X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=sidebyside;f=help%2Fhtml%2Fcalculations%2Fstructureconsensus.html;h=7325439bc6d1bb20aec9c6473445c3391becb69a;hb=4aae950e66ed30fb4ac50dcbae4257bfda2518fc;hp=5f989a5cf3b5273ff68cb4fde9458bfc02449a1e;hpb=dc507a79f5eb7837ec52343686e84f9d4b56f0fc;p=jalview.git diff --git a/help/html/calculations/structureconsensus.html b/help/html/calculations/structureconsensus.html index 5f989a5..7325439 100755 --- a/help/html/calculations/structureconsensus.html +++ b/help/html/calculations/structureconsensus.html @@ -1,44 +1,54 @@ -
Alignment RNA Structure Consensus Annotation
- -The RNA structure consensus displayed below the alignment is the
-percentage of valid base pairs per column. It is calculated in
-relation to a secondary structure and just paired columns are
-calculated. The canonical Watson-Crick base pairings (A-T/U, G-C) and
-the wobble base pair (G-T/U) are regarded as valid pairings.
-The amount of valid base pairs is indicated by the profile in the
-Alignment Annotation row.
-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
-chart.
+ * You should have received a copy of the GNU General Public License
+ * along with Jalview. If not, see
+ Alignment RNA Structure Consensus Annotation +
-Structure logo
-By clicking on the label you can also activate the structure logo. It is very -similar to a sequence logo but counts the numbers 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.
+ The RNA structure consensus displayed below the alignment is the
+ percentage of valid base pairs per column. It is calculated in
+ relation to a secondary structure and just paired columns are
+ calculated. The canonical Watson-Crick base pairings (A-T/U, G-C)
+ and the wobble base pair (G-T/U) are regarded as valid pairings.
+ The amount of valid base pairs is indicated by the profile in the
+ Alignment Annotation row.
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 chart.
+
+ Structure logo +
+ By clicking on the label you can also activate the structure logo. It + is very similar to a sequence logo but counts the numbers 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. +