X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2FcolourSchemes%2Fclustal.html;h=195171eecde4d5db845e10244dde9cadde2e2a67;hb=ab43013b7e357b84b4abade0dba949668dfb2a0e;hp=488f7451f6714eb5196ddeeaaeb85f6ef344403a;hpb=6fa9683bef52d6709abb81840681e4fa452cafe7;p=jalview.git diff --git a/help/html/colourSchemes/clustal.html b/help/html/colourSchemes/clustal.html index 488f745..195171e 100755 --- a/help/html/colourSchemes/clustal.html +++ b/help/html/colourSchemes/clustal.html @@ -1,52 +1,65 @@ - -
- - - - -Clustal X
-N | -G | -P | -B | -D | -
S | -C | -Y | -K | -X | -
Q | -W | -T | -R | -H | -
Z | -E | -A | -F | -M | -
L | -V | -I | -
Clustal X Colour Scheme
+This is an emulation of the default colourscheme used for alignments in + Clustal X, a graphical interface for the ClustalW multiple sequence alignment + program. Each residue in the alignment is assigned a colour if the + amino acid profile of the alignment at that position + meets some minimum criteria specific for the residue type.
+The table below gives these criteria as clauses: {+X%,xx,y}, + where X is the minimum percentage presence for any of the xx (or y) residue types.
+
Clustal X Default Colouring | |||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|