I have a hundred insect genomes and I'm looking for
repeated regions along these
First of all, I thought of using
RepeatModeler, only the most familiar among you know that it is not at all optimized software that requires a lot of resources and calculation time, which is therefore not feasible in my case.
One possible solution
Repbase is not free.
I thought for example to use a
blastn approach by using in query the assemblages and in database of nucleotide databases containing ETs, which would be an approach maybe less sensitive but much faster! Only I can't find a database in ET representative of
I have two questions:
- Is there an alternative algorithm that is fast enough to process a large number of insect genomes?
- Is there a database of representative ETs to enable a
Thanks a lot.