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..
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Aligner.h
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AlignerContext.cpp
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AlignerContext.h
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AlignerOptions.cpp
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AlignerOptions.h
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AlignerStats.cpp
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AlignerStats.h
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ApproximateCounter.cpp
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ApproximateCounter.h
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BaseAligner.cpp
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BaseAligner.h
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BiasTables.cpp
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BigAlloc.cpp
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BigAlloc.h
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BoundedStringDistance.h
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BufferedAsync.cpp
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BufferedAsync.h
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Chrom.h
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Cigar.cpp
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Cigar.h
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Compat.cpp
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Compat.h
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FASTA.cpp
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FASTA.h
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FASTQ.cpp
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FASTQ.h
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FixedSizeMap.h
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FixedSizeSet.h
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FixedSizeVector.h
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Genome.cpp
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Genome.h
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GenomeIndex.cpp
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GenomeIndex.h
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GoodRandom.cpp
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GoodRandom.h
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GtypeBank.cpp
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GtypeBank.h
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HashTable.cpp
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HashTable.h
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Histogram.cpp
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Histogram.h
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HybridAligner.cpp
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HybridAligner.h
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IntersectingAligner.cpp
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IntersectingAligner.h
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LandauVishkin.cpp
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LandauVishkin.h
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Mutation.h
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Mutator.cpp
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Mutator.h
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OffsetMap.h
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OldAligner.cpp
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OldAligner.h
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PairedAligner.cpp
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PairedAligner.h
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PairedEndAligner.cpp
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PairedEndAligner.h
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ParallelTask.h
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Range.cpp
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Range.h
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RangeSplitter.cpp
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RangeSplitter.h
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Read.h
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ReadMe.txt
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RegionCluster.cpp
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RegionCluster.h
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SAM.cpp
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SAM.h
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SNAPLib.vcxproj
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SNAPLib.vcxproj.filters
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Seed.cpp
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Seed.h
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SimilarityMap.cpp
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SimilarityMap.h
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SimplePairedEndAligner.cpp
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SimplePairedEndAligner.h
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SingleAligner.cpp
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SingleAligner.h
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SmarterPairedEndAligner.cpp
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SmarterPairedEndAligner.h
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Tables.cpp
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Tables.h
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Util.h
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VCF.cpp
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VCF.h
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VariableSizeVector.h
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WGsim.cpp
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WGsim.h
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mapq.cpp
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mapq.h
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mt19937-64.cpp
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mt64.h
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options.h
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stdafx.cpp
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stdafx.h
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targetver.h
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