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afbarwaaqo
02-20-2020, 07:13 AM
and if so what would be the percentage?

Censored
02-20-2020, 07:50 AM
No.

sample": "Somali:Average",
"fit": 4.9573,
"Dinka": 54.17,
"Levant_Natufian": 30.83,
"Levant_JOR_EBA": 11.67,
"MAR_Taforalt": 3.33,
"IRN_Ganj_Dareh_N": 0,
"MAR_EN": 0,

"sample": "Somali_Kenya:Average",
"fit": 4.7489,
"Dinka": 57.5,
"Levant_Natufian": 25,
"Levant_JOR_EBA": 14.17,
"MAR_Taforalt": 3.33,
"IRN_Ganj_Dareh_N": 0,
"MAR_EN": 0,

RCO
02-20-2020, 06:22 PM
Scientists like Pontus Skoglund can say yes: https://twitter.com/pontus_skoglund/status/1098503263886946304/photo/1
J1 brought the Iranian component in my opinion.

sum1
02-20-2020, 06:26 PM
No we have none.

drobbah
02-20-2020, 06:39 PM
No.

sample": "Somali:Average",
"fit": 4.9573,
"Dinka": 54.17,
"Levant_Natufian": 30.83,
"Levant_JOR_EBA": 11.67,
"MAR_Taforalt": 3.33,
"IRN_Ganj_Dareh_N": 0,
"MAR_EN": 0,

"sample": "Somali_Kenya:Average",
"fit": 4.7489,
"Dinka": 57.5,
"Levant_Natufian": 25,
"Levant_JOR_EBA": 14.17,
"MAR_Taforalt": 3.33,
"IRN_Ganj_Dareh_N": 0,
"MAR_EN": 0,

Some Somali samples do score Neolithic Iranian and some don't




Target: Somali_Kenya:Ayodo_21S
Distance: 4.9152% / 0.04915239
49.8 Dinka
38.2 Levant_Natufian
9.8 ETH_4500BP
1.2 IRN_Ganj_Dareh_N
1.0 MAR_Taforalt

Target: Somali:SOMALI7
Distance: 5.1291% / 0.05129056
48.8 Dinka
43.4 Levant_Natufian
6.6 ETH_4500BP
1.2 IRN_Ganj_Dareh_N

Target: Somali:SOMALI6
Distance: 5.0137% / 0.05013654
51.8 Dinka
43.2 Levant_Natufian
2.2 IRN_Ganj_Dareh_N
1.4 ETH_4500BP
1.4 Yamnaya_KAZ_Mereke

Target: Somali:SOMALI13
Distance: 4.9523% / 0.04952287
50.2 Dinka
42.6 Levant_Natufian
5.2 ETH_4500BP
1.2 IRN_Ganj_Dareh_N
0.8 Simulated_AASI

Target: Somali_Kenya:Ayodo_43S
Distance: 4.7854% / 0.04785393
42.8 Levant_Natufian
41.0 Dinka
13.2 ETH_4500BP
2.2 IRN_Ganj_Dareh_N
0.8 MAR_Taforalt

Target: Somali:SOMALI14
Distance: 4.6982% / 0.04698227
48.0 Dinka
42.6 Levant_Natufian
6.0 ETH_4500BP
3.4 IRN_Ganj_Dareh_N

Target: Somali:SOMALI13
Distance: 4.9523% / 0.04952287
50.2 Dinka
42.6 Levant_Natufian
5.2 ETH_4500BP
1.2 IRN_Ganj_Dareh_N
0.8 Simulated_AASI

Target: Somali:SOMALI1
Distance: 5.2547% / 0.05254678
50.0 Dinka
42.6 Levant_Natufian
4.8 ETH_4500BP
2.0 MAR_Taforalt
0.6 IRN_Ganj_Dareh_N

Target: Drobbah_scaled
Distance: 5.1735% / 0.05173497
45.4 Dinka
42.0 Levant_Natufian
11.2 ETH_4500BP
1.2 IRN_Ganj_Dareh_N
0.2 MAR_Taforalt

Target: Mother_scaled
Distance: 5.5374% / 0.05537429
51.0 Dinka
44.0 Levant_Natufian
3.6 ETH_4500BP
1.4 IRN_Ganj_Dareh_N

drobbah
02-20-2020, 06:53 PM
and if so what would be the percentage?

Between 0-3% depending on the individual

Ajeje Brazorf
02-20-2020, 06:56 PM
That depends. When a Middle Eastern component is not included in the models, Ganj Dareh ranges from 2% to 7%. Otherwise there isn't.

drobbah
02-20-2020, 07:08 PM
When it comes to Somalis in the 3% range, some of the Kenyan Somalis received Iran_N via Oromos and others it seems directly from Arabian sources.

Most probably from an Oromo source

Target: Somali_Kenya:Ayodo_43S
Distance: 4.7854% / 0.04785410
42.4 Levant_Natufian
41.0 Dinka
13.0 ETH_4500BP
2.4 IRN_Ganj_Dareh_N
1.2 MAR_Taforalt

Oromos in comparison
Target: Ethiopian_Oromo:OROMO8
Distance: 4.7131% / 0.04713136
41.0 Levant_Natufian
37.2 Dinka
18.4 ETH_4500BP
3.4 IRN_Ganj_Dareh_N

Target: Ethiopian_Oromo:OROMO13
Distance: 4.4146% / 0.04414612
49.4 Levant_Natufian
30.0 Dinka
17.0 ETH_4500BP
3.6 IRN_Ganj_Dareh_N




Most probably from Arabian source
Target: Somali:SOMALI6
Distance: 5.0137% / 0.05013654
51.8 Dinka
43.2 Levant_Natufian
2.2 IRN_Ganj_Dareh_N
1.4 ETH_4500BP
1.4 Yamnaya_KAZ_Mereke

Target: Somali:SOMALI14
Distance: 4.6982% / 0.04698227
48.0 Dinka
42.6 Levant_Natufian
6.0 ETH_4500BP
3.4 IRN_Ganj_Dareh_N

Target: Somali:SOMALI4
Distance: 4.6124% / 0.04612446
48.0 Dinka
40.8 Levant_Natufian
6.2 ETH_4500BP
3.0 IRN_Ganj_Dareh_N
2.0 MAR_Taforalt

dr.sparco
02-28-2020, 08:00 AM
Between 0-3% depending on the individual

What about the ethio-semitic people from the Tigray region or Eritrea? Do they score like Somalis none to little iranian-neolithic ancestry?

drobbah
02-28-2020, 08:34 AM
What about the ethio-semitic people from the Tigray region or Eritrea? Do they score like Somalis none to little iranian-neolithic ancestry?

Amharas are on average 6% Iran_N while the Ethio_Tigrays/Eritreans are usually around 8%.

dr.sparco
02-28-2020, 08:52 AM
Amharas are on average 6% Iran_N while the Ethio_Tigrays/Eritreans are usually around 8%.

Do you know why Somalis compared to Amahara/Tigray or Eritreans score less to none Iran_N?

Mnemonics
02-28-2020, 10:40 AM
Amhara have significant Arabian ancestry which carries Iran_N. Somalis generally don't have much arabian ancestry so most Somalis have negligible amounts it.

drobbah
02-28-2020, 02:00 PM
Do you know why Somalis compared to Amahara/Tigray or Eritreans score less to none Iran_N?
Somalis are a Cushitic people who didn't receive any significant Semitic migrations into their territory.The individuals that score Iran_N got it recently either through Arabian sources or through Ethiopian/Afar sources.My mother for example only scores 1.6% Iran_N because her great grandmother was Yemeni.

konian lusitanum
02-29-2020, 06:17 AM
you right anyone with Neolithic ancestry have natufian dna , i got 7%

dr.sparco
02-29-2020, 01:51 PM
Somalis are a Cushitic people who didn't receive any significant Semitic migrations into their territory.The individuals that score Iran_N got it recently either through Arabian sources or through Ethiopian/Afar sources.My mother for example only scores 1.6% Iran_N because her great grandmother was Yemeni.

Thanks for the answers. I used to think that Cushitic and Semitic speakers from the Horn share the same Western Eurasian ancestry but only in varying percentages.

Mnemonics
06-05-2020, 10:30 PM
Minor update on the subject of Iranian neolithic ancestry in Somalis. I have been trying out some high snp qpadm models for Somalis using only the sample that was closest to the Somali average on G25 (Ayodo_34S). Somalis can be modeled significantly better as Dinka + Yemeni Jews (chisq: 2.826 tail 0.900630029) than as Dinka + Levant_PPNB (chisq: 5.487 tail 0.600767663). I don't know if this is indicative of actual Iranian Neolithic ancestry, but I thought it was interesting.

J Man
06-06-2020, 03:46 PM
Is there any Y-DNA haplogroup J2 among Somalis?

sum1
06-06-2020, 08:13 PM
Minor update on the subject of Iranian neolithic ancestry in Somalis. I have been trying out some high snp qpadm models for Somalis using only the sample that was closest to the Somali average on G25 (Ayodo_34S). Somalis can be modeled significantly better as Dinka + Yemeni Jews (chisq: 2.826 tail 0.900630029) than as Dinka + Levant_PPNB (chisq: 5.487 tail 0.600767663). I don't know if this is indicative of actual Iranian Neolithic ancestry, but I thought it was interesting.
Yemeni Jews are closer to the Eurasian component as they are more Natufian rich than PPNB along with having some minor Dinka like admixture so the better runs are just a result of that.

Target: Somali
Distance: 6.8281% / 0.06828103
57.8 Dinka
42.2 Levant_PPNB

Target: Somali
Distance: 6.5894% / 0.06589388 | ADC: 0.25x
56.2 Dinka
43.8 Yemenite_Jew

Distance to: Somali
0.30303691 Dinka
0.38095883 Yemenite_Jew
0.41084585 Levant_PPNB

Target: Yemenite_Jew
Distance: 4.5583% / 0.04558259 | ADC: 0.25x
61.2 Levant_Natufian
34.2 IRN_Seh_Gabi_C
4.6 IRN_Ganj_Dareh_Historic

Target: Levant_PPNB
Distance: 3.0344% / 0.03034353 | ADC: 0.25x
54.2 Levant_Natufian
44.8 TUR_Barcin_N
1.0 IRN_Seh_Gabi_C




Is there any Y-DNA haplogroup J2 among Somalis?

There isn't as far as I'm aware, J1 is found in small frequencies but is likely of recent Arabian Origin.

Mnemonics
06-06-2020, 10:58 PM
Yemeni Jews are closer to the Eurasian component as they are more Natufian rich than PPNB along with having some minor Dinka like admixture so the better runs are just a result of that.

I thought that might be the case, or it might be a result of different damage rates. To test that I ran a qpadm model including PPNB samples and the GanjDareh_N samples and it also significantly improved the model:

Chisquare: 3.749, Tail: 0.710617

although the std errors were pretty bad for the Eurasian component.

15.2% +/- 8.9% for GanjDareh and 26.7% +/- 9% for PPNB

ThaYamamoto
06-06-2020, 11:19 PM
Wouldn't using Gumuz or Mursi vastly improve the fit ? - modern Dinka are far too West-African shifted...actually not even modern, their West-African affinity is very ancient.

Mnemonics
06-06-2020, 11:42 PM
Wouldn't using Gumuz or Mursi vastly improve the fit - modern Dinka are far too West-African shifted.

I'm using the Reich labs HO dataset which is missing the Pagani samples, like Gumuz and Mursi.

drobbah
06-07-2020, 12:00 AM
Wouldn't using Gumuz or Mursi vastly improve the fit ? - modern Dinka are far too West-African shifted...actually not even modern, their West-African affinity is very ancient.

Those groups are probably too Omotic admixed as well.There is no perfect proxy for the Saharan ancestry of Horners

Mnemonics
06-07-2020, 12:37 AM
Another surprisingly well fitting model, Ayodo_34s can be modeled as 60% Dinka 40% Kura Araxes and despite the lack of Dinka-like ancestry, the model's fit is even better than models using Yemeni Jews or Muslim Yemenis!

(Chisquare: 2.551, Tail prob: 0.923207, Std errors: 0.013 0.013 )

Edit: I seem to have accidentally removed MA1 from my outgroups. I'll try it out again but these inflated Iranian ancestry models were possibly a result of the lack of an ANE group in the right pops.
Edit2: Kura Araxes and MA1 have a Z-score greater than 3, so I may try leaving it out.

pgbk87
06-07-2020, 07:37 PM
Those groups are probably too Omotic admixed as well.There is no perfect proxy for the Saharan ancestry of Horners

Have the Nuba been used as a proxy? I doubt that the fit would be much better.

Mnemonics
06-07-2020, 11:05 PM
Have the Nuba been used as a proxy? I doubt that the fit would be much better.

If I remember correctly the the paper that published the Nuer samples used an array with poor overlap with the other samples in the dataset, which is why they are not in G25.


Another update on the weirdly fitting qpadm model for Somalis (Dinka + Kura Araxes). I tried out a variety of right populations and this model seems very robust. It is consistently better than modelling Somalis as Dinka + Levant_PPNB. I tried using only modern distantly related groups in right pops list and the model still had a better fit compared to PPNB.

PPNB: Chisquared: 9.347 Tail: 0.0959847688


Kura Araxes: Chisquared: 6.479 Tail: 0.262346

sum1
06-08-2020, 03:16 PM
If I remember correctly the the paper that published the Nuer samples used an array with poor overlap with the other samples in the dataset, which is why they are not in G25.


Another update on the weirdly fitting qpadm model for Somalis (Dinka + Kura Araxes). I tried out a variety of right populations and this model seems very robust. It is consistently better than modelling Somalis as Dinka + Levant_PPNB. I tried using only modern distantly related groups in right pops list and the model still had a better fit compared to PPNB.

PPNB: Chisquared: 9.347 Tail: 0.0959847688


Kura Araxes: Chisquared: 6.479 Tail: 0.262346


Can you do the same runs but with the Early pastoralists?

ThaYamamoto
06-08-2020, 04:35 PM
Kura-Araxes preferred over Levant is crazy...really need more N/E Africa studies man.

sum1
06-08-2020, 10:30 PM
@Mnemonics

https://populationgenomics.blog/2019/12/30/is-there-really-basal-eurasian-and-or-iranian-caucasus-related-ancestry-in-anatolias-first-hunters-and-farmers-maybe-not/

A poster on this forum also did some runs but on Mbuti and showed that how adding modern African and EA populations to outgroup populations can produce weird results like Mbuti showing up as 30% Eurasian including a substantial amount of Iranian Neolithic like Ancestry which clearly is false.

Here's what he wrote- " The graph above would be even worse if I added a modern East Asian like the Onge. Ths would require Onge admixture to the Mbuti too. All-in-all, I think this shows that if you include an African or modern Asian in your graph to start, you are already setting yourself up for issues here that might affect the outcome. While Chimp is maybe not completely ideal as an outgroup, it is more inline with the graph that has no African or Chimp in it. The stats line up much better with the graph. Not only that, it is apparent that any deep ancestry not covered within in the Ust_Ishim, West, East branching is still easily detectable without Chimp or an African outgroup in the graph."

Mnemonics
06-09-2020, 04:24 AM
@Mnemonics

https://populationgenomics.blog/2019/12/30/is-there-really-basal-eurasian-and-or-iranian-caucasus-related-ancestry-in-anatolias-first-hunters-and-farmers-maybe-not/

A poster on this forum also did some runs but on Mbuti and showed that how adding modern African and EA populations to outgroup populations can produce weird results like Mbuti showing up as 30% Eurasian including a substantial amount of Iranian Neolithic like Ancestry which clearly is false.

Here's what he wrote- " The graph above would be even worse if I added a modern East Asian like the Onge. Ths would require Onge admixture to the Mbuti too. All-in-all, I think this shows that if you include an African or modern Asian in your graph to start, you are already setting yourself up for issues here that might affect the outcome. While Chimp is maybe not completely ideal as an outgroup, it is more inline with the graph that has no African or Chimp in it. The stats line up much better with the graph. Not only that, it is apparent that any deep ancestry not covered within in the Ust_Ishim, West, East branching is still easily detectable without Chimp or an African outgroup in the graph."

Thanks for the tip. I'll try replacing the modern Asian pops with ancients that are lacking this weird affinity.

dr.sparco
06-09-2020, 06:19 AM
If I remember correctly the the paper that published the Nuer samples used an array with poor overlap with the other samples in the dataset, which is why they are not in G25.


Another update on the weirdly fitting qpadm model for Somalis (Dinka + Kura Araxes). I tried out a variety of right populations and this model seems very robust. It is consistently better than modelling Somalis as Dinka + Levant_PPNB. I tried using only modern distantly related groups in right pops list and the model still had a better fit compared to PPNB.

PPNB: Chisquared: 9.347 Tail: 0.0959847688


Kura Araxes: Chisquared: 6.479 Tail: 0.262346

There was a study that modelled the non-African component in Ethiopians as a mixture of ~85% Anatolian_N and ~15% CHG composition of ancestries. According to the authors, the Non-African admixture in Ethiopians is rather Minoan-like than Levantine or Yemenite Jewish-like. Furthermore, the West Eurasian admixture in Ethiopian Somali is better characterized as 92% of Anatolia_N and 8% of CHG when going by this study. However, since they came to the very strange conclusion that the source for the Western Eurasian ancestry of Ethiopians was linked to the Sea Peoples, many on anthrogenica dismissed this paper. What do you think?



https://www.nature.com/articles/s41598-019-55344-y

Mnemonics
06-09-2020, 08:17 AM
There was a study that modelled the non-African component in Ethiopians as a mixture of ~85% Anatolian_N and ~15% CHG composition of ancestries. According to the authors, the Non-African admixture in Ethiopians is rather Minoan-like than Levantine or Yemenite Jewish-like. Furthermore, the West Eurasian admixture in Ethiopian Somali is better characterized as 92% of Anatolia_N and 8% of CHG when going by this study. However, since they came to the very strange conclusion that the source for the Western Eurasian ancestry of Ethiopians was linked to the Sea Peoples, many on anthrogenica dismissed this paper. What do you think?



https://www.nature.com/articles/s41598-019-55344-y

I've always thought that study was inadvertently demonstrating that Levant_N is basically Anatolian_N + something more Basal. They may have chosen to link this Anatolian-like ancestry to the Sea peoples due to the fact that they are sticking to the 3000 year old admixture date. If you are stuck in that framework it would seem like a possible explanation if you weren't very familiar with the linguistic and archaeological history of the region.

I wonder what would happen if you tried the same "deconvolution" method on Levant_N itself.

dr.sparco
06-09-2020, 11:52 AM
I've always thought that study was inadvertently demonstrating that Levant_N is basically Anatolian_N + something more Basal. They may have chosen to link this Anatolian-like ancestry to the Sea peoples due to the fact that they are sticking to the 3000 year old admixture date. If you are stuck in that framework it would seem like a possible explanation if you weren't very familiar with the linguistic and archaeological history of the region.

I wonder what would happen if you tried the same "deconvolution" method on Levant_N itself.


Yep. The authors of this paper obviously picked up Pagani's 3000-year-old admixture date. Hence this estimation influenced their interpretation of the data and they conclude that the Sea people had a genetic impact on Ethiopians. Which is extremely unlikely. However, Paganis estimation just reflects rather a late admixture of Semitic people from Yemen with native Cushitic speakers. It makes perfect sense that Ethio-Semites obtained an additional 20% - 25 % Semitic/Arabic admixture 3000 years ago. Having said that I used to think that Somalis have also this additional Arabic genetic input but I was wrong. It's really extremely surprising that Minoan-like people seem to be a better population source to model the Non-African component in modern Ethiopians than Yemenite Jews. I wonder whether the 5-15% Cushitic/East African admixture in Yemenite Jews is responsible for making them a poorer fitting source?

Mnemonics
06-10-2020, 04:55 AM
New Update on the qpadm model: Sum1's tip led me to try leaving out modern Asian groups due to their affinity for Africans. I tried using decent coverage ancient samples from similar regions, replacing Karitiana with LapaDoSanto_9600BP etc..

This change led to an increased affinity for PPNB but the best fit was PPNB + KuraAraxes. This fit is suspiciously good.

numsnps: 313793 Chisq: 0.854 Tail Prob: 0.990544717

Coefficients: 0.616 ( Dinka ) 0.281 ( PPNB ) 0.103 ( KuraAraxes )

Std Errors: 0.008, 0.046, 0.043

I'm not quite sure if my right pops are the right populations for this analysis. I'll list them here so someone more familiar with these populations can tell me if they are alright.

Tianyuan
LapaDoSanto_9600BP
Mbuti
CHG
Yana_UP
Villabruna
Kostenki14
Vestonice16
Sunghir4

I used the following Ayodo Somali samples: 69S, 43S, 52S, 61S, 41S, 40S, 34S, 35S.


The Early pastoralists are rejecting any KuraAraxes admixture.

blackflash16
06-10-2020, 12:53 PM
New Update on the qpadm model: Sum1's tip led me to try leaving out modern Asian groups due to their affinity for Africans. I tried using decent coverage ancient samples from similar regions, replacing Karitiana with LapaDoSanto_9600BP etc..

This change led to an increased affinity for PPNB but the best fit was PPNB + KuraAraxes. This fit is suspiciously good.

numsnps: 313793 Chisq: 0.854 Tail Prob: 0.990544717

Coefficients: 0.616 ( Dinka ) 0.281 ( PPNB ) 0.103 ( KuraAraxes )

Std Errors: 0.008, 0.046, 0.043

I'm not quite sure if my right pops are the right populations for this analysis. I'll list them here so someone more familiar with these populations can tell me if they are alright.

Tianyuan
LapaDoSanto_9600BP
Mbuti
CHG
Yana_UP
Villabruna
Kostenki14
Vestonice16
Sunghir4

I used the following Ayodo Somali samples: 69S, 43S, 52S, 61S, 41S, 40S, 34S, 35S.


The Early pastoralists are rejecting any KuraAraxes admixture.

Have you had any luck with Taforalt/Iberomaurusians in the right pops? I find that it becomes much more difficult to model East Africans when you include them.

EDIT:

These are the best 3-way model I was able to get:

Right Pops:
Cameroon_Shum_Laka_8100BP
Yoruba.DG
South_Africa_2000BP.SG
Anatolia_HG
China_Tianyuan
Czech_Vestonice16
Russia_Ust_Ishim.DG
CHG
Italy_North_Villabruna_HG
Morocco_Iberomaurusian


numsnps used: 403870
chisq: 8.77 tail: 0.27
Somali: 59.4% (+/- 1.1%) Dinka + 34.9%(+/- 1.3%) Israel_C + 5.7% (+/- 0.9%) Morocco_EN


Minoans, albeit a poor fit, worked:

numsnps used: 406672
chisq: 12.0 tail: 0.09
Somali: 60.1% (+/- 1.1%) Dinka + 32% (+/- 1.2%) Minoan_Lassithi + 7.9% (+/- 0.9%) Morocco_EN

Levant PPNB and KuraAraxes failed in the 3-way model.

Mnemonics
06-10-2020, 06:57 PM
There is something about including Iberomaurusian or MA1 in the right pop list that consistantly worsens the fit for me. Can you try switching out Yoruba with something else, the shared drift with Iberomaurusian might be worsening your fit.

sum1
06-10-2020, 07:28 PM
There shouldn't be a difference in the source of Eurasian ancestry for Early Pastoralists versus later cushities unless were missing something big.

If there are wide variances in the models then they are lacking in some way.

Mnemonics
06-12-2020, 04:06 AM
Minor question, are the Late/Middle-Late PPNB samples admixed with something else. Including them in my PPNB sample makes results in drastically different models.

Kale
06-12-2020, 04:20 AM
New Update on the qpadm model: Sum1's tip led me to try leaving out modern Asian groups due to their affinity for Africans. I tried using decent coverage ancient samples from similar regions, replacing Karitiana with LapaDoSanto_9600BP etc..

This change led to an increased affinity for PPNB but the best fit was PPNB + KuraAraxes. This fit is suspiciously good.

numsnps: 313793 Chisq: 0.854 Tail Prob: 0.990544717

Coefficients: 0.616 ( Dinka ) 0.281 ( PPNB ) 0.103 ( KuraAraxes )

Std Errors: 0.008, 0.046, 0.043

I'm not quite sure if my right pops are the right populations for this analysis. I'll list them here so someone more familiar with these populations can tell me if they are alright.

Tianyuan
LapaDoSanto_9600BP
Mbuti
CHG
Yana_UP
Villabruna
Kostenki14
Vestonice16
Sunghir4

I used the following Ayodo Somali samples: 69S, 43S, 52S, 61S, 41S, 40S, 34S, 35S.


The Early pastoralists are rejecting any KuraAraxes admixture.

Try this as a right-pop list...

Barcin_N or Anatolia-Epipaleolithic
Iran_N
CHG
Taforalt
an ancient New World pop
an East-Asian pop (Boisman_MN is a good one)
Karelia_HG
Iron_Gates_HG
Mota
ShumLaka
South_Africa_2000BP

pgbk87
06-12-2020, 01:45 PM
Do the Mehri of Yemen/Oman help the fit?

Mnemonics
06-12-2020, 01:47 PM
Here are the right pops I used for the 3 way model(Dinka+ PPNB + KuraAraxes)

Barcin_N
Iran_N
CHG
Taforalt
Brazil_LapaDoSanto_9600BP
Tianyuan
Karelia_HG
Serbia_Iron_Gates_HG
Mota
Cameroon_SMA.DG
South_Africa_2000BP

Dinka + PPNB + KuraAraxes

Chisquare: 41.525 Tail: 1.6613e -06 Coefficients: 0.638 0.303 0.058 std errors: 0.007, 0.021, 0.021

Dinka + PPNB

Chisquare: 51.444 Tail: 5.75818e -08 Coefficients: 0.64 0.360 0.000

Both models failed but PPNB + KuraAraxes fits better.


After removing Iberomaurusian from the right pops


Dinka + PPNB + KuraAraxes

Chisquare: 12.852 Tail: 0.0757886218 Coefficients: 0.636 0.263 0.101 std errors: 0.007, 0.020, 0.021

Dinka + PPNB

Chisquare: 35.331 Tail: 2.32685e -05 Coefficients: 0.641 0.359 0.000

Mnemonics
06-12-2020, 08:59 PM
Do the Mehri of Yemen/Oman help the fit?

I don't have the Mehri samples but I tried out a variety of Yemeni groups, The african admixed muslim Yemenis had slightly improved the fit but they were worse than Kura Araxes.

Mnemonics
06-20-2020, 01:31 AM
I've been trying out gradually increasing the right pops list with relevant populations using the 1240K dataset and ALLSNPS:YES.

Left Pops

Somali.DG
Dinka.DG
PPNB
KuraAraxes
Morroco_Iberomaurusian

Right pops

Brazil_LapaDoSantos_9600BP
CHG
Israel_C
Iran_N
Israel_Natufian
Russia_HG_Karelia
Serbia_Mesolithic_IronGates
Cameroon_SMA.DG
Yana_UP.SG
Czech_Vestonice16
Russia_MA1_HG.SG
WHG
Belgium_UP_GoyetQ116_1_published


Coefficients: 0.545, 0.259, 0.067, 0.129
Std. Errors: 0.022, 0.030, 0.023, 0.045
Chisquare: 5.894 Tail Prob: 0.880323742

Mnemonics
06-27-2020, 01:04 PM
I've finally managed to stitch together my own DNA samples to get a high snp (1078999) qpAdm model of myself to compare it to the Somali.DG. That sample is apparently fairly unrepresentative of most Somalis as it can be modeled as 62.4-60% Dinka, whereas I am modeled as around 55-58. Oddly enough we are both modeled with around the same amount of PPNB ancestry(29.4% vs 29.5%) but I seem to have quite a bit more KuraAraxes (9.6% vs 13%). I seem to have negligible Mota ancestry. Minoan_Lassithi and Iran_ChL also work but rotating them and KuraAraxes in and out of the right pops list results in barely plausible/failed models when KuraAraxes is not one of the sources.




Right pops

Anatolia_N
Brazil_LapaDoSanto_9600BP
CHG
Iran_N
Boisman_MN
Russia_HG_Karelia
Serbia_Mesolithic_IronGates
Cameroon_SMA
Yana_UP
MA1
Iberia_HG
Villabruna
South_Africa_2000BP

Left Pops
Dinka.DG
PPNB
KuraAraxes


Somali.DG: Chisquare (4.075) Coefficients ( 0.609, 0.295, 0.096 ) Std Errors(0.010, 0.029, 0.029)

Tail (0.943879)

Mnemonics: Chisquare (3.995) Coefficients (0.576, 0.293, 0.13 ) Std Errors(0.010, 0.028, 0.028)

Tail (0.947584)



Whatever is causing this affinity to KuraAraxes it seems like it might be legit.

EDIT: Modern Armenians seem to work even better.

Mnemonics
06-28-2020, 09:26 PM
This is what I get with a tighter right pop list:

Right: Anatolia_N_Published, Iberia_HG, Serbia_Mesolithic_IronGates, South_Africa_2000BP, Russia_HG_Karelia, Cameroon_SMA, Boisman_MN, CHG, Brazil_LapaDoSanto_9600BP, Mota(for my sample since I have negligible Mota)
Left: Dinka, PPNB, Armenian


Somali.DG: Chisquare: 0.946 Coefficients: 0.612 0.272 0.116 Std Errors: 0.011 0.037, 0.035

Tail: 0.987570228

Mnemonics: Chisquare: 1.742 Coefficients: 0.581 0.264 0.155 Std Errors: 0.010, 0.037, 0.034

Tail: 0.972743


Edit: It seems that both the Masai's and the Early pastoralist's Eurasian is entirely Levantine whereas the latter pastoralist and Somali's Eurasian includes this Armenian-like admixture.

Mnemonics
07-01-2020, 06:48 AM
I tried running the qpfstat version of qpAdm released with AdmixTool 7.0

Left Populations: Somali.DG, Dinka.DG, Levant_PPNB, Kura_Araxes

Right Populations: Anatolia_N_Published, Kostenki14, Serbia_Mesolithic_IronGates, CHG, Brazil_LapaDoSanto_9600BP, Cameroon_SMA, Russia_HG_Karelia

Chisquare: 1.307 Tail: 0.860104 Proportions : 62.3% +/- 1.1% 24.5% +/- 3.3%, 13.3% +/- 3.3%

Mnemonics
11-16-2020, 11:23 PM
I have had some free time to create better qpadm models and I am starting to feel pretty convinced that the bulk of the Eurasian in Somalis and the Pastoralists is Levant_BA/Egyptian related (40-42%) with a significant amount of something Iberomaurusian like (4-6%) (Maybe something related to the Halfan culture).

drobbah
11-17-2020, 12:12 AM
What's your opinion on the BAJ001 PPNB sample? It seems it works well as a representative for the Levantine ancestry of Somalis (high Natufian & low Barcin ancestry).

Target: BAJ001
Distance: 3.2516% / 0.03251648
67.0 Levant_Natufian
28.8 TUR_Barcin_N
4.2 GEO_CHG



My result & the avg Somali sample

Target: Somali
Distance: 4.7735% / 0.04773490
55.2 Sudanese
40.2 BAJ001
4.6 MAR_Taforalt

Target: Drobbah_scaled
Distance: 4.9586% / 0.04958610
51.8 Sudanese
38.2 BAJ001
5.4 MAR_Taforalt
4.6 ETH_4500BP

Mnemonics
11-17-2020, 12:26 AM
What's your opinion on the BAJ001 PPNB sample? It seems it works well as a representative for the Levantine ancestry of Somalis (high Natufian & low Barcin ancestry).

Target: BAJ001
Distance: 3.2516% / 0.03251648
67.0 Levant_Natufian
28.8 TUR_Barcin_N
4.2 GEO_CHG



My result & the avg Somali sample

Target: Somali
Distance: 4.7735% / 0.04773490
55.2 Sudanese
40.2 BAJ001
4.6 MAR_Taforalt

Target: Drobbah_scaled
Distance: 4.9586% / 0.04958610
51.8 Sudanese
38.2 BAJ001
5.4 MAR_Taforalt
4.6 ETH_4500BP

I used to use it pretty often when trying out different models. But it seems pretty apparent that Somalis want something CHG and Iran_N related when I tried models using only Neolithic Levantine samples. Global 25 inflates Iberomaurusian affinity in Horners which cloaks Iran_N ancestry. This is clear when you subtract Taforalt from Somali samples the Iran_N affinity increases without much else changing.

I can include pretty much all the Levantine populations in the outgroups without any issue with the Levant_BA, Iberomaurusian and Dinka/Sudanese7 combo so it seems very robust.

drobbah
11-17-2020, 12:29 AM
I used to use it pretty often when trying out different models. But it seems pretty apparent that Somalis want something CHG and Iran_N related when I tried models using only Neolithic Levantine samples. Global 25 inflates Iberomaurusian affinity in Horners which cloaks Iran_N ancestry. This is clear when you subtract Taforalt from Somali samples the Iran_N affinity increases without much else changing.

I can include pretty much all the Levantine populations in the outgroups without any issue with the Levant_BA, Iberomaurusian and Dinka/Sudanese7 combo so it seems very robust.
When you compare the Iran_N levels of the PNs to modern Horners using qpadm, is there a big gap that can be attributed to historical Semitic contact with the Horn?

Mnemonics
11-17-2020, 12:37 AM
When you compare the Iran_N levels of the PNs to modern Horners using qpadm, is there a big gap that can be attributed to historical Semitic contact with the Horn?

I don't think there is much of a difference. The difference in Iran_N Affinity is basically related to increased Iberomaurusian ancestry in the Early pastoralists and the Tanzanian samples.

sum1
11-17-2020, 02:03 AM
I have had some free time to create better qpadm models and I am starting to feel pretty convinced that the bulk of the Eurasian in Somalis and the Pastoralists is Levant_BA/Egyptian related (40-42%) with a significant amount of something Iberomaurusian like (4-6%) (Maybe something related to the Halfan culture).

Is this Iranian/CHG like affinity also present in other Eastern Cushitic speaking groups like Rendile?

Mnemonics
11-17-2020, 02:06 AM
Is this Iranian/CHG like affinity also present in other Eastern Cushitic speaking groups like Rendile?

I don't have any Rendille samples but it is present in the Pastoralists although they seem to have excess PPNB affinity.

Mnemonics
03-05-2021, 01:55 AM
I'll be posting is the most robust model for Somalis that I have found using a large right pops list with transversion snps only. This model pretty effectively explains the increased Dinka and Iran_N affinity in Somalis and I can include the other pastoralists in the right list without hurting the model. Its almost a perfect model for me and is bit worse for that high coverage Kenyan Somali.




left pops:
Mnemonics
Kenya_PastoralIA
BedouinB
Morocco_EN

right pops:
DevilsGate_N
Cameroon_SMA.DG
South_Africa_2000BP
Iberomaurusian
Serbia_Mesolithic_IronGates
Yana_UP
Russia_HG_Karelia
Iran_ChL(HF)
MA1
Mota
Iberia_HG
CHG
PPNB
Kostenki14
Taiwan_Hanben_IA
Chile_LosRieles_12000BP.SG
WHG
Iran_N
Natufian
Dinka
Kenya_PastoralN
Germany_LBK

0 Mnemonics 1
1 Kenya_PastoralIA 4
2 BedouinB 2
3 Morocco_EN 3
4 DevilsGate_N 4
5 Cameroon_SMA.DG 1
6 South_Africa_2000BP 3
7 Iberomaurusian 4
8 Serbia_Mesolithic_IronGates 33
9 Yana_UP 2
10 Russia_HG_Karelia 2
11 Iran_ChL(HF) 6
12 MA1 1
13 Mota 1
14 Iberia_HG 2
15 CHG 2
16 PPNB 12
17 Kostenki14 1
18 Taiwan_Hanben_IA 34
19 Chile_LosRieles_12000BP.SG 1
20 WHG 1
21 Iran_N 4
22 Natufian 6
23 Dinka 1
24 Kenya_PastoralN 4
25 Germany_LBK 27
jackknife block size: 0.050
snps: 212726 indivs: 162
number of blocks for block jackknife: 711
## ncols: 212726
coverage: Mnemonics 194350
coverage: Kenya_PastoralIA 120859
coverage: BedouinB 206380
coverage: Morocco_EN 120105
coverage: DevilsGate_N 212544
coverage: Cameroon_SMA.DG 210786
coverage: South_Africa_2000BP 212635
coverage: Iberomaurusian 202440
coverage: Serbia_Mesolithic_IronGates 210467
coverage: Yana_UP 212645
coverage: Russia_HG_Karelia 185157
coverage: Iran_ChL(HF) 188524
coverage: MA1 148391
coverage: Mota 212504
coverage: Iberia_HG 193842
coverage: CHG 212523
coverage: PPNB 158806
coverage: Kostenki14 193316
coverage: Taiwan_Hanben_IA 210196
coverage: Chile_LosRieles_12000BP.SG 208968
coverage: WHG 194448
coverage: Iran_N 185768
coverage: Natufian 96789
coverage: Dinka 212609
coverage: Kenya_PastoralN 183665
coverage: Germany_LBK 209517
Effective number of blocks: 598.117
numsnps used: 212726
codimension 1
f4info:
f4rank: 2 dof: 19 chisq: 8.350 tail: 0.982789752 dofdiff: 21 chisqdiff: -8.350 taildiff: 1
B:
scale 1.000 1.000
Cameroon_SMA.DG 2.023 0.113
South_Africa_2000BP 2.221 0.161
Iberomaurusian -0.456 4.496
Serbia_Mesolithic_IronGates -0.550 -0.113
Yana_UP -0.269 0.035
Russia_HG_Karelia -0.455 -0.161
Iran_ChL(HF) -0.493 -0.304
MA1 -0.149 -0.154
Mota 1.878 0.293
Iberia_HG -0.402 -0.153
CHG -0.522 -0.262
PPNB -0.529 -0.027
Kostenki14 -0.289 -0.032
Taiwan_Hanben_IA 0.016 -0.000
Chile_LosRieles_12000BP.SG -0.156 0.084
WHG -0.386 -0.294
Iran_N -0.312 -0.407
Natufian -0.274 0.109
Dinka 2.173 0.025
Kenya_PastoralN 1.050 0.119
Germany_LBK -0.654 -0.350
A:
scale 231.073 338.570
Kenya_PastoralIA 0.437 0.108
BedouinB -1.582 -0.537
Morocco_EN -0.553 1.643


full rank
f4info:
f4rank: 3 dof: 0 chisq: 0.000 tail: 1 dofdiff: 19 chisqdiff: 8.350 taildiff: 0.982789752
B:
scale 496.730 141.203 184.421
Cameroon_SMA.DG 2.077 -1.992 -0.751
South_Africa_2000BP 2.373 -2.169 -0.786
Iberomaurusian 0.442 -0.570 4.272
Serbia_Mesolithic_IronGates -0.288 0.574 0.197
Yana_UP -0.127 0.251 0.185
Russia_HG_Karelia -0.219 0.506 0.122
Iran_ChL(HF) -0.327 0.543 -0.011
MA1 -0.124 0.173 -0.046
Mota 2.018 -1.885 -0.531
Iberia_HG -0.161 0.442 0.093
CHG -0.390 0.565 0.020
PPNB -0.079 0.564 0.280
Kostenki14 -0.109 0.293 0.136
Taiwan_Hanben_IA 0.191 -0.002 0.023
Chile_LosRieles_12000BP.SG -0.095 0.124 0.168
WHG -0.221 0.454 -0.047
Iran_N -0.135 0.407 -0.155
Natufian -0.014 0.262 0.259
Dinka 2.083 -2.134 -0.937
Kenya_PastoralN 1.208 -1.037 -0.307
Germany_LBK -0.639 0.691 0.002
A:
scale 1.732 1.732 1.732
Kenya_PastoralIA 1.732 0.000 0.000
BedouinB 0.000 1.732 0.000
Morocco_EN 0.000 0.000 1.732


best coefficients: 0.775 0.208 0.017
Jackknife mean: 0.774699471 0.207943090 0.017357440
std. errors: 0.017 0.015 0.013

error covariance (* 1,000,000)
294 -174 -120
-174 230 -56
-120 -56 176


summ: Mnemonics 3 0.982790 0.775 0.208 0.017 294 -174 -120 230 -56 ...
176

fixed pat wt dof chisq tail prob
000 0 19 8.350 0.98279 0.775 0.208 0.017
001 1 20 10.233 0.963746 0.787 0.213 0.000
010 1 20 169.158 1.26387e-25 0.950 0.000 0.050
100 1 20 1914.696 0 0.000 0.829 0.171
011 2 21 179.184 4.27531e-27 1.000 0.000 0.000
101 2 21 1995.030 0 0.000 1.000 0.000
110 2 21 2989.135 0 0.000 0.000 1.000
best pat: 000 0.98279 - -
best pat: 001 0.963746 chi(nested): 1.883 p-value for nested model: 0.169984
best pat: 011 4.27531e-27 chi(nested): 168.951 p-value for nested model: 1.254e-38

coeffs: 0.775 0.208 0.017

## dscore:: f_4(Base, Fit, Rbase, right2)
## genstat:: f_4(Base, Fit, right1, right2)

details: Kenya_PastoralIA Cameroon_SMA.DG 0.004182 7.646650
details: BedouinB Cameroon_SMA.DG -0.014107 -23.535452
details: Morocco_EN Cameroon_SMA.DG -0.004072 -6.881250
dscore: Cameroon_SMA.DG f4: 0.000238 Z: 0.487395

details: Kenya_PastoralIA South_Africa_2000BP 0.004778 8.611680
details: BedouinB South_Africa_2000BP -0.015359 -25.992837
details: Morocco_EN South_Africa_2000BP -0.004259 -7.144360
dscore: South_Africa_2000BP f4: 0.000437 Z: 0.886855

details: Kenya_PastoralIA Iberomaurusian 0.000889 1.686163
details: BedouinB Iberomaurusian -0.004037 -7.008667
details: Morocco_EN Iberomaurusian 0.023162 38.551686
dscore: Iberomaurusian f4: 0.000245 Z: 0.521167

details: Kenya_PastoralIA Serbia_Mesolithic_IronGates -0.000580 -1.277487
details: BedouinB Serbia_Mesolithic_IronGates 0.004064 8.915248
details: Morocco_EN Serbia_Mesolithic_IronGates 0.001069 2.099513
dscore: Serbia_Mesolithic_IronGates f4: 0.000413 Z: 1.042423

details: Kenya_PastoralIA Yana_UP -0.000256 -0.552577
details: BedouinB Yana_UP 0.001779 3.576703
details: Morocco_EN Yana_UP 0.001004 1.981481
dscore: Yana_UP f4: 0.000189 Z: 0.463691

