An encryption system stores encrypted values for aggregation is provided. The encryption system accesses an input set with input values. For each distinct value in the input set of input values, the encryption system generates an output set with an encrypted output value corresponding to each input value. The encryption system sets the encrypted output value for a corresponding input value to an encryption of an indicator of a match when the corresponding input value is the same as that distinct value. Otherwise, the encryption sets the encrypted output value for the corresponding input value to an encryption of an indicator of no match. The encrypted output values can then be aggregated to generate an encrypted aggregation based on input values that match, and the encrypted aggregation can be decrypted to generated a decrypted aggregation based on the input values that match.