<html><head><meta http-equiv="Content-Type" content="text/html charset=utf-8"><base href="x-msg://15/"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">Hi Kang - After running fasta_merge there should be a file:<div><br></div><div>[prefix].all.maker.augustus_masked.transcripts.fasta<br><div><div><br></div><div>in the output directory. Is that what you need?</div><div>Mike</div><div><br></div><div>On Apr 6, 2013, at 9:25 AM, "Kang, Yang Jae" <<a href="mailto:kangyangjae@gmail.com">kangyangjae@gmail.com</a>> wrote:</div><br class="Apple-interchange-newline"><blockquote type="cite"><div lang="KO" link="blue" vlink="purple" style="font-family: Helvetica; font-size: medium; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: 2; text-align: -webkit-auto; text-indent: 0px; text-transform: none; white-space: normal; widows: 2; word-spacing: 0px; -webkit-text-size-adjust: auto; -webkit-text-stroke-width: 0px; "><div class="WordSection1" style="page: WordSection1; "><div style="margin: 0cm 0cm 0.0001pt; text-align: justify; font-size: 10pt; font-family: 맑은고딕; "><span lang="EN-US">Dear everyone!<o:p></o:p></span></div><div style="margin: 0cm 0cm 0.0001pt; text-align: justify; font-size: 10pt; font-family: 맑은고딕; "><span lang="EN-US"> </span></div><div style="margin: 0cm 0cm 0.0001pt; text-align: justify; font-size: 10pt; font-family: 맑은고딕; "><span lang="EN-US">I want to retrieve CDS sequences from the output of maker; however, in the augustus_masked feature there is no indication of CDS or Exon like maker features. Is there any way for me to retrieve CDS from augustus_masked? There were protein sequences in outdir but no CDS information.<o:p></o:p></span></div><div style="margin: 0cm 0cm 0.0001pt; text-align: justify; font-size: 10pt; font-family: 맑은고딕; "><span lang="EN-US"> </span></div><div style="margin: 0cm 0cm 0.0001pt; text-align: justify; font-size: 10pt; font-family: 맑은고딕; "><span lang="EN-US">Thank you!<o:p></o:p></span></div><div style="margin: 0cm 0cm 0.0001pt; text-align: justify; font-size: 10pt; font-family: 맑은고딕; "><span lang="EN-US"> </span></div><div style="margin: 0cm 0cm 0.0001pt; text-align: left; font-size: 10pt; font-family: 맑은고딕; "><b><span lang="EN-US">Kang, Yang Jae<o:p></o:p></span></b></div><div style="margin: 0cm 0cm 0.0001pt; text-align: left; font-size: 10pt; font-family: 맑은고딕; "><span lang="EN-US">Ph.D.<o:p></o:p></span></div><div style="margin: 0cm 0cm 0.0001pt; text-align: left; font-size: 10pt; font-family: 맑은고딕; "><span lang="EN-US">Cropgenomics Lab.<o:p></o:p></span></div><div style="margin: 0cm 0cm 0.0001pt; text-align: left; font-size: 10pt; font-family: 맑은고딕; "><span lang="EN-US">College of Agriculture and Life Science<o:p></o:p></span></div><div style="margin: 0cm 0cm 0.0001pt; text-align: left; font-size: 10pt; font-family: 맑은고딕; "><span lang="EN-US">Seoul National University<o:p></o:p></span></div><div style="margin: 0cm 0cm 0.0001pt; text-align: left; font-size: 10pt; font-family: 맑은고딕; "><span lang="EN-US">Korea<o:p></o:p></span></div><div style="margin: 0cm 0cm 0.0001pt; text-align: justify; font-size: 10pt; font-family: 맑은고딕; "><span lang="EN-US"> </span></div></div>_______________________________________________<br>maker-devel mailing list<br><a href="mailto:maker-devel@box290.bluehost.com" style="color: purple; text-decoration: underline; ">maker-devel@box290.bluehost.com</a><br><a href="http://box290.bluehost.com/mailman/listinfo/maker-devel_yandell-lab.org" style="color: purple; text-decoration: underline; ">http://box290.bluehost.com/mailman/listinfo/maker-devel_yandell-lab.org</a><br></div></blockquote></div><br></div></body></html>