details: Kenya_PastoralIA Russia_HG_Karelia -0.000440 -0.807033
details: BedouinB Russia_HG_Karelia 0.003586 6.284405
details: Morocco_EN Russia_HG_Karelia 0.000661 1.177843
dscore: Russia_HG_Karelia f4: 0.000416 Z: 0.855534

details: Kenya_PastoralIA Iran_ChL(HF) -0.000657 -1.395410
details: BedouinB Iran_ChL(HF) 0.003846 7.882304
details: Morocco_EN Iran_ChL(HF) -0.000061 -0.119951
dscore: Iran_ChL(HF) f4: 0.000289 Z: 0.699699

details: Kenya_PastoralIA MA1 -0.000250 -0.441744
details: BedouinB MA1 0.001225 2.203001
details: Morocco_EN MA1 -0.000252 -0.419703
dscore: MA1 f4: 0.000056 Z: 0.114365

details: Kenya_PastoralIA Mota 0.004063 6.647482
details: BedouinB Mota -0.013346 -20.854681
details: Morocco_EN Mota -0.002879 -4.712250
dscore: Mota f4: 0.000325 Z: 0.599966

details: Kenya_PastoralIA Iberia_HG -0.000323 -0.635136
details: BedouinB Iberia_HG 0.003132 5.961077
details: Morocco_EN Iberia_HG 0.000506 0.976840
dscore: Iberia_HG f4: 0.000409 Z: 0.913797

details: Kenya_PastoralIA CHG -0.000786 -1.565137
details: BedouinB CHG 0.003998 7.289652
details: Morocco_EN CHG 0.000110 0.205264
dscore: CHG f4: 0.000224 Z: 0.503367

details: Kenya_PastoralIA PPNB -0.000159 -0.299981
details: BedouinB PPNB 0.003995 8.019065
details: Morocco_EN PPNB 0.001517 2.850756
dscore: PPNB f4: 0.000733 Z: 1.591739

details: Kenya_PastoralIA Kostenki14 -0.000219 -0.380562
details: BedouinB Kostenki14 0.002072 3.638898
details: Morocco_EN Kostenki14 0.000735 1.271178
dscore: Kostenki14 f4: 0.000274 Z: 0.537297

details: Kenya_PastoralIA Taiwan_Hanben_IA 0.000386 1.028673
details: BedouinB Taiwan_Hanben_IA -0.000013 -0.035725
details: Morocco_EN Taiwan_Hanben_IA 0.000127 0.336063
dscore: Taiwan_Hanben_IA f4: 0.000298 Z: 0.912076

details: Kenya_PastoralIA Chile_LosRieles_12000BP.SG -0.000191 -0.386616
details: BedouinB Chile_LosRieles_12000BP.SG 0.000879 1.637033
details: Morocco_EN Chile_LosRieles_12000BP.SG 0.000913 1.677012
dscore: Chile_LosRieles_12000BP.SG f4: 0.000050 Z: 0.113669

details: Kenya_PastoralIA WHG -0.000445 -0.774277
details: BedouinB WHG 0.003213 5.654929
details: Morocco_EN WHG -0.000253 -0.434952
dscore: WHG f4: 0.000319 Z: 0.636509

details: Kenya_PastoralIA Iran_N -0.000271 -0.520045
details: BedouinB Iran_N 0.002881 5.583891
details: Morocco_EN Iran_N -0.000841 -1.558898
dscore: Iran_N f4: 0.000374 Z: 0.813600

details: Kenya_PastoralIA Natufian -0.000028 -0.046807
details: BedouinB Natufian 0.001855 3.676443
details: Morocco_EN Natufian 0.001404 2.458649
dscore: Natufian f4: 0.000388 Z: 0.775060

details: Kenya_PastoralIA Dinka 0.004194 7.250069
details: BedouinB Dinka -0.015111 -24.647546
details: Morocco_EN Dinka -0.005080 -8.596676
dscore: Dinka f4: 0.000022 Z: 0.041703

details: Kenya_PastoralIA Kenya_PastoralN 0.002432 4.695082
details: BedouinB Kenya_PastoralN -0.007345 -13.869639
details: Morocco_EN Kenya_PastoralN -0.001664 -3.067651
dscore: Kenya_PastoralN f4: 0.000329 Z: 0.720432

details: Kenya_PastoralIA Germany_LBK -0.001286 -2.826080
details: BedouinB Germany_LBK 0.004891 10.645923
details: Morocco_EN Germany_LBK 0.000013 0.026424
dscore: Germany_LBK f4: 0.000021 Z: 0.051478

gendstat: DevilsGate_N Cameroon_SMA.DG 0.487
gendstat: DevilsGate_N South_Africa_2000BP 0.887
gendstat: DevilsGate_N Iberomaurusian 0.521
gendstat: DevilsGate_N Serbia_Mesolithic_IronGates 1.042
gendstat: DevilsGate_N Yana_UP 0.464
gendstat: DevilsGate_N Russia_HG_Karelia 0.856
gendstat: DevilsGate_N Iran_ChL(HF) 0.700
gendstat: DevilsGate_N MA1 0.114
gendstat: DevilsGate_N Mota 0.600
gendstat: DevilsGate_N Iberia_HG 0.914
gendstat: DevilsGate_N CHG 0.503
gendstat: DevilsGate_N PPNB 1.592
gendstat: DevilsGate_N Kostenki14 0.537
gendstat: DevilsGate_N Taiwan_Hanben_IA 0.912
gendstat: DevilsGate_N Chile_LosRieles_12000BP.SG 0.114
gendstat: DevilsGate_N WHG 0.637
gendstat: DevilsGate_N Iran_N 0.814
gendstat: DevilsGate_N Natufian 0.775
gendstat: DevilsGate_N Dinka 0.042
gendstat: DevilsGate_N Kenya_PastoralN 0.720
gendstat: DevilsGate_N Germany_LBK 0.051
gendstat: Cameroon_SMA.DG South_Africa_2000BP 0.538
gendstat: Cameroon_SMA.DG Iberomaurusian 0.015
gendstat: Cameroon_SMA.DG Serbia_Mesolithic_IronGates 0.385
gendstat: Cameroon_SMA.DG Yana_UP -0.102
gendstat: Cameroon_SMA.DG Russia_HG_Karelia 0.318
gendstat: Cameroon_SMA.DG Iran_ChL(HF) 0.106
gendstat: Cameroon_SMA.DG MA1 -0.314
gendstat: Cameroon_SMA.DG Mota 0.181
gendstat: Cameroon_SMA.DG Iberia_HG 0.331
gendstat: Cameroon_SMA.DG CHG -0.028
gendstat: Cameroon_SMA.DG PPNB 0.951
gendstat: Cameroon_SMA.DG Kostenki14 0.065
gendstat: Cameroon_SMA.DG Taiwan_Hanben_IA 0.139
gendstat: Cameroon_SMA.DG Chile_LosRieles_12000BP.SG -0.343
gendstat: Cameroon_SMA.DG WHG 0.143
gendstat: Cameroon_SMA.DG Iran_N 0.274
gendstat: Cameroon_SMA.DG Natufian 0.264
gendstat: Cameroon_SMA.DG Dinka -0.518
gendstat: Cameroon_SMA.DG Kenya_PastoralN 0.218
gendstat: Cameroon_SMA.DG Germany_LBK -0.477
gendstat: South_Africa_2000BP Iberomaurusian -0.406
gendstat: South_Africa_2000BP Serbia_Mesolithic_IronGates -0.051
gendstat: South_Africa_2000BP Yana_UP -0.499
gendstat: South_Africa_2000BP Russia_HG_Karelia -0.037
gendstat: South_Africa_2000BP Iran_ChL(HF) -0.303
gendstat: South_Africa_2000BP MA1 -0.650
gendstat: South_Africa_2000BP Mota -0.243
gendstat: South_Africa_2000BP Iberia_HG -0.053
gendstat: South_Africa_2000BP CHG -0.417
gendstat: South_Africa_2000BP PPNB 0.569
gendstat: South_Africa_2000BP Kostenki14 -0.300
gendstat: South_Africa_2000BP Taiwan_Hanben_IA -0.311
gendstat: South_Africa_2000BP Chile_LosRieles_12000BP.SG -0.704
gendstat: South_Africa_2000BP WHG -0.207
gendstat: South_Africa_2000BP Iran_N -0.125
gendstat: South_Africa_2000BP Natufian -0.084
gendstat: South_Africa_2000BP Dinka -1.012
gendstat: South_Africa_2000BP Kenya_PastoralN -0.258
gendstat: South_Africa_2000BP Germany_LBK -0.890
gendstat: Iberomaurusian Serbia_Mesolithic_IronGates 0.416
gendstat: Iberomaurusian Yana_UP -0.125
gendstat: Iberomaurusian Russia_HG_Karelia 0.330
gendstat: Iberomaurusian Iran_ChL(HF) 0.101
gendstat: Iberomaurusian MA1 -0.340
gendstat: Iberomaurusian Mota 0.146
gendstat: Iberomaurusian Iberia_HG 0.349
gendstat: Iberomaurusian CHG -0.044
gendstat: Iberomaurusian PPNB 1.038
gendstat: Iberomaurusian Kostenki14 0.054
gendstat: Iberomaurusian Taiwan_Hanben_IA 0.129
gendstat: Iberomaurusian Chile_LosRieles_12000BP.SG -0.370
gendstat: Iberomaurusian WHG 0.138
gendstat: Iberomaurusian Iran_N 0.274
gendstat: Iberomaurusian Natufian 0.266
gendstat: Iberomaurusian Dinka -0.441
gendstat: Iberomaurusian Kenya_PastoralN 0.198
gendstat: Iberomaurusian Germany_LBK -0.573
gendstat: Serbia_Mesolithic_IronGates Yana_UP -0.612
gendstat: Serbia_Mesolithic_IronGates Russia_HG_Karelia 0.006
gendstat: Serbia_Mesolithic_IronGates Iran_ChL(HF) -0.368
gendstat: Serbia_Mesolithic_IronGates MA1 -0.734
gendstat: Serbia_Mesolithic_IronGates Mota -0.172
gendstat: Serbia_Mesolithic_IronGates Iberia_HG -0.014
gendstat: Serbia_Mesolithic_IronGates CHG -0.498
gendstat: Serbia_Mesolithic_IronGates PPNB 0.806
gendstat: Serbia_Mesolithic_IronGates Kostenki14 -0.314
gendstat: Serbia_Mesolithic_IronGates Taiwan_Hanben_IA -0.356
gendstat: Serbia_Mesolithic_IronGates Chile_LosRieles_12000BP.SG -0.803
gendstat: Serbia_Mesolithic_IronGates WHG -0.239
gendstat: Serbia_Mesolithic_IronGates Iran_N -0.103
gendstat: Serbia_Mesolithic_IronGates Natufian -0.055
gendstat: Serbia_Mesolithic_IronGates Dinka -0.818
gendstat: Serbia_Mesolithic_IronGates Kenya_PastoralN -0.215
gendstat: Serbia_Mesolithic_IronGates Germany_LBK -1.473
gendstat: Yana_UP Russia_HG_Karelia 0.461
gendstat: Yana_UP Iran_ChL(HF) 0.239
gendstat: Yana_UP MA1 -0.256
gendstat: Yana_UP Mota 0.256
gendstat: Yana_UP Iberia_HG 0.508
gendstat: Yana_UP CHG 0.080
gendstat: Yana_UP PPNB 1.191
gendstat: Yana_UP Kostenki14 0.172
gendstat: Yana_UP Taiwan_Hanben_IA 0.296
gendstat: Yana_UP Chile_LosRieles_12000BP.SG -0.283
gendstat: Yana_UP WHG 0.263
gendstat: Yana_UP Iran_N 0.430
gendstat: Yana_UP Natufian 0.378
gendstat: Yana_UP Dinka -0.332
gendstat: Yana_UP Kenya_PastoralN 0.314
gendstat: Yana_UP Germany_LBK -0.465
gendstat: Russia_HG_Karelia Iran_ChL(HF) -0.275
gendstat: Russia_HG_Karelia MA1 -0.658
gendstat: Russia_HG_Karelia Mota -0.148
gendstat: Russia_HG_Karelia Iberia_HG -0.014
gendstat: Russia_HG_Karelia CHG -0.388
gendstat: Russia_HG_Karelia PPNB 0.594
gendstat: Russia_HG_Karelia Kostenki14 -0.261
gendstat: Russia_HG_Karelia Taiwan_Hanben_IA -0.266
gendstat: Russia_HG_Karelia Chile_LosRieles_12000BP.SG -0.682
gendstat: Russia_HG_Karelia WHG -0.181
gendstat: Russia_HG_Karelia Iran_N -0.084
gendstat: Russia_HG_Karelia Natufian -0.048
gendstat: Russia_HG_Karelia Dinka -0.677
gendstat: Russia_HG_Karelia Kenya_PastoralN -0.171
gendstat: Russia_HG_Karelia Germany_LBK -0.909
gendstat: Iran_ChL(HF) MA1 -0.465
gendstat: Iran_ChL(HF) Mota 0.066
gendstat: Iran_ChL(HF) Iberia_HG 0.285
gendstat: Iran_ChL(HF) CHG -0.171
gendstat: Iran_ChL(HF) PPNB 1.094
gendstat: Iran_ChL(HF) Kostenki14 -0.032
gendstat: Iran_ChL(HF) Taiwan_Hanben_IA 0.026
gendstat: Iran_ChL(HF) Chile_LosRieles_12000BP.SG -0.509
gendstat: Iran_ChL(HF) WHG 0.062
gendstat: Iran_ChL(HF) Iran_N 0.221
gendstat: Iran_ChL(HF) Natufian 0.212
gendstat: Iran_ChL(HF) Dinka -0.524
gendstat: Iran_ChL(HF) Kenya_PastoralN 0.097
gendstat: Iran_ChL(HF) Germany_LBK -0.895
gendstat: MA1 Mota 0.433
gendstat: MA1 Iberia_HG 0.642
gendstat: MA1 CHG 0.316
gendstat: MA1 PPNB 1.243
gendstat: MA1 Kostenki14 0.365
gendstat: MA1 Taiwan_Hanben_IA 0.502
gendstat: MA1 Chile_LosRieles_12000BP.SG -0.011
gendstat: MA1 WHG 0.440
gendstat: MA1 Iran_N 0.593
gendstat: MA1 Natufian 0.568
gendstat: MA1 Dinka -0.060
gendstat: MA1 Kenya_PastoralN 0.513
gendstat: MA1 Germany_LBK -0.074
gendstat: Mota Iberia_HG 0.149
gendstat: Mota CHG -0.178
gendstat: Mota PPNB 0.701
gendstat: Mota Kostenki14 -0.085
gendstat: Mota Taiwan_Hanben_IA -0.054
gendstat: Mota Chile_LosRieles_12000BP.SG -0.454
gendstat: Mota WHG -0.009
gendstat: Mota Iran_N 0.090
gendstat: Mota Natufian 0.102
gendstat: Mota Dinka -0.629
gendstat: Mota Kenya_PastoralN 0.009
gendstat: Mota Germany_LBK -0.584
gendstat: Iberia_HG CHG -0.405
gendstat: Iberia_HG PPNB 0.680
gendstat: Iberia_HG Kostenki14 -0.262
gendstat: Iberia_HG Taiwan_Hanben_IA -0.271
gendstat: Iberia_HG Chile_LosRieles_12000BP.SG -0.703
gendstat: Iberia_HG WHG -0.203
gendstat: Iberia_HG Iran_N -0.076
gendstat: Iberia_HG Natufian -0.039
gendstat: Iberia_HG Dinka -0.727
gendstat: Iberia_HG Kenya_PastoralN -0.177
gendstat: Iberia_HG Germany_LBK -1.014
gendstat: CHG PPNB 1.089
gendstat: CHG Kostenki14 0.094
gendstat: CHG Taiwan_Hanben_IA 0.180
gendstat: CHG Chile_LosRieles_12000BP.SG -0.346
gendstat: CHG WHG 0.182
gendstat: CHG Iran_N 0.355
gendstat: CHG Natufian 0.316
gendstat: CHG Dinka -0.379
gendstat: CHG Kenya_PastoralN 0.231
gendstat: CHG Germany_LBK -0.555
gendstat: PPNB Kostenki14 -0.854
gendstat: PPNB Taiwan_Hanben_IA -1.046
gendstat: PPNB Chile_LosRieles_12000BP.SG -1.317
gendstat: PPNB WHG -0.786
gendstat: PPNB Iran_N -0.784
gendstat: PPNB Natufian -0.692
gendstat: PPNB Dinka -1.296
gendstat: PPNB Kenya_PastoralN -0.881
gendstat: PPNB Germany_LBK -1.921
gendstat: Kostenki14 Taiwan_Hanben_IA 0.053
gendstat: Kostenki14 Chile_LosRieles_12000BP.SG -0.392
gendstat: Kostenki14 WHG 0.079
gendstat: Kostenki14 Iran_N 0.194
gendstat: Kostenki14 Natufian 0.196
gendstat: Kostenki14 Dinka -0.445
gendstat: Kostenki14 Kenya_PastoralN 0.107
gendstat: Kostenki14 Germany_LBK -0.565
gendstat: Taiwan_Hanben_IA Chile_LosRieles_12000BP.SG -0.611
gendstat: Taiwan_Hanben_IA WHG 0.045
gendstat: Taiwan_Hanben_IA Iran_N 0.197
gendstat: Taiwan_Hanben_IA Natufian 0.185
gendstat: Taiwan_Hanben_IA Dinka -0.605
gendstat: Taiwan_Hanben_IA Kenya_PastoralN 0.077
gendstat: Taiwan_Hanben_IA Germany_LBK -0.861
gendstat: Chile_LosRieles_12000BP.SG WHG 0.478
gendstat: Chile_LosRieles_12000BP.SG Iran_N 0.668
gendstat: Chile_LosRieles_12000BP.SG Natufian 0.586
gendstat: Chile_LosRieles_12000BP.SG Dinka -0.049
gendstat: Chile_LosRieles_12000BP.SG Kenya_PastoralN 0.541
gendstat: Chile_LosRieles_12000BP.SG Germany_LBK -0.065
gendstat: WHG Iran_N 0.108
gendstat: WHG Natufian 0.122
gendstat: WHG Dinka -0.513
gendstat: WHG Kenya_PastoralN 0.020
gendstat: WHG Germany_LBK -0.678
gendstat: Iran_N Natufian 0.026
gendstat: Iran_N Dinka -0.691
gendstat: Iran_N Kenya_PastoralN -0.097
gendstat: Iran_N Germany_LBK -0.964
gendstat: Natufian Dinka -0.617
gendstat: Natufian Kenya_PastoralN -0.113
gendstat: Natufian Germany_LBK -0.822
gendstat: Dinka Kenya_PastoralN 0.700
gendstat: Dinka Germany_LBK -0.002
gendstat: Kenya_PastoralN Germany_LBK -0.802

Mnemonics
03-05-2021, 01:57 AM
Here is the same model for Somali.DG





left pops:
Somali.DG
Kenya_PastoralIA
BedouinB
Morocco_EN

right pops:
DevilsGate_N
Cameroon_SMA.DG
South_Africa_2000BP
Iberomaurusian
Serbia_Mesolithic_IronGates
Yana_UP
Russia_HG_Karelia
Iran_ChL(HF)
MA1
Mota
Iberia_HG
CHG
PPNB
Kostenki14
Taiwan_Hanben_IA
Chile_LosRieles_12000BP.SG
WHG
Iran_N
Natufian
Dinka
Kenya_PastoralN
Germany_LBK

0 Somali.DG 1
1 Kenya_PastoralIA 4
2 BedouinB 2
3 Morocco_EN 3
4 DevilsGate_N 4
5 Cameroon_SMA.DG 1
6 South_Africa_2000BP 3
7 Iberomaurusian 4
8 Serbia_Mesolithic_IronGates 33
9 Yana_UP 2
10 Russia_HG_Karelia 2
11 Iran_ChL(HF) 6
12 MA1 1
13 Mota 1
14 Iberia_HG 2
15 CHG 2
16 PPNB 12
17 Kostenki14 1
18 Taiwan_Hanben_IA 34
19 Chile_LosRieles_12000BP.SG 1
20 WHG 1
21 Iran_N 4
22 Natufian 6
23 Dinka 1
24 Kenya_PastoralN 4
25 Germany_LBK 27
jackknife block size: 0.050
snps: 212726 indivs: 162
number of blocks for block jackknife: 711
## ncols: 212726
coverage: Somali.DG 205948
coverage: Kenya_PastoralIA 120859
coverage: BedouinB 206380
coverage: Morocco_EN 120105
coverage: DevilsGate_N 212544
coverage: Cameroon_SMA.DG 210786
coverage: South_Africa_2000BP 212635
coverage: Iberomaurusian 202440
coverage: Serbia_Mesolithic_IronGates 210467
coverage: Yana_UP 212645
coverage: Russia_HG_Karelia 185157
coverage: Iran_ChL(HF) 188524
coverage: MA1 148391
coverage: Mota 212504
coverage: Iberia_HG 193842
coverage: CHG 212523
coverage: PPNB 158806
coverage: Kostenki14 193316
coverage: Taiwan_Hanben_IA 210196
coverage: Chile_LosRieles_12000BP.SG 208968
coverage: WHG 194448
coverage: Iran_N 185768
coverage: Natufian 96789
coverage: Dinka 212609
coverage: Kenya_PastoralN 183665
coverage: Germany_LBK 209517
Effective number of blocks: 597.086
numsnps used: 212726
codimension 1
f4info:
f4rank: 2 dof: 19 chisq: 17.289 tail: 0.57029012 dofdiff: 21 chisqdiff: -17.289 taildiff: 1
B:
scale 1.000 1.000
Cameroon_SMA.DG 2.085 0.070
South_Africa_2000BP 2.198 0.097
Iberomaurusian -0.306 4.495
Serbia_Mesolithic_IronGates -0.472 -0.111
Yana_UP -0.172 0.029
Russia_HG_Karelia -0.383 -0.181
Iran_ChL(HF) -0.449 -0.289
MA1 -0.124 -0.209
Mota 1.950 0.191
Iberia_HG -0.353 -0.186
CHG -0.489 -0.295
PPNB -0.463 -0.121
Kostenki14 -0.244 -0.030
Taiwan_Hanben_IA 0.080 -0.046
Chile_LosRieles_12000BP.SG -0.136 0.049
WHG -0.318 -0.342
Iran_N -0.323 -0.360
Natufian -0.198 0.037
Dinka 2.223 -0.150
Kenya_PastoralN 1.050 0.138
Germany_LBK -0.600 -0.376
A:
scale 204.525 343.473
Kenya_PastoralIA 0.286 0.045
BedouinB -1.601 -0.580
Morocco_EN -0.597 1.631


full rank
f4info:
f4rank: 3 dof: 0 chisq: 0.000 tail: 1 dofdiff: 19 chisqdiff: 17.289 taildiff: 0.57029012
B:
scale 663.350 124.294 180.337
Cameroon_SMA.DG 2.005 -2.066 -1.038
South_Africa_2000BP 2.362 -2.149 -1.047
Iberomaurusian 0.187 -0.654 4.006
Serbia_Mesolithic_IronGates -0.352 0.472 0.159
Yana_UP -0.319 0.135 0.104
Russia_HG_Karelia -0.058 0.427 0.102
Iran_ChL(HF) 0.014 0.519 0.017
MA1 -0.225 0.153 -0.091
Mota 2.074 -1.934 -0.845
Iberia_HG -0.377 0.361 0.020
CHG -0.252 0.540 0.033
PPNB -0.172 0.479 0.159
Kostenki14 -0.015 0.231 0.108
Taiwan_Hanben_IA 0.180 -0.067 -0.072
Chile_LosRieles_12000BP.SG -0.211 0.098 0.095
WHG -0.782 0.323 -0.176
Iran_N 0.067 0.416 -0.093
Natufian -0.483 0.157 0.103
Dinka 1.942 -2.165 -1.315
Kenya_PastoralN 1.186 -1.059 -0.422
Germany_LBK -0.666 0.631 -0.008
A:
scale 1.732 1.732 1.732
Kenya_PastoralIA 1.732 0.000 0.000
BedouinB 0.000 1.732 0.000
Morocco_EN 0.000 0.000 1.732


best coefficients: 0.834 0.139 0.027
Jackknife mean: 0.833901063 0.139259887 0.026839050
std. errors: 0.018 0.016 0.014

error covariance (* 1,000,000)
329 -196 -132
-196 247 -51
-132 -51 183


summ: Somali.DG 3 0.570290 0.834 0.139 0.027 329 -196 -132 247 -51 ...
183

fixed pat wt dof chisq tail prob
000 0 19 17.289 0.57029 0.834 0.139 0.027
001 1 20 21.551 0.365366 0.854 0.146 0.000
010 1 20 88.081 1.60194e-10 0.950 0.000 0.050
100 1 20 2082.217 0 0.000 0.785 0.215
011 2 21 98.621 5.05543e-12 1.000 0.000 0.000
101 2 21 2203.786 0 0.000 1.000 0.000
110 2 21 2815.050 0 0.000 0.000 1.000
best pat: 000 0.57029 - -
best pat: 001 0.365366 chi(nested): 4.262 p-value for nested model: 0.0389772
best pat: 011 5.05543e-12 chi(nested): 77.070 p-value for nested model: 1.64979e-18

coeffs: 0.834 0.139 0.027

## dscore:: f_4(Base, Fit, Rbase, right2)
## genstat:: f_4(Base, Fit, right1, right2)

details: Kenya_PastoralIA Cameroon_SMA.DG 0.003022 5.186040
details: BedouinB Cameroon_SMA.DG -0.016626 -26.909681
details: Morocco_EN Cameroon_SMA.DG -0.005756 -9.989683
dscore: Cameroon_SMA.DG f4: 0.000055 Z: 0.102774

details: Kenya_PastoralIA South_Africa_2000BP 0.003561 6.216675
details: BedouinB South_Africa_2000BP -0.017288 -28.999542
details: Morocco_EN South_Africa_2000BP -0.005804 -9.738467
dscore: South_Africa_2000BP f4: 0.000411 Z: 0.790616

details: Kenya_PastoralIA Iberomaurusian 0.000282 0.550548
details: BedouinB Iberomaurusian -0.005264 -9.409480
details: Morocco_EN Iberomaurusian 0.022214 36.209926
dscore: Iberomaurusian f4: 0.000096 Z: 0.207132

details: Kenya_PastoralIA Serbia_Mesolithic_IronGates -0.000531 -1.113318
details: BedouinB Serbia_Mesolithic_IronGates 0.003801 7.991458
details: Morocco_EN Serbia_Mesolithic_IronGates 0.000883 1.719143
dscore: Serbia_Mesolithic_IronGates f4: 0.000109 Z: 0.252791

details: Kenya_PastoralIA Yana_UP -0.000481 -1.024486
details: BedouinB Yana_UP 0.001086 1.975579
details: Morocco_EN Yana_UP 0.000575 1.163563
dscore: Yana_UP f4: -0.000235 Z: -0.546931

details: Kenya_PastoralIA Russia_HG_Karelia -0.000087 -0.158569
details: BedouinB Russia_HG_Karelia 0.003436 5.725922
details: Morocco_EN Russia_HG_Karelia 0.000567 0.991857
dscore: Russia_HG_Karelia f4: 0.000420 Z: 0.837793

details: Kenya_PastoralIA Iran_ChL(HF) 0.000020 0.040053
details: BedouinB Iran_ChL(HF) 0.004178 8.247152
details: Morocco_EN Iran_ChL(HF) 0.000094 0.178635
dscore: Iran_ChL(HF) f4: 0.000601 Z: 1.299582

details: Kenya_PastoralIA MA1 -0.000340 -0.609966
details: BedouinB MA1 0.001228 2.166101
details: Morocco_EN MA1 -0.000506 -0.816054
dscore: MA1 f4: -0.000126 Z: -0.250186

details: Kenya_PastoralIA Mota 0.003126 5.075674
details: BedouinB Mota -0.015562 -24.134842
details: Morocco_EN Mota -0.004685 -7.629590
dscore: Mota f4: 0.000318 Z: 0.571969

details: Kenya_PastoralIA Iberia_HG -0.000568 -1.086784
details: BedouinB Iberia_HG 0.002901 5.352112
details: Morocco_EN Iberia_HG 0.000113 0.217584
dscore: Iberia_HG f4: -0.000067 Z: -0.141709

details: Kenya_PastoralIA CHG -0.000380 -0.712420
details: BedouinB CHG 0.004348 7.934328
details: Morocco_EN CHG 0.000183 0.334504
dscore: CHG f4: 0.000293 Z: 0.605386

details: Kenya_PastoralIA PPNB -0.000259 -0.471866
details: BedouinB PPNB 0.003853 7.431226
details: Morocco_EN PPNB 0.000880 1.659575
dscore: PPNB f4: 0.000343 Z: 0.695004

details: Kenya_PastoralIA Kostenki14 -0.000023 -0.039165
details: BedouinB Kostenki14 0.001857 3.128321
details: Morocco_EN Kostenki14 0.000599 1.037418
dscore: Kostenki14 f4: 0.000255 Z: 0.485858

details: Kenya_PastoralIA Taiwan_Hanben_IA 0.000271 0.737775
details: BedouinB Taiwan_Hanben_IA -0.000537 -1.466718
details: Morocco_EN Taiwan_Hanben_IA -0.000397 -1.020226
dscore: Taiwan_Hanben_IA f4: 0.000141 Z: 0.425197

details: Kenya_PastoralIA Chile_LosRieles_12000BP.SG -0.000319 -0.633797
details: BedouinB Chile_LosRieles_12000BP.SG 0.000791 1.396379
details: Morocco_EN Chile_LosRieles_12000BP.SG 0.000530 0.931736
dscore: Chile_LosRieles_12000BP.SG f4: -0.000142 Z: -0.307498

details: Kenya_PastoralIA WHG -0.001179 -1.981678
details: BedouinB WHG 0.002597 4.270664
details: Morocco_EN WHG -0.000978 -1.648457
dscore: WHG f4: -0.000648 Z: -1.200614

details: Kenya_PastoralIA Iran_N 0.000100 0.193090
details: BedouinB Iran_N 0.003349 6.415737
details: Morocco_EN Iran_N -0.000517 -0.992686
dscore: Iran_N f4: 0.000536 Z: 1.140603

details: Kenya_PastoralIA Natufian -0.000729 -1.271556
details: BedouinB Natufian 0.001260 2.409740
details: Morocco_EN Natufian 0.000574 1.009578
dscore: Natufian f4: -0.000417 Z: -0.812313

details: Kenya_PastoralIA Dinka 0.002928 5.054759
details: BedouinB Dinka -0.017416 -27.730414
details: Morocco_EN Dinka -0.007289 -12.826951
dscore: Dinka f4: -0.000174 Z: -0.328900

details: Kenya_PastoralIA Kenya_PastoralN 0.001788 3.447074
details: BedouinB Kenya_PastoralN -0.008520 -15.936706
details: Morocco_EN Kenya_PastoralN -0.002342 -4.264712
dscore: Kenya_PastoralN f4: 0.000244 Z: 0.518468

details: Kenya_PastoralIA Germany_LBK -0.001004 -2.174075
details: BedouinB Germany_LBK 0.005074 10.653294
details: Morocco_EN Germany_LBK -0.000043 -0.085131
dscore: Germany_LBK f4: -0.000132 Z: -0.317609

gendstat: DevilsGate_N Cameroon_SMA.DG 0.103
gendstat: DevilsGate_N South_Africa_2000BP 0.791
gendstat: DevilsGate_N Iberomaurusian 0.207
gendstat: DevilsGate_N Serbia_Mesolithic_IronGates 0.253
gendstat: DevilsGate_N Yana_UP -0.547
gendstat: DevilsGate_N Russia_HG_Karelia 0.838
gendstat: DevilsGate_N Iran_ChL(HF) 1.300
gendstat: DevilsGate_N MA1 -0.250
gendstat: DevilsGate_N Mota 0.572
gendstat: DevilsGate_N Iberia_HG -0.142
gendstat: DevilsGate_N CHG 0.605
gendstat: DevilsGate_N PPNB 0.695
gendstat: DevilsGate_N Kostenki14 0.486
gendstat: DevilsGate_N Taiwan_Hanben_IA 0.425
gendstat: DevilsGate_N Chile_LosRieles_12000BP.SG -0.307
gendstat: DevilsGate_N WHG -1.201
gendstat: DevilsGate_N Iran_N 1.141
gendstat: DevilsGate_N Natufian -0.812
gendstat: DevilsGate_N Dinka -0.329
gendstat: DevilsGate_N Kenya_PastoralN 0.518
gendstat: DevilsGate_N Germany_LBK -0.318
gendstat: Cameroon_SMA.DG South_Africa_2000BP 0.831
gendstat: Cameroon_SMA.DG Iberomaurusian 0.078
gendstat: Cameroon_SMA.DG Serbia_Mesolithic_IronGates 0.108
gendstat: Cameroon_SMA.DG Yana_UP -0.554
gendstat: Cameroon_SMA.DG Russia_HG_Karelia 0.618
gendstat: Cameroon_SMA.DG Iran_ChL(HF) 1.002
gendstat: Cameroon_SMA.DG MA1 -0.279
gendstat: Cameroon_SMA.DG Mota 0.500
gendstat: Cameroon_SMA.DG Iberia_HG -0.217
gendstat: Cameroon_SMA.DG CHG 0.428
gendstat: Cameroon_SMA.DG PPNB 0.491
gendstat: Cameroon_SMA.DG Kostenki14 0.335
gendstat: Cameroon_SMA.DG Taiwan_Hanben_IA 0.170
gendstat: Cameroon_SMA.DG Chile_LosRieles_12000BP.SG -0.322
gendstat: Cameroon_SMA.DG WHG -1.121
gendstat: Cameroon_SMA.DG Iran_N 0.888
gendstat: Cameroon_SMA.DG Natufian -0.766
gendstat: Cameroon_SMA.DG Dinka -0.491
gendstat: Cameroon_SMA.DG Kenya_PastoralN 0.407
gendstat: Cameroon_SMA.DG Germany_LBK -0.365
gendstat: South_Africa_2000BP Iberomaurusian -0.585
gendstat: South_Africa_2000BP Serbia_Mesolithic_IronGates -0.579
gendstat: South_Africa_2000BP Yana_UP -1.216
gendstat: South_Africa_2000BP Russia_HG_Karelia 0.015
gendstat: South_Africa_2000BP Iran_ChL(HF) 0.339
gendstat: South_Africa_2000BP MA1 -0.840
gendstat: South_Africa_2000BP Mota -0.188
gendstat: South_Africa_2000BP Iberia_HG -0.837
gendstat: South_Africa_2000BP CHG -0.212
gendstat: South_Africa_2000BP PPNB -0.112
gendstat: South_Africa_2000BP Kostenki14 -0.262
gendstat: South_Africa_2000BP Taiwan_Hanben_IA -0.539
gendstat: South_Africa_2000BP Chile_LosRieles_12000BP.SG -0.908
gendstat: South_Africa_2000BP WHG -1.649
gendstat: South_Africa_2000BP Iran_N 0.222
gendstat: South_Africa_2000BP Natufian -1.301
gendstat: South_Africa_2000BP Dinka -1.265
gendstat: South_Africa_2000BP Kenya_PastoralN -0.346
gendstat: South_Africa_2000BP Germany_LBK -1.018
gendstat: Iberomaurusian Serbia_Mesolithic_IronGates 0.031
gendstat: Iberomaurusian Yana_UP -0.711
gendstat: Iberomaurusian Russia_HG_Karelia 0.633
gendstat: Iberomaurusian Iran_ChL(HF) 1.141
gendstat: Iberomaurusian MA1 -0.398
gendstat: Iberomaurusian Mota 0.394
gendstat: Iberomaurusian Iberia_HG -0.346
gendstat: Iberomaurusian CHG 0.394
gendstat: Iberomaurusian PPNB 0.500
gendstat: Iberomaurusian Kostenki14 0.293
gendstat: Iberomaurusian Taiwan_Hanben_IA 0.106
gendstat: Iberomaurusian Chile_LosRieles_12000BP.SG -0.449
gendstat: Iberomaurusian WHG -1.368
gendstat: Iberomaurusian Iran_N 0.931
gendstat: Iberomaurusian Natufian -0.952
gendstat: Iberomaurusian Dinka -0.519
gendstat: Iberomaurusian Kenya_PastoralN 0.325
gendstat: Iberomaurusian Germany_LBK -0.546
gendstat: Serbia_Mesolithic_IronGates Yana_UP -0.868
gendstat: Serbia_Mesolithic_IronGates Russia_HG_Karelia 0.740
gendstat: Serbia_Mesolithic_IronGates Iran_ChL(HF) 1.399
gendstat: Serbia_Mesolithic_IronGates MA1 -0.494
gendstat: Serbia_Mesolithic_IronGates Mota 0.372
gendstat: Serbia_Mesolithic_IronGates Iberia_HG -0.539
gendstat: Serbia_Mesolithic_IronGates CHG 0.451
gendstat: Serbia_Mesolithic_IronGates PPNB 0.555
gendstat: Serbia_Mesolithic_IronGates Kostenki14 0.307
gendstat: Serbia_Mesolithic_IronGates Taiwan_Hanben_IA 0.094
gendstat: Serbia_Mesolithic_IronGates Chile_LosRieles_12000BP.SG -0.535
gendstat: Serbia_Mesolithic_IronGates WHG -1.831
gendstat: Serbia_Mesolithic_IronGates Iran_N 1.108
gendstat: Serbia_Mesolithic_IronGates Natufian -1.091
gendstat: Serbia_Mesolithic_IronGates Dinka -0.542
gendstat: Serbia_Mesolithic_IronGates Kenya_PastoralN 0.324
gendstat: Serbia_Mesolithic_IronGates Germany_LBK -0.876
gendstat: Yana_UP Russia_HG_Karelia 1.351
gendstat: Yana_UP Iran_ChL(HF) 1.923
gendstat: Yana_UP MA1 0.215
gendstat: Yana_UP Mota 0.974
gendstat: Yana_UP Iberia_HG 0.379
gendstat: Yana_UP CHG 1.116
gendstat: Yana_UP PPNB 1.180
gendstat: Yana_UP Kostenki14 0.970
gendstat: Yana_UP Taiwan_Hanben_IA 1.019
gendstat: Yana_UP Chile_LosRieles_12000BP.SG 0.190
gendstat: Yana_UP WHG -0.764
gendstat: Yana_UP Iran_N 1.697
gendstat: Yana_UP Natufian -0.334
gendstat: Yana_UP Dinka 0.115
gendstat: Yana_UP Kenya_PastoralN 1.063
gendstat: Yana_UP Germany_LBK 0.270
gendstat: Russia_HG_Karelia Iran_ChL(HF) 0.374
gendstat: Russia_HG_Karelia MA1 -0.997
gendstat: Russia_HG_Karelia Mota -0.159
gendstat: Russia_HG_Karelia Iberia_HG -1.011
gendstat: Russia_HG_Karelia CHG -0.243
gendstat: Russia_HG_Karelia PPNB -0.141
gendstat: Russia_HG_Karelia Kostenki14 -0.293
gendstat: Russia_HG_Karelia Taiwan_Hanben_IA -0.622
gendstat: Russia_HG_Karelia Chile_LosRieles_12000BP.SG -1.040
gendstat: Russia_HG_Karelia WHG -1.920
gendstat: Russia_HG_Karelia Iran_N 0.227
gendstat: Russia_HG_Karelia Natufian -1.404
gendstat: Russia_HG_Karelia Dinka -0.989
gendstat: Russia_HG_Karelia Kenya_PastoralN -0.335
gendstat: Russia_HG_Karelia Germany_LBK -1.241
gendstat: Iran_ChL(HF) MA1 -1.453
gendstat: Iran_ChL(HF) Mota -0.467
gendstat: Iran_ChL(HF) Iberia_HG -1.543
gendstat: Iran_ChL(HF) CHG -0.734
gendstat: Iran_ChL(HF) PPNB -0.597
gendstat: Iran_ChL(HF) Kostenki14 -0.649
gendstat: Iran_ChL(HF) Taiwan_Hanben_IA -1.182
gendstat: Iran_ChL(HF) Chile_LosRieles_12000BP.SG -1.440
gendstat: Iran_ChL(HF) WHG -2.369
gendstat: Iran_ChL(HF) Iran_N -0.163
gendstat: Iran_ChL(HF) Natufian -2.035
gendstat: Iran_ChL(HF) Dinka -1.414
gendstat: Iran_ChL(HF) Kenya_PastoralN -0.785
gendstat: Iran_ChL(HF) Germany_LBK -2.283
gendstat: MA1 Mota 0.658
gendstat: MA1 Iberia_HG 0.116
gendstat: MA1 CHG 0.759
gendstat: MA1 PPNB 0.857
gendstat: MA1 Kostenki14 0.634
gendstat: MA1 Taiwan_Hanben_IA 0.560
gendstat: MA1 Chile_LosRieles_12000BP.SG -0.027
gendstat: MA1 WHG -0.889
gendstat: MA1 Iran_N 1.233
gendstat: MA1 Natufian -0.474
gendstat: MA1 Dinka -0.076
gendstat: MA1 Kenya_PastoralN 0.652
gendstat: MA1 Germany_LBK -0.013
gendstat: Mota Iberia_HG -0.640
gendstat: Mota CHG -0.041
gendstat: Mota PPNB 0.040
gendstat: Mota Kostenki14 -0.096
gendstat: Mota Taiwan_Hanben_IA -0.328
gendstat: Mota Chile_LosRieles_12000BP.SG -0.715
gendstat: Mota WHG -1.456
gendstat: Mota Iran_N 0.360
gendstat: Mota Natufian -1.086
gendstat: Mota Dinka -0.959
gendstat: Mota Kenya_PastoralN -0.141
gendstat: Mota Germany_LBK -0.779
gendstat: Iberia_HG CHG 0.757
gendstat: Iberia_HG PPNB 0.849
gendstat: Iberia_HG Kostenki14 0.612
gendstat: Iberia_HG Taiwan_Hanben_IA 0.513
gendstat: Iberia_HG Chile_LosRieles_12000BP.SG -0.145
gendstat: Iberia_HG WHG -1.235
gendstat: Iberia_HG Iran_N 1.342
gendstat: Iberia_HG Natufian -0.624
gendstat: Iberia_HG Dinka -0.191
gendstat: Iberia_HG Kenya_PastoralN 0.645
gendstat: Iberia_HG Germany_LBK -0.175
gendstat: CHG PPNB 0.099
gendstat: CHG Kostenki14 -0.069
gendstat: CHG Taiwan_Hanben_IA -0.353
gendstat: CHG Chile_LosRieles_12000BP.SG -0.802
gendstat: CHG WHG -1.682
gendstat: CHG Iran_N 0.574
gendstat: CHG Natufian -1.293
gendstat: CHG Dinka -0.832
gendstat: CHG Kenya_PastoralN -0.102
gendstat: CHG Germany_LBK -1.085
gendstat: PPNB Kostenki14 -0.155
gendstat: PPNB Taiwan_Hanben_IA -0.471
gendstat: PPNB Chile_LosRieles_12000BP.SG -0.891
gendstat: PPNB WHG -1.787
gendstat: PPNB Iran_N 0.417
gendstat: PPNB Natufian -1.472
gendstat: PPNB Dinka -0.882
gendstat: PPNB Kenya_PastoralN -0.205
gendstat: PPNB Germany_LBK -1.242
gendstat: Kostenki14 Taiwan_Hanben_IA -0.240
gendstat: Kostenki14 Chile_LosRieles_12000BP.SG -0.691
gendstat: Kostenki14 WHG -1.520
gendstat: Kostenki14 Iran_N 0.542
gendstat: Kostenki14 Natufian -1.107
gendstat: Kostenki14 Dinka -0.695
gendstat: Kostenki14 Kenya_PastoralN -0.021
gendstat: Kostenki14 Germany_LBK -0.813
gendstat: Taiwan_Hanben_IA Chile_LosRieles_12000BP.SG -0.690
gendstat: Taiwan_Hanben_IA WHG -1.643
gendstat: Taiwan_Hanben_IA Iran_N 1.015
gendstat: Taiwan_Hanben_IA Natufian -1.123
gendstat: Taiwan_Hanben_IA Dinka -0.642
gendstat: Taiwan_Hanben_IA Kenya_PastoralN 0.253
gendstat: Taiwan_Hanben_IA Germany_LBK -0.811
gendstat: Chile_LosRieles_12000BP.SG WHG -0.882
gendstat: Chile_LosRieles_12000BP.SG Iran_N 1.329
gendstat: Chile_LosRieles_12000BP.SG Natufian -0.464
gendstat: Chile_LosRieles_12000BP.SG Dinka -0.055
gendstat: Chile_LosRieles_12000BP.SG Kenya_PastoralN 0.725
gendstat: Chile_LosRieles_12000BP.SG Germany_LBK 0.020
gendstat: WHG Iran_N 2.173
gendstat: WHG Natufian 0.388
gendstat: WHG Dinka 0.735
gendstat: WHG Kenya_PastoralN 1.598
gendstat: WHG Germany_LBK 1.107
gendstat: Iran_N Natufian -1.730
gendstat: Iran_N Dinka -1.288
gendstat: Iran_N Kenya_PastoralN -0.613
gendstat: Iran_N Germany_LBK -1.842
gendstat: Natufian Dinka 0.384
gendstat: Natufian Kenya_PastoralN 1.200
gendstat: Natufian Germany_LBK 0.604
gendstat: Dinka Kenya_PastoralN 0.882
gendstat: Dinka Germany_LBK 0.081
gendstat: Kenya_PastoralN Germany_LBK -0.933

drobbah
03-05-2021, 03:08 AM
Is there any other high coverage horner samples? I noticed using PIA samples and Saudi/BedouinB on G25 for all Semitic and Cushitic Horners fits really well.Even the Borana Horners need single digit extra Mota to model them but how historically accurate is such a model.I doubt the Horn was full of PIA populations

Mnemonics
03-05-2021, 03:32 AM
Is there any other high coverage horner samples? I noticed using PIA samples and Saudi/BedouinB on G25 for all Semitic and Cushitic Horners fits really well.Even the Borana Horners need single digit extra Mota to model them but how historically accurate is such a model.I doubt the Horn was full of PIA populations

G25 seems pretty bad at distinguishing Mota ancestry from Dinka ancestry. All of the Pastoralists samples seem to have very large amounts of Mota ancestry in qpadm but some of them can be modeled in G25 without significant Mota.

