[maker-devel] Maker is not predicting any genes on scaffold

Fri Nov 8 16:40:06 MST 2013

Hello,

I am attempting to annotate a small section of an arthropod genome. I ran Maker on the command line and the results showed only repetitive regions recognized by Repeat Masker -- no predicted ORFs. I submitted my scaffold through the web interface and got the same results.

I know that there are genes present on this scaffold and when I run it through Augustus there are 13 ORFs predicted.

Are there some options that I need to adjust to get ab initio gene predictions from Maker?

Thank you,

Kerry Gendreau
Graduate Student, Dept. of Biological Sciences
University of Massachusetts Lowell
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