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As shown in Table 2, the average conformer counts between the Query set and Search set are similar, with the query set being slightly less flexible.
Many compounds elicited no obvious correlation with the query set.
We also included some negative sequences into the query set.
Accordingly, the query set amounts to 296,590 audio excerpts.
SSEARCH computes the optimal alignment between every sequence in the query set and every sequence in the database.
For each query from a selected activity class, all compounds in the query set and the reference set of the selected activity class were excluded from the database, and similarities measured between the query and all remaining compounds in the database to create the hit list for the query.
The goa_human annotation set was selected; the query dataset (as UniProt IDs) was pasted into the 'Query Set' field.
The BWA parameters used include the number of differences allowed between the reference and query set at 0.04 and the number of differences allowed in the seed was 2. The maximum number of gaps allowed in the alignment was 1 and the gap penalty was set at 11. SNPs were predicted using the variant caller program, VarScan with default settings [ 58].
Collectively, the myxozoan and cnidarian set of sequences comprised the myxozoan query set.
Genes in the original query set are italicized.
For a gene that is unrelated to the original query set, its rank-ratios are expected to be uniformly and independently distributed between 0 and 1.
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