There are Ethiopian Jews in the HO dataset and I remember them showing obvious Mota ancestry which indicates that they probably have more Kenya_PastoralN ancestry. I'll try out modeling them, but I think they might have too few snps for the transversion only models.


Edit: including the other pastoralists actually seems to improve the model.

Mnemonics
03-05-2021, 04:20 AM
I tried the same model on that low coverage Somali-like sample, i had to use transition snps as well





./qpAdm: parameter file: parqpAdm
### THE INPUT PARAMETERS
##PARAMETER NAME: VALUE
DIR: home/mnemonics/AdmixTools-master/bin
S1: qpdata
indivname: Nat6v19.ind
snpname: Nat6v19.snp
genotypename: Nat6v19.geno
popleft: left1
popright: right1
details: YES
allsnps: YES
blgsize: 0.050
## qpAdm version: 1201
seed: 1773998381
packed geno read OK
end of inpack

left pops:
Kenya_PastoralN_Nderit_possible
Kenya_PastoralIA
BedouinB
Morocco_EN

right pops:
DevilsGate_N
Cameroon_SMA.DG
South_Africa_2000BP
Iberomaurusian
Serbia_Mesolithic_IronGates
Yana_UP
Russia_HG_Karelia
Iran_ChL(HF)
MA1
Mota
Iberia_HG
CHG
PPNB
Kostenki14
Taiwan_Hanben_IA
Chile_LosRieles_12000BP.SG
WHG
Iran_N
Natufian
Dinka
Kenya_PastoralN
Germany_LBK

0 Kenya_PastoralN_Nderit_possible 1
1 Kenya_PastoralIA 4
2 BedouinB 2
3 Morocco_EN 3
4 DevilsGate_N 4
5 Cameroon_SMA.DG 1
6 South_Africa_2000BP 3
7 Iberomaurusian 4
8 Serbia_Mesolithic_IronGates 33
9 Yana_UP 2
10 Russia_HG_Karelia 2
11 Iran_ChL(HF) 6
12 MA1 1
13 Mota 1
14 Iberia_HG 2
15 CHG 2
16 PPNB 12
17 Kostenki14 1
18 Taiwan_Hanben_IA 34
19 Chile_LosRieles_12000BP.SG 1
20 WHG 1
21 Iran_N 4
22 Natufian 6
23 Dinka 1
24 Kenya_PastoralN 4
25 Germany_LBK 27
jackknife block size: 0.050
snps: 1150452 indivs: 162
number of blocks for block jackknife: 714
## ncols: 1150452
coverage: Kenya_PastoralN_Nderit_possible 100022
coverage: Kenya_PastoralIA 661264
coverage: BedouinB 1107003
coverage: Morocco_EN 653097
coverage: DevilsGate_N 1134715
coverage: Cameroon_SMA.DG 1140128
coverage: South_Africa_2000BP 1135087
coverage: Iberomaurusian 1086672
coverage: Serbia_Mesolithic_IronGates 1125061
coverage: Yana_UP 1135189
coverage: Russia_HG_Karelia 998911
coverage: Iran_ChL(HF) 1017449
coverage: MA1 796065
coverage: Mota 1134612
coverage: Iberia_HG 1042845
coverage: CHG 1134595
coverage: PPNB 862586
coverage: Kostenki14 1035815
coverage: Taiwan_Hanben_IA 1138612
coverage: Chile_LosRieles_12000BP.SG 1131684
coverage: WHG 1043800
coverage: Iran_N 1002874
coverage: Natufian 529354
coverage: Dinka 1135118
coverage: Kenya_PastoralN 992567
coverage: Germany_LBK 1121134
Effective number of blocks: 606.161
numsnps used: 1150452
codimension 1
f4info:
f4rank: 2 dof: 19 chisq: 15.307 tail: 0.702922997 dofdiff: 21 chisqdiff: -15.307 taildiff: 1
B:
scale 1.000 1.000
Cameroon_SMA.DG 1.965 -0.156
South_Africa_2000BP 2.322 -0.311
Iberomaurusian 0.054 4.416
Serbia_Mesolithic_IronGates -0.682 -0.335
Yana_UP -0.164 -0.134
Russia_HG_Karelia -0.476 -0.254
Iran_ChL(HF) -0.575 -0.596
MA1 -0.287 -0.171
Mota 1.630 0.092
Iberia_HG -0.277 -0.202
CHG -0.525 -0.240
PPNB -0.675 -0.044
Kostenki14 -0.349 0.125
Taiwan_Hanben_IA 0.087 -0.173
Chile_LosRieles_12000BP.SG -0.101 -0.113
WHG -0.346 -0.333
Iran_N -0.307 -0.432
Natufian -0.444 -0.076
Dinka 2.061 -0.219
Kenya_PastoralN 1.217 -0.090
Germany_LBK -0.931 -0.525
A:
scale 1428.208 2330.932
Kenya_PastoralIA 0.506 -0.007
BedouinB -1.601 -0.397
Morocco_EN -0.426 1.686


full rank
f4info:
f4rank: 3 dof: 0 chisq: 0.000 tail: 1 dofdiff: 19 chisqdiff: 15.307 taildiff: 0.702922997
B:
scale 2617.788 878.207 1283.085
Cameroon_SMA.DG 2.063 -1.881 -0.872
South_Africa_2000BP 2.597 -2.151 -1.078
Iberomaurusian 0.207 -0.694 4.132
Serbia_Mesolithic_IronGates -0.511 0.744 -0.017
Yana_UP 0.211 0.249 0.010
Russia_HG_Karelia -0.250 0.546 0.016
Iran_ChL(HF) -0.283 0.713 -0.296
MA1 -0.294 0.306 -0.028
Mota 1.825 -1.575 -0.507
Iberia_HG 0.219 0.420 0.011
CHG -0.159 0.607 0.027
PPNB -0.170 0.790 0.310
Kostenki14 -0.098 0.351 0.301
Taiwan_Hanben_IA 0.156 -0.050 -0.167
Chile_LosRieles_12000BP.SG -0.159 0.098 -0.089
WHG -0.513 0.343 -0.206
Iran_N -0.141 0.388 -0.264
Natufian -0.028 0.563 0.206
Dinka 1.921 -1.997 -0.989
Kenya_PastoralN 1.225 -1.186 -0.546
Germany_LBK -0.674 1.037 -0.072
A:
scale 1.732 1.732 1.732
Kenya_PastoralIA 1.732 0.000 0.000
BedouinB 0.000 1.732 0.000
Morocco_EN 0.000 0.000 1.732


best coefficients: 0.730 0.216 0.054
Jackknife mean: 0.729199918 0.216495279 0.054304803
std. errors: 0.024 0.021 0.021

error covariance (* 1,000,000)
555 -264 -290
-264 433 -168
-290 -168 459


summ: Kenya_PastoralN_Nderit_possible 3 0.702923 0.729 0.216 0.054 555 -264 -290 433 -168 ...
459

fixed pat wt dof chisq tail prob
000 0 19 15.307 0.702923 0.730 0.216 0.054
001 1 20 21.409 0.373439 0.765 0.235 0.000
010 1 20 117.385 8.67712e-16 0.888 0.000 0.112
100 1 20 961.692 0 0.000 0.686 0.314
011 2 21 139.221 1.91547e-19 1.000 0.000 0.000
101 2 21 1054.953 0 0.000 1.000 0.000
110 2 21 1520.688 0 0.000 0.000 1.000
best pat: 000 0.702923 - -
best pat: 001 0.373439 chi(nested): 6.102 p-value for nested model: 0.0135021
best pat: 011 1.91547e-19 chi(nested): 117.812 p-value for nested model: 1.90612e-27

coeffs: 0.730 0.216 0.054

## dscore:: f_4(Base, Fit, Rbase, right2)
## genstat:: f_4(Base, Fit, right1, right2)

details: Kenya_PastoralIA Cameroon_SMA.DG 0.000788 6.097978
details: BedouinB Cameroon_SMA.DG -0.002142 -15.736765
details: Morocco_EN Cameroon_SMA.DG -0.000680 -5.646684
dscore: Cameroon_SMA.DG f4: 0.000075 Z: 0.648394

details: Kenya_PastoralIA South_Africa_2000BP 0.000992 7.039519
details: BedouinB South_Africa_2000BP -0.002449 -17.226935
details: Morocco_EN South_Africa_2000BP -0.000840 -6.773719
dscore: South_Africa_2000BP f4: 0.000149 Z: 1.199704

details: Kenya_PastoralIA Iberomaurusian 0.000079 0.604433
details: BedouinB Iberomaurusian -0.000790 -5.936218
details: Morocco_EN Iberomaurusian 0.003220 24.274367
dscore: Iberomaurusian f4: 0.000060 Z: 0.526068

details: Kenya_PastoralIA Serbia_Mesolithic_IronGates -0.000195 -1.318551
details: BedouinB Serbia_Mesolithic_IronGates 0.000847 5.465984
details: Morocco_EN Serbia_Mesolithic_IronGates -0.000013 -0.088790
dscore: Serbia_Mesolithic_IronGates f4: 0.000040 Z: 0.302595

details: Kenya_PastoralIA Yana_UP 0.000081 0.777299
details: BedouinB Yana_UP 0.000283 2.688481
details: Morocco_EN Yana_UP 0.000008 0.082903
dscore: Yana_UP f4: 0.000121 Z: 1.313360

details: Kenya_PastoralIA Russia_HG_Karelia -0.000095 -0.782258
details: BedouinB Russia_HG_Karelia 0.000622 4.687888
details: Morocco_EN Russia_HG_Karelia 0.000013 0.105998
dscore: Russia_HG_Karelia f4: 0.000066 Z: 0.602279

details: Kenya_PastoralIA Iran_ChL(HF) -0.000108 -0.870248
details: BedouinB Iran_ChL(HF) 0.000811 6.176099
details: Morocco_EN Iran_ChL(HF) -0.000231 -1.943375
dscore: Iran_ChL(HF) f4: 0.000084 Z: 0.760703

details: Kenya_PastoralIA MA1 -0.000112 -0.846092
details: BedouinB MA1 0.000348 2.436908
details: Morocco_EN MA1 -0.000022 -0.164710
dscore: MA1 f4: -0.000008 Z: -0.065896

details: Kenya_PastoralIA Mota 0.000697 5.301512
details: BedouinB Mota -0.001793 -13.287124
details: Morocco_EN Mota -0.000395 -3.274955
dscore: Mota f4: 0.000099 Z: 0.857698

details: Kenya_PastoralIA Iberia_HG 0.000084 0.730271
details: BedouinB Iberia_HG 0.000478 4.117774
details: Morocco_EN Iberia_HG 0.000008 0.077707
dscore: Iberia_HG f4: 0.000165 Z: 1.647233

details: Kenya_PastoralIA CHG -0.000061 -0.556284
details: BedouinB CHG 0.000691 6.526909
details: Morocco_EN CHG 0.000021 0.200411
dscore: CHG f4: 0.000106 Z: 1.124823

details: Kenya_PastoralIA PPNB -0.000065 -0.465444
details: BedouinB PPNB 0.000900 6.111832
details: Morocco_EN PPNB 0.000242 1.919922
dscore: PPNB f4: 0.000160 Z: 1.288712

details: Kenya_PastoralIA Kostenki14 -0.000037 -0.307217
details: BedouinB Kostenki14 0.000400 3.135565
details: Morocco_EN Kostenki14 0.000235 1.969476
dscore: Kostenki14 f4: 0.000072 Z: 0.673264

details: Kenya_PastoralIA Taiwan_Hanben_IA 0.000060 0.555807
details: BedouinB Taiwan_Hanben_IA -0.000057 -0.549142
details: Morocco_EN Taiwan_Hanben_IA -0.000131 -1.273215
dscore: Taiwan_Hanben_IA f4: 0.000024 Z: 0.258683

details: Kenya_PastoralIA Chile_LosRieles_12000BP.SG -0.000061 -0.584510
details: BedouinB Chile_LosRieles_12000BP.SG 0.000112 1.005467
details: Morocco_EN Chile_LosRieles_12000BP.SG -0.000069 -0.717054
dscore: Chile_LosRieles_12000BP.SG f4: -0.000024 Z: -0.256085

details: Kenya_PastoralIA WHG -0.000196 -1.555703
details: BedouinB WHG 0.000391 3.069647
details: Morocco_EN WHG -0.000161 -1.402796
dscore: WHG f4: -0.000067 Z: -0.598681

details: Kenya_PastoralIA Iran_N -0.000054 -0.457910
details: BedouinB Iran_N 0.000442 3.695408
details: Morocco_EN Iran_N -0.000205 -1.853635
dscore: Iran_N f4: 0.000045 Z: 0.437235

details: Kenya_PastoralIA Natufian -0.000011 -0.057718
details: BedouinB Natufian 0.000641 3.403544
details: Morocco_EN Natufian 0.000161 0.948256
dscore: Natufian f4: 0.000140 Z: 0.842076

details: Kenya_PastoralIA Dinka 0.000734 5.672689
details: BedouinB Dinka -0.002274 -16.753489
details: Morocco_EN Dinka -0.000771 -6.681583
dscore: Dinka f4: 0.000002 Z: 0.015944

details: Kenya_PastoralIA Kenya_PastoralN 0.000468 3.577330
details: BedouinB Kenya_PastoralN -0.001351 -9.922089
details: Morocco_EN Kenya_PastoralN -0.000425 -3.384630
dscore: Kenya_PastoralN f4: 0.000026 Z: 0.229007

details: Kenya_PastoralIA Germany_LBK -0.000257 -1.827635
details: BedouinB Germany_LBK 0.001181 8.222628
details: Morocco_EN Germany_LBK -0.000056 -0.424368
dscore: Germany_LBK f4: 0.000065 Z: 0.521050

gendstat: DevilsGate_N Cameroon_SMA.DG 0.648
gendstat: DevilsGate_N South_Africa_2000BP 1.200
gendstat: DevilsGate_N Iberomaurusian 0.526
gendstat: DevilsGate_N Serbia_Mesolithic_IronGates 0.303
gendstat: DevilsGate_N Yana_UP 1.313
gendstat: DevilsGate_N Russia_HG_Karelia 0.602
gendstat: DevilsGate_N Iran_ChL(HF) 0.761
gendstat: DevilsGate_N MA1 -0.066
gendstat: DevilsGate_N Mota 0.858
gendstat: DevilsGate_N Iberia_HG 1.647
gendstat: DevilsGate_N CHG 1.125
gendstat: DevilsGate_N PPNB 1.289
gendstat: DevilsGate_N Kostenki14 0.673
gendstat: DevilsGate_N Taiwan_Hanben_IA 0.259
gendstat: DevilsGate_N Chile_LosRieles_12000BP.SG -0.256
gendstat: DevilsGate_N WHG -0.599
gendstat: DevilsGate_N Iran_N 0.437
gendstat: DevilsGate_N Natufian 0.842
gendstat: DevilsGate_N Dinka 0.016
gendstat: DevilsGate_N Kenya_PastoralN 0.229
gendstat: DevilsGate_N Germany_LBK 0.521
gendstat: Cameroon_SMA.DG South_Africa_2000BP 0.755
gendstat: Cameroon_SMA.DG Iberomaurusian -0.130
gendstat: Cameroon_SMA.DG Serbia_Mesolithic_IronGates -0.290
gendstat: Cameroon_SMA.DG Yana_UP 0.414
gendstat: Cameroon_SMA.DG Russia_HG_Karelia -0.073
gendstat: Cameroon_SMA.DG Iran_ChL(HF) 0.084
gendstat: Cameroon_SMA.DG MA1 -0.615
gendstat: Cameroon_SMA.DG Mota 0.234
gendstat: Cameroon_SMA.DG Iberia_HG 0.819
gendstat: Cameroon_SMA.DG CHG 0.283
gendstat: Cameroon_SMA.DG PPNB 0.668
gendstat: Cameroon_SMA.DG Kostenki14 -0.023
gendstat: Cameroon_SMA.DG Taiwan_Hanben_IA -0.462
gendstat: Cameroon_SMA.DG Chile_LosRieles_12000BP.SG -0.781
gendstat: Cameroon_SMA.DG WHG -1.127
gendstat: Cameroon_SMA.DG Iran_N -0.264
gendstat: Cameroon_SMA.DG Natufian 0.396
gendstat: Cameroon_SMA.DG Dinka -0.750
gendstat: Cameroon_SMA.DG Kenya_PastoralN -0.468
gendstat: Cameroon_SMA.DG Germany_LBK -0.085
gendstat: South_Africa_2000BP Iberomaurusian -0.770
gendstat: South_Africa_2000BP Serbia_Mesolithic_IronGates -0.862
gendstat: South_Africa_2000BP Yana_UP -0.242
gendstat: South_Africa_2000BP Russia_HG_Karelia -0.636
gendstat: South_Africa_2000BP Iran_ChL(HF) -0.534
gendstat: South_Africa_2000BP MA1 -1.163
gendstat: South_Africa_2000BP Mota -0.440
gendstat: South_Africa_2000BP Iberia_HG 0.134
gendstat: South_Africa_2000BP CHG -0.358
gendstat: South_Africa_2000BP PPNB 0.086
gendstat: South_Africa_2000BP Kostenki14 -0.587
gendstat: South_Africa_2000BP Taiwan_Hanben_IA -1.117
gendstat: South_Africa_2000BP Chile_LosRieles_12000BP.SG -1.291
gendstat: South_Africa_2000BP WHG -1.588
gendstat: South_Africa_2000BP Iran_N -0.848
gendstat: South_Africa_2000BP Natufian -0.055
gendstat: South_Africa_2000BP Dinka -1.422
gendstat: South_Africa_2000BP Kenya_PastoralN -1.152
gendstat: South_Africa_2000BP Germany_LBK -0.689
gendstat: Iberomaurusian Serbia_Mesolithic_IronGates -0.184
gendstat: Iberomaurusian Yana_UP 0.569
gendstat: Iberomaurusian Russia_HG_Karelia 0.044
gendstat: Iberomaurusian Iran_ChL(HF) 0.229
gendstat: Iberomaurusian MA1 -0.529
gendstat: Iberomaurusian Mota 0.332
gendstat: Iberomaurusian Iberia_HG 0.971
gendstat: Iberomaurusian CHG 0.423
gendstat: Iberomaurusian PPNB 0.858
gendstat: Iberomaurusian Kostenki14 0.100
gendstat: Iberomaurusian Taiwan_Hanben_IA -0.365
gendstat: Iberomaurusian Chile_LosRieles_12000BP.SG -0.694
gendstat: Iberomaurusian WHG -1.079
gendstat: Iberomaurusian Iran_N -0.139
gendstat: Iberomaurusian Natufian 0.537
gendstat: Iberomaurusian Dinka -0.516
gendstat: Iberomaurusian Kenya_PastoralN -0.335
gendstat: Iberomaurusian Germany_LBK 0.042
gendstat: Serbia_Mesolithic_IronGates Yana_UP 0.783
gendstat: Serbia_Mesolithic_IronGates Russia_HG_Karelia 0.229
gendstat: Serbia_Mesolithic_IronGates Iran_ChL(HF) 0.476
gendstat: Serbia_Mesolithic_IronGates MA1 -0.373
gendstat: Serbia_Mesolithic_IronGates Mota 0.467
gendstat: Serbia_Mesolithic_IronGates Iberia_HG 1.440
gendstat: Serbia_Mesolithic_IronGates CHG 0.644
gendstat: Serbia_Mesolithic_IronGates PPNB 1.168
gendstat: Serbia_Mesolithic_IronGates Kostenki14 0.278
gendstat: Serbia_Mesolithic_IronGates Taiwan_Hanben_IA -0.159
gendstat: Serbia_Mesolithic_IronGates Chile_LosRieles_12000BP.SG -0.539
gendstat: Serbia_Mesolithic_IronGates WHG -1.062
gendstat: Serbia_Mesolithic_IronGates Iran_N 0.051
gendstat: Serbia_Mesolithic_IronGates Natufian 0.693
gendstat: Serbia_Mesolithic_IronGates Dinka -0.314
gendstat: Serbia_Mesolithic_IronGates Kenya_PastoralN -0.128
gendstat: Serbia_Mesolithic_IronGates Germany_LBK 0.335
gendstat: Yana_UP Russia_HG_Karelia -0.508
gendstat: Yana_UP Iran_ChL(HF) -0.375
gendstat: Yana_UP MA1 -1.129
gendstat: Yana_UP Mota -0.180
gendstat: Yana_UP Iberia_HG 0.482
gendstat: Yana_UP CHG -0.153
gendstat: Yana_UP PPNB 0.370
gendstat: Yana_UP Kostenki14 -0.461
gendstat: Yana_UP Taiwan_Hanben_IA -1.103
gendstat: Yana_UP Chile_LosRieles_12000BP.SG -1.367
gendstat: Yana_UP WHG -1.818
gendstat: Yana_UP Iran_N -0.753
gendstat: Yana_UP Natufian 0.122
gendstat: Yana_UP Dinka -1.087
gendstat: Yana_UP Kenya_PastoralN -0.891
gendstat: Yana_UP Germany_LBK -0.572
gendstat: Russia_HG_Karelia Iran_ChL(HF) 0.165
gendstat: Russia_HG_Karelia MA1 -0.550
gendstat: Russia_HG_Karelia Mota 0.256
gendstat: Russia_HG_Karelia Iberia_HG 0.905
gendstat: Russia_HG_Karelia CHG 0.373
gendstat: Russia_HG_Karelia PPNB 0.748
gendstat: Russia_HG_Karelia Kostenki14 0.051
gendstat: Russia_HG_Karelia Taiwan_Hanben_IA -0.394
gendstat: Russia_HG_Karelia Chile_LosRieles_12000BP.SG -0.806
gendstat: Russia_HG_Karelia WHG -1.114
gendstat: Russia_HG_Karelia Iran_N -0.177
gendstat: Russia_HG_Karelia Natufian 0.454
gendstat: Russia_HG_Karelia Dinka -0.509
gendstat: Russia_HG_Karelia Kenya_PastoralN -0.323
gendstat: Russia_HG_Karelia Germany_LBK -0.009
gendstat: Iran_ChL(HF) MA1 -0.759
gendstat: Iran_ChL(HF) Mota 0.131
gendstat: Iran_ChL(HF) Iberia_HG 0.822
gendstat: Iran_ChL(HF) CHG 0.239
gendstat: Iran_ChL(HF) PPNB 0.782
gendstat: Iran_ChL(HF) Kostenki14 -0.112
gendstat: Iran_ChL(HF) Taiwan_Hanben_IA -0.666
gendstat: Iran_ChL(HF) Chile_LosRieles_12000BP.SG -0.981
gendstat: Iran_ChL(HF) WHG -1.408
gendstat: Iran_ChL(HF) Iran_N -0.428
gendstat: Iran_ChL(HF) Natufian 0.398
gendstat: Iran_ChL(HF) Dinka -0.736
gendstat: Iran_ChL(HF) Kenya_PastoralN -0.601
gendstat: Iran_ChL(HF) Germany_LBK -0.240
gendstat: MA1 Mota 0.779
gendstat: MA1 Iberia_HG 1.386
gendstat: MA1 CHG 0.938
gendstat: MA1 PPNB 1.275
gendstat: MA1 Kostenki14 0.611
gendstat: MA1 Taiwan_Hanben_IA 0.272
gendstat: MA1 Chile_LosRieles_12000BP.SG -0.127
gendstat: MA1 WHG -0.448
gendstat: MA1 Iran_N 0.434
gendstat: MA1 Natufian 0.840
gendstat: MA1 Dinka 0.074
gendstat: MA1 Kenya_PastoralN 0.264
gendstat: MA1 Germany_LBK 0.580
gendstat: Mota Iberia_HG 0.558
gendstat: Mota CHG 0.059
gendstat: Mota PPNB 0.471
gendstat: Mota Kostenki14 -0.220
gendstat: Mota Taiwan_Hanben_IA -0.669
gendstat: Mota Chile_LosRieles_12000BP.SG -0.965
gendstat: Mota WHG -1.247
gendstat: Mota Iran_N -0.453
gendstat: Mota Natufian 0.237
gendstat: Mota Dinka -0.893
gendstat: Mota Kenya_PastoralN -0.686
gendstat: Mota Germany_LBK -0.280
gendstat: Iberia_HG CHG -0.633
gendstat: Iberia_HG PPNB -0.042
gendstat: Iberia_HG Kostenki14 -0.868
gendstat: Iberia_HG Taiwan_Hanben_IA -1.514
gendstat: Iberia_HG Chile_LosRieles_12000BP.SG -1.765
gendstat: Iberia_HG WHG -2.402
gendstat: Iberia_HG Iran_N -1.197
gendstat: Iberia_HG Natufian -0.167
gendstat: Iberia_HG Dinka -1.468
gendstat: Iberia_HG Kenya_PastoralN -1.316
gendstat: Iberia_HG Germany_LBK -1.084
gendstat: CHG PPNB 0.494
gendstat: CHG Kostenki14 -0.316
gendstat: CHG Taiwan_Hanben_IA -0.905
gendstat: CHG Chile_LosRieles_12000BP.SG -1.252
gendstat: CHG WHG -1.590
gendstat: CHG Iran_N -0.659
gendstat: CHG Natufian 0.221
gendstat: CHG Dinka -0.913
gendstat: CHG Kenya_PastoralN -0.752
gendstat: CHG Germany_LBK -0.433
gendstat: PPNB Kostenki14 -0.746
gendstat: PPNB Taiwan_Hanben_IA -1.340
gendstat: PPNB Chile_LosRieles_12000BP.SG -1.500
gendstat: PPNB WHG -1.957
gendstat: PPNB Iran_N -1.094
gendstat: PPNB Natufian -0.145
gendstat: PPNB Dinka -1.254
gendstat: PPNB Kenya_PastoralN -1.162
gendstat: PPNB Germany_LBK -1.055
gendstat: Kostenki14 Taiwan_Hanben_IA -0.474
gendstat: Kostenki14 Chile_LosRieles_12000BP.SG -0.844
gendstat: Kostenki14 WHG -1.145
gendstat: Kostenki14 Iran_N -0.247
gendstat: Kostenki14 Natufian 0.432
gendstat: Kostenki14 Dinka -0.566
gendstat: Kostenki14 Kenya_PastoralN -0.386
gendstat: Kostenki14 Germany_LBK -0.066
gendstat: Taiwan_Hanben_IA Chile_LosRieles_12000BP.SG -0.519
gendstat: Taiwan_Hanben_IA WHG -0.890
gendstat: Taiwan_Hanben_IA Iran_N 0.225
gendstat: Taiwan_Hanben_IA Natufian 0.805
gendstat: Taiwan_Hanben_IA Dinka -0.217
gendstat: Taiwan_Hanben_IA Kenya_PastoralN 0.024
gendstat: Taiwan_Hanben_IA Germany_LBK 0.433
gendstat: Chile_LosRieles_12000BP.SG WHG -0.374
gendstat: Chile_LosRieles_12000BP.SG Iran_N 0.632
gendstat: Chile_LosRieles_12000BP.SG Natufian 0.992
gendstat: Chile_LosRieles_12000BP.SG Dinka 0.205
gendstat: Chile_LosRieles_12000BP.SG Kenya_PastoralN 0.413
gendstat: Chile_LosRieles_12000BP.SG Germany_LBK 0.756
gendstat: WHG Iran_N 1.019
gendstat: WHG Natufian 1.368
gendstat: WHG Dinka 0.552
gendstat: WHG Kenya_PastoralN 0.827
gendstat: WHG Germany_LBK 1.243
gendstat: Iran_N Natufian 0.619
gendstat: Iran_N Dinka -0.385
gendstat: Iran_N Kenya_PastoralN -0.177
gendstat: Iran_N Germany_LBK 0.209
gendstat: Natufian Dinka -0.853
gendstat: Natufian Kenya_PastoralN -0.748
gendstat: Natufian Germany_LBK -0.543
gendstat: Dinka Kenya_PastoralN 0.250
gendstat: Dinka Germany_LBK 0.530
gendstat: Kenya_PastoralN Germany_LBK 0.387

drobbah
03-05-2021, 05:46 AM
What are these PIA samples made up of? Don't they have significant Mota ancestry? How do you reconcile using a Mota admixed population in a model with Somalis who usually lack any Mota affinity or have it a very low level compared to the PNs and other Horners including those linguistically close to us? I would assume the ancestors of us Somalis must have been a very unique population

Mnemonics
03-05-2021, 06:08 AM
What are these PIA samples made up of? Don't they have significant Mota ancestry? How do you reconcile using a Mota admixed population in a model with Somalis who usually lack any Mota affinity or have it a very low level compared to the PNs and other Horners including those linguistically close to us? I would assume the ancestors of us Somalis must have been a very unique population

They are basically PN + Nilotic, their Mota ancestry is very diluted by additional Dinka-like ancestry.

The Pastoral IA samples seem to have a bit too much Mota to be a perfect source but they don't have too much (about 7-10%). If they did it would be noticeable since Mota is in the right pops list.

drobbah
03-05-2021, 06:17 AM
Do you think the entire Cushitic inhabited parts of the Horn at one point was similar to these PIA samples? Or is this model just used to show the increased Levant_BA affinity Somalis have?

Mnemonics
03-05-2021, 06:40 AM
Do you think the entire Cushitic inhabited parts of the Horn at one point was similar to these PIA samples? Or is this model just used to show the increased Levant_BA affinity Somalis have?

I think populations that were Kenya PN-like and Kenya PIA-like were living near each other and intermixing periodically, likely somewhere in Kenya and/or Ethiopia.
The Tanzanian PIA samples are distinct in that they don't seem that different from the Neolithic samples, they are a bit less Eurasian but they are basically the same population.

The Kenya PIA samples were likely mixed with Nilotic groups that were moving down south, I think Strabo even mentioned Iron using "Ethiopians" call the Megabari who were present in the Horn.

The Arabian related admixture is the real head scratcher, I would assume its related to the arrival of camels.

Mnemonics
03-05-2021, 06:47 AM
Here is a simple model for those Kenya Pastoral IA samples





left pops:
Kenya_PastoralIA
Dinka
Kenya_PastoralN

right pops:
DevilsGate_N
Cameroon_SMA.DG
South_Africa_2000BP
Iberomaurusian
Serbia_Mesolithic_IronGates
Yana_UP
Luo
Russia_HG_Karelia
Iran_ChL(HF)
MA1
Iberia_HG
CHG
Mota
Kostenki14
Taiwan_Hanben_IA
Chile_LosRieles_12000BP.SG
WHG
Iran_N
Natufian
Germany_LBK

0 Kenya_PastoralIA 4
1 Dinka 1
2 Kenya_PastoralN 4
3 DevilsGate_N 4
4 Cameroon_SMA.DG 1
5 South_Africa_2000BP 3
6 Iberomaurusian 4
7 Serbia_Mesolithic_IronGates 33
8 Yana_UP 2
9 Luo 2
10 Russia_HG_Karelia 2
11 Iran_ChL(HF) 6
12 MA1 1
13 Iberia_HG 2
14 CHG 2
15 Mota 1
16 Kostenki14 1
17 Taiwan_Hanben_IA 34
18 Chile_LosRieles_12000BP.SG 1
19 WHG 1
20 Iran_N 4
21 Natufian 6
22 Germany_LBK 27
jackknife block size: 0.050
snps: 212726 indivs: 146
number of blocks for block jackknife: 711
## ncols: 212726
coverage: Kenya_PastoralIA 120859
coverage: Dinka 212609
coverage: Kenya_PastoralN 183665
coverage: DevilsGate_N 212544
coverage: Cameroon_SMA.DG 210786
coverage: South_Africa_2000BP 212635
coverage: Iberomaurusian 202440
coverage: Serbia_Mesolithic_IronGates 210467
coverage: Yana_UP 212645
coverage: Luo 206398
coverage: Russia_HG_Karelia 185157
coverage: Iran_ChL(HF) 188524
coverage: MA1 148391
coverage: Iberia_HG 193842
coverage: CHG 212523
coverage: Mota 212504
coverage: Kostenki14 193316
coverage: Taiwan_Hanben_IA 210196
coverage: Chile_LosRieles_12000BP.SG 208968
coverage: WHG 194448
coverage: Iran_N 185768
coverage: Natufian 96789
coverage: Germany_LBK 209517
Effective number of blocks: 601.725
numsnps used: 212726
codimension 1
f4info:
f4rank: 1 dof: 18 chisq: 13.119 tail: 0.784459328 dofdiff: 20 chisqdiff: -13.119 taildiff: 1
B:
scale 1.000
Cameroon_SMA.DG 2.050
South_Africa_2000BP 1.922
Iberomaurusian -0.132
Serbia_Mesolithic_IronGates -0.688
Yana_UP -0.148
Luo 2.246
Russia_HG_Karelia -0.359
Iran_ChL(HF) -0.777
MA1 -0.161
Iberia_HG -0.509
CHG -0.289
Mota 1.497
Kostenki14 -0.126
Taiwan_Hanben_IA -0.084
Chile_LosRieles_12000BP.SG -0.056
WHG -0.592
Iran_N -0.326
Natufian -0.838
Germany_LBK -1.010
A:
scale 485.594
Dinka 1.184
Kenya_PastoralN -0.774


full rank
f4info:
f4rank: 2 dof: 0 chisq: 0.000 tail: 1 dofdiff: 18 chisqdiff: 13.119 taildiff: 0.784459328
B:
scale 405.772 612.854
Cameroon_SMA.DG 2.028 -1.991
South_Africa_2000BP 1.731 -2.157
Iberomaurusian -0.104 0.126
Serbia_Mesolithic_IronGates -0.748 0.573
Yana_UP -0.121 0.195
Luo 2.169 -2.282
Russia_HG_Karelia -0.514 0.124
Iran_ChL(HF) -0.878 0.570
MA1 -0.377 -0.200
Iberia_HG -0.736 0.128
CHG -0.372 0.165
Mota 1.331 -1.718
Kostenki14 -0.133 0.136
Taiwan_Hanben_IA -0.161 -0.043
Chile_LosRieles_12000BP.SG 0.000 0.122
WHG -0.510 0.699
Iran_N -0.366 0.281
Natufian -1.177 0.224
Germany_LBK -1.072 0.874
A:
scale 1.414 1.414
Dinka 1.414 0.000
Kenya_PastoralN 0.000 1.414


best coefficients: 0.395 0.605
Jackknife mean: 0.395425389 0.604574611
std. errors: 0.029 0.029

error covariance (* 1,000,000)
818 -818
-818 818


summ: Kenya_PastoralIA 2 0.784459 0.395 0.605 818 -818 818

fixed pat wt dof chisq tail prob
00 0 18 13.119 0.784459 0.395 0.605
01 1 19 354.759 0 1.000 0.000
10 1 19 167.876 7.39453e-26 0.000 1.000
best pat: 00 0.784459 - -
best pat: 10 7.39453e-26 chi(nested): 154.757 p-value for nested model: 1.58206e-35

coeffs: 0.395 0.605

## dscore:: f_4(Base, Fit, Rbase, right2)
## genstat:: f_4(Base, Fit, right1, right2)

details: Dinka Cameroon_SMA.DG 0.004997 9.539265
details: Kenya_PastoralN Cameroon_SMA.DG -0.003248 -6.381860
dscore: Cameroon_SMA.DG f4: 0.000011 Z: 0.023093

details: Dinka South_Africa_2000BP 0.004265 7.583342
details: Kenya_PastoralN South_Africa_2000BP -0.003520 -6.572812
dscore: South_Africa_2000BP f4: -0.000443 Z: -0.905618

details: Dinka Iberomaurusian -0.000256 -0.522487
details: Kenya_PastoralN Iberomaurusian 0.000205 0.424580
dscore: Iberomaurusian f4: 0.000023 Z: 0.053401

details: Dinka Serbia_Mesolithic_IronGates -0.001844 -4.137956
details: Kenya_PastoralN Serbia_Mesolithic_IronGates 0.000935 2.259073
dscore: Serbia_Mesolithic_IronGates f4: -0.000163 Z: -0.433263

details: Dinka Yana_UP -0.000298 -0.686537
details: Kenya_PastoralN Yana_UP 0.000318 0.775586
dscore: Yana_UP f4: 0.000074 Z: 0.199388

details: Dinka Luo 0.005346 10.278140
details: Kenya_PastoralN Luo -0.003724 -7.577014
dscore: Luo f4: -0.000140 Z: -0.313010

details: Dinka Russia_HG_Karelia -0.001268 -2.456547
details: Kenya_PastoralN Russia_HG_Karelia 0.000203 0.414752
dscore: Russia_HG_Karelia f4: -0.000378 Z: -0.847588

details: Dinka Iran_ChL(HF) -0.002165 -4.508983
details: Kenya_PastoralN Iran_ChL(HF) 0.000930 2.091379
dscore: Iran_ChL(HF) f4: -0.000293 Z: -0.714785

details: Dinka MA1 -0.000930 -1.808208
details: Kenya_PastoralN MA1 -0.000326 -0.644086
dscore: MA1 f4: -0.000564 Z: -1.227197

details: Dinka Iberia_HG -0.001814 -3.655371
details: Kenya_PastoralN Iberia_HG 0.000209 0.438491
dscore: Iberia_HG f4: -0.000590 Z: -1.360726

details: Dinka CHG -0.000916 -1.883424
details: Kenya_PastoralN CHG 0.000270 0.578555
dscore: CHG f4: -0.000199 Z: -0.467314

details: Dinka Mota 0.003280 5.358780
details: Kenya_PastoralN Mota -0.002804 -5.012701
dscore: Mota f4: -0.000399 Z: -0.764021

details: Dinka Kostenki14 -0.000327 -0.594430
details: Kenya_PastoralN Kostenki14 0.000221 0.426399
dscore: Kostenki14 f4: 0.000005 Z: 0.009951

details: Dinka Taiwan_Hanben_IA -0.000396 -1.111990
details: Kenya_PastoralN Taiwan_Hanben_IA -0.000071 -0.210527
dscore: Taiwan_Hanben_IA f4: -0.000199 Z: -0.651583

details: Dinka Chile_LosRieles_12000BP.SG 0.000001 0.001089
details: Kenya_PastoralN Chile_LosRieles_12000BP.SG 0.000200 0.431727
dscore: Chile_LosRieles_12000BP.SG f4: 0.000121 Z: 0.284829

details: Dinka WHG -0.001257 -2.312256
details: Kenya_PastoralN WHG 0.001140 2.189293
dscore: WHG f4: 0.000193 Z: 0.407799

