b71177b93318749c2e71dc280d124793bd526a45
luvina
  Tue Sep 10 11:14:03 2013 -0700
added info for new alpaca assembly (vicPac2)
diff --git src/hg/htdocs/indexNews.html src/hg/htdocs/indexNews.html
index 318be8f..2fee8ea 100755
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+++ src/hg/htdocs/indexNews.html
@@ -1,114 +1,110 @@
 <!-- News Section ============================================- -->  
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                  <font size="4"><a name="TOC"></a><b>&nbsp; News</b></font><a href="http://www.twitter.com/GenomeBrowser" target="_blank"><img src="http://twitter-badges.s3.amazonaws.com/t_small-a.png" alt="Follow GenomeBrowser on Twitter" style="vertical-align:text-bottom; margin-left: 15px;"></a></TD>
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           <TD>
           <P>
           To receive announcements of new genome 
           assembly releases, new software features, updates and 
           training seminars by email, subscribe to the
           <A HREF="http://groups.google.com/a/soe.ucsc.edu/group/genome-announce?hl=en"
           TARGET=_blank>genome-announce</A> mailing list.</P>
 
     <!-- start news -->
-        <font face="courier" size="3"><b>04 September 2013 -
-        New Tenrec (echTel2) Assembly Now Available in the Genome Browser</b></font>
+    	<font face="courier" size="3"><b>11 September 2013 -
+        New Alpaca (vicPac2) Assembly Now Available in the Genome Browser</b></font>
         <p>
-        We are pleased to announce the release of a Genome Browser for the November 2012
-        assembly of tenrec, <em>Echinops telfairi</em> (Broad EchTel2.0, UCSC version
-        echTel2). The whole genome shotgun assembly was provided by
+        We are pleased to announce the release of a Genome Browser for the March 2013
+        assembly of alpaca, <em>Vicugna pacos</em> (Broad Vicugna_pacos-2.0.1, UCSC version
+        vicPac2). The whole genome shotgun assembly was provided by
         <a href="http://www.broadinstitute.org/"
         target="_blank">The Broad Institute</a>.
-        There are 8,402 scaffolds with a total size of 2,947,024,286 bases.
+        There are 276,725 scaffolds with a total size of 2,172,191,320 bases.
         </p>
         <p>
         Bulk downloads of the sequence and annotation data are available via the Genome
         Browser
-        <a href="ftp://hgdownload.cse.ucsc.edu/goldenPath/echTel2/">FTP server</a>
+        <a href="ftp://hgdownload.cse.ucsc.edu/goldenPath/vicPac2/">FTP server</a>
         or the
-        <a href="http://hgdownload.cse.ucsc.edu/downloads.html#tenrec">Downloads</a>
+        <a href="http://hgdownload.cse.ucsc.edu/downloads.html#vicPac">Downloads</a>
         page. These data have
-        <a href="/goldenPath/credits.html#tenrec_credits">specific conditions for use</a>.
-        The tenrec (echTel2) browser annotation tracks were generated by UCSC and
+        <a href="/goldenPath/credits.html#vicpac_credits">specific conditions for use</a>.
+        The alpaca (vicPac2) browser annotation tracks were generated by UCSC and
         collaborators worldwide. See the
-        <a href="/goldenPath/credits.html#tenrec_credits">Credits</a> page for a detailed
+        <a href="/goldenPath/credits.html#vicpac_credits">Credits</a> page for a detailed
         list of the organizations and individuals who contributed to this release.
         </p>
 
         <font face="courier" size="3"><b>04 September 2013 -
-        New Sheep (oviAri3) Assembly Now Available in the Genome Browser</b></font>
+        New Tenrec (echTel2) Assembly Now Available in the Genome Browser</b></font>
         <p>
-        We are pleased to announce the release of a Genome Browser for the August 2012
-        assembly of sheep, <em>Ovis aries</em> (ISGC Oar_v3.1, UCSC version 
-        oviAri3). The whole genome shotgun assembly was provided by the
-        <a href="http://www.sheephapmap.org"
-        target="_blank">International Sheep Genomics Consortium</a>.
-        There are 5,698 scaffolds with a total size of 2,619,054,388 bases.
+        We are pleased to announce the release of a Genome Browser for the November 2012
+        assembly of tenrec, <em>Echinops telfairi</em> (Broad EchTel2.0, UCSC version
+        echTel2). The whole genome shotgun assembly was provided by
+        <a href="http://www.broadinstitute.org/"
+        target="_blank">The Broad Institute</a>.
+        There are 8,402 scaffolds with a total size of 2,947,024,286 bases.
         </p>
         <p>
         Bulk downloads of the sequence and annotation data are available via the Genome
         Browser
-        <a href="ftp://hgdownload.cse.ucsc.edu/goldenPath/oviAri3/">FTP server</a>
+        <a href="ftp://hgdownload.cse.ucsc.edu/goldenPath/echTel2/">FTP server</a>
         or the
-        <a href="http://hgdownload.cse.ucsc.edu/downloads.html#sheep">Downloads</a>
+        <a href="http://hgdownload.cse.ucsc.edu/downloads.html#tenrec">Downloads</a>
         page. These data have
-        <a href="/goldenPath/credits.html#sheep_credits">specific conditions for use</a>.
-        The sheep (oviAri3) browser annotation tracks were generated by UCSC and 
+        <a href="/goldenPath/credits.html#tenrec_credits">specific conditions for use</a>.
+        The tenrec (echTel2) browser annotation tracks were generated by UCSC and
         collaborators worldwide. See the
-        <a href="/goldenPath/credits.html#sheep_credits">Credits</a> page for a detailed 
+        <a href="/goldenPath/credits.html#tenrec_credits">Credits</a> page for a detailed
         list of the organizations and individuals who contributed to this release.
         </p>
 
         <!-- staged for archive use
         <p>
-        <font face="courier" size="3"><b>04 September 2013 -
-        New Tenrec (echTel2) Assembly Now Available in the Genome Browser</b></font>
-        <a href="goldenPath/newsarch.html#090413">Read more</a>.
+        <font face="courier" size="3"><b>11 September 2013 -
+        New Alpaca (vicPac2) Assembly Now Available in the Genome Browser</b></font>
+        <a href="goldenPath/newsarch.html#091113">Read more</a>.
         </p>
+
 	<p>
         <font face="courier" size="3"><b>04 September 2013 -
-        New Sheep (oviAri3) Assembly Now Available in the Genome Browser</b></font>
+        New Tenrec (echTel2) Assembly Now Available in the Genome Browser</b></font>
         <a href="goldenPath/newsarch.html#090413">Read more</a>.
         </p>
-
         -->
 
         <!-- start archives -->
 	<hr>
         <p>
+        <p>
+        <font face="courier" size="3"><b>04 September 2013 -
+        New Sheep (oviAri3) Assembly Now Available in the Genome Browser</b></font>
+        <a href="goldenPath/newsarch.html#090413">Read more</a>.
+        </p>
 
         <p>
         <font face="courier" size="3"><b>22 August 2013
         - Three New Human Variation Tracks Released:</b></font> We are
         pleased to announce the release of three tracks that describe human
         genetic variation.
         <a href="goldenPath/newsarch.html#082213">Read more</a>.
         </p>
 
-        <p>
-        <font face="courier" size="3"><b>22 July 2013
-        - Variant Annotation Integrator:</b></font> In order to assist
-        researchers in annotating and prioritizing thousands of variant
-        calls from sequencing projects, we have developed the Variant
-        Annotation Integrator (VAI).
-        <a href="goldenPath/newsarch.html#072213">Read more</a>.
-        </p>
-
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