X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2Fcalculations%2Fconservation.html;h=9c8f0c5af51b440cbf54599f163c0fb5df5b84a4;hb=d423f22792e47dbc800ae220a58677f988971d06;hp=4cfc825e811f6877686d43f4d2241b8b49c84fff;hpb=797d4400e51c5786c080d7d746d5968589b5dc78;p=jalview.git diff --git a/help/html/calculations/conservation.html b/help/html/calculations/conservation.html index 4cfc825..9c8f0c5 100755 --- a/help/html/calculations/conservation.html +++ b/help/html/calculations/conservation.html @@ -1,27 +1,44 @@ - -Alignment Conservation Annotation -

Alignment Conservation Annotation

-

This is an automatically calculated quantitative alignment -annotation which measures the number of conserved physico-chemical -properties conserved for each column of the alignment. Its calculation -is based on the one used in - the AMAS method of multiple sequence alignment analysis :
-

-

-

Conservation is measured as a numerical index reflecting the conservation of - physico-chemical - properties in the alignment: Identities score highest, and the next most - conserved group contain substitutions to amino acids lying in the same physico-chemical - class.

- -

Colouring an alignment by conservation
-Conservation scores can be used to colour an alignment. This is -explained further in the help page for conservation colouring. -

- - + + +Alignment Conservation Annotation +

Alignment Conservation Annotation

+

This is an automatically calculated quantitative alignment +annotation which measures the number of conserved physico-chemical +properties conserved for each column of the alignment. Its calculation +is based on the one used in + the AMAS method of multiple sequence alignment analysis :
+

+

+

Conservation is measured as a numerical index reflecting the conservation of + physico-chemical + properties in the alignment: Identities score highest, and the next most + conserved group contain substitutions to amino acids lying in the same physico-chemical + class.

+ +

Colouring an alignment by conservation
+Conservation scores can be used to colour an alignment. This is +explained further in the help page for conservation colouring. +

+ +