Finding My DNA Cousin Brenda at 23andMe

In my previous Blog, I figured out who my 23andMe cousin Kat was. I have another DNA cousin at 23andMe Brenda. I’d like to figure out where she fits in. 23andMe thinks that Brenda could be my third cousin:

Brenda and I share some DNA on 4 different chromosomes.

Here is another hint:

Brenda and I also have DNA matches with Kat and Stephen. The match with Kat is more important, because if it is right, then Brenda is a 2nd cousin to Kat. Here is a DNA matching Frazer tree that I have:

If I am a third cousin to Brenda and she is on the Frazer tree, then our common ancestors would be George Frazer and Margaret McMaster. If Brenda is a second cousin to Kat, then Kat and Brenda’s common ancestors should be William Frazer and Amanda Skoog. There are other possibilities, but that seems the most likely.

A Look at Stephen

Actually Stephen’s match is interesting also:

Stephen is on the lower left. If I’m right, Brenda is in the Frazer section in the middle. Steve and Brenda would be 5th cousins on the McMaster side. I am a closer match to Stephen on our Clarke side.

Painting Brenda

Using DNA Painter, an online utility, I can put Brenda’s matches next to my other matches. Here are some of Brenda’s details:

Here are a few possible surprises. I painted Brenda to George Frazer and Margaret McMaster based on Brenda’s match to Kat and me. However, DNA Painter has hints that Brenda is related further out at the level of James Frazer, Violet Frazer and Richard Frazer.

When I choose “show overlapping segments”, I get this:

When I look at my larger DNA map, I see this:

My cousin Paul and Brenda have a small overlap, but not enough to be picked up by DNA Painter as being significant.

Pro’s and Con’s of Putting Brenda on My DNA Tree Where I Did

I put Brenda as having the common ancestors with me of George Frazer and Margaret McMaster.

Pro’s:

  • At third cousin to me and 2nd cousin to Kat, it seems like Brenda should be a great-granddaughter of William Frazer.
  • William Frazer had three sons. Kat descends from James Robert Frazer. That means that Brenda could descend from Albert William Frazer or Walter Stanley Frazer. I don’t know much about Walter Stanley, so that is a possibility.

Con’s

  • I would expect Brenda to have more overlap with other descendants of George Frazer and Margaret McMaster. Instead Brenda overlaps with more distant Frazer relatives.
  • With Margaret’s double McMaster parentage, I would have expected more matches with McMaster descendants – though she does match Stephen.

Walter Stanley Frazer 1924-1996

On October 10, 1937, Walter was 13 and sailing out of Galway – apparently on his own:

This stone at the National Cemetery in Culpepper, Virginia gives a very short summary of Walter’s life:

The affidavits for Walter’s Petition for US Naturalization were taken in London in 1944:

Here is some more personal information from the same document when Walter was 20:

Here is some information on Walter’s wife:

Julia was flying from Paris to New Jersey with her husband and three young children in 1959. They lived in Miami. If Brenda was part of this family, perhaps she was too young to take this trip.

I did find one of the daughters. I think that this is her school photo from Vienna Virginia, but I’m not sure. The other information would be right.

Findagrave.com mentions her two brothers but not a sister. So this may not be the family for Brenda.

One Other Possibility for Brenda

I have that my great-grandfather’s brother Hubert Alexander Frazer had a son named Calvin Coolidge Frazer and Calvin had a daughter named Brenda. I will try to get in touch with at least the most likely candidate I find on Facebook. The problem with this possibility is that Brenda should be a first cousin once removed to my second cousin once removed Paul. Brenda only shows a small overlap with Paul. That may be because I show a smaller than average match with my cousin Paul.

At some point Calvin Coolidge Frazer ended up living and dying in Sacramento. That is interesting as some Frazer’s from other branches ended up in that city also.

Summary and Conclusion

  • After figuring out one of my Frazer DNA matches at 23andMe (Kat), I tried to set out to figure out how I matched Brenda. Based on how Brenda matched Kat and me I guessed that Brenda might descend from a Great Uncle of Kat. There was one person who fit that category: Walter Stanley Frazer. I looked up some information on Walter, but I couldn’t find any record of Walter having a daughter named Brenda.
  • I painted Brenda’s match to me with DNA Painter and found that she did match me on my Frazer side. However, I was expecting some more matching on the McMaster side.
  • I looked into a Brenda Frazer who was the granddaughter of Hubert Alexander Frazer. She is a good  candidate as she has the right first name. I’ll give a shot a contacting her through Facebook. I’m pretty sure given the level of match Kat and I have with Brenda, that our common ancestors were George Frazer and Margaret McMaster. However, I am still interested in confirming that belief.
  • I thought this exercise would be easier than it was. Due to the randomness of DNA inheritance, matches do not always match up with each other at the same place.
  • Even if I don’t figure out who Brenda is, I have found out some more information about two branches of the Frazer Family.

Addendum

I did hear back from Brenda through 23andMe. She said I was right in my guess:

Brenda and I are at opposite ends of the tree. Brenda is also a first couisn to Paul. I had Paul’s DNA tested at FTDNA and uploaded his results to Gedmatch.com for analysis. Brenda got my painted chromosome up from 41% overall to 42%:

I changed my matches with Brenda to gold colored for those matches where DNA Painter showed we had an overlap with anouth Frazer match.

A 23andMe DNA Match with Frazer Relative: Kat

It took me a while to figure who Katherine was at 23andMe. Here is how Katherine and I match by DNA at 23andMe:

Here is what 23andMe says:

Katherine and I should be in the range of third cousins. Fortunately, Katherine posted a photo at 23andMe. After looking at Facebook photos, I found some that were the same as Katherine’s photos at a Frazer Family Facebook page we are both on. The mystery is solved.

Here is how I show Kat on our Frazer tree:

I recently wrote a Blog on Rebecca and our match at AncestryDNA. So it has been good to find these Frazer DNA matches. My blog on Rebecca showed that I matched her more on the McMaster side than the Frazer side. This was not surprising as our common ancestor Margaret McMaster had two McMaster parents. Also Kat’s grandfather James Robert Frazer born 1927 married a McMaster. The advantage of Kat’s test compared to Rebecca’s DNA test is that I will be able to see how Kat and I match on specific chromosomes.

Painting Kat’s DNA Match

There is a web tool called DNA Painter that I use to show where my DNA matches are. Here is my current DNA Map:

This shows my paternal and maternal sides. My Frazer matches are on my paternal side. This shows I am 41% painted overall. I circled some of the areas that Kat could match me.

Here is just my paternal side where I am mapped at 50%:

I have a lot of green as I have a lot of Hartley 2nd cousins.

Adding Kat to the Mix

Kat got my DNA mapping up a percent from 50% to 51% on my paternal side. I mapped our DNA matches to “Frazer McMaster 1838” because that is where our shared DNA comes from.

Next, I’ll expand Chromosome 19 as that is where our largest match is:

Kat’s match with me in maroon overlaps with Keith’s match with me in blue. Keith has McMaster ancestry. That means that my match with Kat on Chromosome 19 is from the McMaster side. But which McMaster? For that we have to look at Keith’s genealogy.

