Hey guys!

I did a multiple sequence alignment with sequences from proteins with disordered regions (IDR). My goal is to see if there is conservation between the 20 proteins for the disordered regions. I already have all the information concerning those IDR since I did the disorder prediction myself. My problem is that I would like to highlight the specific amino acids that are disordered in Jalview using the data that I already have. I do not want to select the regions manually so I was wondering if there is a way to import annotations using my data.

I looked in the manual and I found the basics of it all but I could not find anything that would let me do this automatically, not with the cursor.

I hope this explains my problem clearly and I'll try to find a solution as soon as I can. If someone has an easy answer that would be awesome! :)

Have a good day!
It all depends what format your disorder predictions are in. If you can massage them into a [Jalview annotations file][1] like so:

```
JALVIEW_ANNOTATION
# Created: Tue May 26 10:53:09 BST 2015
SEQUENCE_REF    UniRef50_Q9C8G6
LINE_GRAPH    IUPredWS (Long)    <html>Protein Disorder with IUPredWS - raw scores<br/>Above 0.5 indicates disorder</html>    0.5707,0.5707,[72144e]|0.5807,0.5807,[72144e]|0.4619,0.4619,[72144e]|0.4685,0.4685,[72144e]|0.4801,0.4801
GRAPHLINE    IUPredWS (Long)    0.5    Above 0.5 indicates disorder    ff0000
```

Then you can just load it onto your alignment, and then use the Colour->By annotation dialog with the 'per sequence' tick box selected, and 'Above Threshold' on the dropdown menu ([see the documentation for a figure][2]).

 [1]: http://www.jalview.org/help/html/features/annotationsFormat.html
 [2]: http://www.jalview.org/help/html/colourSchemes/annotationColouring.html