Chapter5 - Contents

• COMPARING SEQUENCES
  • 5.1. Identifying sequence homology
    • 5.1.1. Word comparison
    • 5.1.2. Dotplotting
      • 5.1.2.1. Interpreting the plot -
      • 5.1.2.2. The effect of word size -
      • 5.1.2.3. Types of patterns -
    • 5.1.3. Window comparison
    • 5.1.4. Comparison of proteins
    • 5.1.5. Symbol comparison tables
  • 5.2. Sequence alignments
    • 5.2.1. BESTFIT
    • 5.2.2. GAP
    • 5.2.3. Protein sequence alignment
    • 5.2.4. Alignment measurements
      • 5.2.4.1. Quality
      • 5.2.4.2. Ratio
      • 5.2.4.3. Identity
      • 5.2.4.4. Similarity