Visual Phasing My Two Children with the Fox Spreadsheet: Part 4

This should be the final Blog for the visual phasing of my childrens’ autosomal DNA. I will be looking at Chromosomes 19-22 and the X Chromosome sometimes called Chromosome 23.

Chromosome 19

There appears to be a discrepancy at position 46 between the crossover line and where my mother matches JJ. However, as these are smaller chromosomes, any difference will be exagerrated in the view.

I’m not seeing any easy cousin matches on the maternal side.

I had said that the the shorter chromosomes can be easier to solve. There is the other problem that they are so short, that there may not be any identifiable matches on them. I can put in a G3 and G4 on the right hand side of the Chromosome:

I checked Heather at MyHeritage and she has a match with Richard who has all Polish ancestors:

Now that I have this, the G3 and G4’s are not useful:

Heather and Richard have a shared match with Krystyna:

I am showing some progress:

JJ and Richard have a shared match at MyHeritage with Patricia here:

That leaves a small area to fill in on the left side of Chromosome 19:

From a comparison between JJ and Heather, it appears that the first crossover should be at about 5.2M. I’m having trouble figuring out the left hand side of Chromosome 19, so I will leave it as is for now.

Downloading Heather and JJ’s MyHeritage Segment Data

While working on Chromosome 19, I downloaded Heather and JJ’s segment data from MyHeritage. I waited a little while and got an email with the information I was looking for. Heather did have these matches at MyHeritage which appear to go through position 5.2:

However, it is difficult to tell for sure if these are real matches, maternal, paternal or if they in fact clearly straddly position 5.2M.

Chromosome 20

On the paternal side, all but one segment is Rathfelder DNA:

I am having trouble finding DNA matches on Heather and JJ’s maternal side on this Chromosome also.

Now it’s time to get creative. I put a Poland filter on Heather’s matches at MyHeritage. I see a match there with¬†Grzegorz:

Unfortunately, it is rather a small match. Heather and JJ have several small matches in this area. I’ll take a chance and give that segment to Jarek:

JJ clearly has matches that go through position 18:

That is about as far as I can get. However, that is built upon small matches on the left side of Chromosome 20.

Chromosome 21

Here, Heather and JJ have all Rathfelder and no Hartley on their paternal side.

Heather and Jarek-side Richard have this match:

I’ll say that Heather’s match goes through position 41.2.

Heather has a match on the Cavanaugh side with Martha:

That should finish Chromosome 21:

JJ’s match with Martha further confirms the visual phasing:

This Chromosome is further shortened by some unusable area at the beginning of the Chromosome.


Chromosome 22

There are no obvious matches on the maternal side yet:

JJ and Nicholas match:

He is probably on the Jarek side, but I can’t be certain.

Heather’s match with David:

I didn’t see any Polish ancestors on David’s tree. Also, this is a paternal match as my siblings show up as common matches with Heather and David.

I’ll leave Chromosome 22 like this and hope that I get more or find more matches:

I did find this match at MyHeritage between Heather and Krzysztof after filtering for matches from Poland:

Here is another match that Heather has at MyHeritage with Rafal from Poland:

I see now that I should have extended the segments to here anyway:

Now, I’m doing better than I thought I could. I see that MyHeritage shows that JJ matches Rafal, but not on Chromosome 22:

This suggests to me that JJ should have the crossover at 43.9 M:

Heather and JJ’s X Chromosome

Here we have a different situation. JJ has no paternal side to his X Chromosome as these are not passed down from father to son. Heather’s paternal side of her X Chromosome is just from my mom, so her paternal grandmother. That leaves Heather and JJ’s maternal side DNA to fill in: Jarek and Cavanaugh.

Another complication is that MyHeritage does not report the X Chromosome and Heather and JJ did not test at 23andMe. That means any matches will have to be from Gedmatch or FTDNA.

This is what I have for Heather at DNAPainter:

I am not sure why there is a gap in the paternal side as Heather should match her grandmother the whole way.

