi|99032306|pdb|2FTC|R</Hit_id> + <Hit_def>Chain R, Structural Model For The Large Subunit Of The Mammalian Mitochondrial Ribosome</Hit_def> + <Hit_accession>2FTC_R</Hit_accession> + <Hit_len>1568</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>8</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>1032</Hsp_hit-from> + <Hsp_hit-to>1040</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CGTGAAGAG</Hsp_qseq> + <Hsp_hseq>CGTGAAGAG</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>75</Hit_num> + <Hit_id>gi|50513468|pdb|1S72|0</Hit_id> + <Hit_def>Chain 0, Refined Crystal Structure Of The Haloarcula Marismortui Large Ribosomal Subunit At 2.4 Angstrom Resolution >gi|83753123|pdb|1VQ4|0 Chain 0, The Structure Of The Transition State Analogue "daa" Bound To The Large Ribosomal Subunit Of Haloarcula Marismortui >gi|83753155|pdb|1VQ5|0 Chain 0, The Structure Of The Transition State Analogue "raa" Bound To The Large Ribosomal Subunit Of Haloarcula Marismortui >gi|83753187|pdb|1VQ6|0 Chain 0, The Structure Of C-Hpmn And Cca-Phe-Cap-Bio Bound To The Large Ribosomal Subunit Of Haloarcula Marismortui >gi|83753219|pdb|1VQ7|0 Chain 0, The Structure Of The Transition State Analogue "dca" Bound To The Large Ribosomal Subunit Of Haloarcula Marismortui >gi|83753251|pdb|1VQ8|0 Chain 0, The Structure Of Ccda-Phe-Cap-Bio And The Antibiotic Sparsomycin Bound To The Large Ribosomal Subunit Of Haloarcula Marismortui >gi|83753282|pdb|1VQ9|0 Chain 0, The Structure Of Cca-Phe-Cap-Bio And The Antibiotic Sparsomycin Bound To The Large Ribosomal Subunit Of Haloarcula Marismortui >gi|83753314|pdb|1VQK|0 Chain 0, The Structure Of Ccda-Phe-Cap-Bio Bound To The A Site Of The Ribosomal Subunit Of Haloarcula Marismortui >gi|83753345|pdb|1VQL|0 Chain 0, The Structure Of The Transition State Analogue "dcsn" Bound To The Large Ribosomal Subunit Of Haloarcula Marismortui >gi|83753376|pdb|1VQM|0 Chain 0, The Structure Of The Transition State Analogue "dan" Bound To The Large Ribosomal Subunit Of Haloarcula Marismortui >gi|83753407|pdb|1VQN|0 Chain 0, The Structure Of Cc-hpmn And Cca-phe-cap-bio Bound To The Large Ribosomal Subunit Of Haloarcula Marismortui >gi|83753439|pdb|1VQO|0 Chain 0, The Structure Of Ccpmn Bound To The Large Ribosomal Subunit Haloarcula Marismortui >gi|83753470|pdb|1VQP|0 Chain 0, The Structure Of The Transition State Analogue "rap" Bound To The Large Ribosomal Subunit Of Haloarcula Marismortui >gi|145580171|pdb|2OTJ|0 Chain 0, 13-Deoxytedanolide Bound To The Large Subunit Of Haloarcula Marismortui >gi|145580202|pdb|2OTL|0 Chain 0, Girodazole Bound To The Large Subunit Of Haloarcula Marismortui</Hit_def> + <Hit_accession>1S72_0</Hit_accession> + <Hit_len>2922</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2624</Hsp_hit-from> + <Hsp_hit-to>2632</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>6</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2605</Hsp_hit-from> + <Hsp_hit-to>2611</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTCGTGA</Hsp_qseq> + <Hsp_hseq>GTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>76</Hit_num> + <Hit_id>gi|66360881|pdb|1YIT|0</Hit_id> + <Hit_def>Chain 0, Crystal Structure Of Virginiamycin M And S Bound To The 50s Ribosomal Subunit Of Haloarcula Marismortui >gi|66360914|pdb|1YJ9|0 Chain 0, Crystal Structure Of The Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui Containing A Three Residue Deletion In L22</Hit_def> + <Hit_accession>1YIT_0</Hit_accession> + <Hit_len>2922</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>305</Hsp_hit-from> + <Hsp_hit-to>297</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>-1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>TCGTGAAGA</Hsp_qseq> + <Hsp_hseq>TCGTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2625</Hsp_hit-from> + <Hsp_hit-to>2633</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>6</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2606</Hsp_hit-from> + <Hsp_hit-to>2612</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTCGTGA</Hsp_qseq> + <Hsp_hseq>GTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>77</Hit_num> + <Hit_id>gi|66360782|pdb|1YHQ|0</Hit_id> + <Hit_def>Chain 