Table 2.
Thermodynamic data of relevant duplex motifs
| Name (abbreviation) | Sequence 5′→3′/Complementary sequence 5′→3′ | Tm (°C)a | -ΔG (kcal mol-1)b |
|---|---|---|---|
| Cross-linking domain (X/X*) | CCGACGTTGACG/CGTCAACGTCGG | 64 | 25 |
| Barcode module (A1/A1*) | GGTGGCGGCTGACTG/CAGTCAGCCGCCACC | 73 | 32 |
| Barcode module (A4/A4*) | GGCGTGTCCACCTAC/GTAGGTGGACACGCC | 69 | 29 |
| Barcode module (B1/B1*) | GCGAAGCGCCCGCTG/CAGCGGGCGCTTCGC | 76 | 36 |
| Barcode module (B4/B4*) | CTCGCGCGGCAGCTC/GAGCTGCCGCGCGAG | 77 | 38 |
| Barcode reference (A2/A2*) | GTCAATGAATCGCGT/ACGCGATTCATTGAC | 65 | 28 |
| Module arm (M/M*) | CGCGTTGCGCCTGCC/GGCAGGCGCAACGCG | 79 | 40 |
| Module arm (N/N*) | GAGCCGCGCACGCCG/CGGCGTGCGCGGCTC | 77 | 38 |
| Sacrificial duplex (D1/D1*) | CCGGGCGCGCGGCCG/CGGCCGCGCGCCCGG | 84 | 46 |
| Sacrificial duplex (D2/D2*) | CGTCCGAC/GTCGGACG | 50 | 16 |
| Sacrificial duplex (HP) | CGTCCGACTTTTTTGTCGGACG | 78 | 10 |
aCalculated melting temperature, Tm, of the corresponding duplex. bFree energy of folding. All values were calculated using UNAfold with 10 µM of DNA strands at 100 mM of Na2+ and 12 mM of Mg2+