X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2Fcalculations%2Fconservation.html;h=4cfc825e811f6877686d43f4d2241b8b49c84fff;hb=1b81a47f3b7e3e68256dfc4367ec27adb2302e4c;hp=cf7faf549a3c32a75d51c0c90ec75386181250b5;hpb=9807ea8cc4e867378c52d51b832168d4bc611d29;p=jalview.git diff --git a/help/html/calculations/conservation.html b/help/html/calculations/conservation.html index cf7faf5..4cfc825 100755 --- a/help/html/calculations/conservation.html +++ b/help/html/calculations/conservation.html @@ -1,27 +1,27 @@ - -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. +

+ +