Keith descends from Fanny and James McMaster. That means that the DNA that Kat and I share on Chromosome 19 must be from Margaret McMaster. For simplicity, I didn’t make a new box for Kat as Kat and Rebecca both have similar genealogy. Here is Margaret McMaster on the left who married George Frazer :

 

Because I know something more specific about this DNA, I’ll make a new category for Margaret McMaster’s DNA.

I added a dark green for Margaret McMaster’s DNA.

Emily’s McMaster DNA

The reasoning is the same for Emily who matches me on Chromosome 19, but the common ancestor goes back another generation:

This match with BV seems to indicate that the DNA is coming down from the McMaster side. BV also has Frazer ancestry, but that Frazer connection is too far back in time to consider.

My Chromosome 1 Match with Kat

Most of my paternal Chromosome 1 matches are on my Hartley side:

That explains why I don’t have room for a larger match with Kat. I can’t tell if my match with Kat is Frazer or McMaster, so I’ll leave it maroon which means it could be either.

Chromosome 7

Here I have a pink arrow pointing to my match with Kat. Right below Kat is a match with my cousin Paul and I have that as a George Frazer DNA segment in yellow. If I did that right, then my match with Kat also came from George Frazer. My reasoning is based on the two blue matches. They are from Susan and Ken:

Susan and Ken are related on the Frazer side. That means our overlapping segments came from the Frazer and not the McMaster side.

Here I have turned the match that I have with Kat from maroon to gold to indicate that it is a Frazer match. Right after that I have two blue matches. That represents a crossover that my father had from his mother. My dad’s mother had a Frazer father and a Clarke mother. Where I have the arrow pointing represents the change from Frazer to Clarke in the DNA that my father got from his mother and passed down to me.

Chromosome 10 – More Frazer DNA

I have a small match with Kat on Chromosome 10 that is right below a match I have with Michael in red:

Here is Michael:

This DNA comes down from Richard Frazer to his daughter Violet Frazer. I don’t want a new entry for Violet, so I’ll say that this DNA is from George Frazer. However, the DNA Kat and I share is actually from George’s mother Violet Frazer.

Chromosome 12

Chromosome 12 gets a little tricky, but it looks to be McMaster DNA for sure:

The first maroon match is with my cousin Paul. The second maroon match is my match with Kat. The purple match is with BV. BV had that small match with Emily on Chromosome 19 above. I have the other two pink matches going back to Abraham McMaster born in 1764. There is a lot of confusion about McMaster genealogy and how all lthe McMasters fit together. This cluster of matches may be a hint to unravel that confusion.

For right now, I’ll sign over to the two maroon segments to Margaret McMaster DNA (green segments):

I also showed some of the detail of my match with Warwick and our common ancestor of Abraham McMaster.

Here is Kat’s summary from DNA Painter:

  • The maroon is George Frazer or Margaret McMaster DNA
  • The yellow is George Frazer DNA
  • The green is Margaret McMaster DNA

Kat and I have a lot more McMaster and Frazer DNA, but this is just where our DNA intersects or matches.

Summary and Conclusions

  • The fact that Kat tested at 23andMe made it easy for me to see where we matched, and by how much on each chromosome
  • Once I added Kat’s matches to my other matches using DNA Painter, I could see whether our match was on the Frazer side or McMaster side for each segment where we matched.
  • One match that I had with Kat and descendants of Abraham McMaster may be a clue as to how Abraham McMaster fits in with the other McMaster genealogy.
  • If Kat uploads her DNA results to Gedmatch.com, she will be able to see how she matches other Frazer descendants by DNA.

 

My Mom’s Lentz Family and Roberta Estes’ Lentz Family

Roberta Estes has blogged about her Lentz family. I have also blogged about my Lentz family. Roberta and I have checked to see if there was an autosomal DNA match between our two families, but we were unable to find any significant match. Recently, in checking my 23andMe results, it seems like there may be a way to see if we are related by YDNA.

My Mom’s Lentz Family YDNA

I have tested my DNA at 23andMe and have a few Lentz matches there. One good thing about 23andMe is that when you take an autosomal test, they also give you a rough estimate of your YDNA haplogroup. I have has two Lentz matches at 23andMe who are brothers. They both have this Haplogroup:

I’ve sent off messages to the two brothers. I don’t know exactly how we are related, but based on the size of the autosomal DNA match and where they live, my guess is that our common ancestors must be Jacob George Lentz and Annie Nicholson:

I don’t have record of William Lentz born 1892 as having any sons. William did have a brother named Stanley who had sons, so that may be where the two matches fit in. At any rate, their YDNA would go up through the Lentz side.

What is R-Y4355?

I would expect that 23andMe has an accurate haplogroup though not recent. Here is what YFull has on Y4355:

Above the tree, YFull gives the YDNA Line for this branch of Lentz back to Genetic Adam (listed as Home). This shows that Y4355 is about 4200 years old, so fairly old. I recognize R-U152 in that line as a major branch.

Roberta Estes’ Lentz YDNA

Here is what Roberta has in one of her Blogs:

Roberta has invested in the Big Y test for her Lentz relatives, so this is likely to be extremely accurate and fairly recent. YFull does not have BY39280, but has some information on KMS75:

Actually KMS75 is listed as +1SNPs above. The equivalent at YFull is Y20993 which was formed 4800 years ago. So this particular SNP is not that recent. BY39280 would be more recent but perhaps not by much.

The Short Answer

I would say that based on the 23andMe Haplogroup and the work that Roberta has done, these two families are not related. The common ancestor is R-L23 which was formed 6400 years before present. I’ll draw a tree for the two Lentz families:

I would have thought that Roberta’s Lentz Line would be longer, but it must be an older branch or a branch with less branching in it. So from the top of the tree to the bottom is about 2,000 years, but we still have about 4,000 years to get to the useful genealogical time.

Here is an R1b Tree:

I have an arrow pointing to where my Mom’s Lentz family and Roberta’s Lentz family split. The split goes to Western Altantic for my Mom’s Lentz family and Eastern for Roberta’s Lentz family. Interesting. U152 is a major branch. U152 begins below the ‘ic’ of Atlantic. Checking the YDNA was pretty easy. That concludes the YDNA part of the Blog. Next I’ll add my Lentz autosomal DNA to DNAPainter

Adding Lentz DNA to DNAPainter

I can add the autosomal DNA to DNA Painter for the two Lentz matches I have at 23andMe. Here is one match added to my Lentz/Nicholson common ancestors:

Jereme adds important DNA that I didn’t know about before. I didn’t have any DNA from these two common ancestors previously on Chromosomes 2, 3, 4 and 15. I have less of a match with Jereme’s brother Will:

I’ll paint in Will also even though he doesn’t add new information. Jereme matches me by 95 cM compared to Will’s 72 cM.

Jereme and Will upped my percentage of maternal mapped DNA from 30 to 32%. That is a significant jump at this stage of mapping:

Here is the maternal and paternal side:

I changed Lentz/Nicholson to a sort of pea green because it was the same blue as Clarke on my paternal side. I now have 41% DNA painted overall. I assume that this went up although I didn’t check to see what it was previously.

