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pattern search in circular plasmids (Read 8119 times)
May 30th, 2013 at 5:44pm

randolf   Offline
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Posts: 27
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?
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Reply #1 - May 31st, 2013 at 10:34am

Yuriy Vaskin   Offline
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Posts: 138
Thanks for the idea.

We'll implement that in the next versions (https://ugene.unipro.ru/tracker/browse/UGENE-1709)
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Reply #2 - Aug 25th, 2014 at 8:22pm

Olga Golosova   Offline
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Posts: 338
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.
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