The Core will use custom sequencing primers if they meet our requirements. Custom primer sequences should be sent to the Core lab staff for approval before the library is submitted for analysis. The primer must have the Tm needed for the instrument it will run on.
Unless the library is only meant for the MiSeq, custom primers for anything other than Read1 cannot have a sequence that will compete with binding of standard Illumina primers. We require a minimum 10ul of 100uM Read1 primer, and 40ul of 100uM primer for other reads.