X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2Fcalculations%2Fstructureconsensus.html;h=c194a53b2dbedede99657dbf12cb94be42b53f79;hb=35738b40f315d0f619116f4e0b23e9a8ebf141d2;hp=756e6e961f374626917ae50b9141bcc6d2bb1663;hpb=6d0bc336f5624b20b184036365cb7009f95a77fd;p=jalview.git diff --git a/help/html/calculations/structureconsensus.html b/help/html/calculations/structureconsensus.html index 756e6e9..c194a53 100755 --- a/help/html/calculations/structureconsensus.html +++ b/help/html/calculations/structureconsensus.html @@ -27,35 +27,37 @@ Alignment RNA Structure Consensus Annotation
-The RNA structure consensus displayed below the alignment gives - the percentage of valid base pairs per column for the first - secondary structure annotation shown on the annotation panel. The - symbol below each histogram indicates whether the majority of base - pairs are: -
The RNA structure consensus displayed below the alignment gives the + percentage of valid base pairs per column for the first secondary + structure annotation shown on the annotation panel. These values are + shown as a histogram labeled "StrucConsensus", where a + symbol below each bar indicates whether the majority of base pairs + are:
Mousing over the column gives the fraction of pairs classified as Watson-Crick, Canonical or Invalid.
- -By default +
Mousing over the column gives the fraction of pairs classified + as Watson-Crick, Canonical or Invalid.
+ +By default
this calculation includes gaps in columns. You can choose to ignore
gaps in the calculation by right clicking on the label
- "StrConsensus" to the left of the structure consensus bar
+ "StrucConsensus" to the left of the structure consensus bar
chart.
+
- Structure logo -
- Right-clicking on the label allows you to enable the structure logo. - It is very similar to a sequence logo but instead shows the - distribution of base pairs. There are two residues per column, the - actual column and the interacting base. The opening bracket is always - the one on the left side. -