Table 5

Calculations with included sequences to design additional 15 bases long sequences
No. ΔG FAULHAMMER ΔG FELDKAMP ΔG EGNAS
<a onClick="popup('http://www.biomedcentral.com/1471-2105/13/138/mathml/M12','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2105/13/138/mathml/M12">View MathML</a> 5’ → 3’ <a onClick="popup('http://www.biomedcentral.com/1471-2105/13/138/mathml/M13','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2105/13/138/mathml/M13">View MathML</a> <a onClick="popup('http://www.biomedcentral.com/1471-2105/13/138/mathml/M14','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2105/13/138/mathml/M14">View MathML</a> 5’ → 3’
1 * ATCCTCCACTTCACA * CTTCTCTCACCTATA * CCTACAAATCAACTC
2 * CTATTTCTCCACACC * GGCAAGAGGAATAAT * CTAAACACATCCAAC
3 * CACCCTTTCTCCTCT 2.0 GCGAAAATTAACTCC * GCAGAACAAGATAAG
4 * TCCTCACATTACTTA 1.9 GATCCGGTTACTAAA * CCTTCACTTACATTC
5 * ACTTCCTTTATATCC 1.9 ACCTGACTCGTAATA * CTCTCACAATCTAAC
6 * TCCACCAACTACCTA 1.6 TAAGTATATCGTGCC * CAATTTAACCTCCTC
7 2.6 AACTCTCAAATTCAA 1.6 GTCTGAGCTGATAAA * CTTCCATATACACTC
8 2.6 ACCTTACTTTCCATA 1.5 GTACCGTTGAATTGT * CCACACCTTAATATC
9 2.1 CTCTTACTCAATTCT 1.2 TGCGACTATGTTATG * CTATAATTCTCCACC
10 2.1 GTACATTCTCCCTAC 1.1 TTACAGCGTTTTACC 2.8 CGTTGTCTCTATTTC
11 1.8 TTATAACAAACATCC 1.0 AAAGCCGTCAAATAC 2.6 GTTCAGTATTCGTTC
12 1.8 TTTTAAATTTCACAA 1.0 TACCTTTTTGTCTCG 2.5 GTAGCGAAGAAAATG
13 1.6 ATAATCACATACTTC 0.8 ACAGGCGTATCTAAT 2.5 GGTTGCGTTTTATTG
14 1.6 CATTCCTTATCCCAC 0.4 AGTGACACTAGCATT 2.5 CATCGTCAAGTAAAG
15 1.4 CATATCAACATCTTA 0.4 ATGAGGCAGTCTTTA 2.5 CTTTGGTCTGTTATG
16 1.4 TTAAAATCTTCCCTC 0.2 AAGCTATTGATTGGC 2.2 GTCTTTTTGCTTTCG
17 1.3 CTAACCTTTACTTCA 0.1 CACTTGAGTACAACA 2.2 GCAGTTTCATAGTTC
18 1.2 GCTTCAAACAATTCC 0.1 GGATGTCCTTGTTTA 2.0 CTTCTACTACCTATC
19 1.2 ACATAACCCTCTTCA -0.3 ACCAAACCATGATGA 1.9 GATTAGTGGTTTGAG
20 0.1 CATAATCTTATATTC -0.7 TGGTAGGCCATTTAA 1.8 CTCATCATTACCATC
# #
GC ends
Lc 8 5 5
Lhp 5 5 3
Lsc 8 6 6
Lsl 5 5 5

Comparison of 15 bases long sequences generated by FAULHAMMER et al. [14], FELDKAMP et al. [20] and EGNAS. Molar free enthalpies of the most stable hairpins.

*No hairpin structure possible.

#Without {GGG;CCC}.

Kick et al.

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

Open Data