Additional data for: Infection cycle and phylogeny of a Polinton-like virus with a virophage lifestyle infecting Phaeocystis globosa

The code is distributed via https://github.com/BejaLab/Gezelvirus. This repository contains the following items: <br> * phylogeny-Gezel-PLVs - alignments and phylogenetic trees for the chosen set of proteins for Gezel-like PLVs * vcontact2 - results of the vcontact2 analysis * protein-homology-and-function - homology and function for proteins from mesomimiviral, NDDVs, lavidaviruses and other virophages and PLVs based on profile-profile searches. For each protein, the file mcl_genes_60.tsv lists MCL cluster ("Cluster"), cluster identity based on matches to Pfam ("Gene_Pfam", see genes_pfam.tsv for the corresponding manually curated rules), cluster identity based manually curated list of genes ("Gene_Cluster", see genes_cluster.tsv), best hhsearch hit for the particular protein ("Hit.ID", "Hit.Description", "Probab") and the final gene assigment ("Gene"). Functional assignments were checked mainly for proteins from Gezel-like PLVs and lavidaviruses - use with care for other groups. * alphafold-capsid-proteins - alphafold models of the MCP and mCP proteins of Gezel-14T * promoter-motifs - analysis of promoters in mesomimiviruses (meme) and location of PgV-16T-like early promoter motif among PLVs associated with P. globosa (fimo) * phylogeny-with-algae - phylogenetic analyses of the MCP genes from the Gezel-like group and NCLDV-like viruses. The files include alignment of MCPs ≥ 200 residues (*.a2m), trimmed alignment of unqiue long sequences (≥ 300 residues) used for phylogenetic analysis with iqtree2 (*.a2m.trim), iqtree2 output (*.treefile, *.log). In addition, for PLV MCP, short sequences were placed on the iqtree tree by re-evaluation of the iqtree2 trees with raxml-ng (*.raxml.bestTree, *..raxml.bestModel) and epa placement (*_epa). The final trees with metadata are provided in jtree format (*.jtree).