SeqTrace

SeqTrace converts Sanger DNA sequencing chromatograms (trace files) into high-quality DNA sequences for downstream analyses such as genome assembly, variant analysis, and molecular cloning verification.

Key Features:

• Batch Processing: Processes large numbers of trace files in batch to generate sequences from multiple chromatograms.
• Automated Workflow: Identifies matching forward and reverse traces, aligns them, and computes consensus sequences automatically.
• Quality Control: Filters low-quality base calls to retain high-confidence sequence data.
• End Trimming: Trims unreliable sequence ends to refine finished sequences.
• Export Options: Exports processed DNA sequences to common file formats such as FASTA.

Scientific Applications:

• Sanger sequencing data processing: Converts chromatogram trace files into curated sequence reads for downstream use.
• Genome assembly support: Provides high-quality Sanger-derived sequences that can be integrated into assembly workflows.
• Variant analysis: Supplies curated consensus sequences suitable for detecting and validating sequence variants.
• Molecular cloning verification: Produces high-confidence sequences for confirming cloned inserts and constructs.

Methodology:

Aligns forward and reverse chromatogram traces, identifies matching reads, computes consensus sequences, filters low-quality base calls, and performs end trimming.