Question: fasta to stockholm
gravatar for saadleeshehreen
8 months ago by
saadleeshehreen60 wrote:


I am trying to convert a fasta file (protein) to Stockholm formate by using the following site:

But it generates an error message ( Sequences must all be the same length). My proteins are different length. How can I solve this problem?


sequence • 488 views
ADD COMMENTlink written 8 months ago by saadleeshehreen60

Hello saadleeshehreen,

if I understood the Stockholm format correct it is an alignment format. So to convert fasta to it, it is neccessary that the fasta sequence contains alignment characters to mark gaps between the aligned sequences. That said all sequences must have the same length.

The converter is not intended to do the alignment.

fin swimmer

ADD REPLYlink written 8 months ago by finswimmer8.9k

Seems like an XY problem. What are you actually trying to do?

ADD REPLYlink written 8 months ago by jrj.healey9.8k
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