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The POS sample was dominated by sequences of an Incertae sedis of the Metazoa/Fungi major group, and most of these sequences match with sequences of the order Ichthyosphonida, with similarity values ranging from 88 to 95% (Fig. 5a and Table S1).
Each positive searches were divided into two categories : (1) NCLDV sequences that match with sequences from viruses infecting the same host or a closely related host and (2) NCLDV sequences that match with sequences from viruses infecting a different host.
In contrast, only 23%and25%5% of species had a perfect match with sequences from GenBank and RDP-II, respectively.
In addition, all predictions were based on the assembled contigs that have perfect match with sequences in the IMGT/HLA database in the exonic regions.
The identities of the sequences were determined based on the highest percentage (a minimum of 97%) of the total nucleotide match with sequences from GenBank [ 27, 28].
We found that 1,629 Apis contigs presented significant match with sequences belonging to at least one of the taxa genomes.
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Of the 949 assembled bandicoot ESTs, 797 (84%) found a match with sequence from the opossum genome (Table 2).
The specificity (or the false discovery rate) of the two systems was evaluated by looking for perfect matches with sequences outside of the Firmicutes and Bacteroidetes phyla.
In total 8,363 transcripts of C. lectularius were assigned for Gene Ontology (GO) terms based on BLAST matches with sequences whose function is previously known (Figure 4, Table S1).
Our sequences from bat isolates and from bat tissue samples also showed perfect matches with sequences deposited earlier by Blehert et al. [14] and with more recent sequences from France, deposited by Puechmaille et al. [18].
Almost all of them matched with sequences in wrong reading frames.
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