Author: Mordecai, Gideon J; Wilfert, Lena; Martin, Stephen J; Jones, Ian M; Schroeder, Declan C
Title: Diversity in a honey bee pathogen: first report of a third master variant of the Deformed Wing Virus quasispecies Document date: 2015_11_17
ID: k2n6ropo_11
Snippet: To isolate the DWV complex sequence reads from the host and other contaminating sequences, the BLASTn (Altschul et al., 1990) tool was used. The reads were searched against a custom BLAST database containing the DWV, VDV-1 and KV genomes, with an e-value of 10e − 5. BLAST was carried out against Read 1 of the Illumina data. The ncbi-blast-parser perl script (http://www.bioinfor matics-made-simple.com/2012/07/ncbi-blast-parserextract-query-and.h.....
Document: To isolate the DWV complex sequence reads from the host and other contaminating sequences, the BLASTn (Altschul et al., 1990) tool was used. The reads were searched against a custom BLAST database containing the DWV, VDV-1 and KV genomes, with an e-value of 10e − 5. BLAST was carried out against Read 1 of the Illumina data. The ncbi-blast-parser perl script (http://www.bioinfor matics-made-simple.com/2012/07/ncbi-blast-parserextract-query-and.html) was then used to parse and read the top hit of the BLAST output.
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