details: Dinka Iran_N -0.000902 -1.864899
details: Kenya_PastoralN Iran_N 0.000458 0.958342
dscore: Iran_N f4: -0.000079 Z: -0.183712

details: Dinka Natufian -0.002901 -5.247489
details: Kenya_PastoralN Natufian 0.000366 0.671066
dscore: Natufian f4: -0.000925 Z: -1.869284

details: Dinka Germany_LBK -0.002642 -6.069858
details: Kenya_PastoralN Germany_LBK 0.001426 3.362212
dscore: Germany_LBK f4: -0.000181 Z: -0.470779

gendstat: DevilsGate_N Cameroon_SMA.DG 0.023
gendstat: DevilsGate_N South_Africa_2000BP -0.906
gendstat: DevilsGate_N Iberomaurusian 0.053
gendstat: DevilsGate_N Serbia_Mesolithic_IronGates -0.433
gendstat: DevilsGate_N Yana_UP 0.199
gendstat: DevilsGate_N Luo -0.313
gendstat: DevilsGate_N Russia_HG_Karelia -0.848
gendstat: DevilsGate_N Iran_ChL(HF) -0.715
gendstat: DevilsGate_N MA1 -1.227
gendstat: DevilsGate_N Iberia_HG -1.361
gendstat: DevilsGate_N CHG -0.467
gendstat: DevilsGate_N Mota -0.764
gendstat: DevilsGate_N Kostenki14 0.010
gendstat: DevilsGate_N Taiwan_Hanben_IA -0.652
gendstat: DevilsGate_N Chile_LosRieles_12000BP.SG 0.285
gendstat: DevilsGate_N WHG 0.408
gendstat: DevilsGate_N Iran_N -0.184
gendstat: DevilsGate_N Natufian -1.869
gendstat: DevilsGate_N Germany_LBK -0.471
gendstat: Cameroon_SMA.DG South_Africa_2000BP -1.184
gendstat: Cameroon_SMA.DG Iberomaurusian 0.027
gendstat: Cameroon_SMA.DG Serbia_Mesolithic_IronGates -0.404
gendstat: Cameroon_SMA.DG Yana_UP 0.139
gendstat: Cameroon_SMA.DG Luo -0.409
gendstat: Cameroon_SMA.DG Russia_HG_Karelia -0.722
gendstat: Cameroon_SMA.DG Iran_ChL(HF) -0.641
gendstat: Cameroon_SMA.DG MA1 -1.023
gendstat: Cameroon_SMA.DG Iberia_HG -1.176
gendstat: Cameroon_SMA.DG CHG -0.438
gendstat: Cameroon_SMA.DG Mota -0.822
gendstat: Cameroon_SMA.DG Kostenki14 -0.011
gendstat: Cameroon_SMA.DG Taiwan_Hanben_IA -0.494
gendstat: Cameroon_SMA.DG Chile_LosRieles_12000BP.SG 0.213
gendstat: Cameroon_SMA.DG WHG 0.343
gendstat: Cameroon_SMA.DG Iran_N -0.189
gendstat: Cameroon_SMA.DG Natufian -1.623
gendstat: Cameroon_SMA.DG Germany_LBK -0.440
gendstat: South_Africa_2000BP Iberomaurusian 0.991
gendstat: South_Africa_2000BP Serbia_Mesolithic_IronGates 0.610
gendstat: South_Africa_2000BP Yana_UP 1.075
gendstat: South_Africa_2000BP Luo 0.781
gendstat: South_Africa_2000BP Russia_HG_Karelia 0.114
gendstat: South_Africa_2000BP Iran_ChL(HF) 0.298
gendstat: South_Africa_2000BP MA1 -0.211
gendstat: South_Africa_2000BP Iberia_HG -0.278
gendstat: South_Africa_2000BP CHG 0.481
gendstat: South_Africa_2000BP Mota 0.089
gendstat: South_Africa_2000BP Kostenki14 0.824
gendstat: South_Africa_2000BP Taiwan_Hanben_IA 0.543
gendstat: South_Africa_2000BP Chile_LosRieles_12000BP.SG 1.035
gendstat: South_Africa_2000BP WHG 1.153
gendstat: South_Africa_2000BP Iran_N 0.718
gendstat: South_Africa_2000BP Natufian -0.825
gendstat: South_Africa_2000BP Germany_LBK 0.567
gendstat: Iberomaurusian Serbia_Mesolithic_IronGates -0.485
gendstat: Iberomaurusian Yana_UP 0.123
gendstat: Iberomaurusian Luo -0.379
gendstat: Iberomaurusian Russia_HG_Karelia -0.830
gendstat: Iberomaurusian Iran_ChL(HF) -0.780
gendstat: Iberomaurusian MA1 -1.142
gendstat: Iberomaurusian Iberia_HG -1.348
gendstat: Iberomaurusian CHG -0.501
gendstat: Iberomaurusian Mota -0.801
gendstat: Iberomaurusian Kostenki14 -0.036
gendstat: Iberomaurusian Taiwan_Hanben_IA -0.589
gendstat: Iberomaurusian Chile_LosRieles_12000BP.SG 0.207
gendstat: Iberomaurusian WHG 0.345
gendstat: Iberomaurusian Iran_N -0.224
gendstat: Iberomaurusian Natufian -1.825
gendstat: Iberomaurusian Germany_LBK -0.547
gendstat: Serbia_Mesolithic_IronGates Yana_UP 0.685
gendstat: Serbia_Mesolithic_IronGates Luo 0.058
gendstat: Serbia_Mesolithic_IronGates Russia_HG_Karelia -0.550
gendstat: Serbia_Mesolithic_IronGates Iran_ChL(HF) -0.421
gendstat: Serbia_Mesolithic_IronGates MA1 -0.883
gendstat: Serbia_Mesolithic_IronGates Iberia_HG -1.401
gendstat: Serbia_Mesolithic_IronGates CHG -0.100
gendstat: Serbia_Mesolithic_IronGates Mota -0.458
gendstat: Serbia_Mesolithic_IronGates Kostenki14 0.385
gendstat: Serbia_Mesolithic_IronGates Taiwan_Hanben_IA -0.120
gendstat: Serbia_Mesolithic_IronGates Chile_LosRieles_12000BP.SG 0.655
gendstat: Serbia_Mesolithic_IronGates WHG 0.939
gendstat: Serbia_Mesolithic_IronGates Iran_N 0.231
gendstat: Serbia_Mesolithic_IronGates Natufian -1.585
gendstat: Serbia_Mesolithic_IronGates Germany_LBK -0.074
gendstat: Yana_UP Luo -0.496
gendstat: Yana_UP Russia_HG_Karelia -0.989
gendstat: Yana_UP Iran_ChL(HF) -0.940
gendstat: Yana_UP MA1 -1.339
gendstat: Yana_UP Iberia_HG -1.595
gendstat: Yana_UP CHG -0.650
gendstat: Yana_UP Mota -0.916
gendstat: Yana_UP Kostenki14 -0.146
gendstat: Yana_UP Taiwan_Hanben_IA -0.818
gendstat: Yana_UP Chile_LosRieles_12000BP.SG 0.103
gendstat: Yana_UP WHG 0.253
gendstat: Yana_UP Iran_N -0.383
gendstat: Yana_UP Natufian -1.963
gendstat: Yana_UP Germany_LBK -0.771
gendstat: Luo Russia_HG_Karelia -0.467
gendstat: Luo Iran_ChL(HF) -0.341
gendstat: Luo MA1 -0.825
gendstat: Luo Iberia_HG -0.911
gendstat: Luo CHG -0.133
gendstat: Luo Mota -0.560
gendstat: Luo Kostenki14 0.279
gendstat: Luo Taiwan_Hanben_IA -0.151
gendstat: Luo Chile_LosRieles_12000BP.SG 0.530
gendstat: Luo WHG 0.642
gendstat: Luo Iran_N 0.134
gendstat: Luo Natufian -1.402
gendstat: Luo Germany_LBK -0.099
gendstat: Russia_HG_Karelia Iran_ChL(HF) 0.191
gendstat: Russia_HG_Karelia MA1 -0.357
gendstat: Russia_HG_Karelia Iberia_HG -0.456
gendstat: Russia_HG_Karelia CHG 0.382
gendstat: Russia_HG_Karelia Mota -0.035
gendstat: Russia_HG_Karelia Kostenki14 0.723
gendstat: Russia_HG_Karelia Taiwan_Hanben_IA 0.424
gendstat: Russia_HG_Karelia Chile_LosRieles_12000BP.SG 0.996
gendstat: Russia_HG_Karelia WHG 1.134
gendstat: Russia_HG_Karelia Iran_N 0.629
gendstat: Russia_HG_Karelia Natufian -0.945
gendstat: Russia_HG_Karelia Germany_LBK 0.468
gendstat: Iran_ChL(HF) MA1 -0.570
gendstat: Iran_ChL(HF) Iberia_HG -0.730
gendstat: Iran_ChL(HF) CHG 0.246
gendstat: Iran_ChL(HF) Mota -0.194
gendstat: Iran_ChL(HF) Kostenki14 0.620
gendstat: Iran_ChL(HF) Taiwan_Hanben_IA 0.274
gendstat: Iran_ChL(HF) Chile_LosRieles_12000BP.SG 0.881
gendstat: Iran_ChL(HF) WHG 1.066
gendstat: Iran_ChL(HF) Iran_N 0.566
gendstat: Iran_ChL(HF) Natufian -1.271
gendstat: Iran_ChL(HF) Germany_LBK 0.402
gendstat: MA1 Iberia_HG -0.051
gendstat: MA1 CHG 0.712
gendstat: MA1 Mota 0.276
gendstat: MA1 Kostenki14 1.000
gendstat: MA1 Taiwan_Hanben_IA 0.803
gendstat: MA1 Chile_LosRieles_12000BP.SG 1.281
gendstat: MA1 WHG 1.391
gendstat: MA1 Iran_N 0.951
gendstat: MA1 Natufian -0.620
gendstat: MA1 Germany_LBK 0.858
gendstat: Iberia_HG CHG 0.912
gendstat: Iberia_HG Mota 0.337
gendstat: Iberia_HG Kostenki14 1.181
gendstat: Iberia_HG Taiwan_Hanben_IA 1.008
gendstat: Iberia_HG Chile_LosRieles_12000BP.SG 1.432
gendstat: Iberia_HG WHG 1.803
gendstat: Iberia_HG Iran_N 1.132
gendstat: Iberia_HG Natufian -0.616
gendstat: Iberia_HG Germany_LBK 1.119
gendstat: CHG Mota -0.363
gendstat: CHG Kostenki14 0.414
gendstat: CHG Taiwan_Hanben_IA -0.001
gendstat: CHG Chile_LosRieles_12000BP.SG 0.662
gendstat: CHG WHG 0.814
gendstat: CHG Iran_N 0.298
gendstat: CHG Natufian -1.369
gendstat: CHG Germany_LBK 0.051
gendstat: Mota Kostenki14 0.669
gendstat: Mota Taiwan_Hanben_IA 0.414
gendstat: Mota Chile_LosRieles_12000BP.SG 0.903
gendstat: Mota WHG 1.008
gendstat: Mota Iran_N 0.586
gendstat: Mota Natufian -0.838
gendstat: Mota Germany_LBK 0.421
gendstat: Kostenki14 Taiwan_Hanben_IA -0.459
gendstat: Kostenki14 Chile_LosRieles_12000BP.SG 0.220
gendstat: Kostenki14 WHG 0.348
gendstat: Kostenki14 Iran_N -0.172
gendstat: Kostenki14 Natufian -1.562
gendstat: Kostenki14 Germany_LBK -0.425
gendstat: Taiwan_Hanben_IA Chile_LosRieles_12000BP.SG 0.818
gendstat: Taiwan_Hanben_IA WHG 0.907
gendstat: Taiwan_Hanben_IA Iran_N 0.330
gendstat: Taiwan_Hanben_IA Natufian -1.523
gendstat: Taiwan_Hanben_IA Germany_LBK 0.060
gendstat: Chile_LosRieles_12000BP.SG WHG 0.138
gendstat: Chile_LosRieles_12000BP.SG Iran_N -0.417
gendstat: Chile_LosRieles_12000BP.SG Natufian -1.889
gendstat: Chile_LosRieles_12000BP.SG Germany_LBK -0.691
gendstat: WHG Iran_N -0.563
gendstat: WHG Natufian -1.996
gendstat: WHG Germany_LBK -0.917
gendstat: Iran_N Natufian -1.595
gendstat: Iran_N Germany_LBK -0.294
gendstat: Natufian Germany_LBK 1.587

Mnemonics
03-05-2021, 07:02 AM
Using the Natufian-rich Tanzanian samples works better when modeling those Kenyan IA pastoralists





left pops:
Kenya_PastoralIA
Dinka
Tanzania_PastoralIA

right pops:
Cameroon_SMA.DG
DevilsGate_N
South_Africa_2000BP
Iberomaurusian
Serbia_Mesolithic_IronGates
Yana_UP
Luo
Russia_HG_Karelia
Iran_ChL(HF)
MA1
Iberia_HG
CHG
Mota
Kostenki14
Taiwan_Hanben_IA
PPNB
Chile_LosRieles_12000BP.SG
WHG
Iran_N
Natufian
Germany_LBK

0 Kenya_PastoralIA 4
1 Dinka 1
2 Tanzania_PastoralIA 4
3 Cameroon_SMA.DG 1
4 DevilsGate_N 4
5 South_Africa_2000BP 3
6 Iberomaurusian 4
7 Serbia_Mesolithic_IronGates 33
8 Yana_UP 2
9 Luo 2
10 Russia_HG_Karelia 2
11 Iran_ChL(HF) 6
12 MA1 1
13 Iberia_HG 2
14 CHG 2
15 Mota 1
16 Kostenki14 1
17 Taiwan_Hanben_IA 34
18 PPNB 12
19 Chile_LosRieles_12000BP.SG 1
20 WHG 1
21 Iran_N 4
22 Natufian 6
23 Germany_LBK 27
jackknife block size: 0.050
snps: 212726 indivs: 158
number of blocks for block jackknife: 711
## ncols: 212726
coverage: Kenya_PastoralIA 120859
coverage: Dinka 212609
coverage: Tanzania_PastoralIA 146290
coverage: Cameroon_SMA.DG 210786
coverage: DevilsGate_N 212544
coverage: South_Africa_2000BP 212635
coverage: Iberomaurusian 202440
coverage: Serbia_Mesolithic_IronGates 210467
coverage: Yana_UP 212645
coverage: Luo 206398
coverage: Russia_HG_Karelia 185157
coverage: Iran_ChL(HF) 188524
coverage: MA1 148391
coverage: Iberia_HG 193842
coverage: CHG 212523
coverage: Mota 212504
coverage: Kostenki14 193316
coverage: Taiwan_Hanben_IA 210196
coverage: PPNB 158806
coverage: Chile_LosRieles_12000BP.SG 208968
coverage: WHG 194448
coverage: Iran_N 185768
coverage: Natufian 96789
coverage: Germany_LBK 209517
Effective number of blocks: 602.841
numsnps used: 212726
codimension 1
f4info:
f4rank: 1 dof: 19 chisq: 9.833 tail: 0.956943284 dofdiff: 21 chisqdiff: -9.833 taildiff: 1
B:
scale 1.000
DevilsGate_N 0.855
South_Africa_2000BP 0.105
Iberomaurusian 0.899
Serbia_Mesolithic_IronGates 1.288
Yana_UP 0.883
Luo -0.053
Russia_HG_Karelia 1.063
Iran_ChL(HF) 1.278
MA1 0.882
Iberia_HG 1.173
CHG 1.021
Mota 0.171
Kostenki14 0.846
Taiwan_Hanben_IA 1.024
PPNB 1.395
Chile_LosRieles_12000BP.SG 0.864
WHG 1.084
Iran_N 1.047
Natufian 1.129
Germany_LBK 1.421
A:
scale 211.055
Dinka -1.215
Tanzania_PastoralIA 0.724


full rank
f4info:
f4rank: 2 dof: 0 chisq: 0.000 tail: 1 dofdiff: 19 chisqdiff: 9.833 taildiff: 0.956943284
B:
scale 169.504 279.824
DevilsGate_N -0.847 0.913
South_Africa_2000BP -0.134 0.111
Iberomaurusian -0.903 0.883
Serbia_Mesolithic_IronGates -1.260 1.332
Yana_UP -0.878 0.916
Luo 0.012 -0.012
Russia_HG_Karelia -1.102 0.987
Iran_ChL(HF) -1.274 1.273
MA1 -0.952 0.745
Iberia_HG -1.152 1.220
CHG -0.988 1.110
Mota -0.257 0.084
Kostenki14 -0.847 0.886
Taiwan_Hanben_IA -1.006 1.093
PPNB -1.446 1.188
Chile_LosRieles_12000BP.SG -0.830 0.982
WHG -1.051 1.156
Iran_N -1.033 1.087
Natufian -1.167 0.966
Germany_LBK -1.391 1.441
A:
scale 1.414 1.414
Dinka 1.414 0.000
Tanzania_PastoralIA 0.000 1.414


best coefficients: 0.373 0.627
Jackknife mean: 0.374071091 0.625928909
std. errors: 0.030 0.030

error covariance (* 1,000,000)
928 -928
-928 928


summ: Kenya_PastoralIA 2 0.956943 0.374 0.626 928 -928 928

fixed pat wt dof chisq tail prob
00 0 19 9.833 0.956943 0.373 0.627
01 1 20 380.071 0 1.000 0.000
10 1 20 111.016 1.28143e-14 0.000 1.000
best pat: 00 0.956943 - -
best pat: 10 1.28143e-14 chi(nested): 101.183 p-value for nested model: 8.38622e-24

coeffs: 0.373 0.627

## dscore:: f_4(Base, Fit, Rbase, right2)
## genstat:: f_4(Base, Fit, right1, right2)

details: Dinka DevilsGate_N -0.004997 -9.518597
details: Tanzania_PastoralIA DevilsGate_N 0.003263 5.515772
dscore: DevilsGate_N f4: 0.000179 Z: 0.363142

details: Dinka South_Africa_2000BP -0.000788 -1.811986
details: Tanzania_PastoralIA South_Africa_2000BP 0.000397 0.881724
dscore: South_Africa_2000BP f4: -0.000045 Z: -0.118932

details: Dinka Iberomaurusian -0.005328 -10.134383
details: Tanzania_PastoralIA Iberomaurusian 0.003157 5.516897
dscore: Iberomaurusian f4: -0.000011 Z: -0.022774

details: Dinka Serbia_Mesolithic_IronGates -0.007436 -13.485701
details: Tanzania_PastoralIA Serbia_Mesolithic_IronGates 0.004759 7.696404
dscore: Serbia_Mesolithic_IronGates f4: 0.000206 Z: 0.404421

details: Dinka Yana_UP -0.005177 -9.743444
details: Tanzania_PastoralIA Yana_UP 0.003274 5.606061
dscore: Yana_UP f4: 0.000119 Z: 0.244047

details: Dinka Luo 0.000073 0.173003
details: Tanzania_PastoralIA Luo -0.000044 -0.098894
dscore: Luo f4: -0.000000 Z: -0.000741

details: Dinka Russia_HG_Karelia -0.006502 -10.365782
details: Tanzania_PastoralIA Russia_HG_Karelia 0.003527 5.026758
dscore: Russia_HG_Karelia f4: -0.000217 Z: -0.372036

details: Dinka Iran_ChL(HF) -0.007517 -13.389772
details: Tanzania_PastoralIA Iran_ChL(HF) 0.004550 7.400545
dscore: Iran_ChL(HF) f4: 0.000045 Z: 0.088086

details: Dinka MA1 -0.005615 -9.136969
details: Tanzania_PastoralIA MA1 0.002663 3.977628
dscore: MA1 f4: -0.000428 Z: -0.753748

details: Dinka Iberia_HG -0.006797 -11.555036
details: Tanzania_PastoralIA Iberia_HG 0.004360 6.795509
dscore: Iberia_HG f4: 0.000195 Z: 0.360278

details: Dinka CHG -0.005828 -10.501049
details: Tanzania_PastoralIA CHG 0.003968 6.580431
dscore: CHG f4: 0.000311 Z: 0.622502

details: Dinka Mota -0.001514 -2.685343
details: Tanzania_PastoralIA Mota 0.000302 0.557330
dscore: Mota f4: -0.000376 Z: -0.790503

details: Dinka Kostenki14 -0.004995 -7.967956
details: Tanzania_PastoralIA Kostenki14 0.003168 4.819456
dscore: Kostenki14 f4: 0.000120 Z: 0.215308

details: Dinka Taiwan_Hanben_IA -0.005933 -10.886358
details: Tanzania_PastoralIA Taiwan_Hanben_IA 0.003905 6.379461
dscore: Taiwan_Hanben_IA f4: 0.000232 Z: 0.449950

details: Dinka PPNB -0.008531 -14.535248
details: Tanzania_PastoralIA PPNB 0.004244 6.134229
dscore: PPNB f4: -0.000525 Z: -0.924832

details: Dinka Chile_LosRieles_12000BP.SG -0.004894 -8.017555
details: Tanzania_PastoralIA Chile_LosRieles_12000BP.SG 0.003509 5.430947
dscore: Chile_LosRieles_12000BP.SG f4: 0.000372 Z: 0.682114

details: Dinka WHG -0.006203 -9.982078
details: Tanzania_PastoralIA WHG 0.004130 6.187154
dscore: WHG f4: 0.000273 Z: 0.486892

details: Dinka Iran_N -0.006093 -10.987705
details: Tanzania_PastoralIA Iran_N 0.003885 6.271041
dscore: Iran_N f4: 0.000160 Z: 0.308694

details: Dinka Natufian -0.006886 -10.976698
details: Tanzania_PastoralIA Natufian 0.003451 4.833617
dscore: Natufian f4: -0.000408 Z: -0.690226

details: Dinka Germany_LBK -0.008207 -15.258864
details: Tanzania_PastoralIA Germany_LBK 0.005149 8.358139
dscore: Germany_LBK f4: 0.000163 Z: 0.321333

gendstat: Cameroon_SMA.DG DevilsGate_N 0.363
gendstat: Cameroon_SMA.DG South_Africa_2000BP -0.119
gendstat: Cameroon_SMA.DG Iberomaurusian -0.023
gendstat: Cameroon_SMA.DG Serbia_Mesolithic_IronGates 0.404
gendstat: Cameroon_SMA.DG Yana_UP 0.244
gendstat: Cameroon_SMA.DG Luo -0.001
gendstat: Cameroon_SMA.DG Russia_HG_Karelia -0.372
gendstat: Cameroon_SMA.DG Iran_ChL(HF) 0.088
gendstat: Cameroon_SMA.DG MA1 -0.754
gendstat: Cameroon_SMA.DG Iberia_HG 0.360
gendstat: Cameroon_SMA.DG CHG 0.623
gendstat: Cameroon_SMA.DG Mota -0.791
gendstat: Cameroon_SMA.DG Kostenki14 0.215
gendstat: Cameroon_SMA.DG Taiwan_Hanben_IA 0.450
gendstat: Cameroon_SMA.DG PPNB -0.925
gendstat: Cameroon_SMA.DG Chile_LosRieles_12000BP.SG 0.682
gendstat: Cameroon_SMA.DG WHG 0.487
gendstat: Cameroon_SMA.DG Iran_N 0.309
gendstat: Cameroon_SMA.DG Natufian -0.690
gendstat: Cameroon_SMA.DG Germany_LBK 0.321
gendstat: DevilsGate_N South_Africa_2000BP -0.447
gendstat: DevilsGate_N Iberomaurusian -0.434
gendstat: DevilsGate_N Serbia_Mesolithic_IronGates 0.069
gendstat: DevilsGate_N Yana_UP -0.148
gendstat: DevilsGate_N Luo -0.406
gendstat: DevilsGate_N Russia_HG_Karelia -0.792
gendstat: DevilsGate_N Iran_ChL(HF) -0.316
gendstat: DevilsGate_N MA1 -1.148
gendstat: DevilsGate_N Iberia_HG 0.034
gendstat: DevilsGate_N CHG 0.284
gendstat: DevilsGate_N Mota -0.996
gendstat: DevilsGate_N Kostenki14 -0.119
gendstat: DevilsGate_N Taiwan_Hanben_IA 0.160
gendstat: DevilsGate_N PPNB -1.449
gendstat: DevilsGate_N Chile_LosRieles_12000BP.SG 0.415
gendstat: DevilsGate_N WHG 0.182
gendstat: DevilsGate_N Iran_N -0.042
gendstat: DevilsGate_N Natufian -0.985
gendstat: DevilsGate_N Germany_LBK -0.042
gendstat: South_Africa_2000BP Iberomaurusian 0.070
gendstat: South_Africa_2000BP Serbia_Mesolithic_IronGates 0.500
gendstat: South_Africa_2000BP Yana_UP 0.332
gendstat: South_Africa_2000BP Luo 0.118
gendstat: South_Africa_2000BP Russia_HG_Karelia -0.287
gendstat: South_Africa_2000BP Iran_ChL(HF) 0.174
gendstat: South_Africa_2000BP MA1 -0.646
gendstat: South_Africa_2000BP Iberia_HG 0.443
gendstat: South_Africa_2000BP CHG 0.683
gendstat: South_Africa_2000BP Mota -0.689
gendstat: South_Africa_2000BP Kostenki14 0.295
gendstat: South_Africa_2000BP Taiwan_Hanben_IA 0.566
gendstat: South_Africa_2000BP PPNB -0.843
gendstat: South_Africa_2000BP Chile_LosRieles_12000BP.SG 0.752
gendstat: South_Africa_2000BP WHG 0.548
gendstat: South_Africa_2000BP Iran_N 0.384
gendstat: South_Africa_2000BP Natufian -0.592
gendstat: South_Africa_2000BP Germany_LBK 0.408
gendstat: Iberomaurusian Serbia_Mesolithic_IronGates 0.533
gendstat: Iberomaurusian Yana_UP 0.291
gendstat: Iberomaurusian Luo 0.025
gendstat: Iberomaurusian Russia_HG_Karelia -0.384
gendstat: Iberomaurusian Iran_ChL(HF) 0.133
gendstat: Iberomaurusian MA1 -0.741
gendstat: Iberomaurusian Iberia_HG 0.436
gendstat: Iberomaurusian CHG 0.700
gendstat: Iberomaurusian Mota -0.668
gendstat: Iberomaurusian Kostenki14 0.246
gendstat: Iberomaurusian Taiwan_Hanben_IA 0.583
gendstat: Iberomaurusian PPNB -1.076
gendstat: Iberomaurusian Chile_LosRieles_12000BP.SG 0.760
gendstat: Iberomaurusian WHG 0.554
gendstat: Iberomaurusian Iran_N 0.365
gendstat: Iberomaurusian Natufian -0.667
gendstat: Iberomaurusian Germany_LBK 0.453
gendstat: Serbia_Mesolithic_IronGates Yana_UP -0.242
gendstat: Serbia_Mesolithic_IronGates Luo -0.466
gendstat: Serbia_Mesolithic_IronGates Russia_HG_Karelia -1.023
gendstat: Serbia_Mesolithic_IronGates Iran_ChL(HF) -0.482
gendstat: Serbia_Mesolithic_IronGates MA1 -1.275
gendstat: Serbia_Mesolithic_IronGates Iberia_HG -0.035
gendstat: Serbia_Mesolithic_IronGates CHG 0.266
gendstat: Serbia_Mesolithic_IronGates Mota -1.038
gendstat: Serbia_Mesolithic_IronGates Kostenki14 -0.187
gendstat: Serbia_Mesolithic_IronGates Taiwan_Hanben_IA 0.078
gendstat: Serbia_Mesolithic_IronGates PPNB -1.806
gendstat: Serbia_Mesolithic_IronGates Chile_LosRieles_12000BP.SG 0.353
gendstat: Serbia_Mesolithic_IronGates WHG 0.163
gendstat: Serbia_Mesolithic_IronGates Iran_N -0.115
gendstat: Serbia_Mesolithic_IronGates Natufian -1.106
gendstat: Serbia_Mesolithic_IronGates Germany_LBK -0.167
gendstat: Yana_UP Luo -0.273
gendstat: Yana_UP Russia_HG_Karelia -0.682
gendstat: Yana_UP Iran_ChL(HF) -0.175
gendstat: Yana_UP MA1 -1.094
gendstat: Yana_UP Iberia_HG 0.179
gendstat: Yana_UP CHG 0.426
gendstat: Yana_UP Mota -0.913
gendstat: Yana_UP Kostenki14 0.003
gendstat: Yana_UP Taiwan_Hanben_IA 0.296
gendstat: Yana_UP PPNB -1.409
gendstat: Yana_UP Chile_LosRieles_12000BP.SG 0.514
gendstat: Yana_UP WHG 0.315
gendstat: Yana_UP Iran_N 0.096
gendstat: Yana_UP Natufian -0.912
gendstat: Yana_UP Germany_LBK 0.125
gendstat: Luo Russia_HG_Karelia -0.398
gendstat: Luo Iran_ChL(HF) 0.099
gendstat: Luo MA1 -0.827
gendstat: Luo Iberia_HG 0.391
gendstat: Luo CHG 0.680
gendstat: Luo Mota -0.834
gendstat: Luo Kostenki14 0.231
gendstat: Luo Taiwan_Hanben_IA 0.535
gendstat: Luo PPNB -1.012
gendstat: Luo Chile_LosRieles_12000BP.SG 0.740
gendstat: Luo WHG 0.502
gendstat: Luo Iran_N 0.334
gendstat: Luo Natufian -0.686
gendstat: Luo Germany_LBK 0.372
gendstat: Russia_HG_Karelia Iran_ChL(HF) 0.548
gendstat: Russia_HG_Karelia MA1 -0.360
gendstat: Russia_HG_Karelia Iberia_HG 0.841
gendstat: Russia_HG_Karelia CHG 1.027
gendstat: Russia_HG_Karelia Mota -0.242
gendstat: Russia_HG_Karelia Kostenki14 0.603
gendstat: Russia_HG_Karelia Taiwan_Hanben_IA 0.955
gendstat: Russia_HG_Karelia PPNB -0.570
gendstat: Russia_HG_Karelia Chile_LosRieles_12000BP.SG 1.079
gendstat: Russia_HG_Karelia WHG 0.933
gendstat: Russia_HG_Karelia Iran_N 0.745
gendstat: Russia_HG_Karelia Natufian -0.288
gendstat: Russia_HG_Karelia Germany_LBK 0.852
gendstat: Iran_ChL(HF) MA1 -0.885
gendstat: Iran_ChL(HF) Iberia_HG 0.349
gendstat: Iran_ChL(HF) CHG 0.649
gendstat: Iran_ChL(HF) Mota -0.735
gendstat: Iran_ChL(HF) Kostenki14 0.152
gendstat: Iran_ChL(HF) Taiwan_Hanben_IA 0.497
gendstat: Iran_ChL(HF) PPNB -1.366
gendstat: Iran_ChL(HF) Chile_LosRieles_12000BP.SG 0.658
gendstat: Iran_ChL(HF) WHG 0.477
gendstat: Iran_ChL(HF) Iran_N 0.274
gendstat: Iran_ChL(HF) Natufian -0.786
gendstat: Iran_ChL(HF) Germany_LBK 0.387
gendstat: MA1 Iberia_HG 1.134
gendstat: MA1 CHG 1.336
gendstat: MA1 Mota 0.082
gendstat: MA1 Kostenki14 0.919
gendstat: MA1 Taiwan_Hanben_IA 1.314
gendstat: MA1 PPNB -0.173
gendstat: MA1 Chile_LosRieles_12000BP.SG 1.409
gendstat: MA1 WHG 1.196
gendstat: MA1 Iran_N 1.046
gendstat: MA1 Natufian 0.030
gendstat: MA1 Germany_LBK 1.182
gendstat: Iberia_HG CHG 0.253
gendstat: Iberia_HG Mota -0.958
gendstat: Iberia_HG Kostenki14 -0.144
gendstat: Iberia_HG Taiwan_Hanben_IA 0.088
gendstat: Iberia_HG PPNB -1.459
gendstat: Iberia_HG Chile_LosRieles_12000BP.SG 0.334
gendstat: Iberia_HG WHG 0.166
gendstat: Iberia_HG Iran_N -0.074
gendstat: Iberia_HG Natufian -0.985
gendstat: Iberia_HG Germany_LBK -0.085
gendstat: CHG Mota -1.200
gendstat: CHG Kostenki14 -0.373
gendstat: CHG Taiwan_Hanben_IA -0.189
gendstat: CHG PPNB -1.720
gendstat: CHG Chile_LosRieles_12000BP.SG 0.120
gendstat: CHG WHG -0.074
gendstat: CHG Iran_N -0.340
gendstat: CHG Natufian -1.157
gendstat: CHG Germany_LBK -0.385
gendstat: Mota Kostenki14 0.794
gendstat: Mota Taiwan_Hanben_IA 1.125
gendstat: Mota PPNB -0.240
gendstat: Mota Chile_LosRieles_12000BP.SG 1.242
gendstat: Mota WHG 1.037
gendstat: Mota Iran_N 0.913
gendstat: Mota Natufian -0.047
gendstat: Mota Germany_LBK 0.969
gendstat: Kostenki14 Taiwan_Hanben_IA 0.234
gendstat: Kostenki14 PPNB -1.167
gendstat: Kostenki14 Chile_LosRieles_12000BP.SG 0.437
gendstat: Kostenki14 WHG 0.267
gendstat: Kostenki14 Iran_N 0.076
gendstat: Kostenki14 Natufian -0.805
gendstat: Kostenki14 Germany_LBK 0.092
gendstat: Taiwan_Hanben_IA PPNB -1.709
gendstat: Taiwan_Hanben_IA Chile_LosRieles_12000BP.SG 0.334
gendstat: Taiwan_Hanben_IA WHG 0.086
gendstat: Taiwan_Hanben_IA Iran_N -0.173
gendstat: Taiwan_Hanben_IA Natufian -1.090
gendstat: Taiwan_Hanben_IA Germany_LBK -0.208
gendstat: PPNB Chile_LosRieles_12000BP.SG 1.599
gendstat: PPNB WHG 1.492
gendstat: PPNB Iran_N 1.436
gendstat: PPNB Natufian 0.200
gendstat: PPNB Germany_LBK 1.834
gendstat: Chile_LosRieles_12000BP.SG WHG -0.175
gendstat: Chile_LosRieles_12000BP.SG Iran_N -0.410
gendstat: Chile_LosRieles_12000BP.SG Natufian -1.190
gendstat: Chile_LosRieles_12000BP.SG Germany_LBK -0.438
gendstat: WHG Iran_N -0.219
gendstat: WHG Natufian -1.059
gendstat: WHG Germany_LBK -0.256
gendstat: Iran_N Natufian -0.939
gendstat: Iran_N Germany_LBK 0.007
gendstat: Natufian Germany_LBK 1.039

##end of qpAdm: 38.323 seconds cpu 318.865 Mbytes in use

drobbah
03-05-2021, 08:31 AM
I think populations that were Kenya PN-like and Kenya PIA-like were living near each other and intermixing periodically, likely somewhere in Kenya and/or Ethiopia.
The Tanzanian PIA samples are distinct in that they don't seem that different from the Neolithic samples, they are a bit less Eurasian but they are basically the same population.

The Kenya PIA samples were likely mixed with Nilotic groups that were moving down south, I think Strabo even mentioned Iron using "Ethiopians" call the Megabari who were present in the Horn.

The Arabian related admixture is the real head scratcher, I would assume its related to the arrival of camels.
We have evidence of a pre-Islamic Arabian presence inland in Gabiley & Maroodi Jeex with another site on coastal Sanaag probably near Maydh or Xiis.I think with more excavations in Somaliland we would probably know more.I know this year Sada Miire was supposed to excavate sites this year so hopefully more of our deep ancient history is revealed

So the earliest wave of Arabians could of been with the arrival of the camels (possibly horses aswell) as evidenced with the loanwords present in Somali,Afar and Rendille but I wonder if there are any lineages associated with this early wave, perhaps the haplogroup T found in the Horn & Kenya and certain maternal lineages? The second wave is clearly defined with the Ethio-Semitic speakers and lineages like J-P56.I think more of those Somali J-P58 samples need to take the BigY.They could either be the remnants of the early wave of camel herders that were absorbed by the locals or recent Mehri dudes lol or even perhaps a mix of both.

Mnemonics
03-05-2021, 10:09 AM
We have evidence of a pre-Islamic Arabian presence inland in Gabiley & Maroodi Jeex with another site on coastal Sanaag probably near Maydh or Xiis.I think with more excavations in Somaliland we would probably know more.I know this year Sada Miire was supposed to excavate sites this year so hopefully more of our deep ancient history is revealed

So the earliest wave of Arabians could of been with the arrival of the camels (possibly horses aswell) as evidenced with the loanwords present in Somali,Afar and Rendille but I wonder if there are any lineages associated with this early wave, perhaps the haplogroup T found in the Horn & Kenya and certain maternal lineages? The second wave is clearly defined with the Ethio-Semitic speakers and lineages like J-P56.I think more of those Somali J-P58 samples need to take the BigY.They could either be the remnants of the early wave of camel herders that were absorbed by the locals or recent Mehri dudes lol or even perhaps a mix of both.

The percentage of Arabian is oddly enough roughly around the same percentage of T found in Somalis, although that's probably just a coincidence.

The Periplus of the Erythraean sea does mention Arabians mixing with a likely Nilotic rich population in Rhapta which was quite far south of where modern Ethiosemites live and seems a little bit early for that population to be Swahili speakers.

Sol01
03-05-2021, 06:30 PM
No.

sample": "Somali:Average",
"fit": 4.9573,
"Dinka": 54.17,
"Levant_Natufian": 30.83,
"Levant_JOR_EBA": 11.67,
"MAR_Taforalt": 3.33,
"IRN_Ganj_Dareh_N": 0,
"MAR_EN": 0,

"sample": "Somali_Kenya:Average",
"fit": 4.7489,
"Dinka": 57.5,
"Levant_Natufian": 25,
"Levant_JOR_EBA": 14.17,
"MAR_Taforalt": 3.33,
"IRN_Ganj_Dareh_N": 0,
"MAR_EN": 0,

What is this test?

ThaYamamoto
03-06-2021, 12:29 AM
I'm using the Reich labs HO dataset which is missing the Pagani samples, like Gumuz and Mursi.

I've got the Pagani set in haps and plink somewhere, do you want it?

Mnemonics
03-06-2021, 12:31 AM
I've got the Pagani set in haps and plink somewhere, do you want it?

I have the Pagani dataset as well but the overlap is low enough that I'm not sure about running transversion only models. I'll try it out tomorrow.

