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We used two high quality transcript databases to evaluate the predicted junctions.
Among the 19,293 high quality transcript contigs and singletons, of A. glycines B1, 8,053 (42%) matched to proteins in the GenBank nr database with the E value cutoff of 1e-5 (Figure 2A).
After the removal of adapter sequences, the trimmed sequences went through two rounds of assembly using Newbler and phrap programs, resulting in 19,293 high quality transcript sequences totaling 7,366,599 bp.
This filtered assembly is considered a high quality transcript set, and was used for downstream analysis.
Most recent genomic resources made available are the high quality transcript sequence data from full length sequenced cDNAs (FLIcs) [ 21].
Nearly 40,000 high quality transcript contigs were de novo assembled for tartary buckwheat, providing a reference platform for future research work in this plant species.
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To maximize the proportion of high quality transcripts, data were filtered using a coefficient of variance (CV) cut-off value of 30%.
A transcriptome was produced after filtering and quality checking yielding a final set of 60,232 high quality transcripts for analysis.
We assembled 55,393 high quality transcripts, of which 29,292 were unique, starting from adult whole body male and female pools.
Using the combined dataset, de novo assembly of A. glycines produced 64,860 high quality transcripts, totaling 41,151,086 bases.
Combining results from a previous A. glycines transcriptome, we generated 64,860 high quality transcripts, totaling 41,151,086 bases.
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