<html><head><meta http-equiv="Content-Type" content="text/html; charset=utf-8"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class="">Maybe. I’ve never tried it. MAKER just wanders upstream and downstream, then gives up if it doesn’t find anything to add. Perhaps this script does something similar. If it takes GFF3, may be worth a shot.<div class=""><br class=""></div><div class="">—Carson</div><div class=""><br class=""><div><br class=""><blockquote type="cite" class=""><div class="">On Oct 27, 2020, at 9:01 PM, Emmanuel Nnadi <<a href="mailto:eennadi@gmail.com" class="">eennadi@gmail.com</a>> wrote:</div><br class="Apple-interchange-newline"><div class=""><div dir="ltr" class=""><div dir="ltr" class=""><div dir="ltr" class="">Hi Carson<div class="">I always set <span style="font-family: Roboto, RobotoDraft, Helvetica, Arial, sans-serif; font-size: 14px;" class="">always_complete=1 yet I still get sequences without start and stop codon. </span></div><div class=""><font face="Roboto, RobotoDraft, Helvetica, Arial, sans-serif" class=""><span style="font-size: 14px;" class=""><br class=""></span></font></div><div class=""><font face="Roboto, RobotoDraft, Helvetica, Arial, sans-serif" class=""><span style="font-size: 14px;" class="">Can </span></font><a href="https://github.com/Gaius-Augustus/Augustus/blob/master/scripts/fix_in_frame_stop_codon_genes.py" target="_blank" class="">https://github.com/Gaius-Augustus/Augustus/blob/master/scripts/fix_in_frame_stop_codon_genes.py</a> be used on the final sequence to fix start and stop codon problem?</div><div class=""><br class=""></div><div class=""><br clear="all" class=""><div class=""><div dir="ltr" class="gmail_signature"><div dir="ltr" class=""><div class=""><div dir="ltr" class="">Nnaemeka Emmanuel Nnadi,Ph.D<div class="">Department of Microbiology,</div><div class="">Faculty of Natural and Applied Science,</div><div class="">Plateau State University, Bokkos, Plateau State, Nigeria.</div><div class="">+2348068124819</div><div class="">Publications: </div><div class=""> <a href="https://www.researchgate.net/profile/Emmanuel_Nnadi/publications" target="_blank" class="">https://www.researchgate.net/profile/Emmanuel_Nnadi/publications</a></div></div></div></div></div></div></div></div></div></div>
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