Mercurial > repos > jankanis > blast2html
changeset 4:f6cd51710678 draft
more trimming down
| author | Jan Kanis <jan.code@jankanis.nl> |
|---|---|
| date | Tue, 06 May 2014 17:41:24 +0200 |
| parents | ffe82516a83c |
| children | 9a8ac57e5680 |
| files | Blast output page example trimmed.html |
| diffstat | 1 files changed, 159 insertions(+), 140 deletions(-) [+] |
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--- a/Blast output page example trimmed.html Tue May 06 17:36:10 2014 +0200 +++ b/Blast output page example trimmed.html Tue May 06 17:41:24 2014 +0200 @@ -14,7 +14,7 @@ <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%20trimmed_files/jig.js"></script><link rel="stylesheet" type="text/css" href="Blast%20output%20page%20example%20trimmed_files/jig.themenull"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery.ncbitogglernull"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery_002.ncbitogglernull"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery_002.ncbiautocompletenull"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery.ncbiautocompletenull"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery.ncbibasicmenunull"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery_002.ncbibasicmenunull"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery_002.ncbimenunull"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery.ncbimenunull"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery.ncbilocalnavnull"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery_002.ncbilocalnavnull"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery.buttonnull"></script><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery.ncbibuttonnull"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery_002.ncbibuttonnull"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery_002.ncbipoppernull"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery.ncbipoppernull"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery_002.ncbigridnull"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery.ncbigridnull"><link rel="stylesheet" type="text/css" href="Blast%20output%20page%20example%20trimmed_files/jig.css"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery_002.js"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery_005.css"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery_004.js"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery_004.css"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery_007.js"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery_003.css"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery.js"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery_007.css"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery_003.js"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery_008.css"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery_008.js"></script><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery_005.js"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery.css"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery_009.js"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery_006.css"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery_006.js"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery_002.css"> +<script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jig.js"></script><link rel="stylesheet" type="text/css" href="Blast%20output%20page%20example%20trimmed_files/jig_002.themenull"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery_003.ncbitogglernull"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery_002.ncbitogglernull"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery_003.ncbiautocompletenull"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery_002.ncbiautocompletenull"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery_002.ncbibasicmenunull"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery.ncbibasicmenunull"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery_003.ncbimenunull"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery_002.ncbimenunull"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery_003.ncbilocalnavnull"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery.ncbilocalnavnull"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery_002.buttonnull"></script><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery.ncbibuttonnull"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery_003.ncbibuttonnull"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery_004.ncbipoppernull"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery_003.ncbipoppernull"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery_003.ncbigridnull"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery.ncbigridnull"><link rel="stylesheet" type="text/css" href="Blast%20output%20page%20example%20trimmed_files/jig.themenull"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery.ncbitogglernull"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery_002_002.ncbitogglernull"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery_002_002.ncbiautocompletenull"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery.ncbiautocompletenull"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery_003.ncbibasicmenunull"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery_002_002.ncbibasicmenunull"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery_002_002.ncbimenunull"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery.ncbimenunull"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery_002.ncbilocalnavnull"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery_002_002.ncbilocalnavnull"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery.buttonnull"></script><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery_002.ncbibuttonnull"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery_002_002.ncbibuttonnull"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery_002.ncbipoppernull"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery.ncbipoppernull"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery_002_002.ncbigridnull"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery_002.ncbigridnull"><link rel="stylesheet" type="text/css" href="Blast%20output%20page%20example%20trimmed_files/jig.css"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery_002.js"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery_005.css"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery_004.js"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery_004.css"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery_007.js"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery_003.css"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery.js"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery_007.css"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery_003.js"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery_008.css"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery_008.js"></script><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery_005.js"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery.css"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery_009.js"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery_006.css"><script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/jquery_006.js"></script><link