Mnemonics
03-06-2021, 03:01 AM
The Pagani samples are modeled just as well by the same model






left pops:
Somali
Kenya_PastoralIA
BedouinB
Morocco_EN

right pops:
DevilsGate_N
Anatolia_N
Cameroon_SMA.DG
South_Africa_2000BP
Iberomaurusian
Serbia_Mesolithic_IronGates
Yana_UP
Luo
Russia_HG_Karelia
Iran_ChL(HF)
MA1
Iberia_HG
CHG
Mota
Kostenki14
Taiwan_Hanben_IA
Natufian
Chile_LosRieles_12000BP.SG
WHG
Iran_N
Germany_LBK

0 Somali 23
1 Kenya_PastoralIA 4
2 BedouinB 2
3 Morocco_EN 3
4 DevilsGate_N 4
5 Anatolia_N 25
6 Cameroon_SMA.DG 1
7 South_Africa_2000BP 3
8 Iberomaurusian 4
9 Serbia_Mesolithic_IronGates 33
10 Yana_UP 2
11 Luo 2
12 Russia_HG_Karelia 2
13 Iran_ChL(HF) 6
14 MA1 1
15 Iberia_HG 2
16 CHG 2
17 Mota 1
18 Kostenki14 1
19 Taiwan_Hanben_IA 34
20 Natufian 6
21 Chile_LosRieles_12000BP.SG 1
22 WHG 1
23 Iran_N 4
24 Germany_LBK 27
jackknife block size: 0.050
snps: 212717 indivs: 194
number of blocks for block jackknife: 711
## ncols: 212717
coverage: Somali 80944
coverage: Kenya_PastoralIA 120859
coverage: BedouinB 206380
coverage: Morocco_EN 120105
coverage: DevilsGate_N 212544
coverage: Anatolia_N 209805
coverage: Cameroon_SMA.DG 210786
coverage: South_Africa_2000BP 212635
coverage: Iberomaurusian 202440
coverage: Serbia_Mesolithic_IronGates 210467
coverage: Yana_UP 212645
coverage: Luo 206398
coverage: Russia_HG_Karelia 185157
coverage: Iran_ChL(HF) 188524
coverage: MA1 148391
coverage: Iberia_HG 193842
coverage: CHG 212523
coverage: Mota 212504
coverage: Kostenki14 193316
coverage: Taiwan_Hanben_IA 210196
coverage: Natufian 96789
coverage: Chile_LosRieles_12000BP.SG 208968
coverage: WHG 194448
coverage: Iran_N 185768
coverage: Germany_LBK 209517
Effective number of blocks: 594.102
numsnps used: 212717
codimension 1
f4info:
f4rank: 2 dof: 18 chisq: 12.186 tail: 0.837470932 dofdiff: 20 chisqdiff: -12.186 taildiff: 1
B:
scale 1.000 1.000
Anatolia_N -0.828 -0.293
Cameroon_SMA.DG 2.010 -0.036
South_Africa_2000BP 2.128 -0.020
Iberomaurusian -0.234 4.392
Serbia_Mesolithic_IronGates -0.630 -0.042
Yana_UP -0.211 0.023
Luo 2.293 0.024
Russia_HG_Karelia -0.498 -0.168
Iran_ChL(HF) -0.510 -0.292
MA1 -0.163 -0.120
Iberia_HG -0.387 -0.185
CHG -0.486 -0.256
Mota 1.747 0.111
Kostenki14 -0.205 0.004
Taiwan_Hanben_IA 0.042 0.007
Natufian -0.412 0.222
Chile_LosRieles_12000BP.SG -0.074 0.005
WHG -0.345 -0.325
Iran_N -0.357 -0.299
Germany_LBK -0.747 -0.364
A:
scale 353.954 549.732
Kenya_PastoralIA 0.342 0.084
BedouinB -1.616 -0.489
Morocco_EN -0.520 1.659


full rank
f4info:
f4rank: 3 dof: 0 chisq: 0.000 tail: 1 dofdiff: 18 chisqdiff: 12.186 taildiff: 0.837470932
B:
scale 931.724 214.351 298.177
Anatolia_N -0.436 0.848 0.126
Cameroon_SMA.DG 2.135 -1.966 -0.883
South_Africa_2000BP 2.275 -2.090 -0.939
Iberomaurusian 0.653 -0.616 4.077
Serbia_Mesolithic_IronGates -0.150 0.617 0.259
Yana_UP -0.122 0.186 0.120
Luo 2.203 -2.258 -0.974
Russia_HG_Karelia 0.009 0.532 0.102
Iran_ChL(HF) 0.048 0.566 -0.013
MA1 0.112 0.190 0.008
Iberia_HG -0.194 0.394 0.001
CHG -0.245 0.507 0.002
Mota 1.997 -1.735 -0.645
Kostenki14 0.269 0.201 0.120
Taiwan_Hanben_IA 0.288 -0.049 -0.001
Natufian 0.081 0.360 0.441
Chile_LosRieles_12000BP.SG 0.232 0.070 0.064
WHG -0.392 0.382 -0.129
Iran_N 0.099 0.402 -0.107
Germany_LBK -0.529 0.781 0.034
A:
scale 1.732 1.732 1.732
Kenya_PastoralIA 1.732 0.000 0.000
BedouinB 0.000 1.732 0.000
Morocco_EN 0.000 0.000 1.732


best coefficients: 0.820 0.171 0.009
Jackknife mean: 0.820143075 0.170757638 0.009099288
std. errors: 0.016 0.013 0.013

error covariance (* 1,000,000)
245 -125 -120
-125 181 -56
-120 -56 176


summ: Somali 3 0.837471 0.820 0.171 0.009 245 -125 -120 181 -56 ...
176

fixed pat wt dof chisq tail prob
000 0 18 12.186 0.837471 0.820 0.171 0.009
001 1 19 12.916 0.842829 0.826 0.174 0.000
010 1 19 137.528 5.41264e-20 0.965 0.000 0.035
100 1 19 2264.511 0 0.000 -0.518 1.518 infeasible
011 2 20 142.132 1.99272e-20 1.000 0.000 0.000
101 2 20 3538.755 0 0.000 1.000 0.000
110 2 20 2388.656 0 0.000 0.000 1.000
best pat: 000 0.837471 - -
best pat: 001 0.842829 chi(nested): 0.730 p-value for nested model: 0.392889
best pat: 011 1.99272e-20 chi(nested): 129.216 p-value for nested model: 6.08336e-30

coeffs: 0.820 0.171 0.009

## dscore:: f_4(Base, Fit, Rbase, right2)
## genstat:: f_4(Base, Fit, right1, right2)

details: Kenya_PastoralIA Anatolia_N -0.000468 -1.372291
details: BedouinB Anatolia_N 0.003956 13.518980
details: Morocco_EN Anatolia_N 0.000424 1.163153
dscore: Anatolia_N f4: 0.000295 Z: 1.033161

details: Kenya_PastoralIA Cameroon_SMA.DG 0.002291 6.559788
details: BedouinB Cameroon_SMA.DG -0.009170 -29.007368
details: Morocco_EN Cameroon_SMA.DG -0.002962 -7.772301
dscore: Cameroon_SMA.DG f4: 0.000288 Z: 0.988084

details: Kenya_PastoralIA South_Africa_2000BP 0.002442 6.656819
details: BedouinB South_Africa_2000BP -0.009748 -29.719330
details: Morocco_EN South_Africa_2000BP -0.003147 -8.140056
dscore: South_Africa_2000BP f4: 0.000312 Z: 1.017562

details: Kenya_PastoralIA Iberomaurusian 0.000701 2.120640
details: BedouinB Iberomaurusian -0.002876 -9.330790
details: Morocco_EN Iberomaurusian 0.013674 34.352332
dscore: Iberomaurusian f4: 0.000206 Z: 0.737867

details: Kenya_PastoralIA Serbia_Mesolithic_IronGates -0.000161 -0.484179
details: BedouinB Serbia_Mesolithic_IronGates 0.002880 9.951990
details: Morocco_EN Serbia_Mesolithic_IronGates 0.000870 2.321330
dscore: Serbia_Mesolithic_IronGates f4: 0.000367 Z: 1.313757

details: Kenya_PastoralIA Yana_UP -0.000131 -0.465126
details: BedouinB Yana_UP 0.000867 3.113004
details: Morocco_EN Yana_UP 0.000401 1.245807
dscore: Yana_UP f4: 0.000044 Z: 0.185525

details: Kenya_PastoralIA Luo 0.002365 6.476671
details: BedouinB Luo -0.010533 -32.595723
details: Morocco_EN Luo -0.003267 -8.204406
dscore: Luo f4: 0.000113 Z: 0.372117

details: Kenya_PastoralIA Russia_HG_Karelia 0.000010 0.029535
details: BedouinB Russia_HG_Karelia 0.002484 7.981180
details: Morocco_EN Russia_HG_Karelia 0.000341 0.930014
dscore: Russia_HG_Karelia f4: 0.000435 Z: 1.513726

details: Kenya_PastoralIA Iran_ChL(HF) 0.000052 0.163201
details: BedouinB Iran_ChL(HF) 0.002642 9.293825
details: Morocco_EN Iran_ChL(HF) -0.000045 -0.127481
dscore: Iran_ChL(HF) f4: 0.000493 Z: 1.852209

details: Kenya_PastoralIA MA1 0.000120 0.300989
details: BedouinB MA1 0.000889 2.614951
details: Morocco_EN MA1 0.000027 0.063466
dscore: MA1 f4: 0.000250 Z: 0.757394

details: Kenya_PastoralIA Iberia_HG -0.000208 -0.639098
details: BedouinB Iberia_HG 0.001840 6.304816
details: Morocco_EN Iberia_HG 0.000004 0.012817
dscore: Iberia_HG f4: 0.000143 Z: 0.519571

details: Kenya_PastoralIA CHG -0.000263 -0.847162
details: BedouinB CHG 0.002363 8.275288
details: Morocco_EN CHG 0.000008 0.023069
dscore: CHG f4: 0.000188 Z: 0.719288

details: Kenya_PastoralIA Mota 0.002143 5.876058
details: BedouinB Mota -0.008093 -25.385693
details: Morocco_EN Mota -0.002163 -5.503732
dscore: Mota f4: 0.000358 Z: 1.178910

details: Kenya_PastoralIA Kostenki14 0.000289 0.792389
details: BedouinB Kostenki14 0.000939 3.122861
details: Morocco_EN Kostenki14 0.000403 1.073321
dscore: Kostenki14 f4: 0.000401 Z: 1.325746

details: Kenya_PastoralIA Taiwan_Hanben_IA 0.000309 1.213312
details: BedouinB Taiwan_Hanben_IA -0.000227 -1.022892
details: Morocco_EN Taiwan_Hanben_IA -0.000003 -0.010459
dscore: Taiwan_Hanben_IA f4: 0.000215 Z: 1.020934

details: Kenya_PastoralIA Natufian 0.000087 0.170141
details: BedouinB Natufian 0.001681 4.321885
details: Morocco_EN Natufian 0.001478 2.863099
dscore: Natufian f4: 0.000372 Z: 0.873349

details: Kenya_PastoralIA Chile_LosRieles_12000BP.SG 0.000249 0.822335
details: BedouinB Chile_LosRieles_12000BP.SG 0.000328 1.217326
details: Morocco_EN Chile_LosRieles_12000BP.SG 0.000216 0.647235
dscore: Chile_LosRieles_12000BP.SG f4: 0.000262 Z: 1.041905

details: Kenya_PastoralIA WHG -0.000421 -1.215317
details: BedouinB WHG 0.001780 5.747741
details: Morocco_EN WHG -0.000433 -1.142266
dscore: WHG f4: -0.000045 Z: -0.156908

details: Kenya_PastoralIA Iran_N 0.000106 0.313026
details: BedouinB Iran_N 0.001877 6.328934
details: Morocco_EN Iran_N -0.000358 -1.011888
dscore: Iran_N f4: 0.000404 Z: 1.435132

details: Kenya_PastoralIA Germany_LBK -0.000568 -1.728726
details: BedouinB Germany_LBK 0.003645 12.811943
details: Morocco_EN Germany_LBK 0.000115 0.315744
dscore: Germany_LBK f4: 0.000157 Z: 0.575641

gendstat: DevilsGate_N Anatolia_N 1.033
gendstat: DevilsGate_N Cameroon_SMA.DG 0.988
gendstat: DevilsGate_N South_Africa_2000BP 1.018
gendstat: DevilsGate_N Iberomaurusian 0.738
gendstat: DevilsGate_N Serbia_Mesolithic_IronGates 1.314
gendstat: DevilsGate_N Yana_UP 0.186
gendstat: DevilsGate_N Luo 0.372
gendstat: DevilsGate_N Russia_HG_Karelia 1.514
gendstat: DevilsGate_N Iran_ChL(HF) 1.852
gendstat: DevilsGate_N MA1 0.757
gendstat: DevilsGate_N Iberia_HG 0.520
gendstat: DevilsGate_N CHG 0.719
gendstat: DevilsGate_N Mota 1.179
gendstat: DevilsGate_N Kostenki14 1.326
gendstat: DevilsGate_N Taiwan_Hanben_IA 1.021
gendstat: DevilsGate_N Natufian 0.873
gendstat: DevilsGate_N Chile_LosRieles_12000BP.SG 1.042
gendstat: DevilsGate_N WHG -0.157
gendstat: DevilsGate_N Iran_N 1.435
gendstat: DevilsGate_N Germany_LBK 0.576
gendstat: Anatolia_N Cameroon_SMA.DG -0.025
gendstat: Anatolia_N South_Africa_2000BP 0.057
gendstat: Anatolia_N Iberomaurusian -0.357
gendstat: Anatolia_N Serbia_Mesolithic_IronGates 0.395
gendstat: Anatolia_N Yana_UP -1.033
gendstat: Anatolia_N Luo -0.660
gendstat: Anatolia_N Russia_HG_Karelia 0.523
gendstat: Anatolia_N Iran_ChL(HF) 1.018
gendstat: Anatolia_N MA1 -0.141
gendstat: Anatolia_N Iberia_HG -0.620
gendstat: Anatolia_N CHG -0.442
gendstat: Anatolia_N Mota 0.199
gendstat: Anatolia_N Kostenki14 0.376
gendstat: Anatolia_N Taiwan_Hanben_IA -0.385
gendstat: Anatolia_N Natufian 0.207
gendstat: Anatolia_N Chile_LosRieles_12000BP.SG -0.117
gendstat: Anatolia_N WHG -1.287
gendstat: Anatolia_N Iran_N 0.448
gendstat: Anatolia_N Germany_LBK -1.015
gendstat: Cameroon_SMA.DG South_Africa_2000BP 0.095
gendstat: Cameroon_SMA.DG Iberomaurusian -0.300
gendstat: Cameroon_SMA.DG Serbia_Mesolithic_IronGates 0.292
gendstat: Cameroon_SMA.DG Yana_UP -0.839
gendstat: Cameroon_SMA.DG Luo -0.767
gendstat: Cameroon_SMA.DG Russia_HG_Karelia 0.459
gendstat: Cameroon_SMA.DG Iran_ChL(HF) 0.714
gendstat: Cameroon_SMA.DG MA1 -0.103
gendstat: Cameroon_SMA.DG Iberia_HG -0.477
gendstat: Cameroon_SMA.DG CHG -0.330
gendstat: Cameroon_SMA.DG Mota 0.230
gendstat: Cameroon_SMA.DG Kostenki14 0.332
gendstat: Cameroon_SMA.DG Taiwan_Hanben_IA -0.281
gendstat: Cameroon_SMA.DG Natufian 0.199
gendstat: Cameroon_SMA.DG Chile_LosRieles_12000BP.SG -0.083
gendstat: Cameroon_SMA.DG WHG -1.036
gendstat: Cameroon_SMA.DG Iran_N 0.388
gendstat: Cameroon_SMA.DG Germany_LBK -0.479
gendstat: South_Africa_2000BP Iberomaurusian -0.359
gendstat: South_Africa_2000BP Serbia_Mesolithic_IronGates 0.193
gendstat: South_Africa_2000BP Yana_UP -0.888
gendstat: South_Africa_2000BP Luo -0.825
gendstat: South_Africa_2000BP Russia_HG_Karelia 0.354
gendstat: South_Africa_2000BP Iran_ChL(HF) 0.606
gendstat: South_Africa_2000BP MA1 -0.166
gendstat: South_Africa_2000BP Iberia_HG -0.527
gendstat: South_Africa_2000BP CHG -0.403
gendstat: South_Africa_2000BP Mota 0.153
gendstat: South_Africa_2000BP Kostenki14 0.263
gendstat: South_Africa_2000BP Taiwan_Hanben_IA -0.347
gendstat: South_Africa_2000BP Natufian 0.138
gendstat: South_Africa_2000BP Chile_LosRieles_12000BP.SG -0.148
gendstat: South_Africa_2000BP WHG -1.086
gendstat: South_Africa_2000BP Iran_N 0.292
gendstat: South_Africa_2000BP Germany_LBK -0.535
gendstat: Iberomaurusian Serbia_Mesolithic_IronGates 0.619
gendstat: Iberomaurusian Yana_UP -0.598
gendstat: Iberomaurusian Luo -0.337
gendstat: Iberomaurusian Russia_HG_Karelia 0.764
gendstat: Iberomaurusian Iran_ChL(HF) 1.081
gendstat: Iberomaurusian MA1 0.127
gendstat: Iberomaurusian Iberia_HG -0.217
gendstat: Iberomaurusian CHG -0.064
gendstat: Iberomaurusian Mota 0.489
gendstat: Iberomaurusian Kostenki14 0.612
gendstat: Iberomaurusian Taiwan_Hanben_IA 0.037
gendstat: Iberomaurusian Natufian 0.412
gendstat: Iberomaurusian Chile_LosRieles_12000BP.SG 0.182
gendstat: Iberomaurusian WHG -0.818
gendstat: Iberomaurusian Iran_N 0.682
gendstat: Iberomaurusian Germany_LBK -0.198
gendstat: Serbia_Mesolithic_IronGates Yana_UP -1.319
gendstat: Serbia_Mesolithic_IronGates Luo -0.916
gendstat: Serbia_Mesolithic_IronGates Russia_HG_Karelia 0.273
gendstat: Serbia_Mesolithic_IronGates Iran_ChL(HF) 0.579
gendstat: Serbia_Mesolithic_IronGates MA1 -0.379
gendstat: Serbia_Mesolithic_IronGates Iberia_HG -1.084
gendstat: Serbia_Mesolithic_IronGates CHG -0.720
gendstat: Serbia_Mesolithic_IronGates Mota -0.029
gendstat: Serbia_Mesolithic_IronGates Kostenki14 0.119
gendstat: Serbia_Mesolithic_IronGates Taiwan_Hanben_IA -0.721
gendstat: Serbia_Mesolithic_IronGates Natufian 0.013
gendstat: Serbia_Mesolithic_IronGates Chile_LosRieles_12000BP.SG -0.361
gendstat: Serbia_Mesolithic_IronGates WHG -1.700
gendstat: Serbia_Mesolithic_IronGates Iran_N 0.146
gendstat: Serbia_Mesolithic_IronGates Germany_LBK -1.128
gendstat: Yana_UP Luo 0.240
gendstat: Yana_UP Russia_HG_Karelia 1.401
gendstat: Yana_UP Iran_ChL(HF) 1.755
gendstat: Yana_UP MA1 0.644
gendstat: Yana_UP Iberia_HG 0.372
gendstat: Yana_UP CHG 0.549
gendstat: Yana_UP Mota 0.992
gendstat: Yana_UP Kostenki14 1.233
gendstat: Yana_UP Taiwan_Hanben_IA 0.770
gendstat: Yana_UP Natufian 0.791
gendstat: Yana_UP Chile_LosRieles_12000BP.SG 0.777
gendstat: Yana_UP WHG -0.309
gendstat: Yana_UP Iran_N 1.332
gendstat: Yana_UP Germany_LBK 0.480
gendstat: Luo Russia_HG_Karelia 0.992
gendstat: Luo Iran_ChL(HF) 1.309
gendstat: Luo MA1 0.383
gendstat: Luo Iberia_HG 0.100
gendstat: Luo CHG 0.250
gendstat: Luo Mota 0.861
gendstat: Luo Kostenki14 0.862
gendstat: Luo Taiwan_Hanben_IA 0.389
gendstat: Luo Natufian 0.607
gendstat: Luo Chile_LosRieles_12000BP.SG 0.474
gendstat: Luo WHG -0.485
gendstat: Luo Iran_N 0.957
gendstat: Luo Germany_LBK 0.165
gendstat: Russia_HG_Karelia Iran_ChL(HF) 0.206
gendstat: Russia_HG_Karelia MA1 -0.561
gendstat: Russia_HG_Karelia Iberia_HG -1.039
gendstat: Russia_HG_Karelia CHG -0.841
gendstat: Russia_HG_Karelia Mota -0.219
gendstat: Russia_HG_Karelia Kostenki14 -0.103
gendstat: Russia_HG_Karelia Taiwan_Hanben_IA -0.843
gendstat: Russia_HG_Karelia Natufian -0.150
gendstat: Russia_HG_Karelia Chile_LosRieles_12000BP.SG -0.565
gendstat: Russia_HG_Karelia WHG -1.545
gendstat: Russia_HG_Karelia Iran_N -0.105
gendstat: Russia_HG_Karelia Germany_LBK -1.041
gendstat: Iran_ChL(HF) MA1 -0.746
gendstat: Iran_ChL(HF) Iberia_HG -1.317
gendstat: Iran_ChL(HF) CHG -1.243
gendstat: Iran_ChL(HF) Mota -0.431
gendstat: Iran_ChL(HF) Kostenki14 -0.310
gendstat: Iran_ChL(HF) Taiwan_Hanben_IA -1.258
gendstat: Iran_ChL(HF) Natufian -0.309
gendstat: Iran_ChL(HF) Chile_LosRieles_12000BP.SG -0.801
gendstat: Iran_ChL(HF) WHG -1.942
gendstat: Iran_ChL(HF) Iran_N -0.357
gendstat: Iran_ChL(HF) Germany_LBK -1.672
gendstat: MA1 Iberia_HG -0.328
gendstat: MA1 CHG -0.184
gendstat: MA1 Mota 0.284
gendstat: MA1 Kostenki14 0.400
gendstat: MA1 Taiwan_Hanben_IA -0.115
gendstat: MA1 Natufian 0.270
gendstat: MA1 Chile_LosRieles_12000BP.SG 0.033
gendstat: MA1 WHG -0.854
gendstat: MA1 Iran_N 0.455
gendstat: MA1 Germany_LBK -0.296
gendstat: Iberia_HG CHG 0.160
gendstat: Iberia_HG Mota 0.661
gendstat: Iberia_HG Kostenki14 0.820
gendstat: Iberia_HG Taiwan_Hanben_IA 0.297
gendstat: Iberia_HG Natufian 0.562
gendstat: Iberia_HG Chile_LosRieles_12000BP.SG 0.381
gendstat: Iberia_HG WHG -0.724
gendstat: Iberia_HG Iran_N 0.914
gendstat: Iberia_HG Germany_LBK 0.057
gendstat: CHG Mota 0.523
gendstat: CHG Kostenki14 0.707
gendstat: CHG Taiwan_Hanben_IA 0.116
gendstat: CHG Natufian 0.459
gendstat: CHG Chile_LosRieles_12000BP.SG 0.251
gendstat: CHG WHG -0.791
gendstat: CHG Iran_N 0.799
gendstat: CHG Germany_LBK -0.123
gendstat: Mota Kostenki14 0.121
gendstat: Mota Taiwan_Hanben_IA -0.491
gendstat: Mota Natufian 0.031
gendstat: Mota Chile_LosRieles_12000BP.SG -0.288
gendstat: Mota WHG -1.139
gendstat: Mota Iran_N 0.137
gendstat: Mota Germany_LBK -0.649
gendstat: Kostenki14 Taiwan_Hanben_IA -0.685
gendstat: Kostenki14 Natufian -0.067
gendstat: Kostenki14 Chile_LosRieles_12000BP.SG -0.417
gendstat: Kostenki14 WHG -1.329
gendstat: Kostenki14 Iran_N 0.010
gendstat: Kostenki14 Germany_LBK -0.886
gendstat: Taiwan_Hanben_IA Natufian 0.400
gendstat: Taiwan_Hanben_IA Chile_LosRieles_12000BP.SG 0.188
gendstat: Taiwan_Hanben_IA WHG -0.971
gendstat: Taiwan_Hanben_IA Iran_N 0.788
gendstat: Taiwan_Hanben_IA Germany_LBK -0.281
gendstat: Natufian Chile_LosRieles_12000BP.SG -0.251
gendstat: Natufian WHG -1.004
gendstat: Natufian Iran_N 0.083
gendstat: Natufian Germany_LBK -0.573
gendstat: Chile_LosRieles_12000BP.SG WHG -0.957
gendstat: Chile_LosRieles_12000BP.SG Iran_N 0.468
gendstat: Chile_LosRieles_12000BP.SG Germany_LBK -0.367
gendstat: WHG Iran_N 1.487
gendstat: WHG Germany_LBK 0.767
gendstat: Iran_N Germany_LBK -1.013

Mnemonics
03-06-2021, 03:02 AM
Here are the Ethiopian Somalis





left pops:
Esomali
Kenya_PastoralIA
BedouinB
Morocco_EN

right pops:
DevilsGate_N
Anatolia_N
Cameroon_SMA.DG
South_Africa_2000BP
Iberomaurusian
Serbia_Mesolithic_IronGates
Yana_UP
Luo
Russia_HG_Karelia
Iran_ChL(HF)
MA1
Iberia_HG
CHG
Mota
Kostenki14
Taiwan_Hanben_IA
Natufian
Chile_LosRieles_12000BP.SG
WHG
Iran_N
Germany_LBK

0 Esomali 17
1 Kenya_PastoralIA 4
2 BedouinB 2
3 Morocco_EN 3
4 DevilsGate_N 4
5 Anatolia_N 25
6 Cameroon_SMA.DG 1
7 South_Africa_2000BP 3
8 Iberomaurusian 4
9 Serbia_Mesolithic_IronGates 33
10 Yana_UP 2
11 Luo 2
12 Russia_HG_Karelia 2
13 Iran_ChL(HF) 6
14 MA1 1
15 Iberia_HG 2
16 CHG 2
17 Mota 1
18 Kostenki14 1
19 Taiwan_Hanben_IA 34
20 Natufian 6
21 Chile_LosRieles_12000BP.SG 1
22 WHG 1
23 Iran_N 4
24 Germany_LBK 27
jackknife block size: 0.050
snps: 212717 indivs: 188
number of blocks for block jackknife: 711
## ncols: 212717
coverage: Esomali 80783
coverage: Kenya_PastoralIA 120859
coverage: BedouinB 206380
coverage: Morocco_EN 120105
coverage: DevilsGate_N 212544
coverage: Anatolia_N 209805
coverage: Cameroon_SMA.DG 210786
coverage: South_Africa_2000BP 212635
coverage: Iberomaurusian 202440
coverage: Serbia_Mesolithic_IronGates 210467
coverage: Yana_UP 212645
coverage: Luo 206398
coverage: Russia_HG_Karelia 185157
coverage: Iran_ChL(HF) 188524
coverage: MA1 148391
coverage: Iberia_HG 193842
coverage: CHG 212523
coverage: Mota 212504
coverage: Kostenki14 193316
coverage: Taiwan_Hanben_IA 210196
coverage: Natufian 96789
coverage: Chile_LosRieles_12000BP.SG 208968
coverage: WHG 194448
coverage: Iran_N 185768
coverage: Germany_LBK 209517
Effective number of blocks: 593.883
numsnps used: 212717
codimension 1
f4info:
f4rank: 2 dof: 18 chisq: 11.095 tail: 0.89026674 dofdiff: 20 chisqdiff: -11.095 taildiff: 1
B:
scale 1.000 1.000
Anatolia_N -0.834 -0.293
Cameroon_SMA.DG 1.984 0.011
South_Africa_2000BP 2.148 -0.009
Iberomaurusian -0.263 4.391
Serbia_Mesolithic_IronGates -0.626 -0.048
Yana_UP -0.181 0.011
Luo 2.269 0.067
Russia_HG_Karelia -0.473 -0.198
Iran_ChL(HF) -0.511 -0.295
MA1 -0.182 -0.105
Iberia_HG -0.389 -0.185
CHG -0.486 -0.250
Mota 1.762 0.138
Kostenki14 -0.197 -0.004
Taiwan_Hanben_IA 0.051 -0.005
Natufian -0.425 0.257
Chile_LosRieles_12000BP.SG -0.086 0.016
WHG -0.392 -0.314
Iran_N -0.376 -0.289
Germany_LBK -0.760 -0.351
A:
scale 348.666 553.086
Kenya_PastoralIA 0.324 0.086
BedouinB -1.611 -0.505
Morocco_EN -0.547 1.655


full rank
f4info:
f4rank: 3 dof: 0 chisq: 0.000 tail: 1 dofdiff: 18 chisqdiff: 11.095 taildiff: 0.89026674
B:
scale 951.452 211.229 296.292
Anatolia_N -0.362 0.868 0.170
Cameroon_SMA.DG 2.152 -1.946 -0.888
South_Africa_2000BP 2.226 -2.108 -0.992
Iberomaurusian 0.723 -0.593 4.053
Serbia_Mesolithic_IronGates -0.141 0.618 0.280
Yana_UP -0.182 0.161 0.103
Luo 2.235 -2.230 -0.977
Russia_HG_Karelia -0.121 0.510 0.078
Iran_ChL(HF) 0.098 0.572 0.015
MA1 0.111 0.198 0.032
Iberia_HG -0.085 0.413 0.026
CHG -0.229 0.513 0.032
Mota 2.022 -1.740 -0.670
Kostenki14 0.222 0.195 0.124
Taiwan_Hanben_IA 0.251 -0.059 -0.013
Natufian 0.162 0.374 0.478
Chile_LosRieles_12000BP.SG 0.282 0.081 0.087
WHG -0.244 0.426 -0.068
Iran_N 0.205 0.426 -0.073
Germany_LBK -0.456 0.803 0.084
A:
scale 1.732 1.732 1.732
Kenya_PastoralIA 1.732 0.000 0.000
BedouinB 0.000 1.732 0.000
Morocco_EN 0.000 0.000 1.732


best coefficients: 0.829 0.164 0.007
Jackknife mean: 0.828406929 0.164410711 0.007182360
std. errors: 0.016 0.014 0.014

error covariance (* 1,000,000)
259 -128 -131
-128 189 -61
-131 -61 191


summ: Esomali 3 0.890267 0.828 0.164 0.007 259 -128 -131 189 -61 ...
191

fixed pat wt dof chisq tail prob
000 0 18 11.095 0.890267 0.829 0.164 0.007
001 1 19 11.515 0.905294 0.833 0.167 0.000
010 1 19 126.248 7.45019e-18 0.965 0.000 0.035
100 1 19 2165.312 0 0.000 -0.466 1.466 infeasible
011 2 20 130.679 2.90683e-18 1.000 0.000 0.000
101 2 20 3425.696 0 0.000 1.000 0.000
110 2 20 2277.162 0 0.000 0.000 1.000
best pat: 000 0.890267 - -
best pat: 001 0.905294 chi(nested): 0.420 p-value for nested model: 0.517061
best pat: 011 2.90683e-18 chi(nested): 119.164 p-value for nested model: 9.64251e-28

coeffs: 0.829 0.164 0.007

## dscore:: f_4(Base, Fit, Rbase, right2)
## genstat:: f_4(Base, Fit, right1, right2)

details: Kenya_PastoralIA Anatolia_N -0.000381 -1.124173
details: BedouinB Anatolia_N 0.004110 13.394696
details: Morocco_EN Anatolia_N 0.000574 1.558472
dscore: Anatolia_N f4: 0.000364 Z: 1.269341

details: Kenya_PastoralIA Cameroon_SMA.DG 0.002262 6.433226
details: BedouinB Cameroon_SMA.DG -0.009213 -28.854286
details: Morocco_EN Cameroon_SMA.DG -0.002998 -7.878494
dscore: Cameroon_SMA.DG f4: 0.000339 Z: 1.141231

details: Kenya_PastoralIA South_Africa_2000BP 0.002340 6.253843
details: BedouinB South_Africa_2000BP -0.009979 -30.149045
details: Morocco_EN South_Africa_2000BP -0.003348 -8.600371
dscore: South_Africa_2000BP f4: 0.000276 Z: 0.870721

details: Kenya_PastoralIA Iberomaurusian 0.000760 2.249170
details: BedouinB Iberomaurusian -0.002806 -8.885816
details: Morocco_EN Iberomaurusian 0.013680 34.038675
dscore: Iberomaurusian f4: 0.000264 Z: 0.916020

details: Kenya_PastoralIA Serbia_Mesolithic_IronGates -0.000148 -0.443071
details: BedouinB Serbia_Mesolithic_IronGates 0.002926 9.867714
details: Morocco_EN Serbia_Mesolithic_IronGates 0.000945 2.544276
dscore: Serbia_Mesolithic_IronGates f4: 0.000365 Z: 1.291775

details: Kenya_PastoralIA Yana_UP -0.000192 -0.671777
details: BedouinB Yana_UP 0.000760 2.668763
details: Morocco_EN Yana_UP 0.000348 1.072324
dscore: Yana_UP f4: -0.000031 Z: -0.130277

details: Kenya_PastoralIA Luo 0.002349 6.301846
details: BedouinB Luo -0.010559 -32.109871
details: Morocco_EN Luo -0.003296 -8.101345
dscore: Luo f4: 0.000188 Z: 0.597200

details: Kenya_PastoralIA Russia_HG_Karelia -0.000127 -0.365878
details: BedouinB Russia_HG_Karelia 0.002413 7.631929
details: Morocco_EN Russia_HG_Karelia 0.000262 0.712857
dscore: Russia_HG_Karelia f4: 0.000293 Z: 0.994132

details: Kenya_PastoralIA Iran_ChL(HF) 0.000103 0.325516
details: BedouinB Iran_ChL(HF) 0.002707 9.205374
details: Morocco_EN Iran_ChL(HF) 0.000052 0.146266
dscore: Iran_ChL(HF) f4: 0.000530 Z: 1.980797

details: Kenya_PastoralIA MA1 0.000116 0.290674
details: BedouinB MA1 0.000939 2.750688
details: Morocco_EN MA1 0.000109 0.259382
dscore: MA1 f4: 0.000251 Z: 0.751056

details: Kenya_PastoralIA Iberia_HG -0.000089 -0.271339
details: BedouinB Iberia_HG 0.001954 6.599825
details: Morocco_EN Iberia_HG 0.000086 0.246515
dscore: Iberia_HG f4: 0.000248 Z: 0.879791

details: Kenya_PastoralIA CHG -0.000241 -0.770701
details: BedouinB CHG 0.002426 8.265134
details: Morocco_EN CHG 0.000107 0.321006
dscore: CHG f4: 0.000200 Z: 0.753198

details: Kenya_PastoralIA Mota 0.002125 5.752147
details: BedouinB Mota -0.008238 -25.428302
details: Morocco_EN Mota -0.002262 -5.841927
dscore: Mota f4: 0.000391 Z: 1.254364

details: Kenya_PastoralIA Kostenki14 0.000234 0.639401
details: BedouinB Kostenki14 0.000925 2.936219
details: Morocco_EN Kostenki14 0.000420 1.117110
dscore: Kostenki14 f4: 0.000349 Z: 1.135210

details: Kenya_PastoralIA Taiwan_Hanben_IA 0.000264 1.030975
details: BedouinB Taiwan_Hanben_IA -0.000281 -1.264291
details: Morocco_EN Taiwan_Hanben_IA -0.000042 -0.150034
dscore: Taiwan_Hanben_IA f4: 0.000172 Z: 0.807608

details: Kenya_PastoralIA Natufian 0.000171 0.334051
details: BedouinB Natufian 0.001768 4.465679
details: Morocco_EN Natufian 0.001615 3.113387
dscore: Natufian f4: 0.000443 Z: 1.032488

details: Kenya_PastoralIA Chile_LosRieles_12000BP.SG 0.000296 0.978189
details: BedouinB Chile_LosRieles_12000BP.SG 0.000385 1.384904
details: Morocco_EN Chile_LosRieles_12000BP.SG 0.000295 0.892024
dscore: Chile_LosRieles_12000BP.SG f4: 0.000311 Z: 1.216536

details: Kenya_PastoralIA WHG -0.000256 -0.733246
details: BedouinB WHG 0.002017 6.365093
details: Morocco_EN WHG -0.000229 -0.604205
dscore: WHG f4: 0.000117 Z: 0.398519

details: Kenya_PastoralIA Iran_N 0.000216 0.646141
details: BedouinB Iran_N 0.002019 6.537307
details: Morocco_EN Iran_N -0.000247 -0.692066
dscore: Iran_N f4: 0.000509 Z: 1.805614

details: Kenya_PastoralIA Germany_LBK -0.000479 -1.462103
details: BedouinB Germany_LBK 0.003799 12.938419
details: Morocco_EN Germany_LBK 0.000285 0.787749
dscore: Germany_LBK f4: 0.000229 Z: 0.829276

gendstat: DevilsGate_N Anatolia_N 1.269
gendstat: DevilsGate_N Cameroon_SMA.DG 1.141
gendstat: DevilsGate_N South_Africa_2000BP 0.871
gendstat: DevilsGate_N Iberomaurusian 0.916
gendstat: DevilsGate_N Serbia_Mesolithic_IronGates 1.292
gendstat: DevilsGate_N Yana_UP -0.130
gendstat: DevilsGate_N Luo 0.597
gendstat: DevilsGate_N Russia_HG_Karelia 0.994
gendstat: DevilsGate_N Iran_ChL(HF) 1.981
gendstat: DevilsGate_N MA1 0.751
gendstat: DevilsGate_N Iberia_HG 0.880
gendstat: DevilsGate_N CHG 0.753
gendstat: DevilsGate_N Mota 1.254
gendstat: DevilsGate_N Kostenki14 1.135
gendstat: DevilsGate_N Taiwan_Hanben_IA 0.808
gendstat: DevilsGate_N Natufian 1.032
gendstat: DevilsGate_N Chile_LosRieles_12000BP.SG 1.217
gendstat: DevilsGate_N WHG 0.399
gendstat: DevilsGate_N Iran_N 1.806
gendstat: DevilsGate_N Germany_LBK 0.829
gendstat: Anatolia_N Cameroon_SMA.DG -0.090
gendstat: Anatolia_N South_Africa_2000BP -0.301
gendstat: Anatolia_N Iberomaurusian -0.394
gendstat: Anatolia_N Serbia_Mesolithic_IronGates 0.005
gendstat: Anatolia_N Yana_UP -1.623
gendstat: Anatolia_N Luo -0.626
gendstat: Anatolia_N Russia_HG_Karelia -0.260
gendstat: Anatolia_N Iran_ChL(HF) 0.853
gendstat: Anatolia_N MA1 -0.355
gendstat: Anatolia_N Iberia_HG -0.477
gendstat: Anatolia_N CHG -0.669
gendstat: Anatolia_N Mota 0.086
gendstat: Anatolia_N Kostenki14 -0.053
gendstat: Anatolia_N Taiwan_Hanben_IA -0.910
gendstat: Anatolia_N Natufian 0.209
gendstat: Anatolia_N Chile_LosRieles_12000BP.SG -0.189
gendstat: Anatolia_N WHG -0.908
gendstat: Anatolia_N Iran_N 0.604
gendstat: Anatolia_N Germany_LBK -0.992
gendstat: Cameroon_SMA.DG South_Africa_2000BP -0.252
gendstat: Cameroon_SMA.DG Iberomaurusian -0.266
gendstat: Cameroon_SMA.DG Serbia_Mesolithic_IronGates 0.093
gendstat: Cameroon_SMA.DG Yana_UP -1.254
gendstat: Cameroon_SMA.DG Luo -0.641
gendstat: Cameroon_SMA.DG Russia_HG_Karelia -0.142
gendstat: Cameroon_SMA.DG Iran_ChL(HF) 0.650
gendstat: Cameroon_SMA.DG MA1 -0.237
gendstat: Cameroon_SMA.DG Iberia_HG -0.292
gendstat: Cameroon_SMA.DG CHG -0.453
gendstat: Cameroon_SMA.DG Mota 0.167
gendstat: Cameroon_SMA.DG Kostenki14 0.027
gendstat: Cameroon_SMA.DG Taiwan_Hanben_IA -0.626
gendstat: Cameroon_SMA.DG Natufian 0.242
gendstat: Cameroon_SMA.DG Chile_LosRieles_12000BP.SG -0.087
gendstat: Cameroon_SMA.DG WHG -0.678
gendstat: Cameroon_SMA.DG Iran_N 0.561
gendstat: Cameroon_SMA.DG Germany_LBK -0.403
gendstat: South_Africa_2000BP Iberomaurusian -0.038
gendstat: South_Africa_2000BP Serbia_Mesolithic_IronGates 0.304
gendstat: South_Africa_2000BP Yana_UP -0.996
gendstat: South_Africa_2000BP Luo -0.354
gendstat: South_Africa_2000BP Russia_HG_Karelia 0.048
gendstat: South_Africa_2000BP Iran_ChL(HF) 0.820
gendstat: South_Africa_2000BP MA1 -0.064
gendstat: South_Africa_2000BP Iberia_HG -0.084
gendstat: South_Africa_2000BP CHG -0.241
gendstat: South_Africa_2000BP Mota 0.377
gendstat: South_Africa_2000BP Kostenki14 0.211
gendstat: South_Africa_2000BP Taiwan_Hanben_IA -0.362
gendstat: South_Africa_2000BP Natufian 0.376
gendstat: South_Africa_2000BP Chile_LosRieles_12000BP.SG 0.103
gendstat: South_Africa_2000BP WHG -0.469
gendstat: South_Africa_2000BP Iran_N 0.726
gendstat: South_Africa_2000BP Germany_LBK -0.159
gendstat: Iberomaurusian Serbia_Mesolithic_IronGates 0.379
gendstat: Iberomaurusian Yana_UP -1.063
gendstat: Iberomaurusian Luo -0.269
gendstat: Iberomaurusian Russia_HG_Karelia 0.093
gendstat: Iberomaurusian Iran_ChL(HF) 0.980
gendstat: Iberomaurusian MA1 -0.037
gendstat: Iberomaurusian Iberia_HG -0.056
gendstat: Iberomaurusian CHG -0.220
gendstat: Iberomaurusian Mota 0.399
gendstat: Iberomaurusian Kostenki14 0.255
gendstat: Iberomaurusian Taiwan_Hanben_IA -0.363
gendstat: Iberomaurusian Natufian 0.429
gendstat: Iberomaurusian Chile_LosRieles_12000BP.SG 0.151
gendstat: Iberomaurusian WHG -0.470
gendstat: Iberomaurusian Iran_N 0.836
gendstat: Iberomaurusian Germany_LBK -0.140
gendstat: Serbia_Mesolithic_IronGates Yana_UP -1.616
gendstat: Serbia_Mesolithic_IronGates Luo -0.624
gendstat: Serbia_Mesolithic_IronGates Russia_HG_Karelia -0.281
gendstat: Serbia_Mesolithic_IronGates Iran_ChL(HF) 0.735
gendstat: Serbia_Mesolithic_IronGates MA1 -0.368
gendstat: Serbia_Mesolithic_IronGates Iberia_HG -0.565
gendstat: Serbia_Mesolithic_IronGates CHG -0.645
gendstat: Serbia_Mesolithic_IronGates Mota 0.081
gendstat: Serbia_Mesolithic_IronGates Kostenki14 -0.056
gendstat: Serbia_Mesolithic_IronGates Taiwan_Hanben_IA -0.904
gendstat: Serbia_Mesolithic_IronGates Natufian 0.200
gendstat: Serbia_Mesolithic_IronGates Chile_LosRieles_12000BP.SG -0.185
gendstat: Serbia_Mesolithic_IronGates WHG -1.009
gendstat: Serbia_Mesolithic_IronGates Iran_N 0.564
gendstat: Serbia_Mesolithic_IronGates Germany_LBK -0.709
gendstat: Yana_UP Luo 0.730
gendstat: Yana_UP Russia_HG_Karelia 1.142
gendstat: Yana_UP Iran_ChL(HF) 2.147
gendstat: Yana_UP MA1 0.872
gendstat: Yana_UP Iberia_HG 1.037
gendstat: Yana_UP CHG 0.859
gendstat: Yana_UP Mota 1.303
gendstat: Yana_UP Kostenki14 1.276
gendstat: Yana_UP Taiwan_Hanben_IA 0.903
gendstat: Yana_UP Natufian 1.119
gendstat: Yana_UP Chile_LosRieles_12000BP.SG 1.214
gendstat: Yana_UP WHG 0.504
gendstat: Yana_UP Iran_N 1.987
gendstat: Yana_UP Germany_LBK 1.092
gendstat: Luo Russia_HG_Karelia 0.310
gendstat: Luo Iran_ChL(HF) 1.153
gendstat: Luo MA1 0.174
gendstat: Luo Iberia_HG 0.190
gendstat: Luo CHG 0.039
gendstat: Luo Mota 0.695
gendstat: Luo Kostenki14 0.466
gendstat: Luo Taiwan_Hanben_IA -0.061
gendstat: Luo Natufian 0.579
gendstat: Luo Chile_LosRieles_12000BP.SG 0.380
gendstat: Luo WHG -0.211
gendstat: Luo Iran_N 1.024
gendstat: Luo Germany_LBK 0.150
gendstat: Russia_HG_Karelia Iran_ChL(HF) 0.816
gendstat: Russia_HG_Karelia MA1 -0.122
gendstat: Russia_HG_Karelia Iberia_HG -0.157
gendstat: Russia_HG_Karelia CHG -0.305
gendstat: Russia_HG_Karelia Mota 0.267
gendstat: Russia_HG_Karelia Kostenki14 0.161
gendstat: Russia_HG_Karelia Taiwan_Hanben_IA -0.458
gendstat: Russia_HG_Karelia Natufian 0.339
gendstat: Russia_HG_Karelia Chile_LosRieles_12000BP.SG 0.058
gendstat: Russia_HG_Karelia WHG -0.552
gendstat: Russia_HG_Karelia Iran_N 0.715
gendstat: Russia_HG_Karelia Germany_LBK -0.234
gendstat: Iran_ChL(HF) MA1 -0.834
gendstat: Iran_ChL(HF) Iberia_HG -1.055
gendstat: Iran_ChL(HF) CHG -1.298
gendstat: Iran_ChL(HF) Mota -0.429
gendstat: Iran_ChL(HF) Kostenki14 -0.595
gendstat: Iran_ChL(HF) Taiwan_Hanben_IA -1.577
gendstat: Iran_ChL(HF) Natufian -0.215
gendstat: Iran_ChL(HF) Chile_LosRieles_12000BP.SG -0.755
gendstat: Iran_ChL(HF) WHG -1.467
gendstat: Iran_ChL(HF) Iran_N -0.086
gendstat: Iran_ChL(HF) Germany_LBK -1.485
gendstat: MA1 Iberia_HG -0.011
gendstat: MA1 CHG -0.149
gendstat: MA1 Mota 0.363
gendstat: MA1 Kostenki14 0.255
gendstat: MA1 Taiwan_Hanben_IA -0.256
gendstat: MA1 Natufian 0.427
gendstat: MA1 Chile_LosRieles_12000BP.SG 0.170
gendstat: MA1 WHG -0.377
gendstat: MA1 Iran_N 0.756
gendstat: MA1 Germany_LBK -0.071
gendstat: Iberia_HG CHG -0.170
gendstat: Iberia_HG Mota 0.422
gendstat: Iberia_HG Kostenki14 0.317
gendstat: Iberia_HG Taiwan_Hanben_IA -0.312
gendstat: Iberia_HG Natufian 0.471
gendstat: Iberia_HG Chile_LosRieles_12000BP.SG 0.202
gendstat: Iberia_HG WHG -0.489
gendstat: Iberia_HG Iran_N 0.921
gendstat: Iberia_HG Germany_LBK -0.076
gendstat: CHG Mota 0.574
gendstat: CHG Kostenki14 0.481
gendstat: CHG Taiwan_Hanben_IA -0.119
gendstat: CHG Natufian 0.595
gendstat: CHG Chile_LosRieles_12000BP.SG 0.379
gendstat: CHG WHG -0.275
gendstat: CHG Iran_N 1.150
gendstat: CHG Germany_LBK 0.118
gendstat: Mota Kostenki14 -0.117
gendstat: Mota Taiwan_Hanben_IA -0.731
gendstat: Mota Natufian 0.113
gendstat: Mota Chile_LosRieles_12000BP.SG -0.233
gendstat: Mota WHG -0.756
gendstat: Mota Iran_N 0.340
gendstat: Mota Germany_LBK -0.517
gendstat: Kostenki14 Taiwan_Hanben_IA -0.623
gendstat: Kostenki14 Natufian 0.214
gendstat: Kostenki14 Chile_LosRieles_12000BP.SG -0.112
gendstat: Kostenki14 WHG -0.662
gendstat: Kostenki14 Iran_N 0.499
gendstat: Kostenki14 Germany_LBK -0.420
gendstat: Taiwan_Hanben_IA Natufian 0.678
gendstat: Taiwan_Hanben_IA Chile_LosRieles_12000BP.SG 0.560
gendstat: Taiwan_Hanben_IA WHG -0.199
gendstat: Taiwan_Hanben_IA Iran_N 1.397
gendstat: Taiwan_Hanben_IA Germany_LBK 0.276
gendstat: Natufian Chile_LosRieles_12000BP.SG -0.299
gendstat: Natufian WHG -0.764
gendstat: Natufian Iran_N 0.163
gendstat: Natufian Germany_LBK -0.560
gendstat: Chile_LosRieles_12000BP.SG WHG -0.586
gendstat: Chile_LosRieles_12000BP.SG Iran_N 0.655
gendstat: Chile_LosRieles_12000BP.SG Germany_LBK -0.287
gendstat: WHG Iran_N 1.282
gendstat: WHG Germany_LBK 0.416
gendstat: Iran_N Germany_LBK -1.158

drobbah
03-06-2021, 04:40 AM
The percentage of Arabian is oddly enough roughly around the same percentage of T found in Somalis, although that's probably just a coincidence.

