Workflow sample: align sequences & primers

This is a user request. There might be two variations of the workflow. At least one of them must be supported.

Workflow 1:

Input:

• A reference sequence
• A set of sequences
• A set of primers

Analysis:

• The reference and the set of sequences are aligned.
• The set of primers is aligned to the reference.
• The data are joined into a single multiple alignment.

Output:

• A multiple alignment with aligned sequences and primers aligned to the reference.

Workflow 2:

Input:

• A set of sequences
• A set of primers

Analysis:

• The of sequences is aligned.
• The set of primers is aligned to the consensus of the aligned sequences.
• The data are joined into a single multiple alignment.

Output:

• A multiple alignment with aligned sequences and primers aligned to the consensus.