| | Chromosome 6 specific sequencing libaries were created from the flow |
| | sorted Coriell DNA NA17119 (African-American origin). |
| | We aligned the sequencing reads to build33 of the human genome, |
| | available at ftp://ftp.ncbi.nih.gov/genomes/H_sapiens/, using ssahaSNP. |
| | The settings for ssahaSNP were such that the candidate 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. |
| | Note: Flow sorting of chromosomes also includes a small percentage of |
| | unintended chromosomal material. Therefore some reads for this flow |
| | sorted library may generate SNPs on other chromosomes. |
