[Bioperl-l] questions on analysising clustalw alignment result files

[Peter Cock]

On Wed, Jul 6, 2011 at 1:46 AM, Tao Zhu <tzhu at mail.bnu.edu.cn> wrote:
> Thank you for everyone. In fact I've solved the problem. It was maily due to
> the blanks in the sequence names. In the file "test.aln", the two sequences
> were named as "3R      21150113-21154664" and "3RHet 2076433-2080968", both
> of which had a blank inside. If I delete the blanks, the script works!

But how did the blanks get there? Perhaps you have found a problem
in clustalw - older versions didn't do that, the sequences would have
been called just "3R" and "3RHet".

Peter