MJost

04-22-2013, 07:24 PM

I thought I would test my TMRCA spreadsheet and calculate the various TRMCAs for 12 Haplotypes (111 Markers in most Hts) found in the paper's Supplemental Data sheet labled "Table S2. Genotypes of A00 Y Chromosomes" using Bird's q Stable STRs.

An African American Paternal Lineage Adds an Extremely Ancient Root to the Human Y Chromosome Phylogenetic Tree

Fernando L. Mendez, Thomas Krahn, Bonnie Schrack, Astrid-Maria Krahn, Krishna R. Veeramah, August E. Woerner, Forka Leypey Mathew Fomine, Neil Bradman, Mark G. Thomas, Tatiana M. Karafet, and Michael F. Hammer

The American Journal of Human Genetics - 7 March 2013 (Vol. 92, Issue 3, pp. 454-459)

I changed the STRs that contained the 'No data is indicated with -1' and making them Nuls and converting to the FtDNA order.

I placed the 111 marker haplotypes of L21's Hts as CladeA and the A00's as Clade B due to SD calculation method which needs the oldest assumed group of HTs in CladeB.

Using 111Marker Bird's q set of linear STRs I the results show that A00 have a MRCA have

At a 99.73% Confidence Level

IntraClade Coalescence (n-1) Age

Mean Generations StdDevInGen YBP +OR-YBP CISD-GenCoal(n-1) CI+OR-YBP

12.6 8.4 377.6 253.0 16.99 509.8

Intraclade Founder's Modal Age

ModalGenAge StdDevInGen YBP +OR-YBP CISD-GenModal CI+OR-YBP

15.5 9.4 465.3 280.8 22.25 667.6

Here is the Interclade Modal results between the two clades.

Interclade Founder's Modal Age

Generations StdDevInGen YBP +OR-YBP CISD-InterCladeGen CI+OR-YBP

536.0 34.3 16,079.3 1,029.1 418.30 12,549.1

Interesting. Note the confidence interval represented by 'CI +- YBP' is at a confidence level of 3 sigma (99.73%) which states that these 12- A00 haplotypes will have lied within this confidence interval.

These 12 males have a IntraClade Coalescence via sampled (n-1) variance of around 631 to a 884 Max YBP. Modal Age has a max YBP of 746 to 1133. Variance rates are usually much higher for small populations than large ones.

The Interclade age is so young. Using Bird's q STRs pushed the number of generations much further back as compared to the 67 Bird's q markers less MCMs by about 6K. The maximum Interclade Modal Age (bottom age to TMRCA range) of L21 to A00 is 16,079 to 28,628 YBP.

MJost

edit

An African American Paternal Lineage Adds an Extremely Ancient Root to the Human Y Chromosome Phylogenetic Tree

Fernando L. Mendez, Thomas Krahn, Bonnie Schrack, Astrid-Maria Krahn, Krishna R. Veeramah, August E. Woerner, Forka Leypey Mathew Fomine, Neil Bradman, Mark G. Thomas, Tatiana M. Karafet, and Michael F. Hammer

The American Journal of Human Genetics - 7 March 2013 (Vol. 92, Issue 3, pp. 454-459)

I changed the STRs that contained the 'No data is indicated with -1' and making them Nuls and converting to the FtDNA order.

I placed the 111 marker haplotypes of L21's Hts as CladeA and the A00's as Clade B due to SD calculation method which needs the oldest assumed group of HTs in CladeB.

Using 111Marker Bird's q set of linear STRs I the results show that A00 have a MRCA have

At a 99.73% Confidence Level

IntraClade Coalescence (n-1) Age

Mean Generations StdDevInGen YBP +OR-YBP CISD-GenCoal(n-1) CI+OR-YBP

12.6 8.4 377.6 253.0 16.99 509.8

Intraclade Founder's Modal Age

ModalGenAge StdDevInGen YBP +OR-YBP CISD-GenModal CI+OR-YBP

15.5 9.4 465.3 280.8 22.25 667.6

Here is the Interclade Modal results between the two clades.

Interclade Founder's Modal Age

Generations StdDevInGen YBP +OR-YBP CISD-InterCladeGen CI+OR-YBP

536.0 34.3 16,079.3 1,029.1 418.30 12,549.1

Interesting. Note the confidence interval represented by 'CI +- YBP' is at a confidence level of 3 sigma (99.73%) which states that these 12- A00 haplotypes will have lied within this confidence interval.

These 12 males have a IntraClade Coalescence via sampled (n-1) variance of around 631 to a 884 Max YBP. Modal Age has a max YBP of 746 to 1133. Variance rates are usually much higher for small populations than large ones.

The Interclade age is so young. Using Bird's q STRs pushed the number of generations much further back as compared to the 67 Bird's q markers less MCMs by about 6K. The maximum Interclade Modal Age (bottom age to TMRCA range) of L21 to A00 is 16,079 to 28,628 YBP.

MJost

edit