<p align="left">
- Try out JalviewLite by pressing one of the buttons below. For more information on how to use the applet in your website, see the <a
- href="appletParameters.html"><strong>applet parameters</strong></a> and other documentation in the links to the left.</p>
-<div align="center">
- <p>
+<h2>JalviewLite Button Examples</h2>
+Try out JalviewLite by pressing one of the buttons below.<br/>
+ For more information on how to use the applet in your website, see the <a href="appletParameters.html"><strong>applet parameters</strong></a> and other documentation in the links to the left.</p>
+<p> </p><div align="center">
+ <p align="center">
<h2>Ferredoxins, chloroplast precursor related UniRef50
cluster</h2>
<br /> (15 sequences x 150 residues)
<table width="90%">
<tr>
<td width="10%" valign="center">
- <@jvlitebutton appjar="${content.jvl}" params={ "permissions":"all-permissions" , "file":"uniref50.fa"
+ <@jvlitebutton appjar="${content.jvl},${content.jmol}" params={ "permissions":"all-permissions" , "file":"uniref50.fa"
, "treeFile":"ferredoxin.nw"
, "userDefinedColour":"C=yellow; R,K,H=FF5555; D,E=5555FF"
, "showFullId":"false"
group consensus and sequence logos are shown below the alignment.</td>
</tr>
<tr>
- <td width="10%" valign="center"><@jvlitebutton appjar="${content.jvl}" params={ "permissions":"all-permissions",
+ <td width="10%" valign="center"><@jvlitebutton appjar="${content.jvl},${content.jmol}" params={ "permissions":"all-permissions",
"file":"uniref50.fa"
, "features":"exampleFeatures.txt"
, "showFeatureSettings":"true"
FER1_MAIZE</td>
</tr>
<tr>
- <td width="10%" valign="center"><@jvlitebutton appjar="${content.jvl}" params={ "permissions":"all-permissions"
+ <td width="10%" valign="center"><@jvlitebutton appjar="${content.jvl},${content.jmol}" params={ "permissions":"all-permissions"
, "file":"jpred_msa.fasta"
, "jnetfile":"jpred_msa.seq.concise"
, "defaultColour":"Clustal"
</p>
<table width="90%">
<tr>
- <td width="10%" valign="center"><@jvlitebutton appjar="${content.jvl}" params={ "permissions":"all-permissions"
+ <td width="10%" valign="center"><@jvlitebutton appjar="${content.jvl},${content.jmol}" params={ "permissions":"all-permissions"
, "file":"RF00031_folded.stk"
, "defaultColour":"Purine/Pyrimidine"
, "showAnnotation":"true"
secondary structure annotation</td>
</tr>
</table>
-</div>
\ No newline at end of file
+ <p>
+ <h2>Linked amino acid and cDNA alignments for homologous proteins</h2>
+ </p>
+ <table width="90%">
+ <tr>
+ <td width="10%" valign="center"><@jvlitebutton appjar="${content.jvl},${content.jmol}" params={ "permissions":"all-permissions"
+ , "file":"estrogenReceptorCdna.fa"
+ , "file2":"estrogenReceptorProtein.fa"
+ , "defaultColour":"Purine/Pyrimidine"
+ , "showAnnotation":"false"
+ , "windowHeight":"300"
+ , "windowWidth":"800"
+ , "showFullId":"false"} prots=true /></td>
+ <td valign="center">Displays a split window view of protein and its related cDNA</td>
+ </tr>
+ </table>
+</div>