0, Crystal Structure Of Azithromycin Bound To The G2099a Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui >gi|66360815|pdb|1YI2|0 Chain 0, Crystal Structure Of Erythromycin Bound To The G2099a Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui >gi|66360848|pdb|1YIJ|0 Chain 0, Crystal Structure Of Telithromycin Bound To The G2099a Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui >gi|66360947|pdb|1YJN|0 Chain 0, Crystal Structure Of Clindamycin Bound To The G2099a Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui</Hit_def> + <Hit_accession>1YHQ_0</Hit_accession> + <Hit_len>2922</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>305</Hsp_hit-from> + <Hsp_hit-to>297</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>-1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>TCGTGAAGA</Hsp_qseq> + <Hsp_hseq>TCGTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2625</Hsp_hit-from> + <Hsp_hit-to>2633</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>6</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2606</Hsp_hit-from> + <Hsp_hit-to>2612</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTCGTGA</Hsp_qseq> + <Hsp_hseq>GTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>78</Hit_num> + <Hit_id>gi|66360980|pdb|1YJW|0</Hit_id> + <Hit_def>Chain 0, Crystal Structure Of Quinupristin Bound To The G2099a Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui</Hit_def> + <Hit_accession>1YJW_0</Hit_accession> + <Hit_len>2922</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>7</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>305</Hsp_hit-from> + <Hsp_hit-to>297</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>-1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>TCGTGAAGA</Hsp_qseq> + <Hsp_hseq>TCGTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2625</Hsp_hit-from> + <Hsp_hit-to>2633</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>6</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2606</Hsp_hit-from> + <Hsp_hit-to>2612</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTCGTGA</Hsp_qseq> + <Hsp_hseq>GTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>79</Hit_num> + <Hit_id>gi|37928006|pdb|1Q86|A</Hit_id> + <Hit_def>Chain A, Crystal Structure Of Cca-Phe-Cap-Biotin Bound Simultaneously At Half Occupancy To Both The A-Site And P- Site Of The The 50s Ribosomal Subunit.</Hit_def> + <Hit_accession>1Q86_A</Hit_accession> + <Hit_len>2922</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2624</Hsp_hit-from> + <Hsp_hit-to>2632</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>6</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2605</Hsp_hit-from> + <Hsp_hit-to>2611</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTCGTGA</Hsp_qseq> + <Hsp_hseq>GTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>80</Hit_num> + <Hit_id>gi|15825941|pdb|1JJ2|0</Hit_id> + <Hit_def>Chain 0, Fully Refined Crystal Structure Of The Haloarcula Marismortui Large Ribosomal Subunit At 2.4 Angstrom Resolution >gi|20150986|pdb|1KQS|0 Chain 0, The Haloarcula Marismortui 50s Complexed With A Pretranslocational Intermediate In Protein Synthesis >gi|22219324|pdb|1M1K|A Chain A, Co-Crystal Structure Of Azithromycin Bound To The 50s Ribosomal Subunit Of Haloarcula Marismortui >gi|24159019|pdb|1M90|A Chain A, Co-Crystal Structure Of Cca-Phe-Caproic Acid-Biotin And Sparsomycin Bound To The 50s Ribosomal Subunit >gi|34811116|pdb|1K73|A Chain A, Co-Crystal Structure Of Anisomycin Bound To The 50s Ribosomal Subunit >gi|34811185|pdb|1N8R|A Chain