These publication outlines Native American Haplotypes as Science declares them in 2010.
This paper will help you understand how various tests are used and thoses "accepted" Haplogroups
http://www.jogg.info/62/files/Estes.pdf
Revealing American Indian and Minority Heritage Using Y-line, Mitochondrial, Autosomal and X Chromosomal Testing Data Combined with Pedigree Analysis
Roberta Estes
Abstract
As a project administrator of several historically based genetic genealogy projects, such as the Lost Colony, Cumberland Gap, Melungeon, Carolina Native Heritage and Hatteras Island projects which involve thousands of participants, I routinely receive questions from individuals who have an oral history of Native American heritage and would like to use genetic genealogical tools to prove, or disprove, their oral history. This paper documents the various discovery steps and processes using different types of DNA testing for a typical individual participant and appropriate family members who carry an oral Native history combined with genealogical evidence that has been forthcoming during the elapsed years since genetic testing for genealogy first because available. Each test along with associated benefits and detriments are discussed in relation to the analysis of minority ancestry. The conclusion combines the information from all the various tests, pedigree analysis and genealogical evidence, discussing which tests are beneficial and most accurate, and which ones are not useful, and why.
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Revealing American Indian and Minority Heritage
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