The Periplus of the Erythraean sea does mention Arabians mixing with a likely Nilotic rich population in Rhapta which was quite far south of where modern Ethiosemites live and seems a little bit early for that population to be Swahili speakers.
Well there is a Cushitic substratum in Modern South Arabian there was clearly early bidirectional population exchange between Eastern Somaliland & Puntland with the Mahra MSA dominated regions.

The T is found as far south among the Iraqw/Datog so I'm not 100% sure we can ascribe the T in Somalis and Rendilles as being of Arabian origin with complete certainty but J-P58 clearly is.The lone Somali sample has a tmrca of 2500 ybp with other Hadhraami samples.Hopefully the J-P58 Harti and other Somali J-P58 dudes take the BigY and upload it to Yfull.Just came across a J1 Isaaq but haven't gotten a response yet as to his subclan

Squad
03-06-2021, 08:35 AM
Well there is a Cushitic substratum in Modern South Arabian there was clearly early bidirectional population exchange between Eastern Somaliland & Puntland with the Mahra MSA dominated regions.

The T is found as far south among the Iraqw/Datog so I'm not 100% sure we can ascribe the T in Somalis and Rendilles as being of Arabian origin with complete certainty but J-P58 clearly is.The lone Somali sample has a tmrca of 2500 ybp with other Hadhraami samples.Hopefully the J-P58 Harti and other Somali J-P58 dudes take the BigY and upload it to Yfull.Just came across a J1 Isaaq but haven't gotten a response yet as to his subclan

Just show me the haplotypes and I'll tell which big sub-clade they belong to. From what I've personally observed P58 in Somalis is FGC11+S4924 with pretty equal proportions with maybe a bit more FGC11. All of it is no doubt yemeni/arabian in origin, just like all ethiopian J1.

To answer OP, Somalis and other horners have Iran_N in proportions relative to their respective Arabian input, it's as simple as that. Iran_N represents about a fourth of Arabians'ancestry. I thought that was really obvious.

As far as the Y-DNA T in the horn, it is still a little bit of a mystery. Logically it either came from Egypt or from Arabia. I really don't know, we need more samples from both regions as well as Somalia, Ethiopia and even the southern Cushites. So far it seems kinda linked with cushitic languages hence why it may be that it indeed came from Egypt together with E-V32 and whatnot. But like someone pointed out it may have had something to do with the introduction of the camel from Arabia and given that some Arabians belong to the same subclade as Somalis, even one Saudi from Asir interestingly, a strong case could also be made for an arabian origin. The jury is still out

Mnemonics
03-13-2021, 07:05 AM
Is there any other high coverage horner samples? I noticed using PIA samples and Saudi/BedouinB on G25 for all Semitic and Cushitic Horners fits really well.Even the Borana Horners need single digit extra Mota to model them but how historically accurate is such a model.I doubt the Horn was full of PIA populations

I went ahead and tried modeling the Amhara usin a combo of the IA and PN populations + Arabian using an outgroup that can distinguish those sources.







left pops:
Amhara
BedouinB
Kenya_PastoralIA
Morocco_EN
Tanzania_PastoralIA

right pops:
Mbuti
South_Africa_2000BP
Mota
Kenya_PastoralN
Iberomaurusian
Dinka
Villabruna
Yana_UP
Baqah
MA1
WHG.DG
Natufian
CHG
PPNB
Kostenki14
Taiwan_Hanben_IA

0 Amhara 26
1 BedouinB 2
2 Kenya_PastoralIA 4
3 Morocco_EN 3
4 Tanzania_PastoralIA 4
5 Mbuti 5
6 South_Africa_2000BP 3
7 Mota 1
8 Kenya_PastoralN 4
9 Iberomaurusian 3
10 Dinka 1
11 Villabruna 1
12 Yana_UP 2
13 Baqah 19
14 MA1 1
15 WHG.DG 1
16 Natufian 6
17 CHG 2
18 PPNB 12
19 Kostenki14 1
20 Taiwan_Hanben_IA 34
jackknife block size: 0.050
snps: 212725 indivs: 135
number of blocks for block jackknife: 711
## ncols: 212725
coverage: Amhara 80951
coverage: BedouinB 206380
coverage: Kenya_PastoralIA 120859
coverage: Morocco_EN 120105
coverage: Tanzania_PastoralIA 146290
coverage: Mbuti 212684
coverage: South_Africa_2000BP 212635
coverage: Mota 212504
coverage: Kenya_PastoralN 183665
coverage: Iberomaurusian 198935
coverage: Dinka 212609
coverage: Villabruna 161644
coverage: Yana_UP 212645
coverage: Baqah 207276
coverage: MA1 148391
coverage: WHG.DG 211240
coverage: Natufian 96789
coverage: CHG 212523
coverage: PPNB 158806
coverage: Kostenki14 193316
coverage: Taiwan_Hanben_IA 210196
Effective number of blocks: 593.166
numsnps used: 212725
codimension 1
f4info:
f4rank: 3 dof: 12 chisq: 9.847 tail: 0.629360916 dofdiff: 14 chisqdiff: -9.847 taildiff: 1
B:
scale 1.000 1.000 1.000
South_Africa_2000BP -0.012 0.044 -1.083
Mota 0.073 0.074 0.534
Kenya_PastoralN 0.453 0.025 -1.964
Iberomaurusian 1.227 3.659 0.706
Dinka -0.014 -0.110 2.044
Villabruna 1.218 -0.303 -0.637
Yana_UP 1.060 -0.322 1.369
Baqah 1.384 -0.624 -0.649
MA1 1.001 -0.422 -0.042
WHG.DG 1.162 -0.475 0.647
Natufian 1.144 -0.058 -0.402
CHG 1.175 -0.582 0.278
PPNB 1.236 -0.310 -0.158
Kostenki14 1.037 -0.317 0.820
Taiwan_Hanben_IA 1.058 -0.260 -0.975
A:
scale 181.312 429.272 4411.864
BedouinB 1.634 -0.564 0.041
Kenya_PastoralIA -0.828 0.246 0.824
Morocco_EN 0.730 1.897 0.212
Tanzania_PastoralIA -0.337 0.156 -1.810


full rank
f4info:
f4rank: 4 dof: 0 chisq: 0.000 tail: 1 dofdiff: 12 chisqdiff: 9.847 taildiff: 0.629360916
B:
scale 108.919 215.297 165.262 536.571
South_Africa_2000BP -0.020 -0.036 0.019 0.160
Mota 0.050 -0.096 0.125 -0.295
Kenya_PastoralN 0.446 -0.536 0.297 0.024
Iberomaurusian 0.686 -0.749 3.499 -0.686
Dinka 0.017 0.103 -0.063 -0.449
Villabruna 1.268 -1.267 0.574 -1.026
Yana_UP 1.091 -1.081 0.483 -1.506
Baqah 1.449 -1.499 0.464 -1.414
MA1 1.078 -0.989 0.370 -0.911
WHG.DG 1.222 -1.205 0.438 -1.345
Natufian 1.138 -1.150 0.740 -0.785
CHG 1.254 -1.173 0.360 -1.306
PPNB 1.242 -1.369 0.602 -1.267
Kostenki14 1.083 -0.970 0.493 -1.263
Taiwan_Hanben_IA 1.090 -1.082 0.512 -0.856
A:
scale 2.000 2.000 2.000 2.000
BedouinB 2.000 0.000 0.000 0.000
Kenya_PastoralIA 0.000 2.000 0.000 0.000
Morocco_EN 0.000 0.000 2.000 0.000
Tanzania_PastoralIA 0.000 0.000 0.000 2.000


best coefficients: 0.288 0.481 0.005 0.226
Jackknife mean: 0.287003308 0.476350527 0.004721370 0.231924795
std. errors: 0.021 0.075 0.010 0.094

error covariance (* 1,000,000)
446 1236 -4 -1677
1236 5648 97 -6981
-4 97 110 -203
-1677 -6981 -203 8862


summ: Amhara 4 0.629361 0.287 0.476 0.005 0.232 446 1236 -4 -1677 5648 ...
97 -6981 110 -203 8862

fixed pat wt dof chisq tail prob
0000 0 12 9.847 0.629361 0.288 0.481 0.005 0.226
0001 1 13 14.647 0.329893 0.331 0.661 0.009 0.000
0010 1 13 49.438 3.71972e-06 0.191 0.129 0.000 0.679
0100 1 13 36.377 0.000518427 0.165 0.000 -0.003 0.838 infeasible
1000 1 13 39.848 0.000146222 0.000 -0.617 -0.008 1.625 infeasible
0011 2 14 15.078 0.372872 0.334 0.666 0.000 0.000
0101 2 14 2068.132 0 -0.866 0.000 1.866 0.000 infeasible
0110 2 14 36.850 0.000777259 0.164 0.000 0.000 0.836
1001 2 14 358.977 0 0.000 0.964 0.036 0.000
1010 2 14 48.105 1.26269e-05 0.000 -0.630 0.000 1.630 infeasible
1100 2 14 81.371 1.57448e-11 0.000 0.000 0.001 0.999
0111 3 15 2653.941 0 1.000 0.000 0.000 0.000
1011 3 15 378.440 0 0.000 1.000 0.000 0.000
1101 3 15 2204.016 0 0.000 0.000 1.000 0.000
1110 3 15 82.696 2.23759e-11 0.000 0.000 0.000 1.000
best pat: 0000 0.629361 - -
best pat: 0001 0.329893 chi(nested): 4.800 p-value for nested model: 0.0284605
best pat: 0110 0.000777259 not nested
best pat: 1110 2.23759e-11 chi(nested): 45.845 p-value for nested model: 1.27961e-11

coeffs: 0.288 0.481 0.005 0.226

## dscore:: f_4(Base, Fit, Rbase, right2)
## genstat:: f_4(Base, Fit, right1, right2)

details: BedouinB South_Africa_2000BP -0.000188 -0.959411
details: Kenya_PastoralIA South_Africa_2000BP -0.000166 -0.576215
details: Morocco_EN South_Africa_2000BP 0.000112 0.395963
details: Tanzania_PastoralIA South_Africa_2000BP 0.000298 0.967749
dscore: South_Africa_2000BP f4: -0.000066 Z: -0.394862

details: BedouinB Mota 0.000462 1.722600
details: Kenya_PastoralIA Mota -0.000444 -1.070948
details: Morocco_EN Mota 0.000754 1.934373
details: Tanzania_PastoralIA Mota -0.000550 -1.266765
dscore: Mota f4: -0.000201 Z: -0.828892

details: BedouinB Kenya_PastoralN 0.004091 15.596339
details: Kenya_PastoralIA Kenya_PastoralN -0.002489 -6.715322
details: Morocco_EN Kenya_PastoralN 0.001798 4.619049
details: Tanzania_PastoralIA Kenya_PastoralN 0.000045 0.115734
dscore: Kenya_PastoralN f4: 0.000001 Z: 0.003905

details: BedouinB Iberomaurusian 0.006296 20.488799
details: Kenya_PastoralIA Iberomaurusian -0.003478 -8.325628
details: Morocco_EN Iberomaurusian 0.021171 43.155957
details: Tanzania_PastoralIA Iberomaurusian -0.001279 -2.780987
dscore: Iberomaurusian f4: -0.000048 Z: -0.189383

details: BedouinB Dinka 0.000154 0.719164
details: Kenya_PastoralIA Dinka 0.000479 1.546897
details: Morocco_EN Dinka -0.000378 -1.164161
details: Tanzania_PastoralIA Dinka -0.000836 -2.468499
dscore: Dinka f4: 0.000084 Z: 0.465965

details: BedouinB Villabruna 0.011640 28.294179
details: Kenya_PastoralIA Villabruna -0.005883 -10.217467
details: Morocco_EN Villabruna 0.003474 6.148709
details: Tanzania_PastoralIA Villabruna -0.001912 -3.278157
dscore: Villabruna f4: 0.000110 Z: 0.329551

details: BedouinB Yana_UP 0.010020 31.649288
details: Kenya_PastoralIA Yana_UP -0.005020 -11.881362
details: Morocco_EN Yana_UP 0.002921 6.765301
details: Tanzania_PastoralIA Yana_UP -0.002807 -6.135071
dscore: Yana_UP f4: -0.000147 Z: -0.585760

details: BedouinB Baqah 0.013304 47.172716
details: Kenya_PastoralIA Baqah -0.006963 -16.751202
details: Morocco_EN Baqah 0.002805 6.506260
details: Tanzania_PastoralIA Baqah -0.002635 -5.951892
dscore: Baqah f4: -0.000096 Z: -0.396156

details: BedouinB MA1 0.009896 24.963000
details: Kenya_PastoralIA MA1 -0.004595 -7.947330
details: Morocco_EN MA1 0.002241 3.998669
details: Tanzania_PastoralIA MA1 -0.001698 -2.763532
dscore: MA1 f4: 0.000269 Z: 0.804502

details: BedouinB WHG.DG 0.011220 34.668268
details: Kenya_PastoralIA WHG.DG -0.005596 -12.410651
details: Morocco_EN WHG.DG 0.002650 5.682885
details: Tanzania_PastoralIA WHG.DG -0.002507 -5.123442
dscore: WHG.DG f4: -0.000011 Z: -0.042051

details: BedouinB Natufian 0.010449 23.128510
details: Kenya_PastoralIA Natufian -0.005342 -7.585332
details: Morocco_EN Natufian 0.004478 6.850931
details: Tanzania_PastoralIA Natufian -0.001463 -1.987071
dscore: Natufian f4: 0.000133 Z: 0.333727

details: BedouinB CHG 0.011515 35.267773
details: Kenya_PastoralIA CHG -0.005447 -12.600449
details: Morocco_EN CHG 0.002181 5.024876
details: Tanzania_PastoralIA CHG -0.002435 -5.216327
dscore: CHG f4: 0.000160 Z: 0.611187

details: BedouinB PPNB 0.011405 31.429646
details: Kenya_PastoralIA PPNB -0.006358 -12.345100
details: Morocco_EN PPNB 0.003641 7.204173
details: Tanzania_PastoralIA PPNB -0.002361 -4.313711
dscore: PPNB f4: -0.000287 Z: -0.952669

details: BedouinB Kostenki14 0.009948 28.452938
details: Kenya_PastoralIA Kostenki14 -0.004503 -8.714343
details: Morocco_EN Kostenki14 0.002983 5.961245
details: Tanzania_PastoralIA Kostenki14 -0.002353 -4.277172
dscore: Kostenki14 f4: 0.000184 Z: 0.619406

details: BedouinB Taiwan_Hanben_IA 0.010012 34.265116
details: Kenya_PastoralIA Taiwan_Hanben_IA -0.005024 -12.099703
details: Morocco_EN Taiwan_Hanben_IA 0.003098 7.590274
details: Tanzania_PastoralIA Taiwan_Hanben_IA -0.001595 -3.718446
dscore: Taiwan_Hanben_IA f4: 0.000124 Z: 0.513250

gendstat: Mbuti South_Africa_2000BP -0.395
gendstat: Mbuti Mota -0.829
gendstat: Mbuti Kenya_PastoralN 0.004
gendstat: Mbuti Iberomaurusian -0.189
gendstat: Mbuti Dinka 0.466
gendstat: Mbuti Villabruna 0.330
gendstat: Mbuti Yana_UP -0.586
gendstat: Mbuti Baqah -0.396
gendstat: Mbuti MA1 0.805
gendstat: Mbuti WHG.DG -0.042
gendstat: Mbuti Natufian 0.334
gendstat: Mbuti CHG 0.611
gendstat: Mbuti PPNB -0.953
gendstat: Mbuti Kostenki14 0.619
gendstat: Mbuti Taiwan_Hanben_IA 0.513
gendstat: South_Africa_2000BP Mota -0.522
gendstat: South_Africa_2000BP Kenya_PastoralN 0.266
gendstat: South_Africa_2000BP Iberomaurusian 0.063
gendstat: South_Africa_2000BP Dinka 0.636
gendstat: South_Africa_2000BP Villabruna 0.497
gendstat: South_Africa_2000BP Yana_UP -0.284
gendstat: South_Africa_2000BP Baqah -0.111
gendstat: South_Africa_2000BP MA1 0.937
gendstat: South_Africa_2000BP WHG.DG 0.185
gendstat: South_Africa_2000BP Natufian 0.488
gendstat: South_Africa_2000BP CHG 0.779
gendstat: South_Africa_2000BP PPNB -0.681
gendstat: South_Africa_2000BP Kostenki14 0.803
gendstat: South_Africa_2000BP Taiwan_Hanben_IA 0.703
gendstat: Mota Kenya_PastoralN 0.734
gendstat: Mota Iberomaurusian 0.498
gendstat: Mota Dinka 1.075
gendstat: Mota Villabruna 0.825
gendstat: Mota Yana_UP 0.172
gendstat: Mota Baqah 0.363
gendstat: Mota MA1 1.283
gendstat: Mota WHG.DG 0.581
gendstat: Mota Natufian 0.762
gendstat: Mota CHG 1.136
gendstat: Mota PPNB -0.248
gendstat: Mota Kostenki14 1.140
gendstat: Mota Taiwan_Hanben_IA 1.110
gendstat: Kenya_PastoralN Iberomaurusian -0.184
gendstat: Kenya_PastoralN Dinka 0.339
gendstat: Kenya_PastoralN Villabruna 0.339
gendstat: Kenya_PastoralN Yana_UP -0.564
gendstat: Kenya_PastoralN Baqah -0.437
gendstat: Kenya_PastoralN MA1 0.815
gendstat: Kenya_PastoralN WHG.DG -0.044
gendstat: Kenya_PastoralN Natufian 0.334
gendstat: Kenya_PastoralN CHG 0.608
gendstat: Kenya_PastoralN PPNB -0.992
gendstat: Kenya_PastoralN Kostenki14 0.632
gendstat: Kenya_PastoralN Taiwan_Hanben_IA 0.519
gendstat: Iberomaurusian Dinka 0.477
gendstat: Iberomaurusian Villabruna 0.465
gendstat: Iberomaurusian Yana_UP -0.363
gendstat: Iberomaurusian Baqah -0.203
gendstat: Iberomaurusian MA1 0.923
gendstat: Iberomaurusian WHG.DG 0.127
gendstat: Iberomaurusian Natufian 0.456
gendstat: Iberomaurusian CHG 0.730
gendstat: Iberomaurusian PPNB -0.836
gendstat: Iberomaurusian Kostenki14 0.742
gendstat: Iberomaurusian Taiwan_Hanben_IA 0.668
gendstat: Dinka Villabruna 0.073
gendstat: Dinka Yana_UP -0.831
gendstat: Dinka Baqah -0.682
gendstat: Dinka MA1 0.524
gendstat: Dinka WHG.DG -0.325
gendstat: Dinka Natufian 0.120
gendstat: Dinka CHG 0.270
gendstat: Dinka PPNB -1.144
gendstat: Dinka Kostenki14 0.312
gendstat: Dinka Taiwan_Hanben_IA 0.159
gendstat: Villabruna Yana_UP -0.793
gendstat: Villabruna Baqah -0.724
gendstat: Villabruna MA1 0.433
gendstat: Villabruna WHG.DG -0.417
gendstat: Villabruna Natufian 0.056
gendstat: Villabruna CHG 0.155
gendstat: Villabruna PPNB -1.162
gendstat: Villabruna Kostenki14 0.215
gendstat: Villabruna Taiwan_Hanben_IA 0.047
gendstat: Yana_UP Baqah 0.230
gendstat: Yana_UP MA1 1.300
gendstat: Yana_UP WHG.DG 0.510
gendstat: Yana_UP Natufian 0.700
gendstat: Yana_UP CHG 1.148
gendstat: Yana_UP PPNB -0.482
gendstat: Yana_UP Kostenki14 1.138
gendstat: Yana_UP Taiwan_Hanben_IA 1.207
gendstat: Baqah MA1 1.222
gendstat: Baqah WHG.DG 0.385
gendstat: Baqah Natufian 0.660
gendstat: Baqah CHG 1.190
gendstat: Baqah PPNB -0.849
gendstat: Baqah Kostenki14 1.058
gendstat: Baqah Taiwan_Hanben_IA 1.222
gendstat: MA1 WHG.DG -0.859
gendstat: MA1 Natufian -0.308
gendstat: MA1 CHG -0.327
gendstat: MA1 PPNB -1.556
gendstat: MA1 Kostenki14 -0.239
gendstat: MA1 Taiwan_Hanben_IA -0.470
gendstat: WHG.DG Natufian 0.365
gendstat: WHG.DG CHG 0.626
gendstat: WHG.DG PPNB -0.960
gendstat: WHG.DG Kostenki14 0.650
gendstat: WHG.DG Taiwan_Hanben_IA 0.550
gendstat: Natufian CHG 0.070
gendstat: Natufian PPNB -1.060
gendstat: Natufian Kostenki14 0.121
gendstat: Natufian Taiwan_Hanben_IA -0.024
gendstat: CHG PPNB -1.548
gendstat: CHG Kostenki14 0.079
gendstat: CHG Taiwan_Hanben_IA -0.153
gendstat: PPNB Kostenki14 1.414
gendstat: PPNB Taiwan_Hanben_IA 1.529
gendstat: Kostenki14 Taiwan_Hanben_IA -0.218

drobbah
03-13-2021, 07:58 AM
Does this model work with Somalis as well?

Mnemonics
03-13-2021, 08:12 AM
Does this model work with Somalis as well?

Somalis don’t want any PN.

drobbah
03-13-2021, 09:38 AM
Somalis don’t want any PN.
Could you run other Horners like the Oromos,Tigray or Wolayta?

Mnemonics
03-13-2021, 06:35 PM
Could you run other Horners like the Oromos,Tigray or Wolayta?

Here is the model for Tygray





left pops:
Tygray
BedouinB
Kenya_PastoralIA
Morocco_EN
Tanzania_PastoralIA

right pops:
Mbuti
South_Africa_2000BP
Mota
Kenya_PastoralN
Iberomaurusian
Dinka
Villabruna
Yana_UP
Baqah
MA1
WHG.DG
Natufian
CHG
PPNB
Kostenki14
Taiwan_Hanben_IA

0 Tygray 21
1 BedouinB 2
2 Kenya_PastoralIA 4
3 Morocco_EN 3
4 Tanzania_PastoralIA 4
5 Mbuti 5
6 South_Africa_2000BP 3
7 Mota 1
8 Kenya_PastoralN 4
9 Iberomaurusian 3
10 Dinka 1
11 Villabruna 1
12 Yana_UP 2
13 Baqah 19
14 MA1 1
15 WHG.DG 1
16 Natufian 6
17 CHG 2
18 PPNB 12
19 Kostenki14 1
20 Taiwan_Hanben_IA 34
jackknife block size: 0.050
snps: 212725 indivs: 130
number of blocks for block jackknife: 711
## ncols: 212725
coverage: Tygray 80948
coverage: BedouinB 206380
coverage: Kenya_PastoralIA 120859
coverage: Morocco_EN 120105
coverage: Tanzania_PastoralIA 146290
coverage: Mbuti 212684
coverage: South_Africa_2000BP 212635
coverage: Mota 212504
coverage: Kenya_PastoralN 183665
coverage: Iberomaurusian 198935
coverage: Dinka 212609
coverage: Villabruna 161644
coverage: Yana_UP 212645
coverage: Baqah 207276
coverage: MA1 148391
coverage: WHG.DG 211240
coverage: Natufian 96789
coverage: CHG 212523
coverage: PPNB 158806
coverage: Kostenki14 193316
coverage: Taiwan_Hanben_IA 210196
Effective number of blocks: 593.219
numsnps used: 212725
codimension 1
f4info:
f4rank: 3 dof: 12 chisq: 8.719 tail: 0.726750471 dofdiff: 14 chisqdiff: -8.719 taildiff: 1
B:
scale 1.000 1.000 1.000
South_Africa_2000BP -0.005 -0.046 -1.087
Mota 0.091 -0.089 0.458
Kenya_PastoralN 0.456 -0.019 -2.139
Iberomaurusian 1.223 -3.636 0.640
Dinka -0.019 0.109 2.115
Villabruna 1.223 0.332 -0.521
Yana_UP 1.067 0.325 1.322
Baqah 1.388 0.658 -0.545
MA1 0.998 0.428 -0.023
WHG.DG 1.163 0.501 0.526
Natufian 1.144 0.075 -0.435
CHG 1.173 0.594 0.247
PPNB 1.235 0.339 -0.090
Kostenki14 1.037 0.339 0.773
Taiwan_Hanben_IA 1.046 0.292 -0.837
A:
scale 184.613 427.219 4530.304
BedouinB 1.580 0.547 0.023
Kenya_PastoralIA -0.919 -0.248 0.868
Morocco_EN 0.697 -1.901 0.181
Tanzania_PastoralIA -0.414 -0.158 -1.793


full rank
f4info:
f4rank: 4 dof: 0 chisq: 0.000 tail: 1 dofdiff: 12 chisqdiff: 8.719 taildiff: 0.726750471
B:
scale 114.070 199.307 170.684 447.649
South_Africa_2000BP -0.012 -0.022 0.027 0.153
Mota 0.070 -0.067 0.145 -0.213
Kenya_PastoralN 0.450 -0.527 0.287 -0.030
Iberomaurusian 0.670 -0.775 3.562 -0.752
Dinka 0.009 0.097 -0.070 -0.383
Villabruna 1.277 -1.240 0.530 -1.054
Yana_UP 1.098 -1.064 0.455 -1.391
Baqah 1.454 -1.497 0.402 -1.440
MA1 1.081 -0.983 0.337 -0.934
WHG.DG 1.225 -1.206 0.389 -1.307
Natufian 1.135 -1.164 0.704 -0.860
CHG 1.257 -1.171 0.308 -1.288
PPNB 1.234 -1.374 0.542 -1.327
Kostenki14 1.085 -0.983 0.445 -1.210
Taiwan_Hanben_IA 1.078 -1.093 0.459 -0.947
A:
scale 2.000 2.000 2.000 2.000
BedouinB 2.000 0.000 0.000 0.000
Kenya_PastoralIA 0.000 2.000 0.000 0.000
Morocco_EN 0.000 0.000 2.000 0.000
Tanzania_PastoralIA 0.000 0.000 0.000 2.000


best coefficients: 0.314 0.450 0.013 0.223
Jackknife mean: 0.313131755 0.445799577 0.013344012 0.227724655
std. errors: 0.020 0.070 0.010 0.087

error covariance (* 1,000,000)
384 1037 -8 -1413
1037 4831 63 -5931
-8 63 103 -158
-1413 -5931 -158 7502


summ: Tygray 4 0.726750 0.313 0.446 0.013 0.228 384 1037 -8 -1413 4831 ...
63 -5931 103 -158 7502

fixed pat wt dof chisq tail prob
0000 0 12 8.719 0.72675 0.314 0.450 0.013 0.223
0001 1 13 14.135 0.364425 0.355 0.627 0.017 0.000
0010 1 13 46.090 1.37506e-05 0.119 -0.304 0.000 1.184 infeasible
0100 1 13 33.708 0.0013327 0.200 0.000 0.004 0.796
1000 1 13 38.032 0.000284989 0.000 -0.756 -0.005 1.761 infeasible
0011 2 14 16.015 0.312489 0.362 0.638 0.000 0.000
0101 2 14 2058.421 0 -0.529 0.000 1.529 0.000 infeasible
0110 2 14 34.205 0.00192497 0.201 0.000 0.000 0.799
1001 2 14 418.130 0 0.000 0.967 0.033 0.000
1010 2 14 45.761 3.06724e-05 0.000 -0.768 0.000 1.768 infeasible
1100 2 14 98.610 8.7519e-15 0.000 0.000 0.003 0.997
0111 3 15 2420.174 0 1.000 0.000 0.000 0.000
1011 3 15 440.625 0 0.000 1.000 0.000 0.000
1101 3 15 2111.379 0 0.000 0.000 1.000 0.000
1110 3 15 99.238 1.81896e-14 0.000 0.000 0.000 1.000
best pat: 0000 0.72675 - -
best pat: 0100 0.0013327 chi(nested): 24.989 p-value for nested model: 5.76473e-07
best pat: 0110 0.00192497 chi(nested): 0.497 p-value for nested model: 0.480977
best pat: 1110 1.81896e-14 chi(nested): 65.033 p-value for nested model: 7.36369e-16

coeffs: 0.314 0.450 0.013 0.223

## dscore:: f_4(Base, Fit, Rbase, right2)
## genstat:: f_4(Base, Fit, right1, right2)

details: BedouinB South_Africa_2000BP -0.000102 -0.532089
details: Kenya_PastoralIA South_Africa_2000BP -0.000111 -0.382131
details: Morocco_EN South_Africa_2000BP 0.000159 0.561081
details: Tanzania_PastoralIA South_Africa_2000BP 0.000342 1.102733
dscore: South_Africa_2000BP f4: -0.000004 Z: -0.022911

details: BedouinB Mota 0.000613 2.299130
details: Kenya_PastoralIA Mota -0.000335 -0.812046
details: Morocco_EN Mota 0.000850 2.189742
details: Tanzania_PastoralIA Mota -0.000476 -1.099483
dscore: Mota f4: -0.000053 Z: -0.229323

details: BedouinB Kenya_PastoralN 0.003949 15.478577
details: Kenya_PastoralIA Kenya_PastoralN -0.002645 -6.996375
details: Morocco_EN Kenya_PastoralN 0.001684 4.301024
details: Tanzania_PastoralIA Kenya_PastoralN -0.000067 -0.169233
dscore: Kenya_PastoralN f4: 0.000058 Z: 0.278709

details: BedouinB Iberomaurusian 0.005871 18.857459
details: Kenya_PastoralIA Iberomaurusian -0.003890 -9.265165
details: Morocco_EN Iberomaurusian 0.020867 42.005848
details: Tanzania_PastoralIA Iberomaurusian -0.001679 -3.587124
dscore: Iberomaurusian f4: -0.000005 Z: -0.017964

details: BedouinB Dinka 0.000082 0.386401
details: Kenya_PastoralIA Dinka 0.000487 1.549982
details: Morocco_EN Dinka -0.000410 -1.264898
details: Tanzania_PastoralIA Dinka -0.000855 -2.517786
dscore: Dinka f4: 0.000049 Z: 0.276277

details: BedouinB Villabruna 0.011191 27.849655
details: Kenya_PastoralIA Villabruna -0.006220 -10.888087
details: Morocco_EN Villabruna 0.003102 5.498294
details: Tanzania_PastoralIA Villabruna -0.002355 -3.943928
dscore: Villabruna f4: 0.000234 Z: 0.727417

details: BedouinB Yana_UP 0.009622 30.184788
details: Kenya_PastoralIA Yana_UP -0.005336 -12.678679
details: Morocco_EN Yana_UP 0.002663 6.099201
details: Tanzania_PastoralIA Yana_UP -0.003107 -6.586901
dscore: Yana_UP f4: -0.000035 Z: -0.142990

details: BedouinB Baqah 0.012745 45.267781
details: Kenya_PastoralIA Baqah -0.007512 -17.899952
details: Morocco_EN Baqah 0.002354 5.453716
details: Tanzania_PastoralIA Baqah -0.003217 -7.169585
dscore: Baqah f4: -0.000061 Z: -0.255866

details: BedouinB MA1 0.009472 23.920723
details: Kenya_PastoralIA MA1 -0.004930 -8.486461
details: Morocco_EN MA1 0.001974 3.482065
details: Tanzania_PastoralIA MA1 -0.002085 -3.340343
dscore: MA1 f4: 0.000319 Z: 0.974858

details: BedouinB WHG.DG 0.010736 32.291917
details: Kenya_PastoralIA WHG.DG -0.006052 -13.478515
details: Morocco_EN WHG.DG 0.002276 4.843321
details: Tanzania_PastoralIA WHG.DG -0.002920 -5.967586
dscore: WHG.DG f4: 0.000030 Z: 0.115220

details: BedouinB Natufian 0.009950 22.172750
details: Kenya_PastoralIA Natufian -0.005842 -8.342069
details: Morocco_EN Natufian 0.004126 6.310384
details: Tanzania_PastoralIA Natufian -0.001922 -2.595202
dscore: Natufian f4: 0.000124 Z: 0.325351

details: BedouinB CHG 0.011015 33.903893
details: Kenya_PastoralIA CHG -0.005873 -13.293526
details: Morocco_EN CHG 0.001806 4.158005
details: Tanzania_PastoralIA CHG -0.002877 -6.095321
dscore: CHG f4: 0.000201 Z: 0.774039

details: BedouinB PPNB 0.010815 29.855009
details: Kenya_PastoralIA PPNB -0.006894 -13.359889
details: Morocco_EN PPNB 0.003173 6.276163
details: Tanzania_PastoralIA PPNB -0.002964 -5.399555
dscore: PPNB f4: -0.000322 Z: -1.101369

details: BedouinB Kostenki14 0.009516 27.726823
details: Kenya_PastoralIA Kostenki14 -0.004934 -9.481534
details: Morocco_EN Kostenki14 0.002608 5.224604
details: Tanzania_PastoralIA Kostenki14 -0.002702 -4.914333
dscore: Kostenki14 f4: 0.000202 Z: 0.703638

details: BedouinB Taiwan_Hanben_IA 0.009446 32.012677
details: Kenya_PastoralIA Taiwan_Hanben_IA -0.005486 -13.077921
details: Morocco_EN Taiwan_Hanben_IA 0.002687 6.501644
details: Tanzania_PastoralIA Taiwan_Hanben_IA -0.002116 -4.901826
dscore: Taiwan_Hanben_IA f4: 0.000064 Z: 0.267455

gendstat: Mbuti South_Africa_2000BP -0.023
gendstat: Mbuti Mota -0.229
gendstat: Mbuti Kenya_PastoralN 0.279
gendstat: Mbuti Iberomaurusian -0.018
gendstat: Mbuti Dinka 0.276
gendstat: Mbuti Villabruna 0.727
gendstat: Mbuti Yana_UP -0.143
gendstat: Mbuti Baqah -0.256
gendstat: Mbuti MA1 0.975
gendstat: Mbuti WHG.DG 0.115
gendstat: Mbuti Natufian 0.325
gendstat: Mbuti CHG 0.774
gendstat: Mbuti PPNB -1.101
gendstat: Mbuti Kostenki14 0.704
gendstat: Mbuti Taiwan_Hanben_IA 0.267
gendstat: South_Africa_2000BP Mota -0.200
gendstat: South_Africa_2000BP Kenya_PastoralN 0.253
gendstat: South_Africa_2000BP Iberomaurusian -0.003
gendstat: South_Africa_2000BP Dinka 0.230
gendstat: South_Africa_2000BP Villabruna 0.696
gendstat: South_Africa_2000BP Yana_UP -0.116
gendstat: South_Africa_2000BP Baqah -0.222
gendstat: South_Africa_2000BP MA1 0.930
gendstat: South_Africa_2000BP WHG.DG 0.119
gendstat: South_Africa_2000BP Natufian 0.329
gendstat: South_Africa_2000BP CHG 0.737
gendstat: South_Africa_2000BP PPNB -1.044
gendstat: South_Africa_2000BP Kostenki14 0.689
gendstat: South_Africa_2000BP Taiwan_Hanben_IA 0.257
gendstat: Mota Kenya_PastoralN 0.417
gendstat: Mota Iberomaurusian 0.163
gendstat: Mota Dinka 0.398
gendstat: Mota Villabruna 0.770
gendstat: Mota Yana_UP 0.059
gendstat: Mota Baqah -0.028
gendstat: Mota MA1 1.040
gendstat: Mota WHG.DG 0.264
gendstat: Mota Natufian 0.419
gendstat: Mota CHG 0.828
gendstat: Mota PPNB -0.803
gendstat: Mota Kostenki14 0.775
gendstat: Mota Taiwan_Hanben_IA 0.406
gendstat: Kenya_PastoralN Iberomaurusian -0.240
gendstat: Kenya_PastoralN Dinka -0.039
gendstat: Kenya_PastoralN Villabruna 0.565
gendstat: Kenya_PastoralN Yana_UP -0.364
gendstat: Kenya_PastoralN Baqah -0.553
gendstat: Kenya_PastoralN MA1 0.788
gendstat: Kenya_PastoralN WHG.DG -0.107
gendstat: Kenya_PastoralN Natufian 0.174
gendstat: Kenya_PastoralN CHG 0.543
gendstat: Kenya_PastoralN PPNB -1.339
gendstat: Kenya_PastoralN Kostenki14 0.505
gendstat: Kenya_PastoralN Taiwan_Hanben_IA 0.023
gendstat: Iberomaurusian Dinka 0.199
gendstat: Iberomaurusian Villabruna 0.727
gendstat: Iberomaurusian Yana_UP -0.114
gendstat: Iberomaurusian Baqah -0.246
gendstat: Iberomaurusian MA1 0.968
gendstat: Iberomaurusian WHG.DG 0.122
gendstat: Iberomaurusian Natufian 0.339
gendstat: Iberomaurusian CHG 0.747
gendstat: Iberomaurusian PPNB -1.137
gendstat: Iberomaurusian Kostenki14 0.682
gendstat: Iberomaurusian Taiwan_Hanben_IA 0.275
gendstat: Dinka Villabruna 0.539
gendstat: Dinka Yana_UP -0.307
gendstat: Dinka Baqah -0.426
gendstat: Dinka MA1 0.778
gendstat: Dinka WHG.DG -0.067
gendstat: Dinka Natufian 0.193
gendstat: Dinka CHG 0.550
gendstat: Dinka PPNB -1.186
gendstat: Dinka Kostenki14 0.492
gendstat: Dinka Taiwan_Hanben_IA 0.060
gendstat: Villabruna Yana_UP -0.853
gendstat: Villabruna Baqah -1.047
gendstat: Villabruna MA1 0.236
gendstat: Villabruna WHG.DG -0.732
gendstat: Villabruna Natufian -0.270
gendstat: Villabruna CHG -0.104
gendstat: Villabruna PPNB -1.660
gendstat: Villabruna Kostenki14 -0.096
gendstat: Villabruna Taiwan_Hanben_IA -0.586
gendstat: Yana_UP Baqah -0.121
gendstat: Yana_UP MA1 1.131
gendstat: Yana_UP WHG.DG 0.249
gendstat: Yana_UP Natufian 0.410
gendstat: Yana_UP CHG 0.915
gendstat: Yana_UP PPNB -1.009
gendstat: Yana_UP Kostenki14 0.839
gendstat: Yana_UP Taiwan_Hanben_IA 0.454
gendstat: Baqah MA1 1.294
gendstat: Baqah WHG.DG 0.422
gendstat: Baqah Natufian 0.549
gendstat: Baqah CHG 1.239
gendstat: Baqah PPNB -1.187
gendstat: Baqah Kostenki14 1.019
gendstat: Baqah Taiwan_Hanben_IA 0.703
gendstat: MA1 WHG.DG -0.907
gendstat: MA1 Natufian -0.450
gendstat: MA1 CHG -0.358
gendstat: MA1 PPNB -1.801
gendstat: MA1 Kostenki14 -0.328
gendstat: MA1 Taiwan_Hanben_IA -0.842
gendstat: WHG.DG Natufian 0.240
gendstat: WHG.DG CHG 0.654
gendstat: WHG.DG PPNB -1.269
gendstat: WHG.DG Kostenki14 0.586
gendstat: WHG.DG Taiwan_Hanben_IA 0.145
gendstat: Natufian CHG 0.210
gendstat: Natufian PPNB -1.188
gendstat: Natufian Kostenki14 0.192
gendstat: Natufian Taiwan_Hanben_IA -0.163
gendstat: CHG PPNB -1.838
gendstat: CHG Kostenki14 0.003
gendstat: CHG Taiwan_Hanben_IA -0.610
gendstat: PPNB Kostenki14 1.618
gendstat: PPNB Taiwan_Hanben_IA 1.464
gendstat: Kostenki14 Taiwan_Hanben_IA -0.512

