Illumina HiSeq 2500 Data
DISCOVAR and DISCOVAR de novo require a single Illumina fragment (paired end) library. We strongly recommend using a PCR-free protocol. From the library, 250 base paired reads can be created using either Illumina MiSeq or HiSeq2500 genome sequencers. The recommended coverage is about 60x.
We have prepared a table showing the original raw quality scores per cycle for a selection of Illumina HiSeq 2500 runs. In each case the reads are 250 bases long, with the second read of the pair starting at cycle 251. We don’t claim that these data are necessarily representative, but they do illustrate what we are able to generate here at the Broad.