Which of the following programs can be used to construct a maximum-likelihood tree? RAxML FigTree AbySS SIFT

The program that can be used to construct a maximum-likelihood tree is RAxML. Here's a step-by-step guide on how to use it:

1. Prepare your data: RAxML requires a multiple sequence alignment file as input. This file should be in a format that RAxML can read, such as PHYLIP or FASTA.

2. Choose a model of evolution: RAxML supports a variety of models of nucleotide substitution. You should choose the one that best fits your data.

3. Run RAxML: You can run RAxML from the command line. The basic command is raxmlHPC, but you will need to add various options to specify your input file, model of evolution, and other parameters.

4. Interpret the output: RAxML will output a file containing the maximum-likelihood tree. This tree is in Newick format, which can be read by many tree-viewing programs.

Please note that FigTree, AbySS, and SIFT are not used for constructing maximum-likelihood trees. FigTree is a program for viewing and annotating phylogenetic trees, ABySS is a de novo sequence assembler, and SIFT is a tool for predicting the effects of amino acid substitutions on protein function.