A, Structure Of Large Ribosomal Subunit In Complex With Virginiamycin M >gi|34811215|pdb|1NJI|A Chain A, Structure Of Chloramphenicol Bound To The 50s Ribosomal Subunit >gi|37927899|pdb|1Q7Y|A Chain A, Crystal Structure Of Ccdap-puromycin Bound At The Peptidyl Transferase Center Of The 50s Ribosomal Subunit >gi|37927934|pdb|1Q81|A Chain A, Crystal Structure Of Minihelix With 3' Puromycin Bound To A- Site Of The 50s Ribosomal Subunit. >gi|37927970|pdb|1Q82|A Chain A, Crystal Structure Of Cc-Puromycin Bound To The A-Site Of The 50s Ribosomal Subunit >gi|39654670|pdb|1QVF|0 Chain 0, Structure Of A Deacylated Trna Minihelix Bound To The E Site Of The Large Ribosomal Subunit Of Haloarcula Marismortui >gi|39654701|pdb|1QVG|0 Chain 0, Structure Of Cca Oligonucleotide Bound To The Trna Binding Sites Of The Large Ribosomal Subunit Of Haloarcula Marismortui >gi|157878615|pdb|1K8A|A Chain A, Co-Crystal Structure Of Carbomycin A Bound To The 50s Ribosomal Subunit Of Haloarcula Marismortui >gi|157878625|pdb|1K9M|A Chain A, Co-Crystal Structure Of Tylosin Bound To The 50s Ribosomal Subunit Of Haloarcula Marismortui >gi|157878639|pdb|1KD1|A Chain A, Co-crystal Structure Of Spiramycin Bound To The 50s Ribosomal Subunit Of Haloarcula Marismortui >gi|157880605|pdb|1W2B|0 Chain 0, Trigger Factor Ribosome Binding Domain In Complex With 50s >gi|228311909|pdb|3CXC|0 Chain 0, The Structure Of An Enhanced Oxazolidinone Inhibitor Bound To The 50s Ribosomal Subunit Of H. Marismortui</Hit_def> + <Hit_accession>1JJ2_0</Hit_accession> + <Hit_len>2922</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2624</Hsp_hit-from> + <Hsp_hit-to>2632</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>6</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2605</Hsp_hit-from> + <Hsp_hit-to>2611</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTCGTGA</Hsp_qseq> + <Hsp_hseq>GTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>81</Hit_num> + <Hit_id>gi|34811146|pdb|1KC8|A</Hit_id> + <Hit_def>Chain A, Co-Crystal Structure Of Blasticidin S Bound To The 50s Ribosomal Subunit</Hit_def> + <Hit_accession>1KC8_A</Hit_accession> + <Hit_len>2922</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2624</Hsp_hit-from> + <Hsp_hit-to>2632</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>6</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2605</Hsp_hit-from> + <Hsp_hit-to>2611</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTCGTGA</Hsp_qseq> + <Hsp_hseq>GTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>82</Hit_num> + <Hit_id>gi|10120918|pdb|1FFK|0</Hit_id> + <Hit_def>Chain 0, Crystal Structure Of The Large Ribosomal Subunit From Haloarcula Marismortui At 2.4 Angstrom Resolution</Hit_def> + <Hit_accession>1FFK_0</Hit_accession> + <Hit_len>2922</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2624</Hsp_hit-from> + <Hsp_hit-to>2632</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>6</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2605</Hsp_hit-from> + <Hsp_hit-to>2611</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTCGTGA</Hsp_qseq> + <Hsp_hseq>GTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>83</Hit_num> + <Hit_id>gi|10120728|pdb|1FG0|A</Hit_id> + <Hit_def>Chain A, Large Ribosomal Subunit Complexed With A 13 Bp Minihelix- Puromycin Compound</Hit_def> + <Hit_accession>1FG0_A</Hit_accession> + <Hit_len>602</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>563</Hsp_hit-from> + <Hsp_hit-to>571</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>6</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>544</Hsp_hit-from> + <Hsp_hit-to>550</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTCGTGA</Hsp_qseq> + <Hsp_hseq>GTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>84</Hit_num> + <Hit_id>gi|10120727|pdb|1FFZ|A</Hit_id> + <Hit_def>Chain A, Large Ribosomal Subunit Complexed