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Traditionally, these evolutionary parameters have been inferred by using data from multilocus sequence typing (MLST), which is known to have yielded conflicting results.
A picture of the phylogenetic population structure of M. tuberculosis has recently been inferred by using a combination of s-SNP and non-SNP markers.
This enzymatic function could not have been inferred by using each of these prediction methods separately, nor was this function clear from sequence identity alone, as an isofunctional orthologue of either yigB or ybjI, given the sequence identities of only 17% and 5%, respectively.
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For each gene, phylogenetic trees were inferred by using maximum-likelihood and Bayesian inference methods.
The rheological structures of the lowlands (North Pole) and highlands (Solis Planum) were inferred by using the temperature profiles of each region, as calculated above.
The evolutionary history was inferred by using the Maximum Likelihood method with the default options of MEGA5, based on the Tamura-Nei model and 1000 bootstrap replications.
The phylogenetic tree was inferred by using the Neighbour-Joining method with the Maximum Composite Likelihood model in MEGA4 program with bootstrap values based on 1000 replications.
The parameters of the MRF model are learned from the training data and then the most likely color distribution for each pixel in the given color-depleted image is inferred by using belief propagation (BP).
Phylogenetic trees were inferred by using maximum-likelihood (ML) and Bayesian methods.
In other methods this position can only be inferred by using additional secondary structure information to reduce alignment errors.
Phylogenetic relationships were inferred by using PAUP version 4b10 (15 ).
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