From the Online Dictionary:
“thou 1 (ou)
pron.
Used to indicate the one being addressed, especially in a literary, liturgical, or devotional context.
[Middle English, from Old English th, second person nominative sing. personal pron.; see tu- in Indo-European roots.]”
Note the “singular, nominative” part. Thou in the quote is Peter.
ie, verily verily I say unto thee.
Unless one can prove that for some reason only Peter was commissioned with building the church, which doesn't make any sense, the "thee' in that pericope can be seen as plural