This is a 16 state-RNA model, which considers all possible doublets as characters and assumes that compensatory base exchanges result from at least two substitution events.
Therefore, while the comparative method is preferred, we still found that minimum free energy based predictions performed adequately to be used in cases where unambiguous alignments or missing comparative data does not allow inference of secondary structures based on compensatory base exchanges.
For taxa that were suitable for a comparative approach, compensatory base exchanges are presented together with the corresponding alignments in Additional file 3. We visualized selected structures by converting the sequence and structure information to a ct-format with a Perl-script.
The average number of compensatory interaction base pair exchanges (CBP) in the 32 interactions from Section 3.1 was rather low with values of 0.1 0.2.
To evaluate the covariance of a dataset, the arithmetic mean of compensatory base pair (CBP) exchanges of all interactions was computed.
The average number of compensatory interaction base pair exchanges (CBP) in the three datasets ranged from 0.1 to 0.2 (see Supplementary Table S2c).
The conventional answer has to do with the alleged shortcomings of the weaker, liability rule alternative: It is widely held that liability rule protection – implemented via compensatory damages – would interfere with efficient exchange and jeopardize the market system.
On Tuesday afternoon, the House voted to pass a bill that Republicans have promoted since the Newt Gingrich era, one that would allow private-sector employees to exchange overtime pay for "compensatory time" off, electing to accrue extra hours off rather than extra pay in their wallets.
In every borough except Brooklyn, library workers can elect to continue working in the extreme conditions in exchange for paid leave, or compensatory time, to be taken later.
Simon died in 1137, and King Stephen agreed that Simon's daughter should marry Hugh the Pauper and that the castle would be given to Hugh, in exchange for Stephen giving Miles compensatory honours and gifts.
Credit default swaps are those contracts where a "protection" buyer would make regular payments to a "protection" seller in exchange for receipt of a "compensatory" payment if a basket of securities or other claims declined in value (regardless of whether the buyer had actually incurred a loss).
