<strong>Alignment RNA Structure Consensus Annotation</strong>
</p>
- <p>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:<ul>
+ <p>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:
+ <ul>
<li>'(' - Watson-Crick (C:G, A:U/T)</li>
<li>'[' - Non-canonical (a.ka. wobble) (G:U/T)</li>
<li>'{' - Invalid (a.k.a. tertiary) (the rest)</li>
<p>Mousing over the column gives the fraction of pairs classified
as Watson-Crick, Canonical or Invalid.</p>
- <p>By default
- this calculation includes gaps in columns. You can choose to ignore
- gaps in the calculation by right clicking on the label
- "StrucConsensus" to the left of the structure consensus bar
- chart.<br>
-
+ <p>
+ By default this calculation includes gaps in columns. You can choose
+ to ignore gaps in the calculation by right clicking on the label
+ "StrucConsensus" to the left of the structure consensus
+ bar chart.<br>
<p>
<strong>RNA Structure logo</strong><br /> Right-clicking on the
label allows you to enable the structure logo. It is very similar to