Alternative arrangement of a mtDNA Re-sequencing
Array
A continuous 17Kb sequence like mtDNA requires 4 x 17,000 = 68,000 oligos. An alternative
arrangement of the re-sequencing chip tiles the reference sequence in
the first row, and the variants
below it. (A vs CGT,
C vs AGT
, G vs AGT, and T vs ACG). In this arrangement, the occassional variant stands out
more clearly. In Atlantic Cod
mtDNA genomes, SNP variants occur every 20 ~
30
nucleotides, and individuals can differ by more than 50 SNPs.