Please help me find out the best way of using Jr pass.

Hi there,

We plan going to Japan this June, and our details as below:

• 2 June: arrive Tokyo
• 2-4 June: have city tour and visit Fuji mountain.
• 4-7 June: arrive to Yamagata to attend JCI ASPACT so we will walk form hotel to places in 4 days.
• Early 8 -10 June: we go to Kyoto
• 10 June: we go back to Tokyo
• 11 June : departure.

So my question are:
- which Jr pass should we use because we will stay in Japan in 11 days? - The Jr pass can be used for any kinds of vehicle or just some? - is there any Jr pass have flexible day pass because we have 4 days in Yamagata we will not use Jr pass.

Tks and looking forward to your help.