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Compared with half divide strategy like MapSplice, short length of seed will reduce the iteration if we apply unspliced alignment allow mismatches and gaps.
Our finding that the length of seed complementarity affects CODEMIR activity independent of overall complementarity is surprising given the current understanding of microRNA-target interactions [ 4, 9, 11].
Short homologous regions called anchors were determined between the genomes using Murasaki at 28 and 36, weight and length of seed patterns, respectively.
Thus, the length of seed complementarity, and overall complementarity between the guide strand and the target should be considered in the design of multi-target interfering RNAs.
The cleaned reads of each sample were mapped back to assembled contigs by bowtie2 with the following parameters: maximum mismatches in seed alignment = 1; length of seed substrings = 22.
Meanwhile, Bowtie-1.0.0 (http://bowtie-bio.sourceforge.net) was also applied to find the reads mapped to the miRbase with the following criteria: (i) the length of seed sequence is 16 nt, and (ii) the error allowable in seed region is 1 nt.
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The density of one seed is defined as l × # seed n where l is the length of the seed, #seed is how many times this seed is inserted into the genome and n is the length of the genome.
The seed crop is also affected by climate change regarding change in crop phenology, reproduction, flowering, anthesis/pollen viability, and pollination/fertilization, length of seed-filling duration, seed setting, seed size, seed dormancy, seed yield, and ultimately seed quality.
Embryos were 13 20 % the length of seeds.
The cut-off length of seeding reads was set at 3 606 bp in order to serve as a reference for the recruitment of shorter reads for preassembly.
The culm length, ear length, number of seed, grain weight, and fertility of the plants from the space-stored seeds were not significantly different from those of the ground-stored seeds in each of the S0 and S1 generation.
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