My guess is that the funds has not been seized and here is why:
The first thing FBI would boast about is the large seizure. But it's been dead silence regarding funds. Secondly the first thing they would do after getting their hand on the servers would be to secure funds (to prevent a second admin getting away with them). But funds only started moving yesterday. During the weekend, of all things.
I tracked my namecoin deposit, and ended up with these two wallets:
https://bitinfocharts.com/namecoin/address/NJinDPKLrfJ7tna7BgKWNXJ9NkK1Fxfv2F hot?
https://bitinfocharts.com/namecoin/address/NENJ9ygeLDRcLs2NgvUcApqC9K4xCzYWM7 cold
No funds has been moved since the shut down.
I see ETH was moved here:
https://etherscan.io/address/0x8eb3fa7907ad2ef4c7e3ba4b1d2f2aac6f4b5ae6The
LTC wallet people have posted looks like a hot wallet... Like with namecoin, it might be interesting to see if only the hot wallet is moved, or if cold also. If the cold wallet is left, perhaps it is because admins have it secured fully already and don't need to move it. Another thing is if anyone is able to pick up the IP broadcasting these transactions, it could give an indication as to who is behind.
We know for a fact there is still at least one more admin out there due to the updates posted here and the tweets. Why would he post that btc-e would be back in 5-10 days if funds were seized ? At what point is that your priority? to post that kind of update? It doesn't make sense that he would post that if he knew that funds were seized and gone. Posting anything at all in fact puts him at risk, as fbi can start to work on tracking his IP address on twitter. Why put himself to that risk ? Same question applies if he intends to do an "exit scam".
We who came to bitcoin in early 2011 and earlier didn't come here because we wanted to get rich. It was idealists. BTC-E has been running since 2011 and that increases the chances imo, that whoever is behind it is honest. That said, they are in a hopeless situation now, we have to expect the worst, but wish for the best.