SNP: rs10993994 linked to prostate cancer, info here says: at chromosome 10, position 46046326:
if "CC" ==> Mag=0 (i.e. good)
else if "CT" ==> Mag=1.5 & increased prostate cancer risk (odds ratio 1.2)
else if "TT" ==> Mag=2 & increased prostate cancer risk (odds ratio 1.6)
i downloaded chromosome 10 from this link:
and removed the first line from the file (i.e. ">chr10") and removed every space occurs in the end of the lines. then using command line(bash):
dd bs=1 skip=46046326 count=2 if=InputFastaFile of=OutputFastaFile
this line extracts the two nucleotides in the position 46046326. but when i open the OutputFastaFile i find: "CA" not CC or CT or TT !!! am i making something wrong ?!