UGENE Forum - Print Page

UGENE Forum
https://forum.ugene.net/forum/YaBB.pl General Category >> Help and How-to >> pattern search in circular plasmids https://forum.ugene.net/forum/YaBB.pl?num=1369910696 Message started by randolf on May 30^th, 2013 at 5:44pm

Title: pattern search in circular plasmids
Post by randolf on May 30^th, 2013 at 5:44pm

Hi, I have Sanger-Sequencing results, so a 1000bp fa file. I want to map these to my circular plasmid, which was sequenced. This works fine with normal pattern search or SW-algorithm. However, if the fa file contains the start=end of the circular plasmid file, the search does not work with either of the two algorithms.

Any suggestions, how to cope with this problem?

Title: Re: pattern search in circular plasmids
Post by Yuriy Vaskin on May 31^st, 2013 at 10:34am

Thanks for the idea.

We'll implement that in the next versions (https://ugene.unipro.ru/tracker/browse/UGENE-1709)

Title: Re: pattern search in circular plasmids
Post by Olga Golosova on Aug 25^th, 2014 at 8:22pm

Randolf, the feature you asked is implemented for the standard pattern search in UGENE 1.14. Support of other algorithms is planned for 1.15.