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In order to show what sequences constituted the major class-level taxonomic groups in Figure 6, major sequences (>1% to the total sequence in each library) are listed in Table 2.

The accession numbers of the sequences and a description of each library are given in Table 1.

It is important to note here that the estimated number viral of genotypes presented for each library are theoretical "best guesses" and may vary depending on the assembly criteria used for modeling.

† Top 10 most abundant protein-coding transcripts selected from each library are highlighted in bold.

The parameters for each library are listed in Supplementary Table S1.

The definition and sizes of each library are shown in Additional file 2: Table S1.

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Each library is visited once during the season.

Each library was sequenced using single-reads in HiSeq4000 (Illumina).

Once quantified, an equimolar concentration of each library was pooled into a single tube.

Each library was analysed on an R9.4 flow cell using a MinION Mk 1B (Oxford Nanopore Technologies).

Read length distribution for each library is shown in Supplementary Figure S3.

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