develop merge

[jalview.git] / help / html / features / featuresFormat.html

diff --git a/help/html/features/featuresFormat.html b/help/html/features/featuresFormat.html
index 84bc5d4..9f33b7b 100755 (executable)
--- a/help/html/features/featuresFormat.html
+++ b/help/html/features/featuresFormat.html
@@ -83,7 +83,7 @@
         <li><em>label</em><br> Indicate that the feature
           description should be used to create a colour for features of
           this type.<br> <em>Note: if no threshold value is
-            needed then the final '|' may be ommitted.<br> This
+            needed then the final '|' may be omitted.<br> This
             keyword was added in Jalview 2.6
         </em></li>
 
@@ -122,7 +122,7 @@
 
   <p>
     If your sequence annotation is already available in GFF Format (see
-    <a href="http://www.sanger.ac.uk/resources/software/gff/spec.html">http://www.sanger.ac.uk/resources/software/gff/spec.html</a>),
+    <a href="http://gmod.org/wiki/GFF2">gmod.org/wiki/GFF2</a>),
     then you can leave it as is, after first adding a line containing
     only 'GFF' after any Jalview feature colour definitions (<em>this
       mixed format capability was added in Jalview 2.6</em>). Alternately,
@@ -141,7 +141,7 @@
 </pre>
 
   This format allows two alternate ways of referring to a sequence,
-  either by its text ID, or its index in an associated alignment.
+  either by its text ID, or its index (base 0) in an associated alignment.
   Normally, sequence features are associated with sequences rather than
   alignments, and the sequenceIndex field is given as &quot;-1&quot;. In
   order to specify a sequence by its index in a particular alignment,