This tutorial will use the Clustal Omega algorithm to multiply align 143 DNA sequence files consisting of regional variations of the Human Papilloma Virus L1 gene (HPV-L1). HPV has affected humans for hundreds of thousands of years and is known to cause cervical cancer. Some regional variations of the gene are more pathogenic than others. For example, HPV-16 is the most pathogenic variation in Western populations.
The L1 gene is not the cause of variation in pathogenicity. However, variations of the L1 gene are used to tell various strains apart and group them according to relatedness. The results of this tutorial reveal a deeply branched tree revealing an ancient phylogeny for HPV within the human genome.
Begin with Part A: Add and align sequences.
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