Sentence examples for databases of consensus from inspiring English sources
This approach is appropriate as the primary methods studied in this article rely on searching databases of consensus sequences with precomputed PSSMs.
RepeatMasker accessed a database of consensus sequences of repeat elements for various mammalian species and chicken (Repbase version 20061006).
A simple add-on consisting of searching with a PSI-BLAST generated scoring profile against a database of consensus sequences significantly improved the performance in finding related sequences.
Using it to search against a database of consensus rather than native sequences is a simple add-on that boosts performance surprisingly well.
For comparison, we showed the results of the profile-sequence search (profile obtained from 10 iterations of PSI-BLAST on a native database) against a final database of consensus sequences (Fig. 4; blue line, mixed).
Among various repeat prediction tools, Repeatmasker is widely used for identifying repeats in genomes [ 69] using Repbase, a manually curated high quality database of consensus sequences of eukaryotic repeat elements [ 49].
For any number of false positives (i.e. at any error rate), the profile-sequence searches against the databases of full consensus sequences yielded most true positives (Fig 2; top three curves: MET-full, MF-full, MR-full).
Compared with analysis based on anomalies in the DFD (dinucleotide frequency distribution), which have little specificity, analysis using RepeatMasker is much more specific because it uses a database (RepBase) of consensus sequences from the principal characterized transposable elements.
These proportions reflect homologies of genomic sequence to a manually curated database of repeat consensus sequences, Repbase [ 11, 12].
To more easily visualize the opinion of multiple pathway databases, we introduce the concept of Consensus and Conflict Cards (C2Cards).
We used blast (tblastn) [ 27] to search AVRK1 and AVRA10 peptide sequences against in-house databases of copies of TE consensus sequences similar to AVRK1 and AVRA10 (e < = 1e-05, length of hit > 50 amino acids).