Summary and Conclusions

  • 23andMe has a useful feature that predicts your YDNA Haplogroup at no extra charge.
  • This feature can be used to see if you are related to male relatives of the same surname. In this case, I was related to two Lentz brothers with a predicted haplogroup. Roberta Estes had Lentz relatives tested for YDNA resulting in a known Haplogroup. I checked on Roberta’s Lentz relative’s YDNA haplogroup and it didn’t match up with my Lentz relative’s Haplogroup. I then found the common Haplogroup for the two Lentz families. The common haplogroup was over 6,000 years old.
  • It would be interesting to see if this could be used in other situations.
  • This Blog was short so I painted the autosomal DNA of my Lentz relatives using DNA Painter.

 

 

 

Aunt Esther’s Newfoundland Ancestors, MyHeritage’s Theories of Relativity, and DNA Painter

I’m surprised that I have never written about my wife’s Aunt Esther’s Theories of Relativity (TOR). MyHeritage takes DNA matches and matches them up with ancestral trees. I’ll go through Esther’s Theories of Relativity.

Esther’s Top TOR – Wallace

I have Blogged about Wallace before. Here is how Wallace and Esther’s TOR looks like:

Esther and Wallace are 1st cousins once removed. I have already painted Wallace’s DNA onto Esther’s chromosome map.

Wallace accounts for some of the Esther’s green DNA above which represents DNA from either Henry Upshall or Catherine Dicks. The above map shows Esther’s paternal side which is 50% mapped.

TOR#2- Marilyn

Esther and Marilyn show as third cousins twice removed. The common ancestors are Christopher Dicks born about 1784 and Margaret. I don’t see Christopher Dicks on Esther’s Chromosome Painter Map. However, there is a problem with the match between Marilyn and Esther. The problem is that these two match by too much DNA for this relationship:

Marilyn and Esther share 151.5 cM. That puts them off the chart for 3C2R. However, there is a 0.46% chance of this being right. The more likely reason is that Marilyn and Esther match on more than one line. This is common with people who have Harbour Buffet genealogy. I’ll just ignore that for now and sort it out later, perhaps.

However, I see that Esther and Marilyn have this other match:

Marilyn descends from two of Christopher Dicks’ children: Robert and Rachel Dicks.

Here is how Marilyn and Esther match:

Here is the addition on Esther’s paternal side:

This brought up Esther’s paternally mapped DNA up 1% to 51% and her entire mapped DNA up 1% to 30%.

There is a utility at Gedmatch called ‘Are your parents related?’. Esther’s parents are related on several chromosomes. Here is one spot on Chromosome 2, where Esther matches Marilyn also:

I see that Wallace also matches Esther in this region.

TOR #3 – Annie

In the past, I have not looked much at Esther’s maternal side. That is because my mother-in-law is Esther’s half niece and is not related on Esther’s maternal side. However, I’ll look at Esther’s maternal side now.

I’ll just paint Annie’s match onto Esther. This is what Esther’s maternal side looks like so far at 8% painted:

The addition brings Esther’s maternal map back to the late 1700’s:

That gets Esther’s maternal side up to 10% painted.

I do see one problem at Chromosome 1 already:

Violet and Annie both match Esther on the right side of Chromosome 1. That segment cannot be for both shared ancestor couples. It could be that Violet has Shave and/or Parsons ancestors or some other similar explanation. This is another reason I haven’t looked into Esther’s maternal side!

TOR #4 – Josiah

Josiah looks like he could be Annie’s Uncle:

That also makes Josiah, Esther’s third cousin.

Josiah has a similar issue with Violet, but on a different segment of Chromosome 1:

I’ll file that under the category of ‘sort it out later’.

TOR #5 – Frederick

Frederick appears to be Annie’s brother. His Theory of Relativity is missing a generation, so I won’t show it. It turns out that Frederick didn’t add any new Shave/Parsons DNA to Esther’s map that his sister and uncle didn’t already have:

Frederick’s matches show up in grey cross-hatch above.

TOR #6 – Jacqueline

Esther also has Kirby ancestors, but this shows only the Shave/Parsons common ancestors.

I decided to change Shave/Parsons to yellow. Jacqueline adds quite a bit:

TOR #7 – David, Another Pafford Descendant

This could take a while as Esther has a lot of matches:

Stephen adds a large match to Esther’s Chromosome 1:

Esther’s maternal side is now 15% painted. Esher’s entire chromosomes are now 33% or one third painted:

As far as I know, MyHeritage does not show X Chromosome matches. That means that we have to go to Gedmatch to get X Chromosome matches.

Marilyn and Esther’s X Match

I mentioned Marilyn above. I know that her DNA has been uploaded to Gedmatch. The X Chromosome is a special case and follows a specific inheritance in that the X Chromosome is never passed down from father to son. That means that the X Chromosome match that Marilyn and Esther share was passed down from Margaret, the wife of Christopher Dicks. We can know that because of Esther’s tree:

Above, I had that Margaret may have been a Burton, but in looking at other trees, I don’t see that as much of an option.

Now Esther has a little color on her paternal side X Chromosome. That is the side that men don’t have. I could do much more, but I’ll get back to the Theories of Relativity.

TOR #8 – Rowena

Rowena takes us back a generation on the Dicks side:

I don’t know when this Christopher was born, but I’ll say about 1750. I’ll paint this match and see what happens. I see a few potential problems. One is that these segment sizes are quite large for such an old match:

The other potential problem is that Rowena and MB have a match with Esther that overlap on Chromosome 2:

Rowena’s common ancestor with Esther is Christopher Dicks and MB’s common ancestors are Peter Upshall and Margaret.

TOR’s #9 and 10 – Another Wallace and Valetta

This is not the same as the earlier Wallace but seems to be another brother of Annie:

As such, he did not add any more Shave/Parsons DNA to Esther’s map. TOR #10, Valetta appears to be Wallace’s sister.

TOR #11 – Laurie

Here is someone with a more recent Shave ancestor:

However, MyHeritage also shows this possible match:

To make things more confusing, Laurie has a Joseph Dicks in her tree which may be the same Joseph I have on Esther’s maternal side:

It may be that further DNA analysis could sort this out, but I’ll skip Laurie for now.

TOR #12 – Janet

Janet also has two TOR’s – one on Esther’s paternal side and one on her maternal side, so I’ll skip her for now also.

TOR #12 – Harold

Harold is forging into new old territory:

I’m not sure what to make of this. I’m tempted to add the Pike name to Esther’s maternal side.

As a follow-up, I could check on Esther’s likely maternal Pike ancestors.

Summaries and Conclusions

  • MyHeritage’s Theories of Relativity lend themselves to the DNA Painter program.
  • I had some problem when the Theories of Relativity were on Esther’s Paternal and Maternal sides, so I chose to ignore those situations.
  • One shortcoming of MyHeritage is that they don’t show X Chromosome matches. Those are important for showing specific common ancestors.
  • I could follow up on Esther’s DNA painting by looking for more Gedmatch matches.
  • It appears that Esther has Pike ancestry on her maternal side based on one Theory of Relativity

 

 

 

MyHeritage and the Theory of Family Relativity

First, MyHeritage gets credit for a catchy name for their new utility. That reminds me of this cartoon:

MyHeritage is doing what AncestryDNA does in matching up family history trees and DNA. In this Blog, I’ll look at my top three matches at MyHeritage that use this utility.

Melanie

I have blogged about this connection previously through Melanie’s mother Emily. Actually, it looks like I have written three Blogs on this connection. I was quite happy to come across Melanie and Emily. Here is Melanie and my shared tree at MyHeritage:

As a result of our connection, I shared a photo I had of Melanie’s great-grandmother Violet Frazer which appears on her tree. Melanie says this would have been taken on her wedding day. This was a very clear and clean match. Melanie and I share 19.9 cM of DNA.

Celeste: Theory of Family Relativity #2

I don’t recall Celeste. So this is a new find for me.

Celeste and I share 12.7 cM of DNA on Chromosome 9:

I have a web page on the Snell family and what I have matches what Celeste has. In fact, Norman was born in the same Town that I was. Here are our common ancestors:

Mary Ann was from Nantucket. Her father had a business repairing ships. Otis was on an early whaling voyage from New Bedford to Hawaii. He jumped ship, made his way to Nantucket and married Mary Ann in 1828.

Celeste and Snell/Parker at DNA Painter

I can paint Celeste’s DNA onto my chromosome map:

This takes up a small segment in dark blue on the top part of Chromosome 9 (the paternal part) that was already taken up by my great-grandparents’ DNA. However, this DNA goes further back in time and is more specific.

Here is the expanded view of the paternal side of my Chromosome 9:

The dark blue overlaps with Beth and Jim, so that means that Beth and Jim should have Snell/Parker DNA in that area of their Chromosome 9 also.

Marilee: Family #3

My match with Melanie was known and accurate. My match with Celeste was unknown and accurate. My match with Marilee is known, but I had a different connection shown than MyHeritage shows. This is what MyHeritage shows:

Here is how I had Marilee’s connection:

I show Marilee in a separate John Line in pink. MyHeritage shows us both in the Richard Frazer Line. I circled myself in the Philip Line, but I am also in the Richard line above. I left my family out of the yellow line to save room.

So how do I reconcile these trees? MyHeritage (MH) shows an expanded view that seems convincing:

There is a connection shown and percentage that I had not noticed before. When I click on the green percentage, it gives a comparison between my tree and a third tree. The same with Marilee’s comparison. It compares Mariee’s John Frazer with a John James Frazer in another tree and gives the match a 100% probability.

There is another thing that I didn’t notice. There is a tab called Path 2:

This path compares to another tree, which I recognize as Joanna’s – a Frazer researcher.

So, Who Is Right?

We may both be right. All I have to do is show two lines of Frazer descent for Marilee and that will reconcile the two trees.

Marilee and the Richard Line

If Marilee is from the Richard Line, it would support the earlier birth dates for Richard and his siblings. So, that in itself is interesting. Here is what I have now for the Richard Line:

I’m not sure about David on the left. Jane was added in. She has many matches and appears to belong in this line. Here is a detailed comparison between John James Frazer and John Frazer:

Marilee’s Tree

Next, I compare this with Marilee’s tree:

Here is the disconnect. Both trees cannot be right. MyHeritage ignored Marilee’s tree in favor of two other trees. Interesting.

Based On the Above, Marilee Cannot Descend from John and Richard Frazer

That means that there is more work to be done to figure out which tree is right. One might argue that John Frazer born 1825 was named for his father’s father John born 1755. It may be that DNA analysis could shed light on which line Marilee would most likely be in. There is a program called What Are the Odds? (WATO). However, I have not used this yet. It takes two scenarios and looks at the odds of one scenario being more likely than the other based on DNA matching. This could be the subject of a future Blog in addition to more genealogical analysis.

Match #4: Warwick from New Zealand

I’m having fun, so why stop at three? Warwick is my third Irish connection out of my top four Relativily Matches:

According to MH, Warwick is my 4th cousin, once removed and we share 17.8 cM on Chromosome 12:

For a reality check, I make sure that I have Frazer grandparent DNA in that part of my Chromosome 12:

I do. I expect that my siblings Sharon, Jon and Lori will also match Warwick. They do. In fact Emily, Paul and Stephen who are known McMaster descendants are shared DNA matches between Warwick and me.

Checking Warwick’s Tree

Warwick’s tree matches with what I have on my McMaster Web Page – at least down to Samuel:

Let’s Paint Warwick

Warwick represents some very old DNA:

The darker colored DNA next to Warwick’s is my 2nd cousin Paul:

I now know that Paul’s Chromosome match with me goes back to his McMaster side. MH shows it like this:

Paul, Warwick and I are in a Triangulation Group (TG). This TG goes back to Abraham McMaster or his wife Margery.

Summary and Conclusions

  • I took my first look at MyHeritage’s Theory of Family Relativity to see how it worked
  • Match #1 was no surprise
  • Match #2 was a surprise as I didn’t know about it. I’m sure this match was buried deep in my match list and the program nicely pulled it out. The matching trees were easily verifiable.
  • Match #3 , Marilee, was on my radar. However, the MH utility brought into question Marilee’s tree. The utility disregarded Marilee’s tree in favor of two other trees. Now I am not sure of either tree and will need to do some more analysis of the Marilee’s DNA matches.
  • I ended the Blog with Match #4. This match easily mapped new DNA and a new common ancestor onto my DNA Painter Chromosome Map.
  • Overall, I like the program and now see how it works. MH has an advantage over the AncestryDNA programs in that they show where on the chromosome the matches take place.
  • The down-side to the MH Relativity is that I only have 6 matches in the program. The two that I didn’t look at are related to the ones that I did look at.

My Son’s AncestryDNA Results Are In

I recently got an email saying my son JJ’s DNA results were in. JJ shows this on his main AncestryDNA page:

There is a third box for DNA Circles, but those take a while to form after JJ’s DNA is linked to a tree. Here is how JJ compares to his sister Heather:

Both JJ and Heather come out as mostly England, Wales and Northwestern Europe. However, JJ’s #2 Ethnicity is Eastern Europe and Russia and Heather’s #2 is Germanic Europe. Another thing that stands out is that JJ has about 150 more 4th cousin or closer matches.

JJ and Heather’s Ethnicity

One would think that the ethnicity would come out the same for Heather and JJ as siblings, but it doesn’t. Here is what JJ shows:

JJ shows 3% Baltic within the larger Eastern Europe and Russia.

Heather doesn’t show the 3% Baltic but has 3% France instead:

The overall effect is the same.

JJ and Heather Each Have One SubRegion of England

These are subtle differences. JJ has Yorkshire & Pennines within Northern England and the Midlands:

Heather has the SubRegion of Northern England & the Midlands, but doesn’t have it broken down further like JJ has:

That means that while JJ and Heather both have the subregion: Northern England & the Midlands, JJ has the sub-sub region of Yorkshire & Pennines.

JJ and Heather At Gedmatch Genesis

As siblings, JJ and Heather match each other in a way that they match no one else. Here is how JJ and Heather compare to each other on Chromosomes 19-21:

We each have a male and female copy of our chromosomes. However the results don’t distinguish which is which and combine the two. On the bottom of each chromosome above is a blue or black region. Blue is where JJ and Heather match each other and black is where they don’t match. On the top part, there is either green, red or yellow. Red is where there is no match. The yellow above the blue is called a half match also known as an HIR. The green is called a Fully Identical Region (or FIR).

What Do These Three Regions Mean?

No match means no match. However, a good way to look at this is in terms of grandparents. JJ and Heather got their DNA from their four grandparents: Hartley, Rathfelder, Jarek and Cavanaugh.

  • No Match – An example would be if JJ got his paternal DNA From Hartley and maternal DNA from Jarek in a no match region, that would mean that Heather must have gotten her paternal DNA from Rathfelder and her maternal DNA from Cavanaugh
  • HIR – These regions are a little trickier. This means that if JJ and Heather both got their paternal DNA from Hartley and JJ got his from Jarek, then Heather got her maternal DNA from Cavanaugh in that half matching region.
  • FIR – This means that if JJ got his DNA in this region from Hartley and Jarek, then Heather also would have to have gotten her DNA from Hartley and Jarek.

Visual Phasing for JJ and Heather

Visual Phasing is more difficult for two siblings than for three or more, but let’s try it on Chromosome 19. First I put some information onto a spreadsheet, but it is just a place for phasing:

In the middle no match, I represented the four grandparents as four different colors:

There looks like there may be a tiny match in the middle of the non-match, but I am ignoring that for now.

Cheating on the Rathfelder Side

JJ and Heather’s Rathfelder grandmother has been tested so this should be a big clue. Here is how JJ and Heather match their paternal grandmother:

What does this mean? This means that Heather matches her paternal grandmother on the whole length of the Chromosome. Again, I’m ignoring the non-match in the pink area (called the centromere).

In the chart above, I had Heather’s paternal as blue in the middle region. Let’s call blue Rathfelder.

 

The places where I have the vertical lines in the spreadsheet above correspond the changes in the ways that JJ and Heather match each other. These are called crossovers. That means that at these spots the DNA that they got from one grandparent will cross over to the DNA that they got from another one. These crossovers are either maternal or paternal.

Already, I also know that JJ’s Yellow will be Hartley. That is his only other choice for a paternal grandparent. Next I put the JJ’s Rathfelder DNA in:

Now JJ has two paternal crossovers. His paternal DNA goes from Rathfelder to Hartley and then back to Rathfelder. JJ’s crossover is at 7 Million, because that is where the DNA match with is Rathfelder grandmother stops.

Next, because JJ has a paternal crossover at position 46, that means that he probably doesn’t have a maternal crossover at the same spot. Because of that, I’ll move JJ’s green DNA a little to the left and all the way to the right:

On the right hand side there is a half match. That half match is blue, so the orange can extend to the right on Heather’s maternal side:

Using the same logic for the small segment on the left, I can move the orange a little way to the left:

 

Now I am stuck on the left HIR segment. I don’t know if the maternal crossover goes to Heather or to JJ. If it goes to Heather, then that means that the left maternal segment for JJ will be green. If JJ has the crossover, it will be orange. A maternal cousin match could solve this.

Painting JJ’s Chromosomes

I’ll come back to visual phasing later. Now I’d like to paint JJ’s chromosomes. I had painted Heather’s previously. This shows Heather’s known maternal matches on her Jarek side:

These appear to be four siblings or close relatives. They are not relatives that Heather knows, but relatives with known Jarek ancestors. I could use this information for visual phasing as these chromosomes should be easier to visually phase.

The Same Matches But Matched To JJ

Back To Visual Phasing

JJ has a pretty good match on Chromosome 18, so I’ll try that one next:

Here we have almost the same scenario as in Chromosome 19, except that there is one more crossover on the right. I put in numbers at 9.8 and 53 to give a general idea of where we are. These correspond to where JJ and Heather match each other.

Here is how JJ and Heather’s paternal Rathfelder grandmother match them on Chromosome 18:

This time JJ gets a full dose of Rathfelder DNA.

 

I put in Heather’s Rathfelder DNA also.

Next, I want to visually phase Heather and JJ’s first maternal side DNA. Actually, I phased it on Chromosome 19, but I couldn’t identify it due to lack of DNA matches with known ancestry. Now we can do that. My guess is that green will be Jarek and orange will be Cavanaugh. By eye it looks that way.

JJ’s match with one Jarek descendant goes from 33 to 53.8, so that is the case.

I filled in the yellow Hartley for Heather as it should go up to where Heather matches her Rathfelder grandmother. Now I am stuck, but I have identified a Cavanaugh segment for Heather based on JJ’s Jareck DNA.

Chromosome 4 – Some Cavanaugh DNA for JJ

From DNA Painter, here are JJ’s Jarek DNA matches:

Here are Heather’s Jarek DNA matches:

Heather has extra Jarek matches that JJ doens’t have. That means that JJ probably has Cavanaugh DNA where Heather has her first two Jarek DNA matches.

Unfortunately, Chromosome 4 is longer and will have more crossovers:

This time I’ll start at the FIR. That means that JJ and Heather have the match on the same two grandparents on their paternal and maternal sides. I’ll have to switch the colors to keep them consistent. I said that JJ should be going from Cavanaugh to Jarek:

Here is JJ’s first identified maternal crossover.

Next, I’d like to add in the Rathfelder DNA:

The blue is Rathfelder. The matching segments information is how Heather and JJ match their grandmother. This is the same as the blue Rathfelder segments above. Where there isn’t blue Rathfelder DNA, I have put in yellow Hartley DNA.

Heather’s first Jarek descendant match goes from 85M to 109M:

At this point, I am stuck again:

There is a maternal crossover at 85, but I can’t tell if it belongs to JJ or Heather.

A Spreadsheet For JJ and Heather Using Gedmatch Genesis

At Genesis, I used JJ’s and my own DNA to make two more kits for JJ. One has an M1 designation and one is P1 for maternal and paternal. Genesis has a utility called Segment Search. I’ll use this once for JJ’s maternal matches and once for his paternal matches.

JJ’s Maternal Matches

Here are some of JJ’s maternal matches. I downloaded about 1,000 of them:

I made them pink for maternal. The green matches are the ones over 15 cM. JJ’s largest match above is with Heather. Note that JJ has maternal matches on Chromosome 4 between 80 and 89M. That means that he should not have a maternal crossover at 85M. That means that Heather should have the maternal crossover at 85M. Let’s look at Heather’s maternal results next.

Heather’s Maternal Matches at Genesis

Here are Heather’s Chromosome 4 maternal matches:

Notice that Heather has no matches going through position 85. Actually, Heather has matches going up to 84.3 and then starting again at about the same spot or at 85M. This tells me that Heather has a maternal crossover where I thought.

If I did this right, I should find Cavanaugh ancestor matches for Heather and JJ in their orange areas and Jarek ancestor matches in their green areas of Chromosome 4. Unfortunately, Heather and JJ have small matches in their orange areas which means that the relationships represented by those matches could be quite distant.

Near position 14, there aren’t a lot of matches, so I would be guessing more than usual there as to where the crossover goes. What about the right side of Heather and JJ’s Chromosome 4? First I need to figure out where the crossover is. For that I need to look at how JJ and Heather match each other at full resolution:

Each  ^ is 1M, so the change from all green to more yellow is at about 167.6M. Again, neither JJ nor Heather have good matches in that area, so I can’t tell where their maternal crossover is using that method.

Summary and Conclustions

  • I started looking at JJ’s AncestryDNA test results. I first compared JJ’s ethnicity with what his sister Heather showed. JJ shows a more detailed sub-region in England compared to Heather. JJ shows a Baltic region that Heather doesn’t show and Heather shows a France Region that JJ doesn’t have. The overall effect is the same, but the smaller details vary a bit.
  • I looked at how JJ and Heather compare to eatch other with HIRs, FIRs and no-match areas. Using these, I was able to start to visually phase Heather and JJ. I haven’t been able to identify matches along JJ and Heather’s Cavanaugh maternal grandparent side, so that made the phasing a little more difficult. JJ and Heather’s paternal side is already phased by comparing their results to their Rathfelder grandmother.
  • I downloaded JJ and Heather’s maternal matches from Gedmatch Genesis. Some of these matches were helpful in assigning maternal crossovers for their visual phasing maps.
  • Some other things that I could do would be AutoClustering JJ’s AncestryDNA results, more DNA Painting and more match identification. I would still like to figure out at least one match on JJ or Heather’s Cavanaugh side.

 

 

 

 

 

 

 

Heather’s DNA at Gedmatch Genesis

This is my fourth Blog on my daughter Heather’s DNA. Here are the first three:

  1. A First Look at Heather’s DNA
  2. AutoClustering Heather’s DNA
  3. Heather’s Jarek DNA matches

Heather’s DNA at Genesis

Genesis is the new version of Gedmatch. I uploaded Heather’s DNA there for analysis. I am getting used to Genesis and Genesis is still being upgraded. Heather has three kits at Genesis. I uploaded her DNA from AncestryDNA, then I made two more kits for her. These nest two kits separate out her paternal DNA and her maternal DNA based on my DNA.

Heather’s Maternal Matches

Because I know a lot about my genealogy and DNA matches, I would like to look at Heather’s maternal side matches. Fortunately, Heather’s first four matches (after matching herself) are matches that I discussed in my previous Blog on the Jarek Family. When I look at Heather’s maternal DNA compared to everyone at Genesis, here are the top 5 matches:

The first match is Heather’s maternal side matching with all her DNA. Here is where Heather matches the other four on the list:

Heather and her first four matches have as a common ancestor Joseph Jarek and Marianna Ras.

DNAPainter

It is possible to paint these four matches to Heather using a web utility called DNAPainter. DNAPainter is quite easy to use. I set up a profile for Heather. Here is her blank canvas:

I just told DNA Painter Heather’s name and that she was female. DNA Painter wants to know if Heather is female so it can give her two X Chromosomes.

First, I painted in Heather’s match with Robert:

The common ancestors are Jarek and Ras and they appear on Heather’s maternal side chromosomes in yellow. I painted in the other three matches who appear to be siblings and got this:

That brings Heather up to 2% painted with 26 segment. That 2% includes her paternal and maternal side, so that would be more painted on just her maternal side.

Painting Heather’s Paternal Side

The fastest way to paint in Heather’s paternal side is to paint in her match with my mother:

This quickly gets Heather up to 26% painted. Heather’s X Chromosome should be all blue but for some reason she has a gap in the middle. I added some more paternal matches and got this:

This gets Heather up to 34% painted. Heather’s paternal side is 63% painted and her maternal side is 5% painted.

Betty at Genesis

Heather’s first maternal match after the known yellow Jarek matches painted is Betty. This looks to be Betty’s tree at Ancestry:

I’m skeptical of finding a match with Heather’s tree, but I’ll try Here is the tree I came up with:

I feel as though the connection may be with Annie Parson who was born in England – probably Lancashire County. But I don’t have a solid connection.

Summary and Conclusions

  • I was able to find Heather’s top AncestryDNA Jarek matches at Gedmatch Genesis.
  • I mapped these matches to Joseph Jarek and Marya Ras.
  • I also mapped many of Heather’s paternal matches using DNA Painter.
  • I tried figuring out how Heather’s first unknown match at Gedmatch Genesis fits in. I suspect that it is through Lancashire, England, but I haven’t made an exact connection.

 

 

 

 

Back to the 1700’s With Joyce’s DNA

I was looking at Joyce’s Shared Ancestor Hints today at AncestryDNA. Joyce is my father’s first cousin. Here is an interesting match that Joyce had with Skylar:

This shows that 7 generations ago, Joyce and Skyler had the common ancestors of Samuel Snell and Mary Head. Samuel was born in 1708 and lived most of his life in colonial times. Samuel’s father was also a Samuel. He ran a tavern in Newport and is mentioned in many court cases. Here is a court case where the younger Samuel is also mentioned:

Samuel Snell of Newport, vintner, vs. Thomas Huxham of Newport, butcher, in the custody of the sheriff, for £17:2:9 due by book for money paid, wood, and drink sold and delivered and work done by book for money paid, wood, and drink sold and delivered and work done by the plaintiff’s son and servant Sam at sundry times beginning 16 October 1725 and ending 14 September 1726. Writ dated 16 February 1726[/7]. Accounting dated 8 March 1726/7 included a cord of walnut wood at 12s, money “paid John Platts on your account … my son Samuel helping you,” etc. Credit: mutton, veal, beef, etc. Several bills in the file.

The son and servant Samuel would have been 17 or 18 at the time of incidents mentioned above.

Colonial DNA

Along with the genealogical match there is also a DNA match to Skylar. I found Skylar also posted at Gedmatch. He and Joyce have this match:

Painting Joyce

This DNA can be painted to Joyce with a web tool called DNA Painter.

This is what Joyce’s colonial DNA looks like. This DNA is from Joyce’s Maternal side, so it is painted on the pink part of her Chromosomes 7 and 12. This is less than 1% of Joyce’s DNA. The further back in time the matches are, the smaller the matches are.

Some of Joyce’s English DNA To Go With the Colonial

Here is another of Joyce’s matches. I am more interested in her maternal side as that is where I am related.

This is a closer relationship. James Howorth was born about 1768 and lived in Bacup, Lancashire County, England. Anne is from New South Wales and is a 4th cousin once removed to Joyce.

This gets Joyce up to 1% painted:

Joyce’s Paternal Side

This is the side I’m not related on:

Here is Joyce’s 4th cousin. They appear to be related three different ways, but i’ll just pick the closest relationship. This appears to be Sumner at Gedmatch. Here is the DNA that Joyce and Sumner share at Gedmatch.com:

Now Joyce is all the way up to 2% painted:

The light green didn’t show up well, but it is on Joyce’s paternal side. It is possible that some of these segments could go to Joyce’s other common ancestors with Summer, but that would have to be sorted out later.

Sumner and Joyce Have an X Chromosome Match

Summer and Joyce also match here:

The X Chromosome is interesting as it can only be inherited certain ways. Here is Sumner’s maternal side:

I have circled the likely path of X Chromosome inheritance for Sumner. The X could not be from Philip Winslow as the father does not pass down an X Chromosome to the son. Therefor, it is likely that this match comes from Lucy Chase.

This gets Joyce up to 3% painted. However, I have made a mistake as Lucy is on Joyce’s paternal side.

Summary and Conclusions

  • I started painting Joyce’s DNA
  • I painted two maternal matches and one paternal match
  • The paternal match (Sumner) also had an X Chromosome match with Joyce. This made it possible to trace that match to one likely ancestor instead of an ancestral couple.
  • All this DNA is from people who were born in the 1700’s.

Raw DNA Phasing Six Siblings with One Parent – Part 1 Homozygosity

I have written many Blogs on raw DNA phasing with my siblings and my mother. I have done this phasing using a Whit Athby paper and MS Access. I had my last sibling tested this past Summer, so thought I would see how his phasing would work using this method. The goal of this phasing would be to get four files of data representing the DNA from my four grandparents. I have four such files already, but they were created by M MacNeill a while ago and he didn’t have all my siblings’ data at the time. I would like to learn how to upload these files on my own.

Jim’s Raw DNA

Jim was my last brother to be tested. He was tested at FTDNA as that was the kit I had at the time. The first step is to find Jim’s DNA download from FTDNA and extract it. However, before I do that, I need to know what build to download. As I look at my old blogs, it appears that I was working in Build 37. Gedmatch has historically used Build 36. However, Gedmatch is being migrated to Genesis. Here is a comment I found on Facebook:

All Genesis tools natively work in B37 *meaning that all matching is done based on B37), but we decided to map all of the B37 positions to B36 and B38 when printing out segment start/end positions, with the choice given to the user which to display.

We will begin to migrate this to other tools as soon as we can. I hope you find it useful.

Build 37 DNA

All this to say that I want Build 37. I assume that I used Build 36 for Gedmatch, so I’ll do a new download for Jim:

I chose Build 37 Raw Data Concatenated. Unfortunately, my computer wants me to find an app to extract this file.

In the past, I have used Notepad, so I’ll try that. The gz file is about 6.4 MB. I can see Notepad was the wrong thing to open this with:

So I guess I need Winzip. I downloaded that and then opened Jim’s file. It opened as a csv file, but I saved it as an Excel File as that is what I will be using in Access. Jim has double A DNA:

Actually the DNA at the first position of his tested Chromosome was AA. He got an A from his dad and an A from his mom. Jim has a lot of DNA

This shows that Jim has 720,450 tested DNA positions. That is pretty good. However, there are some positions that don’t have results indicated by –. Between my mother, me and my five siblings there are about 4 million autosomal results to look at.

One thing that I notice that is different from this AncestryDNA file:

AncestryDNA has a separate column for allele 1 and allele 2. That would be better for me as I am trying to separate these alleles out.

This looks better. However, when I try to import this into Access, I get this error:

My guess is that Access does not like the dashes where there are no results. So I’ll take out every dash in Jim’s DNA results. That was close to 60,000 dashes. I tried that, but I still got the error. One on-line suggestion was to compact and repair the database. That seemed to work, but there was this problem:

I didn’t realize that there was a new header at line 702542. That imported like this:

Also for the AncestryDNA files, the X Chromosome shows as Chromosome 23, which should work better. My import to Access took out the ‘X’. After I removed the internal header and changed the X Chromosome to 23, I imported Jim’s raw DNA with no problems.

Giving Jim some Maternal DNA

Now Jim’s DNA is in shape for doing something with it. The next step is pretty simple. Every time my mom has two alleles that are the same, we know that allele is maternal for Jim. I originally tested my mom at FTDNA, so it would make sense to download her DNA from there.

Importing Mom’s DNA to MS Access

I already learned a few things from downloading JIm’s DNA from FTDNA. I used the same steps for my mom, except that I didn’t delete the dashes to see if that would make a difference. That gave me an error, so I deleted the dashes. Now I am in business.

My mom has 711,398 locations tested at FTDNA. This is a bit less than Jim’s  720,450 tested locations.

Next, I want to see what happens if I compare Mom’s ID’s with Jim’s ID’s:

Here at Access I have an equal join between the RSID fields of both tables. That results in 709,632 positions that Jim and Mom have in common. When I compare the positions between the two, I get 712,452. That is more than my mom had, so that doesn’t make sense. Actually, I shouldn’t be comparing by position, because those are positions along each of the 23 chromosomes. There may be repeats. That is good to know.

Where is Mom Homozygous?

If Mom’s Allele #1 is the same as Allele #2, that is called homozygous. I’ll perform this simple query on Mom:

I asked Access to show my where my Mom’s Allele 2 is the same as Allele 1:

Mom has that in 500,995 places. However, next, I need to get rid of the blanks:

I added Is Not Null to the criteria on the Result Column:

That gets me down to 496,136 homozygous positions. That means that more than 2/3 or almost 70% of Mom’s results are homozygous. Those are the alleles that will be Jim’s maternal alleles.

Where is Jim Homozygous?

Where Mom is homozygous, we’ll add a Mom allele to JIm. But first, where Jim is homozygous, we will add a Mom and Dad allele. I created a simple query in Access:

I’m creating two new columns for Jim. One will give me the alleles that Jim got from his Dad and the other will give me the alleles that Jim got from his Mom. In the criteria row I have that Jim’s allele 1 must equal Jim’s allele 2. When that happens, put in Jim’s allele 1 into the column. That gives me this:

 

That gives me over 500,000 rows of paternal and maternal alleles for Jim. However, I do have blanks. When I filter the blanks out, I get 491759 rows. That is a fast way to get almost 1 million alleles for Jim. Next, I’ll make a table of this query in Access. When I do this, I notice that Access has changed my query:

Access liked this better as it was simpler. I would think that JImallele2 does not have to be there twice, so I took one out and got the same result:

Access is trying to teach me to make better queries.

Adding Maternal Alleles from Mom

Here is a summary of where we are for Jim:

 

Just by assigning Jim’s own homozygoius alleles to his paternal and maternal sides, he is now 71% phased. I also see that mom had 496,136 homozygous alleles. These need to be added to Jim’s homozygous results. However, I want to be careful:

  • When I add Mom’s alleles, I don’t want to erase the ones I already gave to Jim
  • There may be homozygous alleles that mom had that Jim didn’t even test for. These could be added to Jim as bonus alleles.
  • In adding mom’s homozygous alleles to Jim’s list, we also have to add in where the position of those alleles are on the Chromosome and the RSID.