With R(Cc)-Da-Puromycin</Hit_def> + <Hit_accession>1FFZ_A</Hit_accession> + <Hit_len>602</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>18.3341</Hsp_bit-score> + <Hsp_score>9</Hsp_score> + <Hsp_evalue>11.9013</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>563</Hsp_hit-from> + <Hsp_hit-to>571</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>9</Hsp_identity> + <Hsp_positive>9</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>9</Hsp_align-len> + <Hsp_qseq>CCGTCGTGA</Hsp_qseq> + <Hsp_hseq>CCGTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>6</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>544</Hsp_hit-from> + <Hsp_hit-to>550</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTCGTGA</Hsp_qseq> + <Hsp_hseq>GTCGTGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>85</Hit_num> + <Hit_id>gi|558705015|pdb|4LGT|F</Hit_id> + <Hit_def>Chain F, Crystal Structure Of The Catalytic Domain Of Rlub In Complex With A 21-nucleotide Rna Substrate</Hit_def> + <Hit_accession>4LGT_F</Hit_accession> + <Hit_len>21</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>5</Hsp_hit-from> + <Hsp_hit-to>12</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>86</Hit_num> + <Hit_id>gi|558705013|pdb|4LGT|E</Hit_id> + <Hit_def>Chain E, Crystal Structure Of The Catalytic Domain Of Rlub In Complex With A 21-nucleotide Rna Substrate</Hit_def> + <Hit_accession>4LGT_E</Hit_accession> + <Hit_len>21</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>5</Hsp_hit-from> + <Hsp_hit-to>12</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>87</Hit_num> + <Hit_id>gi|529280935|pdb|4BTD|A</Hit_id> + <Hit_def>Chain A, Thermus Thermophilus Ribosome</Hit_def> + <Hit_accession>4BTD_A</Hit_accession> + <Hit_len>2915</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>8</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2048</Hsp_hit-from> + <Hsp_hit-to>2055</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTGAAGA</Hsp_qseq> + <Hsp_hseq>CGTGAAGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2603</Hsp_hit-from> + <Hsp_hit-to>2610</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>88</Hit_num> + <Hit_id>gi|528082310|pdb|4L6J|A</Hit_id> + <Hit_def>Chain A, Crystal Structure Of Blasticidin S Bound To Thermus Thermophilus 70s Ribosome. This File Contains The 50s Subunit And Blasticidin S Molecule From The First 70s Ribosome. >gi|528082364|pdb|4L6L|A Chain A, Crystal Structure Of Blasticidin S Bound To Thermus Thermophilus 70s Ribosome. This File Contains The 50s Subunit And Blasticidin S Molecule From The Second 70s Ribosome</Hit_def> + <Hit_accession>4L6J_A</Hit_accession> + <Hit_len>2879</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>8</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2021</Hsp_hit-from> + <Hsp_hit-to>2028</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTGAAGA</Hsp_qseq> + <Hsp_hseq>CGTGAAGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2576</Hsp_hit-from> + <Hsp_hit-to>2583</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>89</Hit_num> + <Hit_id>gi|520729408|pdb|4KFI|A</Hit_id> + <Hit_def>Chain A, Crystal Structure Of The 70s Ribosome Bound With The Q253p Mutant Of Release Factor Rf2. 50s Of The A Subunit >gi|520729463|pdb|4KFL|A Chain A, Crystal Structure Of The 70s Ribosome Bound With The Q253p Mutant Of Release Factor Rf2. 