Additional file 1.

supplementary figures. This file includes 9 supplementary figures. Figure S1 illustrates the domain organization of different Rep-like proteins. Figure S2 and S3 show multiple alignments of circovirus, nanovirus or geminivirus Rep-like sequences, respectively. Figure S4 shows the phylogeny of viral Rep-like sequences from eukaryotes, known viruses and viral metagenomes. Figure S5 shows the phylogeny of geminiviral Rep-like sequences in viral metagenomes. Figure S6 shows the alignment of viral insertion loci in a genome. Figure S7 shows the phylogeny of parvovirus-like transposons. Figure S8 and S9 show the phylogenies of full-length, N-terminal and C-terminal regions of circoviral or geminiviral Rep-like proteins, respectively.

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Liu et al. BMC Evolutionary Biology 2011 11:276   doi:10.1186/1471-2148-11-276