-<p><strong>The Tree Viewing Window</strong></p>
-<p>
- The tree viewing window is opened when a tree has been <a href="tree.html">calculated
- from an alignment</a>, or imported via a file or web service. It includes <a href="#menus">menus</a> for
- controlling layout and file and figure creation, and enables
- various selection and colouring operations on the
- associated sequences in the alignment.</p>
-<p>
-<strong><em>Selecting Sequence Leaf Nodes</em></strong><br>
- Selecting sequence ids at the leaves of the tree selects the
- corresponding sequences in the original alignment. These selections
- are also reflected in any other analysis windows associated with the
- alignment, such as another tree viewer.</p>
-<p><strong><em>Grouping sequences by partitioning the tree at a particular distanec</em></strong><br>
- Clicking anywhere along the extent of the tree (but not on a leaf or
- internal node) defines a tree 'partition', by cutting every branch
- of the tree spanning the depth where the mouse-click occurred. Groups
- are created containing sequences at the leaves of each connected
- sub tree. These groups are each given a different colour, which are
- reflected in other windows in the same way as if the sequence ids
- were selected, and can be edited in the same way as user defined
- sequence groups.
-</p>
-<p>Tree partitions are useful for comparing clusters produced by
-different methods and measures. They are also an effective way of
-identifying specific patterns of conservation and mutation
-corresponding to the overall phylogenetic structure, when combined
-with the <a href="../colourSchemes/conservation.html">conservation
-based colour scheme</a>.</p>
-<p>
-<strong><em>Selecting Subtrees and changing the branch order and subtree group colour</em></strong><br>
-Moving the mouse over an internal node of the tree will highlight
- it. You can then : <ul>
- <li>Click the highlighted node to select all the sequences in that branch.
- <li>Double-click the highlighted node to rearrange the tree
- diagram by inverting the branch ordering at that
- node.
- <li>Right-click to open the 'Select Sub-Tree Colour' dialog box, to
- pick a new colour for the sub-tree and associated sequences.
+ <p>
+ <strong>The Tree Viewing Window</strong>
+ </p>
+ <p>
+ The tree viewing window is opened when a tree has been <a
+ href="tree.html">calculated from an alignment</a>, or
+ imported via a file or web service. It includes <a href="#menus">menus</a>
+ for controlling layout and file and figure creation, and enables
+ various selection and colouring operations on the associated
+ sequences in the alignment.
+ </p>
+ <p>
+ <strong><em>Selecting Sequence Leaf Nodes</em></strong><br>
+ Selecting sequence ids at the leaves of the tree selects the
+ corresponding sequences in the original alignment. These selections
+ are also reflected in any other analysis windows associated with the
+ alignment, such as another tree viewer.
+ </p>
+ <p>
+ <strong><em>Grouping sequences by partitioning the
+ tree at a particular distanec</em></strong><br> Clicking anywhere along
+ the extent of the tree (but not on a leaf or internal node) defines
+ a tree 'partition', by cutting every branch of the tree spanning the
+ depth where the mouse-click occurred. Groups are created containing
+ sequences at the leaves of each connected sub tree. These groups are
+ each given a different colour, which are reflected in other windows
+ in the same way as if the sequence ids were selected, and can be
+ edited in the same way as user defined sequence groups.
+ </p>
+ <p>
+ Tree partitions are useful for comparing clusters produced by
+ different methods and measures. They are also an effective way of
+ identifying specific patterns of conservation and mutation
+ corresponding to the overall phylogenetic structure, when combined
+ with the <a href="../colourSchemes/conservation.html">conservation
+ based colour scheme</a>.
+ </p>
+ <p>
+ <strong><em>Selecting Subtrees and changing the branch
+ order and subtree group colour</em></strong><br> Moving the mouse over an
+ internal node of the tree will highlight it. You can then :
+ <ul>
+ <li>Click the highlighted node to select all the sequences in
+ that branch.
+ <li>Double-click the highlighted node to rearrange the tree
+ diagram by inverting the branch ordering at that node.
+ <li>Right-click to open the 'Select Sub-Tree Colour' dialog
+ box, to pick a new colour for the sub-tree and associated
+ sequences.