Compare raw DNA files side by side
Upload two RAW DNA files to analyze SNP overlap, calculate concordance rates, identify discordant positions, and compare coverage. Perfect for verifying file quality, checking consistency between different providers, or analyzing relationships at the SNP level.
Why compare RAW DNA files?
File-level comparison provides detailed SNP-by-SNP analysis for quality verification, consistency checking, and advanced research.
SNP Overlap Analysis
Identify exactly which SNPs are present in both files, calculate overlap percentages, and see which positions differ between files.
Concordance Rate
Calculate the percentage of matching genotypes at overlapping positions. High concordance indicates consistent data; low concordance may indicate errors or different samples.
Discordant Positions
Find positions where the two files disagree. Useful for identifying potential errors, quality issues, or verifying that files represent the same person.
Coverage Comparison
Compare SNP density and coverage across chromosomes. See which file has better coverage and identify regions with missing data.
How the RAW File Comparer Works
Three-step process to compare any two RAW DNA files
The Simple Version
RAW DNA files contain genotype data at specific SNP positions across your genome. Our comparer parses both files, aligns them by chromosome position, and compares genotypes at each overlapping SNP. It calculates how many positions match (concordance), identifies differences (discordance), and provides detailed statistics about coverage and overlap.
Supported File Formats
Works with RAW files from all major DNA testing providers
Files must be in standard RAW format (tab-delimited or space-delimited). Maximum file size: 100MB per file.
Important Limitations
Understanding what this tool can and cannot do
File Size Limits
Each file must be under 100MB. Very large imputed files may exceed this limit and need to be compressed or split.
Genome Build
Files should use the same genome build (GRCh37/hg19 or GRCh38/hg38) for accurate comparison. Mixed builds may produce incorrect results.
Concordance Interpretation
Low concordance doesn't always mean errors—it could indicate different samples, different chips, or legitimate genetic differences.
Not for Health Use
This tool is for research and quality verification only. It is not designed for health-related interpretations or medical decision-making.
Legal & Disclaimer
Please review before using
Intended Use
This tool is intended solely for research, quality verification, and ancestry analysis purposes. It is not designed, intended, or suitable for health-related uses or medical decision-making.
Key Terms
- Privacy: Uploaded files are processed securely and deleted after analysis. We do not store your genetic data.
- No Health Claims: We explicitly disclaim responsibility for any health interpretations made from comparison results.
- Accuracy: Results are based on file parsing and comparison algorithms. File format errors may affect accuracy.
- No Warranty: This tool is provided "as is" without warranties of any kind.
- File Handling: Files are processed temporarily and deleted immediately after analysis completes.
Compare RAW files side by side
Analyze SNP overlap, concordance rates, and genetic differences between any two RAW DNA files—completely free.
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