Generating Certification from different machine

The log also says: "certificate verification failed".

So.. The question is. What kind of HTTPS site is running at the moment?

Ah, I see the problem: SSL Server Test (Powered by Qualys SSL Labs)

SSL Report: connectbeta.eko.co.in (59.162.104.10)
Certificate name mismatch
connectalpha.eko.co.in

Your "beta" server is serving the certificate for "alpha".. That's not gonna fly with Boulder.

BTW, as I'm seeing "beta" and "alpha": you are aware of the rate limit of a maximum of 5 certificates per 7 days (sliding) window per domain? Above that and you'll run into errors. You can test against the staging server.