Tutorial para Phred/Phrap/Consed Tutorial - Coccidia.icb.usp.br

15. Identify the tags. What do they mean<br />
16. Press the button “Compl Cont” button below the task bar of the Aligned Reads<br />
Window. What happens with the consensus sequence<br />
17. Click on the File option at the task bar of the Aligned Reads Window. Choose<br />
Export consensus sequence (with options).<br />
Fill the fields Start Position and End Position. A FASTA file containing the<br />
sequence comprised between these 2 coordinates will be saved.<br />
17. Let’s try to identify tags. Go to position 963. You will see a red tag on the<br />
sequence of the read djs74-237.s1. Click with the RIGHT button of the mouse on<br />
this tag. A menu will pop-up informing at the third line that the tag corresponds to a<br />
compression. Open the trace file to check if the tag was correctly assigned.<br />
18. Now let’s pick some primers for finishing purposes. First we will pick a primer<br />
for a sequencing reaction. Click with the RIGHT button of the mouse on any<br />
read. At the menu choose Pick (top strand) Primer or Pick (bottom strand)<br />
Primer. A new window will appear with some suggestions of designed primers: