Among (maternal) grandmother and grandfather of utah pedigree 1463, I cannot find any difference in their genomic data. I use snp rsids, alleles, chromosome ad its beginning point to compare different members genomic data. I compare their snp allels, but only different alleles are in the chromosome X and Y snps. I also tried the same thing in 1000 genome project YRI trio data and could not find any difference among them. In both cases the members I compare have not any kinship. I downloaded all files from 1000 genome project and I use dbSNPAnnotated assembly files. Although their genomic information should be different as much as strangers, why do I obtain the same genomes?
The columns in dbSNPannotated file is in this way:
dbSnpId alleles chromosome begin end reference alleleAGenotype alleleBGenotype loci so on..
dbsnp.132:rs112750067 C/T chr1 10326 10327 T NO-CALL NO-CALL 2 no-call no-call
I extract the first 5 columns of the file and then compare them by diff:
diff -u mother.txt father.txt > difference.txt
I also tried this in other trios but the result is same, not difference except sex chromosomes. What do i do wrong?