Tandem compliment repeats are examples of multiple crossing (multi-context-sensitive languages) structures. Examples are: AGCT.TCGA (this example is also a mirror repeat), GCTC.CGAG (1st G paired with 4th position C. 2nd C paired wirh 5th position G...)

AVAILABILITY

http://www.rnaparse.com/Downloads.html

USAGE

The download demo is limited to scanning 2000 bp at a time in 2 files and finding perfect TCRs of length 12: e.g ATCGAT.TAGCTA

Create a simple text file called "DNA1" and "DNA2" and place in the same directory as TCR6.exe.