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Consensus Sequence Determination
All CLC bio’s workbenches are able to show a consensus sequence below an alignment. The consensus sequence is based on every single positions in the alignment and reflects an artificial sequence which resembles the sequence information of the alignment, but only as one single sequence.
If all sequences of the alignment is 100% identical the consensus sequence will be identical to all sequences found in the alignment. If the sequences of the alignment differ the consensus sequence will reflect the most common sequences in the alignment. Parameters for adjusting the consensus sequences are described above.
The consensus sequence can be copied and pasted into a separate view for further analyses. In this way a consensus sequence can also be saved as a separate file.
These viewing options exist:
- Consensus sequence on/off. Shows/removes the consensus sequence at the bottom of the alignment.
- Limit. This option determines how conserved the sequences must be in order to agree on a consensus.
- No gaps. Checking this option will not show gaps in the consensus.
