PhylOgenetic WEb Repeater (POWER), a web-based service, is designed to perform phylogenetic analysis of proteins and DNA sequences.
The process starts with a multiple sequence alignment and builds a dendrogram based on well-established methods, ClustalW and PHYLIP. With a succinct interface for sequence input, one can draw the tree effortlessly using the default setting or with fewer modification on parameters.
When fine-tuning is needed, user can repeat easily with adding or deleting sequences of previous job.
Input data of POWER includes "E-Mail", "Job ID", "Sequence" and "Job Note". The information of them are described below:
Multiple Sequence Alignment Options
The options information of POWER are digested from the documents attached with the original programs of ClustalW, though have been modified very slightly to fit the design of our server.
Multiple alignments are carried out in 3 stages:
- Pairwise alignments: all sequences are compared to each other.
- Dendrogram construction: a dendrogram (like a phylogenetic tree) is constructed, describing the approximate groupings of the sequences by similarity.
- Multiple aglinment: the final multiple alignment is carried out, using the dendrogram as a guide.
In the stage of pairwise alignment, a distance is calculated between every pair of sequences and these are used to construct the dendrogram which guides the final multiple alignment. The scores are calculated from separate pairwise alignments. These can be calculated using 2 methods: dynamic programming (slow but accurate) or by the method of Wilbur and Lipman (extremely fast but approximate).
The options information of POWER are digested from the documents attached with the original programs of PHYLIP, though have been modified very slightly to fit the design of our server.
- Detail of Phylogeny Inference Options
- Main document
- Molecular Sequence Programs
- Distance matrix programs