Mnemonics
03-13-2021, 06:53 PM
Oromo





left pops:
Oromo
BedouinB
Kenya_PastoralIA
Wolayta

right pops:
Mbuti
South_Africa_2000BP
Mota
Kenya_PastoralN
Iberomaurusian
Dinka
Villabruna
Yana_UP
Baqah
MA1
WHG.DG
Natufian
CHG
PPNB
Kostenki14
Taiwan_Hanben_IA

0 Oromo 21
1 BedouinB 2
2 Kenya_PastoralIA 4
3 Wolayta 8
4 Mbuti 5
5 South_Africa_2000BP 3
6 Mota 1
7 Kenya_PastoralN 4
8 Iberomaurusian 3
9 Dinka 1
10 Villabruna 1
11 Yana_UP 2
12 Baqah 19
13 MA1 1
14 WHG.DG 1
15 Natufian 6
16 CHG 2
17 PPNB 12
18 Kostenki14 1
19 Taiwan_Hanben_IA 34
jackknife block size: 0.050
snps: 212725 indivs: 131
number of blocks for block jackknife: 711
## ncols: 212725
coverage: Oromo 80953
coverage: BedouinB 206380
coverage: Kenya_PastoralIA 120859
coverage: Wolayta 80897
coverage: Mbuti 212684
coverage: South_Africa_2000BP 212635
coverage: Mota 212504
coverage: Kenya_PastoralN 183665
coverage: Iberomaurusian 198935
coverage: Dinka 212609
coverage: Villabruna 161644
coverage: Yana_UP 212645
coverage: Baqah 207276
coverage: MA1 148391
coverage: WHG.DG 211240
coverage: Natufian 96789
coverage: CHG 212523
coverage: PPNB 158806
coverage: Kostenki14 193316
coverage: Taiwan_Hanben_IA 210196
Effective number of blocks: 594.093
numsnps used: 212725
codimension 1
f4info:
f4rank: 2 dof: 13 chisq: 11.954 tail: 0.531387037 dofdiff: 15 chisqdiff: -11.954 taildiff: 1
B:
scale 1.000 1.000
South_Africa_2000BP -0.034 0.655
Mota 0.003 2.386
Kenya_PastoralN 0.476 -1.249
Iberomaurusian 0.721 -0.561
Dinka 0.033 -2.243
Villabruna 1.237 0.201
Yana_UP 1.080 0.322
Baqah 1.465 -0.250
MA1 1.068 -0.187
WHG.DG 1.215 0.074
Natufian 1.163 -0.566
CHG 1.246 0.763
PPNB 1.269 -0.056
Kostenki14 1.061 0.127
Taiwan_Hanben_IA 1.072 0.895
A:
scale 152.150 5779.256
BedouinB 1.639 0.481
Kenya_PastoralIA -0.497 -1.187
Wolayta -0.258 1.166


full rank
f4info:
f4rank: 3 dof: 0 chisq: 0.000 tail: 1 dofdiff: 13 chisqdiff: 11.954 taildiff: 0.531387037
B:
scale 91.474 305.920 585.183
South_Africa_2000BP -0.029 -0.069 0.113
Mota 0.028 -0.159 0.369
Kenya_PastoralN 0.465 -0.512 -0.636
Iberomaurusian 0.708 -0.741 -0.811
Dinka 0.030 0.201 -0.241
Villabruna 1.261 -1.254 -1.174
Yana_UP 1.087 -1.119 -1.040
Baqah 1.453 -1.513 -1.486
MA1 1.068 -0.964 -1.044
WHG.DG 1.216 -1.238 -1.188
Natufian 1.144 -1.104 -1.313
CHG 1.248 -1.187 -1.120
PPNB 1.261 -1.329 -1.298
Kostenki14 1.073 -0.978 -0.988
Taiwan_Hanben_IA 1.081 -1.093 -0.960
A:
scale 1.732 1.732 1.732
BedouinB 1.732 0.000 0.000
Kenya_PastoralIA 0.000 1.732 0.000
Wolayta 0.000 0.000 1.732


best coefficients: 0.191 0.440 0.369
Jackknife mean: 0.188162504 0.414596175 0.397241321
std. errors: 0.018 0.117 0.133

error covariance (* 1,000,000)
336 1806 -2142
1806 13722 -15528
-2142 -15528 17670


summ: Oromo 3 0.531387 0.188 0.415 0.397 336 1806 -2142 13722 -15528 ...
17670

fixed pat wt dof chisq tail prob
000 0 13 11.954 0.531387 0.191 0.440 0.369
001 1 14 17.581 0.226517 0.235 0.765 0.000
010 1 14 49.220 8.24218e-06 0.133 0.000 0.867
100 1 14 61.592 6.15638e-08 0.000 -1.006 2.006 infeasible
011 2 15 3353.946 0 1.000 0.000 0.000
101 2 15 207.181 0 0.000 1.000 0.000
110 2 15 296.913 0 0.000 0.000 1.000
best pat: 000 0.531387 - -
best pat: 001 0.226517 chi(nested): 5.627 p-value for nested model: 0.017686
best pat: 101 7.35553e-36 chi(nested): 189.599 p-value for nested model: 3.88895e-43

coeffs: 0.191 0.440 0.369

## dscore:: f_4(Base, Fit, Rbase, right2)
## genstat:: f_4(Base, Fit, right1, right2)

details: BedouinB South_Africa_2000BP -0.000322 -1.592964
details: Kenya_PastoralIA South_Africa_2000BP -0.000226 -0.803463
details: Wolayta South_Africa_2000BP 0.000193 1.644902
dscore: South_Africa_2000BP f4: -0.000090 Z: -0.650086

details: BedouinB Mota 0.000302 1.106274
details: Kenya_PastoralIA Mota -0.000519 -1.268540
details: Wolayta Mota 0.000630 4.009277
dscore: Mota f4: 0.000062 Z: 0.298399

details: BedouinB Kenya_PastoralN 0.005085 19.135081
details: Kenya_PastoralIA Kenya_PastoralN -0.001672 -4.573818
details: Wolayta Kenya_PastoralN -0.001087 -7.851895
dscore: Kenya_PastoralN f4: -0.000163 Z: -0.908917

details: BedouinB Iberomaurusian 0.007738 24.380374
details: Kenya_PastoralIA Iberomaurusian -0.002424 -5.917782
details: Wolayta Iberomaurusian -0.001386 -8.137149
dscore: Iberomaurusian f4: -0.000097 Z: -0.457011

details: BedouinB Dinka 0.000328 1.490647
details: Kenya_PastoralIA Dinka 0.000656 2.129731
details: Wolayta Dinka -0.000412 -3.327219
dscore: Dinka f4: 0.000199 Z: 1.316354

details: BedouinB Villabruna 0.013785 32.362690
details: Kenya_PastoralIA Villabruna -0.004099 -7.207992
details: Wolayta Villabruna -0.002007 -9.142874
dscore: Villabruna f4: 0.000094 Z: 0.332570

details: BedouinB Yana_UP 0.011881 35.605437
details: Kenya_PastoralIA Yana_UP -0.003658 -8.937211
details: Wolayta Yana_UP -0.001778 -10.095252
dscore: Yana_UP f4: 0.000009 Z: 0.042049

details: BedouinB Baqah 0.015888 53.489617
details: Kenya_PastoralIA Baqah -0.004944 -12.034042
details: Wolayta Baqah -0.002539 -14.566080
dscore: Baqah f4: -0.000071 Z: -0.337848

details: BedouinB MA1 0.011678 27.779414
details: Kenya_PastoralIA MA1 -0.003152 -5.474546
details: Wolayta MA1 -0.001784 -8.405820
dscore: MA1 f4: 0.000190 Z: 0.659434

details: BedouinB WHG.DG 0.013297 39.620798
details: Kenya_PastoralIA WHG.DG -0.004046 -9.202177
details: Wolayta WHG.DG -0.002031 -10.744719
dscore: WHG.DG f4: 0.000016 Z: 0.071411

details: BedouinB Natufian 0.012508 26.876401
details: Kenya_PastoralIA Natufian -0.003608 -5.203592
details: Wolayta Natufian -0.002243 -9.196239
dscore: Natufian f4: -0.000021 Z: -0.062484

details: BedouinB CHG 0.013642 40.515427
details: Kenya_PastoralIA CHG -0.003880 -8.991199
details: Wolayta CHG -0.001913 -10.594815
dscore: CHG f4: 0.000198 Z: 0.884411

details: BedouinB PPNB 0.013788 36.994859
details: Kenya_PastoralIA PPNB -0.004345 -8.568767
details: Wolayta PPNB -0.002219 -11.416139
dscore: PPNB f4: -0.000092 Z: -0.360480

details: BedouinB Kostenki14 0.011731 32.800607
details: Kenya_PastoralIA Kostenki14 -0.003196 -6.269113
details: Wolayta Kostenki14 -0.001689 -8.471316
dscore: Kostenki14 f4: 0.000216 Z: 0.855825

details: BedouinB Taiwan_Hanben_IA 0.011813 38.570284
details: Kenya_PastoralIA Taiwan_Hanben_IA -0.003572 -8.690034
details: Wolayta Taiwan_Hanben_IA -0.001640 -10.019716
dscore: Taiwan_Hanben_IA f4: 0.000084 Z: 0.411561

gendstat: Mbuti South_Africa_2000BP -0.650
gendstat: Mbuti Mota 0.298
gendstat: Mbuti Kenya_PastoralN -0.909
gendstat: Mbuti Iberomaurusian -0.457
gendstat: Mbuti Dinka 1.316
gendstat: Mbuti Villabruna 0.333
gendstat: Mbuti Yana_UP 0.042
gendstat: Mbuti Baqah -0.338
gendstat: Mbuti MA1 0.659
gendstat: Mbuti WHG.DG 0.071
gendstat: Mbuti Natufian -0.062
gendstat: Mbuti CHG 0.884
gendstat: Mbuti PPNB -0.360
gendstat: Mbuti Kostenki14 0.856
gendstat: Mbuti Taiwan_Hanben_IA 0.412
gendstat: South_Africa_2000BP Mota 0.685
gendstat: South_Africa_2000BP Kenya_PastoralN -0.349
gendstat: South_Africa_2000BP Iberomaurusian -0.030
gendstat: South_Africa_2000BP Dinka 1.523
gendstat: South_Africa_2000BP Villabruna 0.625
gendstat: South_Africa_2000BP Yana_UP 0.427
gendstat: South_Africa_2000BP Baqah 0.082
gendstat: South_Africa_2000BP MA1 0.911
gendstat: South_Africa_2000BP WHG.DG 0.430
gendstat: South_Africa_2000BP Natufian 0.198
gendstat: South_Africa_2000BP CHG 1.196
gendstat: South_Africa_2000BP PPNB -0.007
gendstat: South_Africa_2000BP Kostenki14 1.183
gendstat: South_Africa_2000BP Taiwan_Hanben_IA 0.772
gendstat: Mota Kenya_PastoralN -0.954
gendstat: Mota Iberomaurusian -0.629
gendstat: Mota Dinka 0.608
gendstat: Mota Villabruna 0.105
gendstat: Mota Yana_UP -0.204
gendstat: Mota Baqah -0.533
gendstat: Mota MA1 0.415
gendstat: Mota WHG.DG -0.171
gendstat: Mota Natufian -0.225
gendstat: Mota CHG 0.512
gendstat: Mota PPNB -0.524
gendstat: Mota Kostenki14 0.533
gendstat: Mota Taiwan_Hanben_IA 0.090
gendstat: Kenya_PastoralN Iberomaurusian 0.298
gendstat: Kenya_PastoralN Dinka 1.748
gendstat: Kenya_PastoralN Villabruna 0.982
gendstat: Kenya_PastoralN Yana_UP 0.816
gendstat: Kenya_PastoralN Baqah 0.484
gendstat: Kenya_PastoralN MA1 1.270
gendstat: Kenya_PastoralN WHG.DG 0.793
gendstat: Kenya_PastoralN Natufian 0.426
gendstat: Kenya_PastoralN CHG 1.634
gendstat: Kenya_PastoralN PPNB 0.299
gendstat: Kenya_PastoralN Kostenki14 1.596
gendstat: Kenya_PastoralN Taiwan_Hanben_IA 1.239
gendstat: Iberomaurusian Dinka 1.300
gendstat: Iberomaurusian Villabruna 0.671
gendstat: Iberomaurusian Yana_UP 0.464
gendstat: Iberomaurusian Baqah 0.127
gendstat: Iberomaurusian MA1 0.971
gendstat: Iberomaurusian WHG.DG 0.480
gendstat: Iberomaurusian Natufian 0.232
gendstat: Iberomaurusian CHG 1.238
gendstat: Iberomaurusian PPNB 0.021
gendstat: Iberomaurusian Kostenki14 1.178
gendstat: Iberomaurusian Taiwan_Hanben_IA 0.863
gendstat: Dinka Villabruna -0.352
gendstat: Dinka Yana_UP -0.835
gendstat: Dinka Baqah -1.220
gendstat: Dinka MA1 -0.032
gendstat: Dinka WHG.DG -0.760
gendstat: Dinka Natufian -0.645
gendstat: Dinka CHG -0.005
gendstat: Dinka PPNB -1.084
gendstat: Dinka Kostenki14 0.062
gendstat: Dinka Taiwan_Hanben_IA -0.540
gendstat: Villabruna Yana_UP -0.321
gendstat: Villabruna Baqah -0.697
gendstat: Villabruna MA1 0.303
gendstat: Villabruna WHG.DG -0.328
gendstat: Villabruna Natufian -0.330
gendstat: Villabruna CHG 0.390
gendstat: Villabruna PPNB -0.646
gendstat: Villabruna Kostenki14 0.436
gendstat: Villabruna Taiwan_Hanben_IA -0.041
gendstat: Yana_UP Baqah -0.433
gendstat: Yana_UP MA1 0.673
gendstat: Yana_UP WHG.DG 0.032
gendstat: Yana_UP Natufian -0.089
gendstat: Yana_UP CHG 0.852
gendstat: Yana_UP PPNB -0.409
gendstat: Yana_UP Kostenki14 0.879
gendstat: Yana_UP Taiwan_Hanben_IA 0.411
gendstat: Baqah MA1 1.011
gendstat: Baqah WHG.DG 0.474
gendstat: Baqah Natufian 0.168
gendstat: Baqah CHG 1.477
gendstat: Baqah PPNB -0.105
gendstat: Baqah Kostenki14 1.299
gendstat: Baqah Taiwan_Hanben_IA 1.032
gendstat: MA1 WHG.DG -0.613
gendstat: MA1 Natufian -0.570
gendstat: MA1 CHG 0.028
gendstat: MA1 PPNB -0.916
gendstat: MA1 Kostenki14 0.084
gendstat: MA1 Taiwan_Hanben_IA -0.406
gendstat: WHG.DG Natufian -0.112
gendstat: WHG.DG CHG 0.787
gendstat: WHG.DG PPNB -0.442
gendstat: WHG.DG Kostenki14 0.808
gendstat: WHG.DG Taiwan_Hanben_IA 0.348
gendstat: Natufian CHG 0.684
gendstat: Natufian PPNB -0.214
gendstat: Natufian Kostenki14 0.693
gendstat: Natufian Taiwan_Hanben_IA 0.335
gendstat: CHG PPNB -1.199
gendstat: CHG Kostenki14 0.071
gendstat: CHG Taiwan_Hanben_IA -0.574
gendstat: PPNB Kostenki14 1.125
gendstat: PPNB Taiwan_Hanben_IA 0.776
gendstat: Kostenki14 Taiwan_Hanben_IA -0.587

drobbah
03-14-2021, 03:28 AM
The Oromo got similar Arabian levels as the Somalis but I assume some Arabian is hidden in the Wolayta.Even on G25 the most Omotic Borana-like Oromos gets more Arabian than Somalis

Mnemonics
03-14-2021, 08:08 AM
The Oromo got similar Arabian levels as the Somalis but I assume some Arabian is hidden in the Wolayta.Even on G25 the most Omotic Borana-like Oromos gets more Arabian than Somalis

The Oromo seem to have slightly lower Iran_ChL than Somalis on average. The Ari Cultivators seem to have no Iranian admixture, and the Wolatya are intermediate between Somalis and the Ari.

afbarwaaqo
03-26-2021, 11:15 AM
To answer OP, Somalis and other horners have Iran_N in proportions relative to their respective Arabian input, it's as simple as that. Iran_N represents about a fourth of Arabians'ancestry. I thought that was really obvious.

i already know that arabians have the Iran_N component, i asked this while believing that our west eurasian ancestors during the neolithic period were primarily from a natufian like population and completely lacked any iran_n ancestry and any minor iran_n ancestry that we somalis may possess today would be due to a more recent input from arabia, if all of our west eurasian ancestry came from recent arabians then we'd obviously have iran_N but thats not the case

Ajeje Brazorf
03-26-2021, 11:39 AM
When a Middle Eastern component is not used to model Somalis, they have: SUDANESE7 (49 to 60%), EEF (20 to 24%), Taforalt (20 to 23%), and finally Iran_N (5 to 9%). Iran_N scores for ancient samples from East Africa:



Sample
% IRAN_N


ETH_4500BP:mota
0


KEN_Early_Pastoral_N:I12533
9,6


KEN_Early_Pastoral_N:I12534
9,4


KEN_Kakapel_3900BP:KPL001
0,8


KEN_LuKENHill_3500BP:LUK001
5,4


KEN_Nyarindi_3500BP:NYA002
3,4


KEN_Pastoral_N:I8874
5


TZA_Luxmanda_3100BP:I3726
6


KEN_Pastoral_N:I8809
3,4


KEN_Pastoral_N_o:I8759
2,2


KEN_Pastoral_N_Elmenteitan:I12398
7


TZA_PN:I13980
3,8


KEN_Pastoral_N:I8758
9,4


TZA_PN:I13981
3,4


KEN_Pastoral_N:I8804
4


KEN_Pastoral_N_Elmenteitan:I8923
8,4


TZA_PN:I13979
6,4


KEN_Pastoral_N:I8814
6,4


KEN_HyraxHill_2300BP:HYR002
6


KEN_Pastoral_N:I8830
5,8


KEN_Pastoral_N:I8920
5,8


TZA_PN_o:I13978
6,4


KEN_Pastoral_N:I8919
6,2


KEN_Pastoral_N:I8918
5


TZA_PN:I13762
5


KEN_MoloCave_1500BP:MOL003
1


KEN_Pastoral_N_Elmenteitan:I8922
5,6


KEN_Pastoral_N_Elmenteitan:I10719
5


TZA_PN:I13977
4,4


KEN_LSA:I8808
0


KEN_Pastoral_N_Elmenteitan:I8805
6,8


KEN_Pastoral_N:I12384
7,4


KEN_Pastoral_N_Elmenteitan:I12394
6,4


KEN_MoloCave_1500BP:MOL001
4,2

drobbah
03-26-2021, 11:58 AM
i already know that arabians have the Iran_N component, i asked this while believing that our west eurasian ancestors during the neolithic period were primarily from a natufian like population and completely lacked any iran_n ancestry and any minor iran_n ancestry that we somalis may possess today would be due to a more recent input from arabia, if all of our west eurasian ancestry came from recent arabians then we'd obviously have iran_N but thats not the case
We do have Iran_N ancestry

afbarwaaqo
03-26-2021, 02:13 PM
We do have Iran_N ancestry

yea i know that now after reading Mnemonics posts

Mnemonics
03-30-2021, 07:41 PM
I noticed that the one high coverage Kenyan Somali seems to have elevated Natufian + Dinka + Mota affinity. Running a few models it's become apparent that the individual has elevated amounts of the Kenya_PastoralIA ancestry in Somalis.

drobbah
03-30-2021, 07:59 PM
Those Kenyan Somalis are just highly admixed with Boranas and many speak Borana.Perhaps the Borana are rich in Pastoral IA ancestry

Mnemonics
03-30-2021, 08:12 PM
The Ayodo Kenyan Somalis are pretty obviously Oromo admixed.
This sample (Somali.DG) is an individual from Garissa who has pretty minor Mota.

drobbah
03-30-2021, 08:44 PM
The Ayodo Kenyan Somalis are pretty obviously Oromo admixed.
This sample (Somali.DG) is an individual from Garissa who has pretty minor Mota.
Have you tried running those Oromo samples? Oromo16 & Oromo2 are the samples that I consider would typify the Boranas.Could you find those samples and run them?

Mnemonics
03-30-2021, 11:22 PM
Have you tried running those Oromo samples? Oromo16 & Oromo2 are the samples that I consider would typify the Boranas.Could you find those samples and run them?

Without using Oromo, Oromo2 is best modelled as Amhara (17.3%) + Wolayta (82.7%) Tail = 0.748
Oromo16 is really difficult to model they seem to have less Amhara-like admixture and have even more Mota than Oromo2. I'll get back to you on that one.

drobbah
03-30-2021, 11:27 PM
I think on G25 Oromo16 has more Mota than both Wolayta samples.There's one Wolayta sample that's seems Oromo-like and the other is heavily Mota exactly like Oromo16.The Oromos are a confusing bunch but I think they are key to understanding the Horn.

Mnemonics
03-30-2021, 11:42 PM
I think on G25 Oromo16 has more Mota than both Wolayta samples.There's one Wolayta sample that's seems Oromo-like and the other is heavily Mota exactly like Oromo16.The Oromos are a confusing bunch but I think they are key to understanding the Horn.

I've been running some models on various Horner pops recently and the Oromo seem to have a decent mix of Amhara, Somali, and Wolayta like ancestry.

drobbah
03-31-2021, 04:45 PM
I know G25 isn't good at pointing out very minor ancestry but this model with simulated coordinates does show a somewhat reasonable pattern.

Somalis
44090

Oromos & Wolaytas
44091

Northern Horners
44092

Ari speakers
44093

A decent model for Mota man, seems all the ANA ancestry in Mota is embedded in the Sudanese component but Horners need additional ANA which probably came with the proto-cushites


Target: ETH_4500BP
Distance: 3.5286% / 0.03528593 | ADC: 0.25x RC
56.4 Sudanese
33.8 Ancient_Malawi
5.4 RUS_Ust_Ishim
4.4 Proto-Natufian_(simulated)



I think the North African ancestors of the modern Horners were probably similar to the Mahra but with a lot less Iranian ancestry and a lot more ANA ancestry


Target: Yemenite_Mahra
Distance: 3.3736% / 0.03373642 | ADC: 0.25x RC
63.6 Proto-Natufian_(simulated)
23.6 IRN_Ganj_Dareh_N
10.0 ANA_(simulated)
2.8 Central_Anatolian_Farmer


Early Pastoralists

Target: KEN_Early_Pastoral_N:I12534
Distance: 5.6879% / 0.05687887 | ADC: 0.25x RC
43.0 Proto-Natufian_(simulated)
41.6 Sudanese
10.4 ANA_(simulated)
5.0 IRN_Ganj_Dareh_N

Target: KEN_Early_Pastoral_N:I12533
Distance: 5.4424% / 0.05442432 | ADC: 0.25x RC
47.8 Sudanese
39.6 Proto-Natufian_(simulated)
7.8 ANA_(simulated)
4.8 IRN_Ganj_Dareh_N




The IA pastoral samples lack this Iranian affinity

Target: KEN_Pastoral_IA:I12379
Distance: 2.8247% / 0.02824667 | ADC: 0.25x RC
73.8 Sudanese
20.0 Proto-Natufian_(simulated)
3.4 ANA_(simulated)
2.8 Ancient_Malawi

Target: KEN_Pastoral_IA:I12381
Distance: 3.1236% / 0.03123630 | ADC: 0.25x RC
72.8 Sudanese
23.0 Proto-Natufian_(simulated)
4.2 ANA_(simulated)

Mnemonics
03-31-2021, 04:58 PM
I know G25 isn't good at pointing out very minor ancestry but this model with simulated coordinates does show a somewhat reasonable pattern.

Somalis
44090

Oromos & Wolaytas
44091

Northern Horners
44092

Ari speakers
44093

A decent model for Mota man, seems all the ANA ancestry in Mota is embedded in the Sudanese component but Horners need additional ANA which probably came with the proto-cushites


Target: ETH_4500BP
Distance: 3.5286% / 0.03528593 | ADC: 0.25x RC
56.4 Sudanese
33.8 Ancient_Malawi
5.4 RUS_Ust_Ishim
4.4 Proto-Natufian_(simulated)



I think the North African ancestors of the modern Horners were probably similar to the Mahra but with a lot less Iranian ancestry and a lot more ANA ancestry


Target: Yemenite_Mahra
Distance: 3.3736% / 0.03373642 | ADC: 0.25x RC
63.6 Proto-Natufian_(simulated)
23.6 IRN_Ganj_Dareh_N
10.0 ANA_(simulated)
2.8 Central_Anatolian_Farmer


Early Pastoralists

Target: KEN_Early_Pastoral_N:I12534
Distance: 5.6879% / 0.05687887 | ADC: 0.25x RC
43.0 Proto-Natufian_(simulated)
41.6 Sudanese
10.4 ANA_(simulated)
5.0 IRN_Ganj_Dareh_N

Target: KEN_Early_Pastoral_N:I12533
Distance: 5.4424% / 0.05442432 | ADC: 0.25x RC
47.8 Sudanese
39.6 Proto-Natufian_(simulated)
7.8 ANA_(simulated)
4.8 IRN_Ganj_Dareh_N




The IA pastoral samples lack this Iranian affinity

Target: KEN_Pastoral_IA:I12379
Distance: 2.8247% / 0.02824667 | ADC: 0.25x RC
73.8 Sudanese
20.0 Proto-Natufian_(simulated)
3.4 ANA_(simulated)
2.8 Ancient_Malawi

Target: KEN_Pastoral_IA:I12381
Distance: 3.1236% / 0.03123630 | ADC: 0.25x RC
72.8 Sudanese
23.0 Proto-Natufian_(simulated)
4.2 ANA_(simulated)

The Malawi samples are admixed with Mota ancestry, not the other way around so I would remove them and include ZAF_2000BP.
Mota also definitely seems to have some real Iberomaurusian ancestry.

The PIA samples do seem to entirely lack minor Iran_N affinity present in some of the Pastoralists.

Edit: Global25 seems to be particularly bad about inflating Iberomaurusian ancestry.

drobbah
03-31-2021, 05:05 PM
The Malawi samples are admixed with Mota ancestry, not the other way around so I would remove them and include ZAF_2000BP.
Mota also definitely seems to have some real Iberomaurusian ancestry.

The PIA samples do seem to entirely lack minor Iran_N affinity present in some of the Pastoralists.

Edit: Global25 seems to be particularly bad about inflating Iberomaurusian ancestry.
Yes it does seem pretty bad especially in Horners who's IBM usually gets inflated on G25.Also the proto-Natufian that Mota keeps getting is probably just IBM ancestry


Target: ETH_4500BP
Distance: 4.0617% / 0.04061689 | ADC: 0.25x RC
70.2 Sudanese
19.2 Ancient_South_African
6.6 Proto-Natufian_(simulated)
4.0 MAR_Taforalt

Alfa
03-31-2021, 09:03 PM
The Malawi samples are admixed with Mota ancestry, not the other way around so I would remove them and include ZAF_2000BP.
Mota also definitely seems to have some real Iberomaurusian ancestry.

The PIA samples do seem to entirely lack minor Iran_N affinity present in some of the Pastoralists.

Edit: Global25 seems to be particularly bad about inflating Iberomaurusian ancestry.

Have you tried running the Datoga_Tanzania to see if they carry this minor Iran_N affinity?

I would assume Datoga are almost similar to Iraqw (excluding the Sudanese excess in Datoga) since both groups do mingle a lot and live in same regions in Tanzania.

Mnemonics
03-31-2021, 09:08 PM
Have you tried running the Datoga_Tanzania to see if they carry this minor Iran_N affinity?

I would assume Datoga are almost similar to Iraqw (excluding the Sudanese excess in Datoga) since both groups do mingle a lot and live in same regions in Tanzania.

I haven't run any models on the Datoga, they aren't in the dataset. Do you know which paper those samples are from?

drobbah
04-01-2021, 06:26 PM
I've been running some models on various Horner pops recently and the Oromo seem to have a decent mix of Amhara, Somali, and Wolayta like ancestry.
The Amharas are a mixed bag, they are as admixed as the Oromo but to a lesser degree.There are Amharas that are Agaw-like, others that are southern shifted because of Oromo ancestry and others that are similar to the Tigray/Eritreans


https://i.imgur.com/1isSzfC.jpg

Alfa
04-01-2021, 09:38 PM
I haven't run any models on the Datoga, they aren't in the dataset. Do you know which paper those samples are from?

I am not sure where are those Datoga G25 samples from?

I remember seeing 1 old study that showed Iraqw having more or about same cushitic component amount as Somali? If I recall correctly, Datoga were also analysed. I think it was Tishkoff(perhaps I may be wrong).

Mnemonics
04-10-2021, 04:16 AM
Interesting update: including the Imperial Romans in the right pops list seems to entirely destroy the very stable Kenya_PastoralIA + Arabian model. Somali's seem to want something similar to Rome_Imperial without the all the Euro admixture. I went and tried running the f4stats without an African outgroup ( Since the Pastoralists are shifted to Khomani and Somalis are shifted to West and Central Africans, so no outgroup works very well). I used Israel_C since its the highest coverage and highest sample size Levantine population with low Iran_N.

result: Israel_C Rome_Imperial Kenya_PastoralN Somali 0.001390 10.485 22328 21815 369152
result: Israel_C Rome_Imperial Kenya_PastoralN Mnemonics 0.001465 9.889 46968 45680 879529

result: Israel_C Rome_Imperial Kenya_PastoralN Tanzania_PastoralN -0.000098 -0.658 34636 34706 714538
result: Israel_C Rome_Imperial Kenya_PastoralN Tanzania_PastoralIA 0.000051 0.357 36483 36445 750004

drobbah
04-10-2021, 05:38 PM
Interesting update: including the Imperial Romans in the right pops list seems to entirely destroy the very stable Kenya_PastoralIA + Arabian model. Somali's seem to want something similar to Rome_Imperial without the all the Euro admixture. I went and tried running the f4stats without an African outgroup ( Since the Pastoralists are shifted to Khomani and Somalis are shifted to West and Central Africans, so no outgroup works very well). I used Israel_C since its the highest coverage and highest sample size Levantine population with low Iran_N.

result: Israel_C Rome_Imperial Kenya_PastoralN Somali 0.001390 10.485 22328 21815 369152
result: Israel_C Rome_Imperial Kenya_PastoralN Mnemonics 0.001465 9.889 46968 45680 879529

result: Israel_C Rome_Imperial Kenya_PastoralN Tanzania_PastoralN -0.000098 -0.658 34636 34706 714538
result: Israel_C Rome_Imperial Kenya_PastoralN Tanzania_PastoralIA 0.000051 0.357 36483 36445 750004
So do Somalis have more Barcin ancestry than the pastoralists?

Mnemonics
04-10-2021, 06:55 PM
So do Somalis have more Barcin ancestry than the pastoralists?

The Pastoralists have more Anatolia_N affinity but most of that seems to Levantine in origin since they are also have proportionally higher Iberomaurusian.

Most modern Horners (at least the Semitic and East Cushitic speakers)) seem to have more CHG/Iran_N and Dinka ancestry.

drobbah
04-16-2021, 07:29 PM
I think the increased Sudanese ancestry entered the Horn from the South or West (Gambela,Anuak regions) creating IA Kenyan-like populations or Elementein populations.The Arabian-like ancestry in the Horn is more trickier as we know the South Semites that ultimately became the Ethio-Semites (J-P56 carriers) definitely arrived in large numbers with them but I don't think Ethio-Semitic type of Arabian ancestry was introduced to the Somaloid peoples (Somalis,Rendille,Maay etc) as we lack J-P56 (relatively low to non-existent Mota) and the only Ethio-Semitic loanwords in Northern Somali are from Harari/related languages & Ge'ez (historical era influueces from both medieval & antiquity).The Arabian in Oromos is probably mostly of Ethio-Semitic origin and diffused south into central & southern Ethiopia (homelands of the Oromos) from Eritrea/Tigray region.

We do know that 3-4k years ago camels were domesticated in SE Arabia and managed to arrive in the Eastern Horn with camel pastoralism related terms that were from Yemen but I did find this quote interesting:

East Cushitic *gaala
‘camel’ is from Semitic *gamal- ‘id.’ and the most likely intermediary has
been a language spoken in Southern Arabia when camels were introduced
to the eastern Horn ca. 2000 years ago, as argued in Banti (2000: 49 f.).
Gml ‘camel’ is well attested in Sabaic. However, the loss of -m- is not regular
in ASA, nor in NS or any known East Cushitic language, and points to a
different language: loss of -m- between vowels occurs several times in
Southern Ethiosemitic and in MSA. (Modern South Arabian like Mehri/Soqotri)

As of right now the lone uploaded Somali J-P58 sample has a tmrca with a northern yemeni and a Hadhraami Yemeni with a tmrca between 3100 to 1950 ybp.There's still a high chance that these J-P58 Somalis are just recent medieval Mehri as the Futuh Al Habasha mentioned 2000 men from Al Mahra fought in the late stages of the war and this is equivalent manpower to individual Somali clans like my Habar Magaadle (vast majority of modern Isaaqs) which only brought 2200 men to the side of the Imam.

Rendille
Target: Rendille:T_Rendille-2.DG
Distance: 1.9612% / 0.01961235
67.6 KEN_Pastoral_N
24.0 SUDANESE7
8.2 Saudi
0.2 ANA_(simulated)

Target: Rendille:T_Rendille-1.DG
Distance: 2.2859% / 0.02285871
76.4 KEN_Pastoral_N
17.6 SUDANESE7
5.6 Saudi
0.4 ANA_(simulated)


Oromos & Somalis
Target: Borana_Oromo:OROMO16
Distance: 2.9049% / 0.02904864
70.2 KEN_Pastoral_N
19.8 SUDANESE7
9.4 Saudi
0.6 ANA_(simulated)

Target: Ethio_Semitic_Oromo:OROMO15
Distance: 2.2026% / 0.02202641
56.4 KEN_Pastoral_N
24.6 Saudi
19.0 SUDANESE7


Target: Somali_Kenya
Distance: 1.3219% / 0.01321863
75.2 KEN_Pastoral_N
15.8 SUDANESE7
8.4 Saudi
0.6 ANA_(simulated)

Target: Somali
Distance: 1.5583% / 0.01558302
77.6 KEN_Pastoral_N
11.4 SUDANESE7
10.0 Saudi
1.0 ANA_(simulated)



Eritreans & Agaws

Target: Eritrean:Eritrean_1
Distance: 1.8980% / 0.01897982
70.8 KEN_Pastoral_N
24.6 Saudi
4.2 SUDANESE7
0.4 ANA_(simulated)

Target: Eritrean:Eritrean_2
Distance: 2.3846% / 0.02384585
65.0 KEN_Pastoral_N
35.0 Saudi

Target: Eritrean:Eritrean_3
Distance: 2.8131% / 0.02813073
67.8 KEN_Pastoral_N
27.8 Saudi
3.0 SUDANESE7
1.4 ANA_(simulated)

Target: Ethiopian_Agaw:T_Agaw-2.DG
Distance: 1.5937% / 0.01593688
73.2 KEN_Pastoral_N
24.4 Saudi
2.0 SUDANESE7
0.4 ANA_(simulated)

Target: Ethiopian_Agaw:T_Agaw-1.DG
Distance: 2.0898% / 0.02089755
78.2 KEN_Pastoral_N
21.4 Saudi
0.4 ANA_(simulated)

Mnemonics
04-18-2021, 10:33 PM
It seems like the Tanzania_N/IA samples have minor Iran_N/CHG and with the IA samples having about twice that of PN samples.

drobbah
04-19-2021, 12:41 AM
We really need pastoral neolithic cushitic samples from the Horn or from Sudan.

drobbah
04-19-2021, 11:38 PM
Bedouin Arab LT related variant in modern Horners + Northern Sudanese to the exclusion of SE Africans.Perhaps related to the introduction of camels in Somaloid camel herding speaking groups & Afars? And obviously the medieval Bedouin Arabian migration to Sudan.


Finally, the recent migration of non-Africans into Africa is argued to have contributed to the gene-pool of eastern African populations. In particular, studies have suggested that the derived G−13915 allele—found mainly in populations from the Arabian Peninsula, Sudan, Kenya, and the Horn o f Africa (5)—arose in the Arabian Peninsula ~4100 ya and was brought to eastern Africa by migrating Arabic-speaking herders >1300 ya

Possible indigenous Horner (North + East Cushitic) LT variant

In addition, the G−13907 allele is found mainly in Afroasiatic-speakers from northern Sudan, northern Kenya and Ethiopia (1,3,5,6,10) but is absent in southern Cushitic-speakers from Tanzania. Although it has been speculated that G−13907 allele arose in eastern Cushitic-speakers from Ethiopia (5,91), the geographic origin of this mutation remains unclear


PN samples and modern SE Africans probably carried another LT variant

Given the high frequency of the C−14010 allele in Tanzanian populations and its virtual absence in southern Sudanese Nilo-Saharan-speakers (5,6), it has been argued that the C−14010 mutation likely arose first in Afroasiatic Cushitic-speaking populations and then was introduced into Nilo-Saharan Nilotic-speakers through admixture. However, regardless of population origin, it is thought that the C−14010 allele spread rapidly throughout East Africa together with the cultural practice of herding consistent with a demic diffusion model.Archaeological data also suggested that a more specialized reliance on milk arose in herding communities throughout southern Kenya and northern Tanzania after 3300 ya (108)

drobbah
05-02-2021, 07:21 PM
Recently I have being going through the Mehri/MSA dictionary in an attempt to found MSA related words in Northern Somali that aren't clearly of Arabic origin.Found a couple words already like bakawra (bakoorad) or xallay which is Somali for xalay (night) with some other pastoralist related words that I'm less sure of...

