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Supplementary Figure S1. Similarity plot between the YBMV-BRA-6 and YBMV-SR, with

a window size of 500 nt and step size of 20 nt. The YBMV-BRA-6 genome depicted below the line indicates the positions of each coding region. Data were generated by Simplot [1].

[1] Lole KS, Bollinger RC, Paranjape RS, Gadkari D, Kulkarni SS, Novak NG, Ingersoll R, Sheppard HW, Ray SC (1999) Full-length human immunodeficiency virus type 1 genomes from subtype C-infected seroconverters in India, with evidence of intersubtype recombination. J Virol 73:152160. http://doi.org/10.1128/JVI.73.1.152- 160.1999

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