Name of item: Low Depth Whole Genome Sequencing and SNP Variant Calling
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Item Description
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Low Depth Whole Genome Sequencing
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Technical SpecificationsProject execution strategies Instrument NovaSeq6000ApplicationLow-depth genome sequencing of Nine Teak samples and SNP variant callingSample quality control Qubit and AgaroseLibrary preparation DNA library KitInsert size 350bp and550 bpNumber of Libraries 9 Nos.Library validation and QC BA/QubitSequencing Novaseq6000s4reagentkitRead length 2X250bp (PE sequencing)Sequencing mode High outputData generation per sample 6GbpersamplewithQ30>85to90% per sampleDepth of sequencing per sample 20XpersampleSNP variant calling GATK4PipelineDeliverables1. DNAQC report2. Library preparation report3. Fast QCreport and Sequencing output4. Rawdata (Fast Q and Fastaformat),is to be provided through FTP protocol, having read me file with the explanation.5. SNP variant calling(RawVCF,VCF forcall and final VCF)and CSV report6. A detailed report is to be submitted after completion of the experiment.
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