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Table 5 Gaining confidence. If the top k paths all agree about the number of helices, this prediction is correct in 83% to 91% of cases. If they disagree, then in only 55% to 71% of cases does the largest group predict the correct helix number. A similar separation occurs for the overall protein topology.

From: Decoding HMMs using the k best paths: algorithms and applications

  All same number of helices Distinct number of helices
Type of correctness k = 10 k = 100 k = 1000 1 k = 10 k = 100 k = 1000
  ( n = 189) ( n = 120) ( n = 64) ( n = 58) ( n = 127) ( n = 183)
# of helices 156(83%) 107(89%) 58(91%) 32(55%) 81(64%) 130(71%)
Overall topology 123(65%) 93(77%) 56(88%) 19(33%) 51(40%) 93(51%)