[EMBOSS] Problem with restrict -solofragment option

Stefanie Lager stefanielager at gmail.com
Mon Aug 12 04:46:21 UTC 2013


I'm running the program restrict (in EMBOSS to list which enzymes
cleaves a bacterial genome in a certain number of fragments, but the size
of the fragments is not correct with the option -solofragment.

If I e.g. run:

restrict -plasmid -min 3 -max 4 -fragments -solofragment  U00096

It's only the enzyme FseI that fulfill the criteria, and the option
-fragments give me the correct size of the fragments, but the option
-solofragment does not give me the correct size of the fragments. I don't
have to use the option -solofragment for a single enzyme, but when there
are several enzymes that cleaves I need the -solofragment option.

It seems as if the -solofragment option doesn't see the -plasmid option,
this worked nice in previous versions of EMBOSS!



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