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In fact, just a single construct with flanking reference hairpins needs to be doped into the MAP-seq RNA pool; standardization is then automated via MAPseeker analysis.
Within the reference category, the Yahoo!
All values were within the reference range.
Creatinine level was within the reference range.
The P4 P6 construct used for this experiment included flanking hairpins 5′ and 3′ reference hairpins used for standardizing chemical mapping data (Kladwang et al., 2014 ) (sequence listed in Supplementary file 1 ).
After aligning the unique miRNAs to the reference sequences and carefully evaluating the hairpin structures, 81 conserved miRNAs were identified from common carp.
Two of the polymorphisms involve tiny inversions within hairpin structures.
Here, the stem 1 hairpin is an important part of the reference structure.
Destabilising mutations within the native hairpin sequence and within the engineered hairpin extension, but not elsewhere, eliminate this non-linearity and restore apparent two-state behaviour.
The hairpin sequence is extracted from the sequencing read and compared to the reference sequence.
Our minimum energy configuration obtained from simulated tempering algorithm is a β-hairpin motif with 1.30 Å backbone root-mean-square deviation from the reference PDB structure (1le0.pdb).
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