- Automatically aligns sequences using FAMSA alignment
- Automatically trims gaps in sequence using gap threshold (0-1)
- Example: If gappyness threshold is 0.7, at least 70 % of sequences must contain a gap in a position for EACH species for it to be trimmed
- Default: 0.95
- Automatically generates consensus sequence based on trimmed alignment using consensus threhsold (0-1)
- Example: If consensus threhsold is 0.2, at least 20% of equences must contain the same base in a position for it to be incorporated into the consensus sequence
- Default: 0.1
- Full support for ambiguous bases (both input and output)
- Automatic detection of DNA, RNA and amino acids
- Base frequencies of degenerate bases are shown in .xlsx summary file
- Automatically generates conservation plot based on consensus sequence (only positions with degenerate bases from consensus sequence are shown)
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