I am using SLiMFinder a lot these days. I agree that the larger the number of entries in a query, the longer it can take. Yet, I could not receive any query response for any query longer than 10 entries. Also, some 10-entries queries are still running forever. The online system has a limit of 50 entries, so, it must have been tested for something similar. The length of each entry is eventually small, because I am working on viral proteins. Any ideas or similar experience?
Thank you