Manual of the HTP database
Measuring the reliability of the consensus prediction
Reliability of topology prediction is calculated by summing up the posterior probabilities along the state path determined by the Viterbi algorithm in the HMMTOP program. The reliability highly correlates with the prediction accuracy, measured in a human benchmark set, therefore it can be used to estimate the prediction accuracy of an individual prediction without any information about the topology at all.
A diagram on the right shows a certain prediction. In that case the sum of the reliability through the Viterbi path is 97% (red: inside, blue: outside, yellow: trans-membrane).