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Table 2 Percentage of CM hits covered by pHMM.

From: Riboswitch Detection Using Profile Hidden Markov Models

Family Total hits(CM) Total hits(pHMM) Common hits % of CM hits covered by pHMM I# % of CM hits covered by pHMM II#
FMN 844 831 830 99.40% 100%
Cobalamin 1713 1807 1703 99.41% 99.59%
TPP 2245 2250 2242 99.95% 99.95%
Lysine 651 621 618 97.45% 98.25%
Glycine 1185 1260 1174 99.66% 100%
Purine 595 645 594 99.83% 99.83%
Sam 1262 1278 1255 99.44% 99.68%
Sam alpha 194 233 127 69.02% 75.14%
Glms 172 154 153 96.83% 97.45%
PreQ1 332 2387 267 90.94% 98.84%
  1. I# : percentage coverage was calculated after removing hits lying in gene, in AT repetitive region and those which were located far upstream of the genes. II# : percentage coverage was calculated after removing hits lying in gene, in AT repetitive region, those which were far upstream of the genes, as well as those hits that were upstream of putative and hypothetical genes.