[Jalview-discuss] Pairwise alignment not working reliably in 2.10.4b1

[Mark Saper]

The Pairwise alignment command only works for certain pairs of sequences in my alignment, but not for other pairs. I think it is a problem with the command since it used to work for me without problem.

Thanks,
Mark
_______________________________________________
Mark A. Saper, Ph.D.
Associate Professor of Biological Chemistry, U-M Medical School
Room 3220B, MSRB III ***@umich.edu [phone]

[Mark Saper]

Follow-up. The problem occurs when sequences are different length, but since this is common in alignments I think this is a bug. Should short sequences have “-“ so that all sequences are of the same length?

Thanks,
Mark
_______________________________________________
Mark A. Saper, Ph.D.
Associate Professor of Biological Chemistry, U-M Medical School
Room 3220B, MSRB III ***@umich.edu [phone]

[Jim Procter]

Hi Mark. This certainly sounds like a bug. Can you send me an example
showing the problem ? It's not really clear from your first email.

Thanks in advance,
Jim.

Post by Mark Saper
Follow-up. The problem occurs when sequences are different length, but
since this is common in alignments I think this is a bug. Should short
sequences have “-“ so that all sequences are of the same length?
Thanks,
Mark
_______________________________________________
Mark A. Saper, Ph.D.
Associate Professor of Biological Chemistry, U-M Medical School
_______________________________________________
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