Fit parameters for different alignment models. Fit parameters for score distributions P (S|# of helices) for the (HMM) with a fixed query length LQ = 348 and various subject lengths LS. Both shape parameters λ and λ2 decrease with increasing number of helices. The dependency on the subject length is stronger for λ2 than for λ. For LS >LQ the dependency of λ2 on the subject length is only of marginal order. The bars show the distribution of the number of transmembrane helices obtained by direct simulations of the (HMM). (c),(d): The LS/LQ dependency of λ and λ2 extracted from the same data as (a),(b). The lines are guide to the eyes only. Dashed lines show the corresponding scaling behavior for the (FQRS) and (RQGS) models. The result for n = 2, that has been obtained from the high probability regions (see text), is indicated by dotted lines.
Wolfsheimer et al. BMC Bioinformatics 2011 12:47 doi:10.1186/1471-2105-12-47