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Introduction to Multiple Sequence Analysis through GCG’s SeqLab



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A Brief Introduction to Multiple Sequence Analysis through GCG s SeqLab The SeqLab Graphical User Interface GUI is a front end to the GCG Wisconsin Sequence Analysis Package It provides an intuitive alternative to the command line by allowing menu driven access to most of GCG s 150 some different programs and is a great way to develop refine and analyze multiple sequence alignments So what s so great about a multiple sequence alignment They are very useful in the development of PCR primers and hybridization probes great for producing annotated publication quality graphics and illustrations invaluable in structure function studies through homology inference essential for building Profiles for remote homology similarity searching and required for molecular evolutionary phylogenetic inference programs such as those from PAUP Phylogenetic Analysis Using Parsimony and other methods and PHYLIP PHYLogeny Inference Package This introductory tutorial will illustrate many of SeqLab s multitude of features just the tipof the iceberg hopefully whetting your appetite enough to encourage further exploration Tuesday July 25 2006 7 00 PM A GCG Wisconsin Package SeqLab tutorial for the Woods Hole Marine Biological Laboratory s Workshop on Molecular Evolution Author and Instructor Steven M Thompson Steven M Thompson Page 2 4 3 06 Steve Thompson BioInfo 4U 2538 Winnwood Circle Valdosta GA USA 31601 7953 stevet bio fsu edu 229 249 9751 GCG is the Genetics Computer Group part of Accelrys Inc producer of the Wisconsin Package for sequence analysis 2006 BioInfo 4U Steven M Thompson Steven M Thompson Page 3 4 3 06 Introduction The power and sensitivity of sequence based computational methods dramatically increases with the addition of more data More data yields stronger analyses if done carefully Otherwise it can confound the issue The patterns of conservation become clearer by comparing the conserved portions of sequences amongst a larger and larger dataset Those areas most resistant to



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