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The terminal stem of the stem-loop structure was shortened to induce a destabilized/denatured conformation which promoted the local segmental mobility of the dye and then a significant depolarization process.
PromiR scans the stem of the stem-loop candidates to determine the signal of the Drosha cleavage site.
The secondary structures of the inverted repeat should satisfy the following: the MFEI [ 32](minimum free energy calculated by RNAfold divided by the sequence length) should ≤-0.15; the miRNA candidates should be on the stem of the stem-loop sequences; the candidate miRNA and miRNA* should have no more than 5 mismatches.
Figure 7 The mean presence of Type 1 resin pockets for each growth ring in 1 m height classes, in the lower 6 m of the stem, during the stem bending treatment year (2007 2008).
Cut at the base of the stems to preserve as much stem as possible.
Attach the next bouquet by slightly overlapping the stems with the stems of the first bouquet and securing them with more tape.
In particular, we calculated the stem distance D (the Cα distance between the residue that precedes and the one that follows the loop), the stem type (the secondary structure of the stems), and the stem geometry.
We first checked the biogenesis criterion, i.e. precise excision from the stem of a stem-loop precursor.
Despite the parameter adjustments in the miRDeep algorithm, the primary criterion for miRNA annotation, namely precise excision of mature miRNA from the stem of a stem-loop precursor, is implemented faithfully.
Cut to a couple of inches above the woody part of the stem to prevent the woody stems getting longer.
The dry weight of stem bark was determined from the difference between the dry weights of the stem and stem wood.
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