This directory contains the whole-genome alignment and the consensus
sequences of following human individuals:

CV: Craig Venter, capillary Sanger sequencing (Levy et al., 2007)
NA12878/NA12890/NA12892: 1KG CEU trio, Illumina sequencing
NA19238/NA19239/NA19240: 1KG YRI trio, Illumina sequencing
NA18507: Yoruban HapMap individual, Illumina sequencing (SRA000271)
SJK: Seong-Jin Kim, Korean, Illumina sequencing (SRA008175)
YH: YanHuang, Chinese, Illumina sequencing (ERA000005)

For each indivdual, file "*.bam" is the alignment (CV by BWA-SW,
NA18507/SJK/YH by BWA and the rest by MAQ), "*.bam.bai" is the
corresponding BAM index, "*.var.plp" gives the SNP and short indel calls
by samtools pileup, "*.fq.gz" is the SAMtools consensus with lowercase
indicating masked sequences due to repeat or excessive or lack of
coverage, and "*.uniq-Q*.fa.gz" is further filtered with consensus
quality and the alignability mask. The reference genome and the
alignability mask are available at:

ftp://ftp.sanger.ac.uk/pub/1000genomes/reference/