I have downloaded the Whole genome scores(hg19) both Version 2.1.6 and 2.1.0 in the project website you provided http://funseq2.gersteinlab.org/downloads. There no score when I queried the codign region, but in the Whole Genome Query interface displays the results, such as chr1:11073808-11073808. I will be so appreciated if you could kindly tell me the reason of this problem. Thank you for your kind consideration of this request.
The genome score you downloaded only includes non-coding variants. For coding regions, the score mostly reply on VAT annotation (another tool by our lab: vat.gersteinlab.org). Also whole genome score including both coding and non-coding will be a very large file, which over 50G after compressed. So we provide a query server: http://funseq3.gersteinlab.org/ . Thanks also for pointing out this issue on the download page, and we will update the webpage with clear and detailed file descriptions.