A Different Look at the Frazer YDNA Tree

In this Blog, I would like to look at the 5 BigY Frazier/Frazer testers looking at their FTDNA YDNA Trees. In the past, I have looked at the Block Tree. Here is the Block Tree from Rick’s perspective:

Starting from the left I first see Rodney. To find Rodney’s Y Tree (which FTDNA calls the Y-DNA Haplotree), I click on his YDNA Badge:

Here is Rodney’s Y-DNA Haplotree:

The difference between this tree and the Block Tree I showed earlier is that the Block Tree shows the tester and his matches. This Haplotree only shows the one tester’s results at a time. However, there  is more information on the quality of each SNP tested. Above, I show how Rodney descends all the way down from R-YP6483. The actual tree goes much further back. All the groups that he is positive for are in green and the groups that he does not belong in are in gray. Here is the heading for the tree:

The dots by Rodney’s SNPs are also either green for Tested Positive or gray for Presumed Negative. There are some SNPs within the green groups that have gray dots. I think that those should be yellow dots for Presumed Positive. That is because if you are in a group, you need to be positive for each SNP within that group.

Going back from his terminal Haplogroup, BY116270 is the first SNP that Rodney has that shows as presumed negative.

Also in the heading, FTDNA says ‘View by Variants’. These are technically Variants, but in order to not get mixed up with Private Variants, they could have called them SNPs.

Jonathan’s Y-DNA Haplotree

Jonathan’s tree must be the same as Rodney’s except for the gray dots. Jonathan had the older BigY 500, so he should have more gray dots:

Here, Jonathan does get a yellow dot for R-FT421618 and he gets yellow for the whole group which means presumed positive. To find Jonathan’s test results for FT421618, I need to get out of the Y-DNA Haplotree and look at his BigY Matches or Results. I usually look at the Matches and then choose the Named Variants Tab:

At the bottom of the list (not shown), Jonathan has 1051 Named SNPs. I’ll search for FT421618. I have to search under all results, because I won’t find this SNP under Derived. This SNP comes up with a question mark.

Here are Jonathan’s test results for that SNP. He was positive for each of the four reads for a Variant there, but usually 10 reads are needed to prove that he was positive for this SNP. However, as Jonathan is positive for child SNP of R-Y151390, he must also be positive for the parent SNP of FT421618.

While I’m looking at Jonathan’s results, he (like Rodney) has a gray dot for BY116270:

Rodney shows 17 reads where there is a mutation from T to G. However, he also shows 10 cases where there is no mutation. FTDNA must use some formula to determine that this does not make the grade.

Let’s see what Rodney shows:

This shows the same funny pattern. I don’t know what the black means. I guess it may mean that there was no read there. Rodney had fewer good reads compared to Jonathan. However, because this is in a SNP group that is four levels above Rodney’s and Jonathan’s terminal Haplogroup, they shoul both be presumed positive for this SNP.

Bottom line is that Rodney and Jonathan are solildly in R-Y151390. Y151390 represents the James Branch of the Frazer family or more specifically the Thomas Henry Branch from 1836:

All the other SNPs that are upstream of Y151390 based on the testing of the other matches are less closely related.

Rick and Paul in the Archibald Branch of Frazers – R-Y85652

Y85652 has a shorter number. This should be an older SNP, discovered in 2017 – probably when Jonathan had his BigY done. Rick, like Rodney has the newer BigY 700 test. Here is Rick’s private tree:

I went a little higher on the tree this time, just to show tht the tree keeps going back. One interesting thing is that we see that Rick is presumed negative for Y151390 that Rodney and Jonathan had. That may be worth looking into. Looking up at Rodney’s and Jonathan’s trees, we see that they were also presumed negative for Y85652.

When I put the trees of Rodney, Jonathan and Rick together, this is what I get:

There are a lot more question marks than are ideal. However, the positive tests so far, are what are breaking the testers into their two groups.

Do Paul’s BigY Results Help?

Paul had the older BigY 500 test. I am a second cousin once removed to Paul. That makes me a fourth cousin to Rick.

Paul also has no negative for sure results. If he did, these would appear as red dots. Ideally, Paul would show negative for R-Y15130 and FT421607 as he is not in that group. The last verified negative result that I had found was in the Frazier BigY that I had discussed in my previous Blog:

The negative is shown in red above and we will get to that test later in the Blog. Above with Rick and Paul, they are presumed negative because Rodney and Jonathan are positive for Y151390. This is what I see for Paul’s test at Y151390:

I assume that this is the same as not being tested as no position number is given. Next I’ll look at FT421607 for Paul:

Here he had one read but it didn’t make it to that Position. I would say that Paul has not been tested for this SNP:

Rick’s Testing for Y151390

That makes me curious as to how Rick made out on the James Frazer Line SNPs. So far, there are different flavors of SNP testing:

  • Positive
  • Presumed Positive
  • Negative
  • Presumed Negative
  • Not Tested

Here I am a bit surprised:

Rick is definitely negative for this SNP. So I had the wrong information previously:

Here I have a red N for Rick for Y151390.

