The consistency of the effect of selection on the frequencies of endogenous avian viral (eav) and endogenous viral (ev) specific restriction fragment length polymorphism (RFLP) bands was studied in two broiler lines selected from a single base population and in an F2 population derived from a reciprocal cross of both lines. One broiler line (FC line) was selected for low feed conversion ratio and the other line (GL line) was selected for high 6-wk body weight. In the F2 population, the band frequencies were determined in groups representing separate tails of the distribution of two production traits, namely, low feed conversion ratio between 29 and 42 d of age and body weight at 42 d of age. The F2 population consisted of 288 females belonging to 24 full-sib families. To rule out family effects, the tails for these production traits were composed by either the best or by the worst female performer for each trait in each full-sib family. In total, 29 HindIII-eav, 34 MspI-eav, and 21 BamHI-ev bands could be distinguished by RFLP analysis. This report describes the influence of selection on 11 potentially interesting bands. Two bands, the 9.5-kb HindIII-eav and the 15-kb MspI-eav band, which were found both in higher frequencies in the parental FC line, were also found in higher (P ≤ .05) frequencies in the F2 tail with a favorable feed conversion ratio. A third band, the 6.5-kb HindIII-eav band, present in lower frequencies in the parental GL line, was also present in lower (P ≤ .05) frequencies in the F2 tail of birds with heavy body weight.