11.4.7. Sequencing and data analysis

  1. Use a Solexa Genoma Analyzer GAIIx with a v2 Paired End Cluster Generation Kit - GA II (Illumina, PE-203-2001) and v3 36bp Cycle Sequencing Kits (Illumina, FC-104-3002) following manufacturer’s protocols, for sequencing.
  2. Extract sequences using Illumina Pipeline v1.4 software.
  3. Perform image analysis and base calling using Illumina SCS v2.5 software.

8 pM of material is used per sequence lane, generating between 10 and 16M sequence reads.