50s Of The B Subunit</Hit_def> + <Hit_accession>4KFI_A</Hit_accession> + <Hit_len>2879</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>8</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2021</Hsp_hit-from> + <Hsp_hit-to>2028</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTGAAGA</Hsp_qseq> + <Hsp_hseq>CGTGAAGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2576</Hsp_hit-from> + <Hsp_hit-to>2583</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>90</Hit_num> + <Hit_id>gi|520728860|pdb|4K0Q|A</Hit_id> + <Hit_def>Chain A, Crystal Structure Of Thermus Thermophilus 70s Containing Trnas And Mrna Stop Codon With Pseudouridine</Hit_def> + <Hit_accession>4K0Q_A</Hit_accession> + <Hit_len>2915</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>8</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2048</Hsp_hit-from> + <Hsp_hit-to>2055</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTGAAGA</Hsp_qseq> + <Hsp_hseq>CGTGAAGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2603</Hsp_hit-from> + <Hsp_hit-to>2610</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>91</Hit_num> + <Hit_id>gi|520728802|pdb|4K0M|A</Hit_id> + <Hit_def>Chain A, Crystal Structure Of Thermus Thermophilus 70s Containing Trnas And Mrna Stop Codon With Pseudouridine</Hit_def> + <Hit_accession>4K0M_A</Hit_accession> + <Hit_len>2915</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>8</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2048</Hsp_hit-from> + <Hsp_hit-to>2055</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTGAAGA</Hsp_qseq> + <Hsp_hseq>CGTGAAGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2603</Hsp_hit-from> + <Hsp_hit-to>2610</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>92</Hit_num> + <Hit_id>gi|512125286|pdb|3J3V|A</Hit_id> + <Hit_def>Chain A, Atomic Model Of The Immature 50s Subunit From Bacillus Subtilis (state I-a)</Hit_def> + <Hit_accession>3J3V_A</Hit_accession> + <Hit_len>2927</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2620</Hsp_hit-from> + <Hsp_hit-to>2627</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>10</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>340</Hsp_hit-from> + <Hsp_hit-to>346</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TGAAGAG</Hsp_qseq> + <Hsp_hseq>TGAAGAG</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>3</Hsp_query-from> + <Hsp_query-to>9</Hsp_query-to> + <Hsp_hit-from>440</Hsp_hit-from> + <Hsp_hit-to>446</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TCCGTCG</Hsp_qseq> + <Hsp_hseq>TCCGTCG</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>4</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2056</Hsp_hit-from> + <Hsp_hit-to>2062</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTGAAGA</Hsp_qseq> + <Hsp_hseq>GTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>5</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>3</Hsp_query-from> + <Hsp_query-to>9</Hsp_query-to> + <Hsp_hit-from>2644</Hsp_hit-from> + <Hsp_hit-to>2650</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TCCGTCG</Hsp_qseq> + <Hsp_hseq>TCCGTCG</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>93</Hit_num> + <Hit_id>gi|512125306|pdb|3J3W|A</Hit_id> + <Hit_def>Chain A, Atomic Model Of The Immature 50s Subunit From Bacillus Subtilis (state Ii-a)</Hit_def> + <Hit_accession>3J3W_A</Hit_accession> + <Hit_len>2927</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2620</Hsp_hit-from> + <Hsp_hit-to>2627</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>10</Hsp_query-from> + <Hsp_query-to>16</Hsp_query-to> + <Hsp_hit-from>340</Hsp_hit-from> + <Hsp_hit-to>346</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TGAAGAG</Hsp_qseq> + <Hsp_hseq>TGAAGAG</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>3</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>3</Hsp_query-from> + <Hsp_query-to>9</Hsp_query-to> + <Hsp_hit-from>440</Hsp_hit-from> + <Hsp_hit-to>446</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TCCGTCG</Hsp_qseq> + <Hsp_hseq>TCCGTCG</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>4</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>9</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2056</Hsp_hit-from> + <Hsp_hit-to>2062</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>GTGAAGA</Hsp_qseq> + <Hsp_hseq>GTGAAGA</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>5</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>3</Hsp_query-from> + <Hsp_query-to>9</Hsp_query-to> + <Hsp_hit-from>2644</Hsp_hit-from> + <Hsp_hit-to>2650</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>TCCGTCG</Hsp_qseq> + <Hsp_hseq>TCCGTCG</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>94</Hit_num> + <Hit_id>gi|482676744|pdb|3V6X|A</Hit_id> + <Hit_def>Chain