Hello all I am having problems exporting orthologs after progressiveMauve alignment of two plant mitochondria, a GenBank file and a fasta sequence, each of them <1Mb. I see nice LCBs, many of which contain genes (as per the GenBank file annotation). However, the exported file just lists the coordinates of the GenBank genome, without any sign of comparing to the second, fasta sequence. This is regardless of which features I select (CDS, gene, tRNA, ...). An example:
0:trnY(GTA):75277-75359 0:trnN(GTT)-cp:76361-76432 I have set the Min. values for export pretty low already; but even if that was the cause (the threshold still being to high), the lines should contain another colon (:) with no further information, as outlined in an example output on the support pages. Console output is empty, and although there is a warning that this can be slow, the output file is written immediately (am I just too impatient? but there isn't any change after more than an hour anyway...). I am using the latest snapshot 20120303 on a 64bit Windows PC, JRE 8u11 correctly working. Any hints? best regards, Berthold ***************************************************************************************************** Dipl.-Ing. Dr. Berthold Heinze Bundesforschungs- und Ausbildungszentrum für Wald, Naturgefahren und Landschaft / Federal Research Centre for Forests, Natural Hazards and Landscape Institut für Genetik / Department of Genetics Abteilung Genomforschung / Unit of Genome Research A-1140 Wien, Hauptstraße 7, AUSTRIA Tel: +43 / 1 / 87838 / 2219 Fax: +43 / 1 / 87838 / 2250 E-mail: berthold.hei...@bfw.gv.at<mailto:berthold.hei...@bfw.gv.at> URL: http://bfw.ac.at<http://bfw.ac.at/> *****************************************************************************************************
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