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• Cons - Create a consensus from multiple alignments (part of the EMBOSS package)
• consed - View, edit and finish sequence assemblies created with phrap
• Megamerger - Merge two large overlapping nucleic acid sequences (part of the EMBOSS package)
• Merger - Merge two overlapping nucleic acid sequences (part of the EMBOSS package)
• phrap - assemble shotgun DNA sequence data
• phred - Read DNA sequencing trace files, call bases and assign a quality value to each called base