UNIT 11.2 Viewing and Editing Assembled Sequences Using Consed

  1. David Gordon

Published Online: 1 AUG 2003

DOI: 10.1002/0471250953.bi1102s02

Current Protocols in Bioinformatics

Current Protocols in Bioinformatics

How to Cite

Gordon, D. 2003. Viewing and Editing Assembled Sequences Using Consed. Current Protocols in Bioinformatics. 2:11.2:11.2.1–11.2.43.

Author Information

  1. Howard Hughes Medical Institute, University of Washington, Seattle, Washington

Publication History

  1. Published Online: 1 AUG 2003
  2. Published Print: MAY 2003


Consed is a program for viewing and editing assemblies prepared by the Phrap assembly program. This unit presents a general introduction to Consed. It also provides instructions for identifying problem regions and searching in Consed. Additional protocols describe creating tags, picking primers, correcting joins and adding and removing reads. Instructions are also given for the use of Assembly View, predicting the results of a restriction digestion, the use of Consed in conjunction with PolyPhred, and using Autofinish, as well as a procedure for running Phred and Phrap.