Date stamp (record locator): Please reload the form for each submission to generate a timestamp or else your previous data will be overwritten.
Name of Primer Design Project: Tumour Xenograft Triple Negative Breast Cancer Cell Mix Single Cell Intra tumoural Heterogenity Misc TESTING ONLY
Enter the Sample ID eg (Initials_number):
Enter your list of SNV/SNP positions you want primers to be designed for exactly as formatted below (comma-delimited) to ensure accurate automated processing.
Your_Sample_ID,chromosome_without_"chr":start_pos-end_pos (if SNV start=end), DNA sequence
The sequence is the actual DNA sequence of the sample (not ref). Any SNPs/SNVs/indels are masked with alternate letters or by using NNN. Primers are NOT designed in any of those regions.
Tested using: Chrome, Safari but has issues on Firefox
Each chromosome position (ie SNV/SNP) must be unique
For example of format and working, please paste this example file into the textarea and select hg18.
For further documentation and more info about the outputs, please see internal wiki
Position format (human reference) for automatic annotation: hg19 hg18 Private-do not annotate
Primer design for MiSeq run with: 2 x 75 bp PE (150 cycle run) 2 x 150 bp PE (300 cycle run) 2 x 250 bp PE (500 cycle run) 2 x 300 bp PE (600 cycle run)
Enter primer3 conditions: Interative conditions (v2)
Please wait for the page to refresh and display results automatically
The output is not the prettiest but contains important information about the primer design process The output may be viewed here at a later time Kindly save the output elsewhere as this server may not be backed up.
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