type="text/css" rel="stylesheet" href="Blast%20output%20page%20example%20trimmed_files/jquery_002.css"> <script type="text/javascript"> jQuery.getScript("/core/alerts/alerts.js", function() { galert(['div#header', 'body > *:nth-child(1)']) });</script> @@ -161,6 +161,136 @@ position: fixed !important; pointer-events: auto !important; } +</style><style type="text/css" charset="utf-8">/* See license.txt for terms of usage */ +/** reset styling **/ +.firebugResetStyles { + z-index: 2147483646 !important; + top: 0 !important; + left: 0 !important; + display: block !important; + border: 0 none !important; + margin: 0 !important; + padding: 0 !important; + outline: 0 !important; + min-width: 0 !important; + max-width: none !important; + min-height: 0 !important; + max-height: none !important; + position: fixed !important; + transform: rotate(0deg) !important; + transform-origin: 50% 50% !important; + border-radius: 0 !important; + box-shadow: none !important; + background: transparent none !important; + pointer-events: none !important; + white-space: normal !important; +} + +.firebugBlockBackgroundColor { + background-color: transparent !important; +} + +.firebugResetStyles:before, .firebugResetStyles:after { + content: "" !important; +} +/**actual styling to be modified by firebug theme**/ +.firebugCanvas { + display: none !important; +} + +/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */ +.firebugLayoutBox { + width: auto !important; + position: static !important; +} + +.firebugLayoutBoxOffset { + opacity: 0.8 !important; + position: fixed !important; +} + +.firebugLayoutLine { + opacity: 0.4 !important; + background-color: #000000 !important; +} + +.firebugLayoutLineLeft, .firebugLayoutLineRight { + width: 1px !important; + height: 100% !important; +} + +.firebugLayoutLineTop, .firebugLayoutLineBottom { + width: 100% !important; + height: 1px !important; +} + +.firebugLayoutLineTop { + margin-top: -1px !important; + border-top: 1px solid #999999 !important; +} + +.firebugLayoutLineRight { + border-right: 1px solid #999999 !important; +} + +.firebugLayoutLineBottom { + border-bottom: 1px solid #999999 !important; +} + +.firebugLayoutLineLeft { + margin-left: -1px !important; + border-left: 1px solid #999999 !important; +} + +/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */ +.firebugLayoutBoxParent { + border-top: 0 none !important; + border-right: 1px dashed #E00 !important; + border-bottom: 1px dashed #E00 !important; + border-left: 0 none !important; + position: fixed !important; + width: auto !important; +} + +.firebugRuler{ + position: absolute !important; +} + +.firebugRulerH { + top: -15px !important; + left: 0 !important; + width: 100% !important; + height: 14px !important; + background: 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repeat-x !important; + border-top: 1px solid #BBBBBB !important; + border-right: 1px dashed #BBBBBB !important; + border-bottom: 1px solid #000000 !important; +} + +.firebugRulerV { + top: 0 !important; + left: -15px !important; + width: 14px !important; + height: 100% !important; + background: 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repeat-y !important; + border-left: 1px solid #BBBBBB !important; + border-right: 1px solid #000000 !important; + border-bottom: 1px dashed #BBBBBB !important; +} + +.overflowRulerX > .firebugRulerV { + left: 0 !important; +} + +.overflowRulerY > .firebugRulerH { + top: 0 !important; +} + +/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */ +.fbProxyElement { + position: fixed !important; + pointer-events: auto !important; +} </style></head> <body id="type-a" class="noToggleCheck "> @@ -203,25 +333,9 @@ <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> +<h1>Nucleotide Sequence (16 letters) </h1> + <div id="summarylists"> <dl> <dt>RID</dt> @@ -257,68 +371,13 @@ </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 --> + <!-- aria end --> + <!-- aria end --> + + <!-- 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 --> + <!-- aria end --> </div><!--/#summary--> </div><!--/#page--> @@ -338,22 +397,7 @@ <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 --> +<!-- 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%20trimmed_files/white.gif" height="4" width="50"></td> <td align="LEFT" valign="CENTER"><img alt="" src="Blast%20output%20page%20example%20trimmed_files/score.gif" height="40" width="500"></td> </tr></tbody></table> @@ -457,19 +501,19 @@ <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> +<!-- Indicates genbank, etc --> + + + + + + <div id="descriptions" class="blRes"> <!--<pre> --> <div class="cap">Sequences producing significant alignments:</div> @@ -485,20 +529,7 @@ <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 --> + <!-- dsDownload --> @@ -507,25 +538,13 @@ <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 --> + <!-- 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"> @@ -816,7 +835,7 @@ <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$=nuclalign&blast_rank=1&RID=PHWP1JNZ014&from=2591&to=2598" class="" target="lnkPHWP1JNZ014" title="Aligned region spanning positions 2591 to 2598 on 3J5A_A">GenBank</a><a href="http://www.ncbi.nlm.nih.gov/nuccore/557804451?report=graph&rid=PHWP1JNZ014[557804451]&tracks=[key:sequence_track,name:Sequence,display_name:Sequence,id:STD1,category:Sequence,annots:Sequence,ShowLabel:true][key:gene_model_track,CDSProductFeats:false][key:alignment_track,name:other%20alignments,annots:NG%20Alignments%7CRefseq%20Alignments%7CGnomon%20Alignments%7CUnnamed,shown:false]&v=2591:2598&appname=ncbiblast&link_loc=fromHSP" class="spr" target="lnkPHWP1JNZ014" title="Show alignment to 3J5A_A in Nucleotide Graphics for 2591 to 2598 range">Graphics</a></span></span> <span id="hsp557804451_2" class="alnParLinks"> <a class="gbd toolsCtr navNext" title="Go to next match #3 for pdb|3J5A|A" onmouseover="scan(this)" ref="ordinalpos=2&currseq=557804451" onclick="goToNextHSP(this,true)"><span>Next Match</span></a> -<a class="gbd toolsCtr navPrev" title="Go to previous match #1 for pdb|3J5A|A" onmouseover="scan(this)" ref="ordinalpos=2&currseq=557804451" onclick="goToNextHSP(this,false)"><span>Previous Match</span></a> +<a init="on" class="gbd toolsCtr navPrev" title="Go to previous match #1 for pdb|3J5A|A" onmouseover="scan(this)" ref="ordinalpos=2&currseq=557804451" onclick="goToNextHSP(this,false)"><span>Previous Match</span></a> <a class="gbd toolsCtr navBack " href="#hsp557804451_1" title="Go to first match for pdb|3J5A|A"><span>First Match</span></a> </span> </div> @@ -877,8 +896,8 @@ <div id="hd_557804451_4"> <div class="dflLnk hsp"><span class="alnRn"><label>Range 4: 2027 to 2033</label><span class="" id="rng_557804451"><a href="http://www.ncbi.nlm.nih.gov/nucleotide/557804451?report=genbank&log$=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 init="on" 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 init="on" 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> @@ -1604,7 +1623,7 @@ <script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/utils.js"></script> <script type="text/javascript" src="Blast%20output%20page%20example%20trimmed_files/toggle.js"></script> <script type="text/javascript" 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