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Recent Activity
Debbie Jacobs-Sera posted in Help with Annotating Direct Terminal Repeats
Marie Fogarty posted in Help with Annotating Direct Terminal Repeats
cdshaffer posted in Help with Annotating Direct Terminal Repeats
Marie Fogarty posted in Help with Annotating Direct Terminal Repeats
Debbie Jacobs-Sera posted in Potential minor tail proteins in cluster GK
Promoter prediction
| Link to this post | posted 13 Jul, 2020 21:09 | |
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Hello! One of my students is scanning for promoter sequences in our finished genomes. I was going to ask her to just focus on the gaps with more than 50bp but she tried the prediction tool in DNAMaster and the entire genome was analyzed in a few seconds (even though the manual mentions that this should not be the case because it is such a computationally intensive task). My question is with regards to how to interpret the scores. I am still asking her to zero in those 50bp gaps, and to not even look at anything with an overall score lower than 0.6, but this cutoff is a bit random. Is there a "this is definitely not a promoter cutoff"? Thank you! |
| Link to this post | posted 13 Jul, 2020 21:14 | |
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Amaya, Nope. No cutoff score per se, but bigger is better. I think I only look at top hits or areas of interest. But your approach is the one that sounds reasonable. It has to make sense. debbie |
| Link to this post | posted 13 Jul, 2020 21:19 | |
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Sounds good. Thank you! |