Working with Alignment

This chapter explains how to work efficiently with the Alignment Editor. You will learn how to modify an alignment, remove gaps, align sequences, copy and paste regions, add new sequences, and extract subalignments as new alignments.

• Selecting Alignment Region
• Moving Subalignment
• Copying and Pasting Subalignment
• Searching in Alignment
• Showing Alignment in Multiple Lines
• Editing Alignment
  • Converting Alignment
  • Removing Selection
  • Filling Selection with Gaps
  • Replacing Selected Character
  • Replacing with Reverse-Complement
  • Replacing with Reverse
  • Replacing with Complement
  • Removing Columns of Gaps
  • Removing Sequence
  • Removing All Gaps
  • Undo and Redo Framework
• Saving Alignment
• Aligning Sequences
• Adding Sequence(s) to Alignment
• Pairwise Alignment
• Working with Sequences List
  • Adding New Sequences
  • Renaming Sequences
  • Sorting Sequences
  • Shifting Sequences
  • Collapsing Rows
  • Copying Sequences
  • Exclude List
• Exporting in Alignment
  • Extracting Selected as MSA
  • Exporting Sequence from Alignment
  • Exporting Alignment as Image
  • Exporting in Amino Translation
  • Moving Sequences from Alignment
• Importing APR and ACE Files
• Realigning sequence(s) to other sequences