First, I note that mom has 496,136 homozygous alleles. This is more than Jim’s homozygous alleles.

First, I’ll create a query for Mom’s homozygous alleles.

Here I want there to be a non-blank result and I want Mom’s allele 1 to be the same as allele2.

Next, I’ll check to see how many of Jim’s homozygous alleles are the same as mom’s homozygous alleles.

I’ll do this by an equal join on the RSID which is a unique identifier. Here is what I get from this query:

However, there are still blanks there. I had trouble getting rid of the blanks, but I can temporarily get rid of them by filtering the results.

This gets rid of about 17,000 blanks.

This tells me that Mom has 496,136 homozygous alleles, but 381,721 of those Jim already has. That means we need to add 114,415 maternal alleles to Jim’s list. That would get his AllelesFromMom up to 606,174.

Next, I want to get a list of all of Mom’s homozygous alleles that Jim doesn’t have, so we can add them to Jim’s list. There is a little trick to getting this in
Access. First I create an unequal join:

 

On the query above on the left are all of Mom’s homozygous alleles On the right are Jim’s homozgous alleles that match Mom’s homozygous alleles. The #2 radio box is checked. That means I want everything on Mom’s side and everything where the RSID’s are equal. However, in the criteria, I’ll put an ‘is null’ on JIm’s side:

This adds 97,451 of Mom’s homozygous alleles to JIm. This is less than the 114,415 that I was looking for. One guess is that these are positions that Mom had tested that Jim did not. Somewhere I lost 7,000 of Mom’s homozygous alleles. Or this may have to do with the blanks in some of the tables. I was able to get rid of the blanks in Jim’s table and the new number came out right:

Adding 114,000 Maternal Alleles to Jim

Now that I’ve found 114,000 maternal alleles for JIm, I’d like to add them to his table. There are probably a few ways to do this in Access. One way is called Append Table. I’ll try that as I will need that later on in the process. If only I remembered how to do that. I could put Jim’s table into Excel and just add Mom’s table. However, I’m not sure Excel will appreciate the large files.

The directions that I found for Append Query said to use the data you want to copy first. That was in this Query:

What I want to add is from a Query called Mom Homo Jim Missing. These were Mom’s extra alleles. I chose to append these to a table called Jim Homozygous. But on second thought, I want it going to a new table, so I’ll copy Jim Homozygous and call it Jim Plus Mom Homozygous. First I want to review the results using the view button. I guess it looks right. It only shows the records to be added. Then I push Run and I get a warning saying that this cannot be undone.

Here is what the Appended Table looks like:

This is the point at which the appending took place. What I wasn’t expecting was that Access added the ID. This is the ID that Access originally assigned to the raw data. So now I have Jim’s ID’s and Mom’s ID’s in the same Table.

Phased Allele Update Alert

These two operations based on homozygosity alone put Jim’s phased alleles at over one million. Bing, bing, bing. Jim is already almost 80% phased. Maternally, he is close to 88% phased.

Other Phasing – Visual

I’m not the most experienced raw data phaser in the world, but I have worked on three, four five, and now six sibling raw data phasing. I have also done a lot of work with three, four, five and six sibling Visual Phasing. Here is Chromosome 1 using the Steven Fox Spreadsheet:

I can use the raw data phasing to confirm the Visual Phasing. I can also use the Visual Phasing to know where to look for crossovers. For example, I already see a problem with the map above in the bottom right corner. I will need to change the crossover designations there.

The other reason stated at the top of the Blog is that I should be able to create a file to upload to Gedmatch for each of these four grandparents. That could make searching for DNA matches easier.

Summary and Conclusions

  • I started phasing the sixth of six siblings based on homozygosity.
  • Using homozygosity alone, I got my brother Jim up to 80% phased.
  • Raw data phasing is considered an advanced topic, but the basics are quite simple. If you have two alleles that are the same, one must be from your father and one from your mother. If you are a parent and you have two alleles that are the same, you had to have passed down that same allele to your child.
  • I also used MS Access which is best suited for large databases.
  • My goal is to get four grandparent files to upload to Gedmatch (or Genesis). In the past, I have run out of steam on these projects.
  • I will be able to use my past work on visual phasing as a roadmap to finding crossovers and assigning grandparents.
  • I should be able to use my past raw data phasing experience to streamline the process.
  • With six siblings, I am expecting good results. However, as in the Visual Phasing process, the more siblings you have, you will have more combinations of sibling comparisons you have to look at.
  • Next up, I expect to look at heterozygosity.

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

Visual Phasing Six Siblings with the Fox Spreadsheet: Part 20: Chromosome 19

I feel like I’m getting near the end of this series. So far, I have been able to solve the first 18 Chromosomes plus the X Chromosome.

Chromosome 19

Here is my first cut at crossover lines assigned to me and my five siblings:

The crossovers seemed straightforward. Actually, I think that there is an additional crossover for Jon (F) at the very end.

Adding Position Numbers to the Crossovers

Next I add the position numbers to the crossovers:

I didn’t have any easy position answer for the first and last crossovers. I could get this from Gedmatch.

Cousin Matches

I hope that I have enough cousin matches to solve Chromosome 19. I need at least one paternal match and one maternal match to solve the Chromosome. It looks like I should have one of each, so that is good. One of the best cousin matches is with Rathfelder cousin Anita:

This is a conservative rendition of her match. Jim, Jon and Sharon will also have Lentz DNA where they do not match Anita (in the area where Anita matches Heidi).

Here is Hartley cousin James’ matches with my family:

This may be enough to solve Chromosome 19:

Note that Jon and Sharon have a HIR for most of the Chromosome:

This is true except for the very ends of the Chromosome where Sharon has a crossover on the left and Jon has one on the right. Here is how that works out:

To be HIR, that means that two siblings have the same DNA from one grandparent and that they have different grandparent DNA on the other side. It turns out that Sharon and Jon share the same Lentz DNA but Jon has Hartley DNA and Sharon has Frazer DNA on the paternal side.

I got this far:

I don’t think that Jon really has a crossover on the right. Here is a close-up of the comparison of Jon (F) and Sharon on the right side of the Chromosome:

Jon and Sharon were HIR for most of the Chromosome. If Jon has a crossover, then their comparison would have to to either FIR or NIR. If this is a NIR, then I should see some red and I don’t. Now, I’m changing my mind back. Perhaps Jon does has a small FIR. If Jon has a Fully Identical Region with Sharon, then he would have a HIR with his other siblings:

 

The F & S comparison looks greener on the end compared to the other F comparisons.

This image doesn’t give enough detail to see the small crossovers, but shows that overall, I had the right idea with the visual phasing:

Summary and Conclusions

  • Heidi had a full Frazer Chromosome.
  • Jon and Sharon both had a full Lentz Chromosome.
  • Jon either had a full Hartley Chromosome or nearly full Hartley Chromosome.
  • I spent some time figuring out whether or not Jon had a crossover near the end. It was a judgement call and amounts to bug dust as it is such a small inconsequential piece of DNA.
  • Anita was our only maternal match, so she was very important for the solving of this Chromosome.