- Weak alignments
- Steve Henikoff has described the danger of "Playing with Blocks" (New Biologist 3:1148), trying to generate multiple alignments from statistically-marginal (or worse) pairwise alignments.
- Russell Doolittle's review "Similar amino acid sequences: chance or common ancestry" (Science 214:149) contains a number of guidelines for searching for similarities.
Biased amino acid composition see: Pre-filters
This document is intended to serve as a guide to using certain bioinformatics
programs. It cannot be guaranteed to be free of errors or completely up-to-date. If you know of errors or other shortcomings of this document, please mail them
to Keith Robison