Motif scraper

Motif scraper identifies degenerate nucleotide motifs in FASTA files to locate genomic features defined by non-exact sequence matches.

Key Features:

• Degenerate Motif Identification: Identifies degenerate nucleotide motifs that represent multiple compatible matches such as transcription factor binding sites.
• Versatility Across Genomes: Operates on any FASTA file, enabling motif discovery in model and non-model genomes and personal whole-genome sequences.
• Efficiency and Scalability: Utilizes a multiprocessor approach to accelerate motif searches for large datasets.

Scientific Applications:

• Transcription Factor Binding Site Analysis: Detects transcription factor motifs to support studies of gene regulation.
• Comparative Genomics: Enables comparison of motif occurrences between model and non-model species to inform evolutionary analyses.
• Personalized Genomics: Analyses individual whole-genome sequences to identify unique regulatory motifs or genetic markers.

Methodology:

Scans FASTA files for degenerate nucleotide motifs and utilizes a multiprocessor approach to enhance search efficiency.