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the divergence time of the three strains and the nine reference isolates were estimated using beast v1.8.0 (33) as implemented by beagle v2.0.3 (34). no recombination in the alignment was considered, and the bayesian skyline coalescent prior was used. markov chain monte carlo (mcmc) chains were run for 30 million generations, with parameters sampled every 1,000 generations and a 25% burn-in. convergence was assessed using tracer v1.6, with ess values greater than 200 and sampling every 10,000 generations. the *gtr+g+i* model was chosen as the best-fitting substitution model using modelgenerator v0.850159 (35). the relrateml model from the ratelg package (36) was used to estimate branch-specific rates along the primate tree. each ratem prior was specified with a mean at 2.0×10−8, a standard deviation of 2.0×10−10, and a skew of 0.5. the lambda and kappa parameters were set at 1.2×10−7 and 0.01, respectively. to avoid underestimation of substitution rates, root-to-tip distances were truncated as necessary. the analysis was run twice, with both runs finding the same best-fit evolutionary model. the two runs were combined and resampled with multisample across trees using treeannotator v1.0, resulting in a set of 1,500 trees. all positions containing gaps and missing data were eliminated. the tree generated in beast was visualized with the figtree v1.4.1 software (http://tree.bio.ed.ac.uk/software/figtree/>). the genealogies were modeled using mega5.0 (http://www.megasoftware.net/). this coalescent tree was compared to the maximum likelihood tree generated by the phyml software (http://www.atgc-montpellier.fr/phyml/). tree topologies were inferred with treedist (http://www.fr/tree/). the phylogenetic tree is rooted with the hiv-1 subtype c sequences.](http://www.sciencedirect.com/science/article/pii/s0966254x17302181) three leucine-rich protein-like margin family protein4.69e-79osuday, m. k. et al. 2010biochemistry988395-405 a new tool to detect orthologs has been developed. this method involves the automatic prediction of a set of orthologs from the set of homologous sequences. the orthologous sequences are selected using clustering and neighborhood comparison methods. the neighbourhood alignment/clustering tool of pileup/patterns (phylip package) was used to build a new clustering method. the program compares potential orthologous sequences with the sequences used as initial input to obtain the clusters. the primary function of this article is to provide the user with a structured overview of the practical uses and roles of calligraphers, and to enable them to identify and access the current sources and sub-sources (including international calligraphic networks) from which they can learn about these artisans. the forms, transfigurations, and network features of calligraphy are described. the relationship between this knowledge and contemporary art are also touched upon. finally, the current status and future of this art are outlined.
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