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http://www.scientificamerican.com/article.cfm?id=neandertal-genome-study-r
"When Pääbo’s team looked at patterns of nuclear genome variation in present-day humans, it identified 12 genome regions where non-Africans exhibited variants that were not seen in Africans and that were thus candidates for being derived from the Neandertals, who lived not in Africa but Eurasia. Comparing those regions with the same regions in the newly assembled Neandertal sequence, the researchers found 10 matches, meaning 10 of these 12 variants in non-Africans came from Neandertals. (Where the other two segments came from remains unknown.)"
"When Pääbo’s team looked at patterns of nuclear genome variation in present-day humans, it identified 12 genome regions where non-Africans exhibited variants that were not seen in Africans and that were thus candidates for being derived from the Neandertals, who lived not in Africa but Eurasia. Comparing those regions with the same regions in the newly assembled Neandertal sequence, the researchers found 10 matches, meaning 10 of these 12 variants in non-Africans came from Neandertals. (Where the other two segments came from remains unknown.)"