A, Crystal Structure Of The Bacterial Ribosome Ram Mutation G347u. This Entry Contains The 50s Ribosomal Subunit Of The Second 70s Molecule In The Asymmetric Unit</Hit_def> + <Hit_accession>3V6X_A</Hit_accession> + <Hit_len>2916</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>8</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2048</Hsp_hit-from> + <Hsp_hit-to>2055</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTGAAGA</Hsp_qseq> + <Hsp_hseq>CGTGAAGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2603</Hsp_hit-from> + <Hsp_hit-to>2610</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>95</Hit_num> + <Hit_id>gi|482676712|pdb|3V6W|A</Hit_id> + <Hit_def>Chain A, Crystal Structure Of The Bacterial Ribosome Ram Mutation G347u. This Entry Contains The 50s Ribosomal Subunit Of The First 70s Molecule In The Asymmetric Unit</Hit_def> + <Hit_accession>3V6W_A</Hit_accession> + <Hit_len>2916</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>8</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>2048</Hsp_hit-from> + <Hsp_hit-to>2055</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTGAAGA</Hsp_qseq> + <Hsp_hseq>CGTGAAGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2603</Hsp_hit-from> + <Hsp_hit-to>2610</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>96</Hit_num> + <Hit_id>gi|428697829|pdb|2YMI|DD</Hit_id> + <Hit_def>Chain d, The Cryo-Em Structure Of A 3d Dna-Origami Object</Hit_def> + <Hit_accession>2YMI_DD</Hit_accession> + <Hit_len>56</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>52</Hsp_hit-from> + <Hsp_hit-to>45</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>-1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>97</Hit_num> + <Hit_id>gi|428697789|pdb|2YMF|A</Hit_id> + <Hit_def>Chain A, The Cryo-Em Structure Of A 3d Dna-Origami Object</Hit_def> + <Hit_accession>2YMF_A</Hit_accession> + <Hit_len>4896</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>575</Hsp_hit-from> + <Hsp_hit-to>582</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>14.3694</Hsp_bit-score> + <Hsp_score>7</Hsp_score> + <Hsp_evalue>185.82</Hsp_evalue> + <Hsp_query-from>4</Hsp_query-from> + <Hsp_query-to>10</Hsp_query-to> + <Hsp_hit-from>561</Hsp_hit-from> + <Hsp_hit-to>567</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>7</Hsp_identity> + <Hsp_positive>7</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>7</Hsp_align-len> + <Hsp_qseq>CCGTCGT</Hsp_qseq> + <Hsp_hseq>CCGTCGT</Hsp_hseq> + <Hsp_midline>|||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>98</Hit_num> + <Hit_id>gi|396639330|pdb|2J01|A</Hit_id> + <Hit_def>Chain A, Structure Of The Thermus Thermophilus 70s Ribosome Complexed With Mrna, Trna And Paromomycin (Part 2 Of 4). This File Contains The 50s Subunit From Molecule I. >gi|396639355|pdb|2J03|A Chain A, Structure Of The Thermus Thermophilus 70s Ribosome Complexed With Mrna, Trna And Paromomycin (Part 4 Of 4). This File Contains The 50s Subunit From Molecule Ii.