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Flesh-colored penile “bump” (papule/micropapule) without any other symptom could be several things including a skin tag, mollusca, genital wart, epidermoid cyst, physiological variation, etc. Therefore, if it is clinically unclear, a biopsy would be a standard diagnostic tool to differentiate.
FYI - It is possible to carry HPV virus without clinical manifestation for years. Also, it is possible to acquire HPV infection even if you use protection (low possibility).
Wishing You Optimal Health,
Dr. Jasmina Jankicevic
Also, forgot to say that I am 26 and otherwise in good health with no medical conditions.