The default samplefreq is 500. Source: p. 22 of the manual for MrBayes v3.2 https://github.com/NBISweden/MrBayes/blob/develop/doc/manual/Manual_MrBayes_v3.2.pdf
'Industry standard' is sample frequency of 1000 for effectively independent samples from an MCMC chain. Generally researchers scale sample frequency in proportion to number of generations. Sampling frequency is more a tradeoff between sample independence, run length required to reach stationarity and convergence, sampling sufficiency, and the size of your output files, than it is a function of any data matrix, or data type.