Hello macwong, may be you didn't read the question carefully, i asked does "Google" consider the whole site spam, if i submit any link against the site in the "Disavow link file". Here is the example to make it more clear.
Suppose there is a site in which i have back-link, the site is example.com and the link is example.com/123
Now i am submitting the link "example.com/123" to the disavow link file, does it harm the whole domain"example.com" or it simply just act over the link "example.com/123".