Janelle N. Ruiz Assignment 4

Activity 1/Part 2: GenBank

• Question 1: The accession number of the sequence I chose was AF016760.

• Question 2: This HIV-1 sequence came from subject 1. The first part of the record, labeled “Definition” is the section of the record where I found this information.

• Task 3: Download several (4-6) sequences in FASTA format to your local hard drive:

Activity 1/Part 3: Introduction to the Biology Workbench

• Task 1: Select all of your sequences (seen above) using the appropriate command and run a multiple sequence alignment using Clustal W:

Activity 2/Part 1: Looking at clustering across subjects

Analysis of the 97 sequences from the 15 subjects' first visits

• Task 1: Generate a multiple sequence analysis and distance tree for 12 of these sequences (3 clones from each of 4 subjects)