Pipeline Steps. Users can easily select which steps of the pipeline to perform. If the base calling step is selected, the user would need to submit an archive or ZIP file containing the chromatograms for analysis. If this step is skipped, a multi-FASTA file containing the nucleotide sequences, with or without the corresponding quality file, would need to be entered. The "Analysis of BAC" option allows FASTA nucleotide sequences to be quickly analyzed in order to detect SSR motifs and design primers, skipping the optional steps of a classical SAT analysis.