Patent ID: 8206917

Claim:
A method of identifying a nucleotide in a candidate sequence, said method comprising the steps of: a) providing an array substrate comprising a surface having a first subpopulation and a second subpopulation of identifier probes distributed thereon, wherein identifier probes of the first subpopulation and identifier probes of the second subpopulation comprise a primer sequence adjacent to a candidate sequence, the primer sequence of the first subpopulation of identifier probes having the same sequence as the primer sequence of the second subpopulation of identifier probes and the candidate sequence of the first subpopulation of identifier probes being different from the candidate sequence of the second subpopulation of identifier probes, wherein identifier probes of the first subpopulation and identifier probes of the second subpopulation are hybridized to a plurality of detection probes comprising a variable region, said variable region comprising at least one detection nucleotide at a detection position, said detection nucleotide being able to basepair with a nucleotide of at least one of said different candidate sequences, wherein said plurality of detection probes comprises different groups, and wherein detection probes from different groups comprise a different detection nucleotide at the same detection position and a label that distinguishes the detection nucleotide; b) detecting the presence of said label; c) dehybridizing said detection probes from said identifier probes; and d) associating the label with the identity of a nucleotide in the candidate sequence.