just cut and paste the sequence or do the steps to see the change.
Alternate structure space for human tRNAs-shape0
http://eterna.cmu.edu/web/lab/4575376/
http://eterna.cmu.edu/game/browse/457…
begin melt temp rise 67*, 87*final; -27.2kcal
flipped the C40G52 pair and got great dotplot improvement.
GGGCCAGUGGCGCAAUGGAUAACGCGUCUGACUACGGAUGAGAAGAUUCUACGUUCGACUCCUGGCUGGCUCGCCA
then flipped G36C56 for more dot plot improvement and lower energy.
GGGCCAGUGGCGCAAUGGAUAACGCGUCUGACUACCGAUGAGAAGAUUCUACGUUGGACUCCUGGCUGGCUCGCCA
removed G30 and flipped G10U27 for dot and melt plot improvement.
GGGCCAGUGUCGCAAUGGAUAACGCGGCUAACUACCGAUGAGAAGAUUCUACGUUGGACUCCUGGCUGGCUCGCCA
flipped C11G26 for energy, melt and dot plot improvement.
GGGCCAGUGUGGCAAUGGAUAACGCCGCUAACUACCGAUGAGAAGAUUCUACGUUGGACUCCUGGCUGGCUCGCCA
flipped 3G70C for dot plot improvement and small energy gain.
this configuration clean dot plot, good melt plot bend at 77*C,final 87*C; energy -29.3 kcal.
GGCCCAGUGUGGCAAUGGAUAACGCCGCUAACUACCGAUGAGAAGAUUCUACGUUGGACUCCUGGCUGGGUCGCCA
More mods all in rings: final submit -33.4kcal, very clean plots
GGCCCAGUGUGGCGAAAGAUAAAGCCGCGAAAUACCGAUGAGAGAAAUCUACGUUGGGAAAGAAGCUGGGUCAACA
Hope this is helpful to beginners.