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dbSNP

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Method Detail
Submitter Method Handle: SSAHASNP
Submitter Method ID: TA-079
Submitted method description:
This submission represents alignment of all human traces in the trace archive, sets 001-079, to build35 of the human genome, available at ftp://ftp.ncbi.nih.gov/genomes/H_sapiens/, using ssahaSNP. The settings for ssahaSNP were such that the candida
te SNP base in the read was at least Phred Q=23, that its neighbouring 5 bases on either side of the candidate SNP all had Phred quality values of >=15 and at least 9 of the 10 neighbours match. If the number of detected SNPs for the aligned segment
of a read exceeded a rate of 15 SNPs per 1000 bases then that read alignment was ignored. If a read aligned to more than one place in the genome, then only the longest alignment with the fewest SNPs was reported. Only new SNPs not present in dbSNP
build 124 were submitted.

This method was used in the following submission:

Submitter Handle Batch Type Submitter batch id Release build id
SSAHASNP Assay TA-079 125