Patent ID: 7960120

Claim:
A method for pairwise sequencing of first and second regions in individual double stranded target polynucleotides of a plurality of double stranded target polynucleotides, wherein each of the double stranded target polynucleotides comprises a first strand and a complementary strand, comprising (a) providing a solid support, wherein the first strands of the plurality of double stranded target polynucleotides are linked to the solid support, wherein a plurality of primers is linked to the solid support, and wherein the primers are capable of hybridizing to a first region of the first strands; (b) obtaining sequence data from the first region of the first strands by subjecting the first strand region of the first strands on the solid support to a sequencing method; (c) hybridizing the primers to the first strands after obtaining the sequence data from the first region of the first strands and then extending the primers to copy the first strands, thereby generating the complementary strands of the double stranded target polynucleotides, whereby the complementary strands are linked to the solid support; and (d) obtaining sequence data for a second region of the second strands, wherein the sequence data for the first region and the second region provides a pairwise sequence of the first and second regions of individual target polynucleotides in the plurality of double stranded polynucleotides.