Here is Heather’s match with Martha on the Cavanaugh side:

The blue portion in the comparison betweeen Heather and JJ on the top row indicates that JJ should match the same on his maternal side. JJ also has a small match with Peter on the Jarek side here:

JJ’s match list shows that he has no X Match with Peter:

So perhaps 6.4cM is below FTDNA’s X Chromosome match threshold. Heather, on the other hand shows no X match with Peter on the FTDNA Chromosome Browser.

Assuming that is a valid match, I get this:

JJ’s Interesting X Match with Ellen at Gedmatch

If this match is correct, then it suggests that my mapping above in incorrect. I would assume that JJ’s match is with either on the Jarek or Cavanaugh side, but not both. Here is JJ’s ancestry where the match can be:

From the right-hand column, there are two Polish lines, two English lines and three French Canadian lines. I have sent an email to Ellen to see if she has family history information.

So how do I interpret the new information? I need to disregard the small DNA match with Peter for now. One interesting thing is that JJ matches Martha on the Cavanaugh side where he doesn’t match Ellen:

JJ’s match with Martha is from about position 9-33 where I have the red arrow pointing to the black region. I take it to mean that both Martha and Ellen match JJ on his Cavanaugh side, but down different branches of the Cavanaugh line. For example, JJ’s match with Martha may be on the Morrow side and JJ’s match with Ellen may be on the Cavanaugh/Warren side.

Here is my guess on how the the X Chromosome should look:

I now have JJ as mostly Cavanaugh due to the match with Ellen.

Heather and Ellen

Here is how Heather matches Ellen at Gedmatch:

Heather has a smaller match with Ellen, but it is still significant. In the area I have mapped as Jarek for Heather, she does not match Ellen, so that is consistant with the visual phasing that I have done above. That means that Ellen should match JJ and Heather on the Cavanaugh line. That would likely mean a French Canadian or English connection.

One Last Step: Heather and JJ’s X Chromosome Segments

I already downloaded Heather and JJ’s autosomal segments at Gedmatch. However, this did not include their X Chromosome segments. I picked the Segement Option at Tier 1 for Heather. The minimum I could pick was 1,000 matches so I picked that. I don’t need a lot for the X Chromosome. I picked the csv download option and then saved the file as an Excel file. I formatted the positions with commas:

Next, I would like to see if Heather has matches that go through the next crossover on the X Chromosome which is at 143.7. However, my download was for all of Heather’s X Chromosome matches: paternal and maternal. I really want the maternal side. For that I have to choose Heather’s phased maternal kit to get the segments. When I try to do this, I get no segments. I assume that when Heather’s phased maternal kit was created, it didn’t include the X Chromosme.

JJ’s matches will already be phased, so I will try him next. JJ has one match that goes through 143.7, but I am not convinced that this match will help me:

One problem is that the SNP count is quite low.

Heather has matches that go through 143.7, but they are mostly on the paternal side:

TX is a match where I can’t tell if it is paternal or maternal. All the other matches are close paternal matches. That means that I will leave the X Chromosome visually phased as is for now:

Summary and Conclusions

  • I was able to visually phase my two childrens’ 23 chromosomes.
  • Some were fully phased and some were partially phased
  • Because I had tested my mother, Heather and JJ were already phased on the paternal side
  • There are more DNA cousin matches on the maternal Jarek side than the maternal Cavanaugh side. This is offset by Martha who is a fairly close Cavanaugh relative to my two children
  • I am interested in DNA matches on the Cavanaugh side due to some confusion in the genealogy. For example, Cavanaugh going back should actually be Warren the way I understand it
  • Visually phasing the X Chromosome is a little different than the others. I found a large Cavanaugh side X Chromosome match to Heather and JJ and wrote to the match. I hope that she writes back so we can find the connection.
  • Some chromosomes may need updating and filling in as new maternal matches are identified
  • Using the Fox Spreadsheet is a handy way to do visual phasing and keeps all the information in one need spreadsheet



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