Hi Scott, I had similar problems when I tried to translate the whole Drosophila genome (quite a few of BACs of 300 kb or so). For me the "wimklein" programm from the SEALS package (NCBI) did the job perfectly. With best regards Thomas Siegmund -- Freie Universität Berlin Institut für Genetik Arnimallee 7 14195 Berlin Germany Tel: +49 30 838 54868