</Hit_def> + <Hit_accession>2J01_A</Hit_accession> + <Hit_len>2787</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>8</Hsp_query-from> + <Hsp_query-to>15</Hsp_query-to> + <Hsp_hit-from>1948</Hsp_hit-from> + <Hsp_hit-to>1955</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTGAAGA</Hsp_qseq> + <Hsp_hseq>CGTGAAGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + <Hsp> + <Hsp_num>2</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>2474</Hsp_hit-from> + <Hsp_hit-to>2481</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>99</Hit_num> + <Hit_id>gi|393715375|pdb|4AQX|C</Hit_id> + <Hit_def>Chain C, Crystal Structure Of I-Crei Complexed With Its Target Methylated At Position Plus 2 (In The B Strand) In The Presence Of Magnesium</Hit_def> + <Hit_accession>4AQX_C</Hit_accession> + <Hit_len>14</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>7</Hsp_hit-from> + <Hsp_hit-to>14</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +<Hit> + <Hit_num>100</Hit_num> + <Hit_id>gi|393715371|pdb|4AQU|C</Hit_id> + <Hit_def>Chain C, Crystal Structure Of I-Crei Complexed With Its Target Methylated At Position Plus 2 (In The B Strand) In The Presence Of Calcium</Hit_def> + <Hit_accession>4AQU_C</Hit_accession> + <Hit_len>24</Hit_len> + <Hit_hsps> + <Hsp> + <Hsp_num>1</Hsp_num> + <Hsp_bit-score>16.3517</Hsp_bit-score> + <Hsp_score>8</Hsp_score> + <Hsp_evalue>47.0266</Hsp_evalue> + <Hsp_query-from>5</Hsp_query-from> + <Hsp_query-to>12</Hsp_query-to> + <Hsp_hit-from>7</Hsp_hit-from> + <Hsp_hit-to>14</Hsp_hit-to> + <Hsp_query-frame>1</Hsp_query-frame> + <Hsp_hit-frame>1</Hsp_hit-frame> + <Hsp_identity>8</Hsp_identity> + <Hsp_positive>8</Hsp_positive> + <Hsp_gaps>0</Hsp_gaps> + <Hsp_align-len>8</Hsp_align-len> + <Hsp_qseq>CGTCGTGA</Hsp_qseq> + <Hsp_hseq>CGTCGTGA</Hsp_hseq> + <Hsp_midline>||||||||</Hsp_midline> + </Hsp> + </Hit_hsps> +</Hit> +</Iteration_hits> + <Iteration_stat> + <Statistics> + <Statistics_db-num>8975</Statistics_db-num> + <Statistics_db-len>885284</Statistics_db-len> + <Statistics_hsp-len>0</Statistics_hsp-len> + <Statistics_eff-space>0</Statistics_eff-space> + <Statistics_kappa>0.710602795216363</Statistics_kappa> + <Statistics_lambda>1.37406312246009</Statistics_lambda> + <Statistics_entropy>1.30724660390929</Statistics_entropy> + </Statistics> + </Iteration_stat> +</Iteration> +</BlastOutput_iterations> +</BlastOutput> +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/blast xml example2.xml Tue May 06 17:05:58 2014 +0200 @@ -0,0 +1,44 @@ +<?xml version="1.0"?> +<!DOCTYPE BlastOutput PUBLIC "-//NCBI//NCBI BlastOutput/EN" "http://www.ncbi.nlm.nih.gov/dtd/NCBI_BlastOutput.dtd"> +<BlastOutput> + <BlastOutput_program>blastn</BlastOutput_program> + <BlastOutput_version>BLASTN 2.2.28+</BlastOutput_version> + <BlastOutput_reference>Stephen F. Altschul, Thomas L. Madden, Alejandro A. Sch&auml;ffer, 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.</BlastOutput_reference> + <BlastOutput_db>/share/BlastDB/nt</BlastOutput_db> + <BlastOutput_query-ID>Query_1</BlastOutput_query-ID> + <BlastOutput_query-def>No definition line</BlastOutput_query-def> + <BlastOutput_query-len>16</BlastOutput_query-len> + <BlastOutput_param> + <Parameters> + <Parameters_expect>0.001</Parameters_expect> + <Parameters_sc-match>2</Parameters_sc-match> + <Parameters_sc-mismatch>-3</Parameters_sc-mismatch> + <Parameters_gap-open>5</Parameters_gap-open> + <Parameters_gap-extend>2</Parameters_gap-extend> + <Parameters_filter>L;m;</Parameters_filter> + </Parameters> + </BlastOutput_param> +<BlastOutput_iterations> +<Iteration> + <Iteration_iter-num>1</Iteration_iter-num> + <Iteration_query-ID>Query_1</Iteration_query-ID> + <Iteration_query-def>No definition line</Iteration_query-def> + <Iteration_query-len>16</Iteration_query-len> +<Iteration_hits> +</Iteration_hits> + <Iteration_stat> + <Statistics> + <Statistics_db-num>28813188</Statistics_db-num> + <Statistics_db-len>53027764389</Statistics_db-len> + <Statistics_hsp-len>13</Statistics_hsp-len> + <Statistics_eff-space>157959578835</Statistics_eff-space> + <Statistics_kappa>0.41</Statistics_kappa> + <Statistics_lambda>0.625</Statistics_lambda> + <Statistics_entropy>0.78</Statistics_entropy> + </Statistics> + </Iteration_stat> + <Iteration_message>No hits found</Iteration_message> +</Iteration> +</BlastOutput_iterations> +</BlastOutput> +