Next, I’ll look at FT421607. This shows why it is important to check the results and the Y Chromosome Browser.

This means the results are better than I thought previously:

This chart shows a clearer demarcation between the James Line and the Archibald Frazer Line. When defining Haplogroups, it is important not only to show that one group is positive for a SNP, but that the other group is clearly negative for that SNP.

Clearing Up the SNPs

Looking at the above chart, I should check all the question marks. The first is for Jonathan at FT421607:

Here, Jonathan was 100% positive for FT421607, but only had one read.

Here are Jonathan’s results for Y85652:

These results are different from what I had previously. Either I entered them wrong before or FTDNA has clarified by additional testing. I think that the results of the Backbone Tests have come in, because, I am seeing different results now. I checked all of Jonathan’s Archibald Line SNPs and he is now negative for them:

Now we can see a clearer border between what I call the J Line and the A Line.

The next logical step is to re-check Rodney’s results. Starting with Y85652, Rodney is now negative:

He doesn’t have as many reads but quite a few more than 10. The other two SNPs from the Archibald Line followed suit for Rodney:

It appears that the only questionable tests now are Jonathan’s test for FT421607 which only had one read and Paul’s two James Line SNPs which didn’t get tested. These results have me going back to Rodney’s Y-DNA Haplotree. The one that I started out looking at in this Blog:

Rodney should have red dots next to the SNPs to the right of R-Y85652. Red would mean tested negative which is what Rodney’s Y Chromosome Browser now show. However, Rodney’s Haplotree still shows gray dots for presumed negative. Perhaps FTDNA is in flux.

In addition, it appears from Rodney’s order history that his backbone test has not yet been completed:

There is a completed the same day as the order whcih does not make sense. Then there is a later ‘Completed’ with no date.

Frazier Y-Haplotree

So far, I have not looked at Frazier results in this Blog. He will have a shorter Haplotree as he has an older terminal Haplogroup of R-YP6489:

The difference in the Frazier Haplotree is that it has a blue SNP or Haplogroup in it. That is FT421618. Blue indicates downstream. Here is what I already had for Frazier:

This started out being a chart for Private Variants, but now includes more. I’ll change it so, in general, the older SNPs are at the top.

First, I’ll look at the Frazier results for FT421618. Frazier split the previous Frazer/Frazier block in two by his results.

Frazier has no letter within the dashed results which means that he is negative for this SNP. My guess is that that this Haplogroup was chosen to represent the three SNPs in it because Frazier was clearly negative for FT421618. Frazier has a gray dot by YP6491. Gray means presumed negative:

This single T in the G column is why this test did not get a perfect score. However, I question this later in the Blog and presume that this is a negative result.

While we are at it, I will also look at YP6492:

Frazier is clearly negative for this SNP, so I don’t think that FTDNA is reporting these correctly in their Y-DNA Haplotree.

Frazier’s YDNA Haplotree shows that he is positive for the three SNPs in R-YP6489. I checked out the other Frazier results and get this:

The split in the former Frazer/Frazier Block occurs in the Frazier results where the results go from green to red or from yes to no. The last ? could be a no, but I don’t understand FTDNA testing requirements well enough.

Here are the rest of the results from the Frazier test as far as I have tracked them on this spreadsheet:

Next, I should fill in the blanks. That would be 24 tests. But if I add in Paul and Rick, that will show where the changes are between the Haplogroups. Here are Paul’s results:

Above on Paul’s Y-DNA Haplotree, I showed that he was presumed postive for FT421618. Here are his results:

I would put those results in the sketchy category. Paul had two low quality reads neither of which showed positive results. However, based on the other testing he gets to be presumed positive.

Here are Rick’s results:

Rick’s results were straightforward. There was a Frazier result with a question mark, but the more I looked at it, the more I felt is should be a ‘n’.

As Jonathan had a presumed positive for FT421618, I would like to check that.

Jonathan seems clearly positive for this SNP, but didn’t have as many reads as needed for the best results. I added an extra SNP result for Jonathan on my spreadsheet, to make it look better.

Summary and Conclusions

I could write more, but I think that I have enough for one Blog:

  • I wanted to take a look at the four Frazer and one Frazier BigY tester from the perspective of their Y-DNA Haplotrees at FTDNA
  • I found while looking at another project, that the labels on the specific SNPs on these trees are not always accurate. For example, a red dot by a SNP should mean ‘tested negative’. I did not see any red dots on these trees. Yet there are many negative tests shown in my testing summary above shown with a red ‘n’.
  • Because many of the results seemed to have changed for Rodney and Jonathan compared to what I had previously shown on my spreadsheet, I surmised that their backbone tests may now be completed or in the process of being completed. Whatever the source of the results, what I have found make the results of the testing between the James Line and Archibald Frazer Line Haplogroups clearer.


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