Illumina Sequencing

Are the solexa primers that are given in the paper designed for a paired-end sequencing?

Yes, but we use them for single-end sequencing.

My library is ready, so I’d like to know whether need customized sequencing primer or just the standard primer for Illumina sequencing.

The standard sequencing primer is used.

What kind of sequencing was employed? Does a standard Illumina sequencing flow need to be customized?

We use 75 or 100 cycles single-end sequencing with HiSeq. Standard protocol.