Nathan Woo
11/21/2011
BioE131
BioE131 Homework 7 Results Analysis
1. A high mutual information between two nucleotides implies that the two nucleotides are likely
basepaired.
2. The "top 20" results indicate that nucleotides 0-6 basepair with nucleotides 110-116, and
nucleotides 35-40 basepair with nucleotides 49-54. The top 20 columns also suggest that there
is some basepairing between nucleotides 86-90 and nucleotides 104-108. The "top 50" results
show that the lower end has a high level of matches between nucleotides in the region of the
sequence with many gaps. This indicates a high level of complementarity between these
regions. Thus, these regions likely establish where the anticodon loop of the tRNA molecule
forms. The predicted secondary structure of the tRNA molecule (generated via RNAfold)
supports my reasoning.