-<html>
-<head>
-<title>Sequence Feature Settings Dialog Box</title>
-</head>
-<body>
-<p><strong>Sequence Feature Settings Dialog Box</strong></p>
-<p>Select <strong>View→Feature Settings...</strong> menu entry in
-an alignment window to open the feature settings dialog box, which
-allows you to precisely control the presence and appearance of
-sequence features for the current alignment.</p>
-<center><img src="appFeatureSettings.gif" align="center"><br>Sequence Feature
- Settings for the Jalview Application</img></center>
-<p>The top section of the dialog box lists all the sequence feature
- groups, along with a tickbox for each that controls whether its
- features are displayed. The table in the middle lists all the
- features in the currently selected groups, along with their display
- colour and whether they are currently being displayed (only the
- ticked features and groups are displayed). <strong><em>You can change the
- colour used for a feature in the associated alignment by clicking on
- its colour box.</em></strong></p>
-<p><strong>Transparency and Feature Ordering</strong></p><p>
- It is important to realise that sequence features are often not
- distinct and often overlap (for example, a metal binding site
- feature may be attached to one position along a stretch of sequence
- marked with a secondary structure feature).</p>
-<p>The ordering of the sequence features in the dialog box list is the
- order used by jalview for rendering sequence features. A feature at
- the bottom of the list is rendered <em>below</em> a feature higher
- up in the list.<br><em><strong>You can change the order of a feature
- by dragging it up and down the list with the
- mouse</strong></em>.</p>
-<p>
- The <strong><em>transparency slider setting</em></strong> (currently only available
- in the application version) controls the visibility of features
- rendered below other features. Reducing the transparency will mean
- that features at the top of the list can obscure features lower
- down, and increasing it allows the user to 'see through' the upper
- layers of a set of features.</p>
-<p><strong><em>You can save all features, with their current colours and visibility
- in a Jalview format file. </em></strong>
-</p>
-</body>
-</html>
+<html>\r
+<head>\r
+<title>Sequence Feature Settings Dialog Box</title>\r
+</head>\r
+<body>\r
+<p><strong>Sequence Feature Settings Dialog Box</strong></p>\r
+<p>Select <strong>View→Feature Settings...</strong> menu entry in\r
+an alignment window to open the feature settings dialog box, which\r
+allows you to precisely control the presence and appearance of\r
+sequence features for the current alignment.</p>\r
+<center>\r
+ <img src="featureSettings.gif" width="432" height="327"> <br>\r
+ Sequence Feature\r
+ Settings for the Jalview Application</img></center>\r
+<p>The top section of the dialog box lists all the sequence feature\r
+ groups, along with a tickbox for each that controls whether its\r
+ features are displayed. The table in the middle lists all the\r
+ features in the currently selected groups, along with their display\r
+ colour and whether they are currently being displayed (only the\r
+ ticked features and groups are displayed). <strong><em>You can change the\r
+ colour used for a feature in the associated alignment by clicking on\r
+ its colour box.</em></strong></p>\r
+<p><strong>Transparency and Feature Ordering</strong></p><p>\r
+ It is important to realise that sequence features are often not\r
+ distinct and often overlap (for example, a metal binding site\r
+ feature may be attached to one position along a stretch of sequence\r
+ marked with a secondary structure feature).</p>\r
+<p>The ordering of the sequence features in the dialog box list is the\r
+ order used by jalview for rendering sequence features. A feature at\r
+ the bottom of the list is rendered <em>below</em> a feature higher\r
+ up in the list.<br><em><strong>You can change the order of a feature\r
+ by dragging it up and down the list with the\r
+ mouse</strong></em>.</p>\r
+<p>\r
+ The <strong><em>transparency slider setting</em></strong> (currently only available\r
+ in the application version) controls the visibility of features\r
+ rendered below other features. Reducing the transparency will mean\r
+ that features at the top of the list can obscure features lower\r
+ down, and increasing it allows the user to 'see through' the upper\r
+ layers of a set of features.</p>\r
+<p><strong><em>You can save all features, with their current colours and visibility \r
+ in a Jalview format file. </em></strong>\r
+</p>\r
+</body>\r
+</html>\r
git://source.jalview.org / jalview.git / blobdiff