Table 4

Calculations with included sequences to design additional 20 bases long sequences
No. ΔG ARITA et al. ΔG FELDKAMP EGNAS
<a onClick="popup('http://www.biomedcentral.com/1471-2105/13/138/mathml/M10','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2105/13/138/mathml/M10">View MathML</a> 5’ → 3’ <a onClick="popup('http://www.biomedcentral.com/1471-2105/13/138/mathml/M11','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2105/13/138/mathml/M11">View MathML</a> 5’ → 3’
1 2.5 CCGTCTTCTTCTGCT 1.5 AAAGCCGTCGTTTCC GAGAGAAACGGCAAC
2 * TTCCCTCCCTCTCTT 1.0 TTGTGGTACTCTGCG CGCAAACTCACCTAC
3 3.0 CGTCCTCCTCTTGTT 1.1 TATTAGATGGCCGCC GCCTTTACATCTCCG
4 * CCCCTTCTTGTCCTT 1.3 CTAGCTCCTTTGTCG CAGAACGACAAAGCC
5 2.5 TGCCCCTCTTGTTCT 0.5 GCATTGTAGTGGCTG CATACGAAGCACACC
6 * CTCCTCTTCCTTGCT -0.5 GGCATATAGCGTGAC CCAGCCGATAACAAC
7 * CTTCTCCCTTCCTCT -0.4 GTTATTGCGACCTCG GACCAACAGCAAGAC
8 * CCTTCCTTCCCTCTT -0.1 AGTCATGGACCAACG CAAGCGTCATCCAAG
9 2.8 TCCCCTTGTGTGTGT -2.4 GAACGGTTACCGATC CACGCCATAAACCAG
10 -1.4 GAGAGAGAGGCCCCCTATCC -0.6 AAAGACGTGTGAAGTGCGCT CTACACTCTTCACTTCCACC
11 -2.2 GAAGAGAAGGGCACCCCTCC -0.9 GACGAAAGTTCAGCAGCGAA GCCTCATTCTTACCTCCTTC
12 0.6 GTGGTGTTGCGTCCCTTCCC 0.1 TGTTAAAATCAGGCTCGCGC GAGACCGAAAGATAGCAGAG
13 CAACCGCTCAAATCTACTCC
GC ends
# §
Lc 10 5 5
Lhp 5 5 2
Lsc 6 6 4
Lsl 8 4 5

Comparison of 15 and 20 bases long sequences generated by ARITA et al. [13], FELDKAMP et al. [20] and EGNAS. Molar free enthalpies of the most stable hairpins.

*No hairpin structure possible.

#Without {GGG;CCC}.

§Without {GGG;CCC;AAAA;TTTT}. For all sequences computed by EGNAS no possible hairpin structures could be found.

Kick et al.

Kick et al. BMC Bioinformatics 2012 13:138   doi:10.1186/1471-2105-13-138

Open Data