Mnemonics
10-30-2021, 06:15 AM
Kenya_PastoralIA + SFI-43 seems to the most robust model for Somalis when including these new Kenya_PastoralN rich Iraqw samples in the modern right pops list.





left pops:
SomaliHigh
Kenya_PastoralIA
Egyptian_SFI-43

right pops:
Biaka.DG
Khomani_San.DG
Mende.DG
Luo.DG
Sardinian.DG
Cretan.DG
Russian.DG
Karitiana.DG
Abkhasian.DG
Ulchi.DG
Druze.DG
Han.DG
Iranian.DG
Balochi.DG
Jew_Iraqi.DG
Jew_Yemenite.DG
Samaritan.DG
Aari.DG
Iraqw.DG
Mbuti.DG
Saharawi.DG

0 SomaliHigh 4
1 Kenya_PastoralIA 4
2 Egyptian_SFI-43 1
3 Biaka.DG 2
4 Khomani_San.DG 2
5 Mende.DG 2
6 Luo.DG 2
7 Sardinian.DG 3
8 Cretan.DG 2
9 Russian.DG 2
10 Karitiana.DG 3
11 Abkhasian.DG 2
12 Ulchi.DG 2
13 Druze.DG 2
14 Han.DG 3
15 Iranian.DG 2
16 Balochi.DG 2
17 Jew_Iraqi.DG 2
18 Jew_Yemenite.DG 2
19 Samaritan.DG 1
20 Aari.DG 2
21 Iraqw.DG 2
22 Mbuti.DG 4
23 Saharawi.DG 2
jackknife block size: 0.050
snps: 1148346 indivs: 55
number of blocks for block jackknife: 714
## ncols: 1148346
coverage: SomaliHigh 1039653
coverage: Kenya_PastoralIA 661264
coverage: Egyptian_SFI-43 473257
coverage: Biaka.DG 1121248
coverage: Khomani_San.DG 1121214
coverage: Mende.DG 1121272
coverage: Luo.DG 1121311
coverage: Sardinian.DG 1121428
coverage: Cretan.DG 1121014
coverage: Russian.DG 1121371
coverage: Karitiana.DG 1121384
coverage: Abkhasian.DG 1121318
coverage: Ulchi.DG 1121278
coverage: Druze.DG 1121288
coverage: Han.DG 1121405
coverage: Iranian.DG 1121381
coverage: Balochi.DG 1121259
coverage: Jew_Iraqi.DG 1121367
coverage: Jew_Yemenite.DG 1121336
coverage: Samaritan.DG 1115266
coverage: Aari.DG 1121299
coverage: Iraqw.DG 1121349
coverage: Mbuti.DG 1121427
coverage: Saharawi.DG 1121356
Effective number of blocks: 623.335
numsnps used: 316354
codimension 1
f4info:
f4rank: 1 dof: 19 chisq: 12.240 tail: 0.875096009 dofdiff: 21 chisqdiff: -12.240 taildiff: 1
B:
scale 1.000
Khomani_San.DG -0.022
Mende.DG -0.010
Luo.DG -0.006
Sardinian.DG 1.315
Cretan.DG 1.311
Russian.DG 1.264
Karitiana.DG 1.010
Abkhasian.DG 1.271
Ulchi.DG 0.965
Druze.DG 1.271
Han.DG 0.975
Iranian.DG 1.243
Balochi.DG 1.177
Jew_Iraqi.DG 1.274
Jew_Yemenite.DG 1.210
Samaritan.DG 1.267
Aari.DG 0.260
Iraqw.DG 0.366
Mbuti.DG -0.038
Saharawi.DG 0.997
A:
scale 108.782
Kenya_PastoralIA -0.420
Egyptian_SFI-43 1.350


full rank
f4info:
f4rank: 2 dof: 0 chisq: 0.000 tail: 1 dofdiff: 19 chisqdiff: 12.240 taildiff: 0.875096009
B:
scale 248.486 79.245
Khomani_San.DG 0.001 -0.005
Mende.DG -0.050 0.003
Luo.DG -0.002 0.019
Sardinian.DG -1.314 1.308
Cretan.DG -1.340 1.299
Russian.DG -1.213 1.279
Karitiana.DG -1.013 1.020
Abkhasian.DG -1.258 1.271
Ulchi.DG -1.020 0.966
Druze.DG -1.268 1.268
Han.DG -1.021 0.969
Iranian.DG -1.225 1.238
Balochi.DG -1.118 1.184
Jew_Iraqi.DG -1.277 1.264
Jew_Yemenite.DG -1.168 1.216
Samaritan.DG -1.311 1.264
Aari.DG -0.311 0.273
Iraqw.DG -0.430 0.381
Mbuti.DG 0.039 -0.015
Saharawi.DG -0.979 1.001
A:
scale 1.414 1.414
Kenya_PastoralIA 1.414 0.000
Egyptian_SFI-43 0.000 1.414


best coefficients: 0.763 0.237
Jackknife mean: 0.762335549 0.237664451
std. errors: 0.014 0.014

error covariance (* 1,000,000)
184 -184
-184 184


summ: SomaliHigh 2 0.875096 0.762 0.238 184 -184 184

fixed pat wt dof chisq tail prob
00 0 19 12.240 0.875096 0.763 0.237
01 1 20 252.235 0 1.000 0.000
10 1 20 2149.164 0 0.000 1.000
best pat: 00 0.875096 - -
best pat: 01 4.04609e-42 chi(nested): 239.994 p-value for nested model: 3.94422e-54

coeffs: 0.763 0.237

## dscore:: f_4(Base, Fit, Rbase, right2)
## genstat:: f_4(Base, Fit, right1, right2)

details: Kenya_PastoralIA Khomani_San.DG 0.000003 0.012505
details: Egyptian_SFI-43 Khomani_San.DG -0.000068 -0.243238
dscore: Khomani_San.DG f4: -0.000014 Z: -0.062373

details: Kenya_PastoralIA Mende.DG -0.000201 -0.765624
details: Egyptian_SFI-43 Mende.DG 0.000039 0.143878
dscore: Mende.DG f4: -0.000144 Z: -0.645279

details: Kenya_PastoralIA Luo.DG -0.000008 -0.030411
details: Egyptian_SFI-43 Luo.DG 0.000243 0.871742
dscore: Luo.DG f4: 0.000052 Z: 0.229442

details: Kenya_PastoralIA Sardinian.DG -0.005287 -12.913069
details: Egyptian_SFI-43 Sardinian.DG 0.016504 37.942027
dscore: Sardinian.DG f4: -0.000112 Z: -0.318291

details: Kenya_PastoralIA Cretan.DG -0.005392 -12.785944
details: Egyptian_SFI-43 Cretan.DG 0.016388 36.395743
dscore: Cretan.DG f4: -0.000220 Z: -0.602859

details: Kenya_PastoralIA Russian.DG -0.004881 -11.651130
details: Egyptian_SFI-43 Russian.DG 0.016141 34.291117
dscore: Russian.DG f4: 0.000111 Z: 0.304127

details: Kenya_PastoralIA Karitiana.DG -0.004078 -9.747003
details: Egyptian_SFI-43 Karitiana.DG 0.012874 28.499115
dscore: Karitiana.DG f4: -0.000053 Z: -0.148626

details: Kenya_PastoralIA Abkhasian.DG -0.005064 -12.157128
details: Egyptian_SFI-43 Abkhasian.DG 0.016040 35.708235
dscore: Abkhasian.DG f4: -0.000053 Z: -0.147411

details: Kenya_PastoralIA Ulchi.DG -0.004105 -10.516101
details: Egyptian_SFI-43 Ulchi.DG 0.012186 28.159150
dscore: Ulchi.DG f4: -0.000237 Z: -0.709394

details: Kenya_PastoralIA Druze.DG -0.005103 -12.655522
details: Egyptian_SFI-43 Druze.DG 0.016000 35.381257
dscore: Druze.DG f4: -0.000092 Z: -0.261987

details: Kenya_PastoralIA Han.DG -0.004108 -10.811640
details: Egyptian_SFI-43 Han.DG 0.012229 29.762016
dscore: Han.DG f4: -0.000229 Z: -0.705689

details: Kenya_PastoralIA Iranian.DG -0.004932 -12.227149
details: Egyptian_SFI-43 Iranian.DG 0.015620 35.624675
dscore: Iranian.DG f4: -0.000052 Z: -0.148425

details: Kenya_PastoralIA Balochi.DG -0.004500 -11.164470
details: Egyptian_SFI-43 Balochi.DG 0.014941 34.505730
dscore: Balochi.DG f4: 0.000117 Z: 0.336074

details: Kenya_PastoralIA Jew_Iraqi.DG -0.005138 -12.263961
details: Egyptian_SFI-43 Jew_Iraqi.DG 0.015956 35.213274
dscore: Jew_Iraqi.DG f4: -0.000129 Z: -0.350537

details: Kenya_PastoralIA Jew_Yemenite.DG -0.004700 -11.066745
details: Egyptian_SFI-43 Jew_Yemenite.DG 0.015347 34.786326
dscore: Jew_Yemenite.DG f4: 0.000060 Z: 0.164374

details: Kenya_PastoralIA Samaritan.DG -0.005274 -11.252945
details: Egyptian_SFI-43 Samaritan.DG 0.015945 28.996562
dscore: Samaritan.DG f4: -0.000236 Z: -0.583003

details: Kenya_PastoralIA Aari.DG -0.001250 -4.386902
details: Egyptian_SFI-43 Aari.DG 0.003447 11.004235
dscore: Aari.DG f4: -0.000135 Z: -0.558285

details: Kenya_PastoralIA Iraqw.DG -0.001731 -5.614270
details: Egyptian_SFI-43 Iraqw.DG 0.004802 14.807272
dscore: Iraqw.DG f4: -0.000180 Z: -0.692372

details: Kenya_PastoralIA Mbuti.DG 0.000157 0.670506
details: Egyptian_SFI-43 Mbuti.DG -0.000192 -0.814834
dscore: Mbuti.DG f4: 0.000074 Z: 0.377217

details: Kenya_PastoralIA Saharawi.DG -0.003939 -10.406720
details: Egyptian_SFI-43 Saharawi.DG 0.012634 30.572485
dscore: Saharawi.DG f4: -0.000004 Z: -0.010908

gendstat: Biaka.DG Khomani_San.DG -0.062
gendstat: Biaka.DG Mende.DG -0.645
gendstat: Biaka.DG Luo.DG 0.229
gendstat: Biaka.DG Sardinian.DG -0.318
gendstat: Biaka.DG Cretan.DG -0.603
gendstat: Biaka.DG Russian.DG 0.304
gendstat: Biaka.DG Karitiana.DG -0.149
gendstat: Biaka.DG Abkhasian.DG -0.147
gendstat: Biaka.DG Ulchi.DG -0.709
gendstat: Biaka.DG Druze.DG -0.262
gendstat: Biaka.DG Han.DG -0.706
gendstat: Biaka.DG Iranian.DG -0.148
gendstat: Biaka.DG Balochi.DG 0.336
gendstat: Biaka.DG Jew_Iraqi.DG -0.351
gendstat: Biaka.DG Jew_Yemenite.DG 0.164
gendstat: Biaka.DG Samaritan.DG -0.583
gendstat: Biaka.DG Aari.DG -0.558
gendstat: Biaka.DG Iraqw.DG -0.692
gendstat: Biaka.DG Mbuti.DG 0.377
gendstat: Biaka.DG Saharawi.DG -0.011
gendstat: Khomani_San.DG Mende.DG -0.544
gendstat: Khomani_San.DG Luo.DG 0.265
gendstat: Khomani_San.DG Sardinian.DG -0.272
gendstat: Khomani_San.DG Cretan.DG -0.555
gendstat: Khomani_San.DG Russian.DG 0.335
gendstat: Khomani_San.DG Karitiana.DG -0.110
gendstat: Khomani_San.DG Abkhasian.DG -0.107
gendstat: Khomani_San.DG Ulchi.DG -0.650
gendstat: Khomani_San.DG Druze.DG -0.213
gendstat: Khomani_San.DG Han.DG -0.636
gendstat: Khomani_San.DG Iranian.DG -0.108
gendstat: Khomani_San.DG Balochi.DG 0.375
gendstat: Khomani_San.DG Jew_Iraqi.DG -0.306
gendstat: Khomani_San.DG Jew_Yemenite.DG 0.198
gendstat: Khomani_San.DG Samaritan.DG -0.542
gendstat: Khomani_San.DG Aari.DG -0.481
gendstat: Khomani_San.DG Iraqw.DG -0.591
gendstat: Khomani_San.DG Mbuti.DG 0.431
gendstat: Khomani_San.DG Saharawi.DG 0.030
gendstat: Mende.DG Luo.DG 0.877
gendstat: Mende.DG Sardinian.DG 0.091
gendstat: Mende.DG Cretan.DG -0.216
gendstat: Mende.DG Russian.DG 0.721
gendstat: Mende.DG Karitiana.DG 0.262
gendstat: Mende.DG Abkhasian.DG 0.258
gendstat: Mende.DG Ulchi.DG -0.279
gendstat: Mende.DG Druze.DG 0.151
gendstat: Mende.DG Han.DG -0.264
gendstat: Mende.DG Iranian.DG 0.276
gendstat: Mende.DG Balochi.DG 0.768
gendstat: Mende.DG Jew_Iraqi.DG 0.043
gendstat: Mende.DG Jew_Yemenite.DG 0.576
gendstat: Mende.DG Samaritan.DG -0.231
gendstat: Mende.DG Aari.DG 0.039
gendstat: Mende.DG Iraqw.DG -0.136
gendstat: Mende.DG Mbuti.DG 1.054
gendstat: Mende.DG Saharawi.DG 0.439
gendstat: Luo.DG Sardinian.DG -0.467
gendstat: Luo.DG Cretan.DG -0.773
gendstat: Luo.DG Russian.DG 0.167
gendstat: Luo.DG Karitiana.DG -0.297
gendstat: Luo.DG Abkhasian.DG -0.292
gendstat: Luo.DG Ulchi.DG -0.861
gendstat: Luo.DG Druze.DG -0.410
gendstat: Luo.DG Han.DG -0.880
gendstat: Luo.DG Iranian.DG -0.299
gendstat: Luo.DG Balochi.DG 0.191
gendstat: Luo.DG Jew_Iraqi.DG -0.495
gendstat: Luo.DG Jew_Yemenite.DG 0.023
gendstat: Luo.DG Samaritan.DG -0.715
gendstat: Luo.DG Aari.DG -0.764
gendstat: Luo.DG Iraqw.DG -0.873
gendstat: Luo.DG Mbuti.DG 0.103
gendstat: Luo.DG Saharawi.DG -0.167
gendstat: Sardinian.DG Cretan.DG -0.503
gendstat: Sardinian.DG Russian.DG 1.023
gendstat: Sardinian.DG Karitiana.DG 0.209
gendstat: Sardinian.DG Abkhasian.DG 0.269
gendstat: Sardinian.DG Ulchi.DG -0.458
gendstat: Sardinian.DG Druze.DG 0.098
gendstat: Sardinian.DG Han.DG -0.451
gendstat: Sardinian.DG Iranian.DG 0.273
gendstat: Sardinian.DG Balochi.DG 0.981
gendstat: Sardinian.DG Jew_Iraqi.DG -0.076
gendstat: Sardinian.DG Jew_Yemenite.DG 0.787
gendstat: Sardinian.DG Samaritan.DG -0.423
gendstat: Sardinian.DG Aari.DG -0.073
gendstat: Sardinian.DG Iraqw.DG -0.232
gendstat: Sardinian.DG Mbuti.DG 0.522
gendstat: Sardinian.DG Saharawi.DG 0.470
gendstat: Cretan.DG Russian.DG 1.464
gendstat: Cretan.DG Karitiana.DG 0.587
gendstat: Cretan.DG Abkhasian.DG 0.709
gendstat: Cretan.DG Ulchi.DG -0.060
gendstat: Cretan.DG Druze.DG 0.571
gendstat: Cretan.DG Han.DG -0.034
gendstat: Cretan.DG Iranian.DG 0.700
gendstat: Cretan.DG Balochi.DG 1.478
gendstat: Cretan.DG Jew_Iraqi.DG 0.387
gendstat: Cretan.DG Jew_Yemenite.DG 1.202
gendstat: Cretan.DG Samaritan.DG -0.052
gendstat: Cretan.DG Aari.DG 0.271
gendstat: Cretan.DG Iraqw.DG 0.133
gendstat: Cretan.DG Mbuti.DG 0.812
gendstat: Cretan.DG Saharawi.DG 0.869
gendstat: Russian.DG Karitiana.DG -0.586
gendstat: Russian.DG Abkhasian.DG -0.718
gendstat: Russian.DG Ulchi.DG -1.283
gendstat: Russian.DG Druze.DG -0.847
gendstat: Russian.DG Han.DG -1.272
gendstat: Russian.DG Iranian.DG -0.679
gendstat: Russian.DG Balochi.DG 0.023
gendstat: Russian.DG Jew_Iraqi.DG -1.055
gendstat: Russian.DG Jew_Yemenite.DG -0.212
gendstat: Russian.DG Samaritan.DG -1.169
gendstat: Russian.DG Aari.DG -0.773
gendstat: Russian.DG Iraqw.DG -0.950
gendstat: Russian.DG Mbuti.DG -0.102
gendstat: Russian.DG Saharawi.DG -0.439
gendstat: Karitiana.DG Abkhasian.DG -0.000
gendstat: Karitiana.DG Ulchi.DG -0.691
gendstat: Karitiana.DG Druze.DG -0.136
gendstat: Karitiana.DG Han.DG -0.713
gendstat: Karitiana.DG Iranian.DG 0.005
gendstat: Karitiana.DG Balochi.DG 0.607
gendstat: Karitiana.DG Jew_Iraqi.DG -0.256
gendstat: Karitiana.DG Jew_Yemenite.DG 0.374
gendstat: Karitiana.DG Samaritan.DG -0.545
gendstat: Karitiana.DG Aari.DG -0.255
gendstat: Karitiana.DG Iraqw.DG -0.396
gendstat: Karitiana.DG Mbuti.DG 0.363
gendstat: Karitiana.DG Saharawi.DG 0.159
gendstat: Abkhasian.DG Ulchi.DG -0.665
gendstat: Abkhasian.DG Druze.DG -0.164
gendstat: Abkhasian.DG Han.DG -0.656
gendstat: Abkhasian.DG Iranian.DG 0.007
gendstat: Abkhasian.DG Balochi.DG 0.708
gendstat: Abkhasian.DG Jew_Iraqi.DG -0.322
gendstat: Abkhasian.DG Jew_Yemenite.DG 0.473
gendstat: Abkhasian.DG Samaritan.DG -0.618
gendstat: Abkhasian.DG Aari.DG -0.264
gendstat: Abkhasian.DG Iraqw.DG -0.419
gendstat: Abkhasian.DG Mbuti.DG 0.356
gendstat: Abkhasian.DG Saharawi.DG 0.193
gendstat: Ulchi.DG Druze.DG 0.534
gendstat: Ulchi.DG Han.DG 0.036
gendstat: Ulchi.DG Iranian.DG 0.678
gendstat: Ulchi.DG Balochi.DG 1.325
gendstat: Ulchi.DG Jew_Iraqi.DG 0.376
gendstat: Ulchi.DG Jew_Yemenite.DG 1.047
gendstat: Ulchi.DG Samaritan.DG 0.003
gendstat: Ulchi.DG Aari.DG 0.334
gendstat: Ulchi.DG Iraqw.DG 0.183
gendstat: Ulchi.DG Mbuti.DG 0.927
gendstat: Ulchi.DG Saharawi.DG 0.810
gendstat: Druze.DG Han.DG -0.520
gendstat: Druze.DG Iranian.DG 0.169
gendstat: Druze.DG Balochi.DG 0.875
gendstat: Druze.DG Jew_Iraqi.DG -0.154
gendstat: Druze.DG Jew_Yemenite.DG 0.639
gendstat: Druze.DG Samaritan.DG -0.494
gendstat: Druze.DG Aari.DG -0.138
gendstat: Druze.DG Iraqw.DG -0.296
gendstat: Druze.DG Mbuti.DG 0.463
gendstat: Druze.DG Saharawi.DG 0.352
gendstat: Han.DG Iranian.DG 0.687
gendstat: Han.DG Balochi.DG 1.380
gendstat: Han.DG Jew_Iraqi.DG 0.368
gendstat: Han.DG Jew_Yemenite.DG 1.074
gendstat: Han.DG Samaritan.DG -0.021
gendstat: Han.DG Aari.DG 0.329
gendstat: Han.DG Iraqw.DG 0.171
gendstat: Han.DG Mbuti.DG 0.953
gendstat: Han.DG Saharawi.DG 0.817
gendstat: Iranian.DG Balochi.DG 0.715
gendstat: Iranian.DG Jew_Iraqi.DG -0.333
gendstat: Iranian.DG Jew_Yemenite.DG 0.471
gendstat: Iranian.DG Samaritan.DG -0.617
gendstat: Iranian.DG Aari.DG -0.270
gendstat: Iranian.DG Iraqw.DG -0.436
gendstat: Iranian.DG Mbuti.DG 0.369
gendstat: Iranian.DG Saharawi.DG 0.194
gendstat: Balochi.DG Jew_Iraqi.DG -1.009
gendstat: Balochi.DG Jew_Yemenite.DG -0.224
gendstat: Balochi.DG Samaritan.DG -1.225
gendstat: Balochi.DG Aari.DG -0.821
gendstat: Balochi.DG Iraqw.DG -0.994
gendstat: Balochi.DG Mbuti.DG -0.125
gendstat: Balochi.DG Saharawi.DG -0.464
gendstat: Jew_Iraqi.DG Jew_Yemenite.DG 0.826
gendstat: Jew_Iraqi.DG Samaritan.DG -0.361
gendstat: Jew_Iraqi.DG Aari.DG -0.019
gendstat: Jew_Iraqi.DG Iraqw.DG -0.167
gendstat: Jew_Iraqi.DG Mbuti.DG 0.556
gendstat: Jew_Iraqi.DG Saharawi.DG 0.494
gendstat: Jew_Yemenite.DG Samaritan.DG -0.966
gendstat: Jew_Yemenite.DG Aari.DG -0.617
gendstat: Jew_Yemenite.DG Iraqw.DG -0.814
gendstat: Jew_Yemenite.DG Mbuti.DG 0.040
gendstat: Jew_Yemenite.DG Saharawi.DG -0.245
gendstat: Samaritan.DG Aari.DG 0.282
gendstat: Samaritan.DG Iraqw.DG 0.159
gendstat: Samaritan.DG Mbuti.DG 0.778
gendstat: Samaritan.DG Saharawi.DG 0.756
gendstat: Aari.DG Iraqw.DG -0.179
gendstat: Aari.DG Mbuti.DG 0.892
gendstat: Aari.DG Saharawi.DG 0.444
gendstat: Iraqw.DG Mbuti.DG 0.964
gendstat: Iraqw.DG Saharawi.DG 0.646
gendstat: Mbuti.DG Saharawi.DG -0.234



left pops:
Somali
Kenya_PastoralIA
Egyptian_SFI-43

right pops:
Biaka.DG
Khomani_San.DG
Mende.DG
Luo.DG
Sardinian.DG
Cretan.DG
Russian.DG
Karitiana.DG
Abkhasian.DG
Ulchi.DG
Druze.DG
Han.DG
Iranian.DG
Balochi.DG
Jew_Iraqi.DG
Jew_Yemenite.DG
Samaritan.DG
Aari.DG
Iraqw.DG
Mbuti.DG
Saharawi.DG

0 Somali 21
1 Kenya_PastoralIA 4
2 Egyptian_SFI-43 1
3 Biaka.DG 2
4 Khomani_San.DG 2
5 Mende.DG 2
6 Luo.DG 2
7 Sardinian.DG 3
8 Cretan.DG 2
9 Russian.DG 2
10 Karitiana.DG 3
11 Abkhasian.DG 2
12 Ulchi.DG 2
13 Druze.DG 2
14 Han.DG 3
15 Iranian.DG 2
16 Balochi.DG 2
17 Jew_Iraqi.DG 2
18 Jew_Yemenite.DG 2
19 Samaritan.DG 1
20 Aari.DG 2
21 Iraqw.DG 2
22 Mbuti.DG 4
23 Saharawi.DG 2
jackknife block size: 0.050
snps: 1143168 indivs: 72
number of blocks for block jackknife: 714
## ncols: 1143168
coverage: Somali 438427
coverage: Kenya_PastoralIA 661264
coverage: Egyptian_SFI-43 473257
coverage: Biaka.DG 1121248
coverage: Khomani_San.DG 1121214
coverage: Mende.DG 1121272
coverage: Luo.DG 1121311
coverage: Sardinian.DG 1121428
coverage: Cretan.DG 1121014
coverage: Russian.DG 1121371
coverage: Karitiana.DG 1121384
coverage: Abkhasian.DG 1121318
coverage: Ulchi.DG 1121278
coverage: Druze.DG 1121288
coverage: Han.DG 1121405
coverage: Iranian.DG 1121381
coverage: Balochi.DG 1121259
coverage: Jew_Iraqi.DG 1121367
coverage: Jew_Yemenite.DG 1121336
coverage: Samaritan.DG 1115266
coverage: Aari.DG 1121299
coverage: Iraqw.DG 1121349
coverage: Mbuti.DG 1121427
coverage: Saharawi.DG 1121356
Effective number of blocks: 601.833
numsnps used: 181054
codimension 1
f4info:
f4rank: 1 dof: 19 chisq: 15.086 tail: 0.717091375 dofdiff: 21 chisqdiff: -15.086 taildiff: 1
B:
scale 1.000
Khomani_San.DG -0.012
Mende.DG -0.033
Luo.DG -0.009
Sardinian.DG 1.314
Cretan.DG 1.327
Russian.DG 1.275
Karitiana.DG 0.977
Abkhasian.DG 1.274
Ulchi.DG 0.931
Druze.DG 1.284
Han.DG 0.939
Iranian.DG 1.246
Balochi.DG 1.191
Jew_Iraqi.DG 1.284
Jew_Yemenite.DG 1.227
Samaritan.DG 1.264
Aari.DG 0.241
Iraqw.DG 0.348
Mbuti.DG -0.052
Saharawi.DG 1.002
A:
scale 136.897
Kenya_PastoralIA -0.463
Egyptian_SFI-43 1.336


full rank
f4info:
f4rank: 2 dof: 0 chisq: 0.000 tail: 1 dofdiff: 19 chisqdiff: 15.086 taildiff: 0.717091375
B:
scale 278.884 99.935
Khomani_San.DG -0.040 0.002
Mende.DG -0.018 -0.009
Luo.DG 0.035 0.026
Sardinian.DG -1.344 1.300
Cretan.DG -1.283 1.327
Russian.DG -1.230 1.279
Karitiana.DG -0.978 0.991
Abkhasian.DG -1.235 1.281
Ulchi.DG -0.998 0.934
Druze.DG -1.282 1.277
Han.DG -1.015 0.941
Iranian.DG -1.242 1.240
Balochi.DG -1.156 1.190
Jew_Iraqi.DG -1.234 1.288
Jew_Yemenite.DG -1.199 1.228
Samaritan.DG -1.298 1.261
Aari.DG -0.328 0.249
Iraqw.DG -0.413 0.363
Mbuti.DG 0.074 -0.019
Saharawi.DG -1.037 0.998
A:
scale 1.414 1.414
Kenya_PastoralIA 1.414 0.000
Egyptian_SFI-43 0.000 1.414


best coefficients: 0.743 0.257
Jackknife mean: 0.742375483 0.257624517
std. errors: 0.013 0.013

error covariance (* 1,000,000)
166 -166
-166 166


summ: Somali 2 0.717091 0.742 0.258 166 -166 166

fixed pat wt dof chisq tail prob
00 0 19 15.086 0.717091 0.743 0.257
01 1 20 278.426 0 1.000 0.000
10 1 20 1829.826 0 0.000 1.000
best pat: 00 0.717091 - -
best pat: 01 2.00809e-47 chi(nested): 263.339 p-value for nested model: 3.21107e-59

coeffs: 0.743 0.257

## dscore:: f_4(Base, Fit, Rbase, right2)
## genstat:: f_4(Base, Fit, right1, right2)

details: Kenya_PastoralIA Khomani_San.DG -0.000143 -0.558874
details: Egyptian_SFI-43 Khomani_San.DG 0.000021 0.075417
dscore: Khomani_San.DG f4: -0.000101 Z: -0.492681

details: Kenya_PastoralIA Mende.DG -0.000064 -0.257093
details: Egyptian_SFI-43 Mende.DG -0.000089 -0.341981
dscore: Mende.DG f4: -0.000071 Z: -0.352672

details: Kenya_PastoralIA Luo.DG 0.000125 0.504064
details: Egyptian_SFI-43 Luo.DG 0.000261 0.977499
dscore: Luo.DG f4: 0.000160 Z: 0.824806

details: Kenya_PastoralIA Sardinian.DG -0.004818 -13.378714
details: Egyptian_SFI-43 Sardinian.DG 0.013010 32.950596
dscore: Sardinian.DG f4: -0.000228 Z: -0.786401

details: Kenya_PastoralIA Cretan.DG -0.004601 -12.691090
details: Egyptian_SFI-43 Cretan.DG 0.013277 32.431703
dscore: Cretan.DG f4: 0.000002 Z: 0.006367

details: Kenya_PastoralIA Russian.DG -0.004410 -11.866290
details: Egyptian_SFI-43 Russian.DG 0.012797 30.844482
dscore: Russian.DG f4: 0.000021 Z: 0.068719

details: Kenya_PastoralIA Karitiana.DG -0.003507 -9.245872
details: Egyptian_SFI-43 Karitiana.DG 0.009914 24.029174
dscore: Karitiana.DG f4: -0.000051 Z: -0.170690

details: Kenya_PastoralIA Abkhasian.DG -0.004430 -11.957937
details: Egyptian_SFI-43 Abkhasian.DG 0.012814 31.578316
dscore: Abkhasian.DG f4: 0.000010 Z: 0.032915

details: Kenya_PastoralIA Ulchi.DG -0.003578 -9.608210
details: Egyptian_SFI-43 Ulchi.DG 0.009346 23.932879
dscore: Ulchi.DG f4: -0.000250 Z: -0.856071

details: Kenya_PastoralIA Druze.DG -0.004596 -12.624806
details: Egyptian_SFI-43 Druze.DG 0.012778 30.951786
dscore: Druze.DG f4: -0.000123 Z: -0.419004

details: Kenya_PastoralIA Han.DG -0.003638 -10.436302
details: Egyptian_SFI-43 Han.DG 0.009417 24.536178
dscore: Han.DG f4: -0.000277 Z: -1.007735

details: Kenya_PastoralIA Iranian.DG -0.004452 -12.270555
details: Egyptian_SFI-43 Iranian.DG 0.012412 30.175013
dscore: Iranian.DG f4: -0.000110 Z: -0.379008

details: Kenya_PastoralIA Balochi.DG -0.004146 -11.137437
details: Egyptian_SFI-43 Balochi.DG 0.011907 29.902456
dscore: Balochi.DG f4: -0.000013 Z: -0.043786

details: Kenya_PastoralIA Jew_Iraqi.DG -0.004424 -12.034902
details: Egyptian_SFI-43 Jew_Iraqi.DG 0.012888 31.649836
dscore: Jew_Iraqi.DG f4: 0.000034 Z: 0.111161

details: Kenya_PastoralIA Jew_Yemenite.DG -0.004298 -11.554525
details: Egyptian_SFI-43 Jew_Yemenite.DG 0.012290 31.047307
dscore: Jew_Yemenite.DG f4: -0.000027 Z: -0.091205

details: Kenya_PastoralIA Samaritan.DG -0.004654 -11.013663
details: Egyptian_SFI-43 Samaritan.DG 0.012620 26.117969
dscore: Samaritan.DG f4: -0.000207 Z: -0.602953

details: Kenya_PastoralIA Aari.DG -0.001177 -4.332728
details: Egyptian_SFI-43 Aari.DG 0.002494 8.502934
dscore: Aari.DG f4: -0.000232 Z: -1.060139

details: Kenya_PastoralIA Iraqw.DG -0.001482 -5.026996
details: Egyptian_SFI-43 Iraqw.DG 0.003635 11.660021
dscore: Iraqw.DG f4: -0.000165 Z: -0.706429

details: Kenya_PastoralIA Mbuti.DG 0.000267 1.179932
details: Egyptian_SFI-43 Mbuti.DG -0.000188 -0.793882
dscore: Mbuti.DG f4: 0.000150 Z: 0.831698

details: Kenya_PastoralIA Saharawi.DG -0.003719 -10.866112
details: Egyptian_SFI-43 Saharawi.DG 0.009986 26.449367
dscore: Saharawi.DG f4: -0.000190 Z: -0.690993

gendstat: Biaka.DG Khomani_San.DG -0.493
gendstat: Biaka.DG Mende.DG -0.353
gendstat: Biaka.DG Luo.DG 0.825
gendstat: Biaka.DG Sardinian.DG -0.786
gendstat: Biaka.DG Cretan.DG 0.006
gendstat: Biaka.DG Russian.DG 0.069
gendstat: Biaka.DG Karitiana.DG -0.171
gendstat: Biaka.DG Abkhasian.DG 0.033
gendstat: Biaka.DG Ulchi.DG -0.856
gendstat: Biaka.DG Druze.DG -0.419
gendstat: Biaka.DG Han.DG -1.008
gendstat: Biaka.DG Iranian.DG -0.379
gendstat: Biaka.DG Balochi.DG -0.044
gendstat: Biaka.DG Jew_Iraqi.DG 0.111
gendstat: Biaka.DG Jew_Yemenite.DG -0.091
gendstat: Biaka.DG Samaritan.DG -0.603
gendstat: Biaka.DG Aari.DG -1.060
gendstat: Biaka.DG Iraqw.DG -0.706
gendstat: Biaka.DG Mbuti.DG 0.832
gendstat: Biaka.DG Saharawi.DG -0.691
gendstat: Khomani_San.DG Mende.DG 0.135
gendstat: Khomani_San.DG Luo.DG 1.144
gendstat: Khomani_San.DG Sardinian.DG -0.415
gendstat: Khomani_San.DG Cretan.DG 0.336
gendstat: Khomani_San.DG Russian.DG 0.389
gendstat: Khomani_San.DG Karitiana.DG 0.161
gendstat: Khomani_San.DG Abkhasian.DG 0.360
gendstat: Khomani_San.DG Ulchi.DG -0.503
gendstat: Khomani_San.DG Druze.DG -0.072
gendstat: Khomani_San.DG Han.DG -0.613
gendstat: Khomani_San.DG Iranian.DG -0.031
gendstat: Khomani_San.DG Balochi.DG 0.286
gendstat: Khomani_San.DG Jew_Iraqi.DG 0.427
gendstat: Khomani_San.DG Jew_Yemenite.DG 0.236
gendstat: Khomani_San.DG Samaritan.DG -0.299
gendstat: Khomani_San.DG Aari.DG -0.570
gendstat: Khomani_San.DG Iraqw.DG -0.255
gendstat: Khomani_San.DG Mbuti.DG 1.277
gendstat: Khomani_San.DG Saharawi.DG -0.309
gendstat: Mende.DG Luo.DG 1.175
gendstat: Mende.DG Sardinian.DG -0.538
gendstat: Mende.DG Cretan.DG 0.247
gendstat: Mende.DG Russian.DG 0.311
gendstat: Mende.DG Karitiana.DG 0.066
gendstat: Mende.DG Abkhasian.DG 0.277
gendstat: Mende.DG Ulchi.DG -0.632
gendstat: Mende.DG Druze.DG -0.181
gendstat: Mende.DG Han.DG -0.773
gendstat: Mende.DG Iranian.DG -0.138
gendstat: Mende.DG Balochi.DG 0.190
gendstat: Mende.DG Jew_Iraqi.DG 0.354
gendstat: Mende.DG Jew_Yemenite.DG 0.148
gendstat: Mende.DG Samaritan.DG -0.394
gendstat: Mende.DG Aari.DG -0.743
gendstat: Mende.DG Iraqw.DG -0.412
gendstat: Mende.DG Mbuti.DG 1.156
gendstat: Mende.DG Saharawi.DG -0.442
gendstat: Luo.DG Sardinian.DG -1.340
gendstat: Luo.DG Cretan.DG -0.543
gendstat: Luo.DG Russian.DG -0.479
gendstat: Luo.DG Karitiana.DG -0.741
gendstat: Luo.DG Abkhasian.DG -0.518
gendstat: Luo.DG Ulchi.DG -1.468
gendstat: Luo.DG Druze.DG -0.981
gendstat: Luo.DG Han.DG -1.645
gendstat: Luo.DG Iranian.DG -0.949
gendstat: Luo.DG Balochi.DG -0.594
gendstat: Luo.DG Jew_Iraqi.DG -0.427
gendstat: Luo.DG Jew_Yemenite.DG -0.632
gendstat: Luo.DG Samaritan.DG -1.056
gendstat: Luo.DG Aari.DG -1.813
gendstat: Luo.DG Iraqw.DG -1.466
gendstat: Luo.DG Mbuti.DG -0.050
gendstat: Luo.DG Saharawi.DG -1.299
gendstat: Sardinian.DG Cretan.DG 1.242
gendstat: Sardinian.DG Russian.DG 1.339
gendstat: Sardinian.DG Karitiana.DG 0.764
gendstat: Sardinian.DG Abkhasian.DG 1.184
gendstat: Sardinian.DG Ulchi.DG -0.098
gendstat: Sardinian.DG Druze.DG 0.554
gendstat: Sardinian.DG Han.DG -0.224
gendstat: Sardinian.DG Iranian.DG 0.586
gendstat: Sardinian.DG Balochi.DG 1.029
gendstat: Sardinian.DG Jew_Iraqi.DG 1.332
gendstat: Sardinian.DG Jew_Yemenite.DG 1.069
gendstat: Sardinian.DG Samaritan.DG 0.083
gendstat: Sardinian.DG Aari.DG -0.014
gendstat: Sardinian.DG Iraqw.DG 0.261
gendstat: Sardinian.DG Mbuti.DG 1.312
gendstat: Sardinian.DG Saharawi.DG 0.191
gendstat: Cretan.DG Russian.DG 0.099
gendstat: Cretan.DG Karitiana.DG -0.224
gendstat: Cretan.DG Abkhasian.DG 0.039
gendstat: Cretan.DG Ulchi.DG -1.065
gendstat: Cretan.DG Druze.DG -0.611
gendstat: Cretan.DG Han.DG -1.245
gendstat: Cretan.DG Iranian.DG -0.577
gendstat: Cretan.DG Balochi.DG -0.072
gendstat: Cretan.DG Jew_Iraqi.DG 0.157
gendstat: Cretan.DG Jew_Yemenite.DG -0.143
gendstat: Cretan.DG Samaritan.DG -0.802
gendstat: Cretan.DG Aari.DG -0.906
gendstat: Cretan.DG Iraqw.DG -0.675
gendstat: Cretan.DG Mbuti.DG 0.519
gendstat: Cretan.DG Saharawi.DG -0.948
gendstat: Russian.DG Karitiana.DG -0.303
gendstat: Russian.DG Abkhasian.DG -0.052
gendstat: Russian.DG Ulchi.DG -1.198
gendstat: Russian.DG Druze.DG -0.688
gendstat: Russian.DG Han.DG -1.372
gendstat: Russian.DG Iranian.DG -0.658
gendstat: Russian.DG Balochi.DG -0.160
gendstat: Russian.DG Jew_Iraqi.DG 0.064
gendstat: Russian.DG Jew_Yemenite.DG -0.236
gendstat: Russian.DG Samaritan.DG -0.852
gendstat: Russian.DG Aari.DG -0.987
gendstat: Russian.DG Iraqw.DG -0.731
gendstat: Russian.DG Mbuti.DG 0.457
gendstat: Russian.DG Saharawi.DG -0.984
gendstat: Karitiana.DG Abkhasian.DG 0.252
gendstat: Karitiana.DG Ulchi.DG -0.874
gendstat: Karitiana.DG Druze.DG -0.290
gendstat: Karitiana.DG Han.DG -1.077
gendstat: Karitiana.DG Iranian.DG -0.243
gendstat: Karitiana.DG Balochi.DG 0.156
gendstat: Karitiana.DG Jew_Iraqi.DG 0.352
gendstat: Karitiana.DG Jew_Yemenite.DG 0.096
gendstat: Karitiana.DG Samaritan.DG -0.521
gendstat: Karitiana.DG Aari.DG -0.671
gendstat: Karitiana.DG Iraqw.DG -0.419
gendstat: Karitiana.DG Mbuti.DG 0.700
gendstat: Karitiana.DG Saharawi.DG -0.564
gendstat: Abkhasian.DG Ulchi.DG -1.098
gendstat: Abkhasian.DG Druze.DG -0.641
gendstat: Abkhasian.DG Han.DG -1.268
gendstat: Abkhasian.DG Iranian.DG -0.600
gendstat: Abkhasian.DG Balochi.DG -0.107
gendstat: Abkhasian.DG Jew_Iraqi.DG 0.114
gendstat: Abkhasian.DG Jew_Yemenite.DG -0.169
gendstat: Abkhasian.DG Samaritan.DG -0.798
gendstat: Abkhasian.DG Aari.DG -0.932
gendstat: Abkhasian.DG Iraqw.DG -0.691
gendstat: Abkhasian.DG Mbuti.DG 0.494
gendstat: Abkhasian.DG Saharawi.DG -0.900
gendstat: Ulchi.DG Druze.DG 0.538
gendstat: Ulchi.DG Han.DG -0.143
gendstat: Ulchi.DG Iranian.DG 0.617
gendstat: Ulchi.DG Balochi.DG 1.033
gendstat: Ulchi.DG Jew_Iraqi.DG 1.200
gendstat: Ulchi.DG Jew_Yemenite.DG 0.915
gendstat: Ulchi.DG Samaritan.DG 0.150
gendstat: Ulchi.DG Aari.DG 0.071
gendstat: Ulchi.DG Iraqw.DG 0.321
gendstat: Ulchi.DG Mbuti.DG 1.408
gendstat: Ulchi.DG Saharawi.DG 0.256
gendstat: Druze.DG Han.DG -0.668
gendstat: Druze.DG Iranian.DG 0.063
gendstat: Druze.DG Balochi.DG 0.509
gendstat: Druze.DG Jew_Iraqi.DG 0.751
gendstat: Druze.DG Jew_Yemenite.DG 0.458
gendstat: Druze.DG Samaritan.DG -0.321
gendstat: Druze.DG Aari.DG -0.434
gendstat: Druze.DG Iraqw.DG -0.167
gendstat: Druze.DG Mbuti.DG 0.959
gendstat: Druze.DG Saharawi.DG -0.322
gendstat: Han.DG Iranian.DG 0.772
gendstat: Han.DG Balochi.DG 1.203
gendstat: Han.DG Jew_Iraqi.DG 1.408
gendstat: Han.DG Jew_Yemenite.DG 1.103
gendstat: Han.DG Samaritan.DG 0.252
gendstat: Han.DG Aari.DG 0.184
gendstat: Han.DG Iraqw.DG 0.457
gendstat: Han.DG Mbuti.DG 1.604
gendstat: Han.DG Saharawi.DG 0.384
gendstat: Iranian.DG Balochi.DG 0.474
gendstat: Iranian.DG Jew_Iraqi.DG 0.725
gendstat: Iranian.DG Jew_Yemenite.DG 0.409
gendstat: Iranian.DG Samaritan.DG -0.373
gendstat: Iranian.DG Aari.DG -0.477
gendstat: Iranian.DG Iraqw.DG -0.220
gendstat: Iranian.DG Mbuti.DG 0.935
gendstat: Iranian.DG Saharawi.DG -0.402
gendstat: Balochi.DG Jew_Iraqi.DG 0.222
gendstat: Balochi.DG Jew_Yemenite.DG -0.063
gendstat: Balochi.DG Samaritan.DG -0.726
gendstat: Balochi.DG Aari.DG -0.836
gendstat: Balochi.DG Iraqw.DG -0.590
gendstat: Balochi.DG Mbuti.DG 0.567
gendstat: Balochi.DG Saharawi.DG -0.804
gendstat: Jew_Iraqi.DG Jew_Yemenite.DG -0.306
gendstat: Jew_Iraqi.DG Samaritan.DG -0.935
gendstat: Jew_Iraqi.DG Aari.DG -1.004
gendstat: Jew_Iraqi.DG Iraqw.DG -0.779
gendstat: Jew_Iraqi.DG Mbuti.DG 0.398
gendstat: Jew_Iraqi.DG Saharawi.DG -1.077
gendstat: Jew_Yemenite.DG Samaritan.DG -0.668
gendstat: Jew_Yemenite.DG Aari.DG -0.798
gendstat: Jew_Yemenite.DG Iraqw.DG -0.556
gendstat: Jew_Yemenite.DG Mbuti.DG 0.622
gendstat: Jew_Yemenite.DG Saharawi.DG -0.770
gendstat: Samaritan.DG Aari.DG -0.080
gendstat: Samaritan.DG Iraqw.DG 0.140
gendstat: Samaritan.DG Mbuti.DG 1.060
gendstat: Samaritan.DG Saharawi.DG 0.061
gendstat: Aari.DG Iraqw.DG 0.312
gendstat: Aari.DG Mbuti.DG 1.853
gendstat: Aari.DG Saharawi.DG 0.169
gendstat: Iraqw.DG Mbuti.DG 1.403
gendstat: Iraqw.DG Saharawi.DG -0.112
gendstat: Mbuti.DG Saharawi.DG -1.262

Mnemonics
10-30-2021, 06:29 AM
Ethiopian Somalis



left pops:
Esomali
Kenya_PastoralIA
Egyptian_SFI-43

right pops:
Biaka.DG
Khomani_San.DG
Mende.DG
Luo.DG
Sardinian.DG
Cretan.DG
Russian.DG
Karitiana.DG
Abkhasian.DG
Ulchi.DG
Druze.DG
Han.DG
Iranian.DG
Balochi.DG
Jew_Iraqi.DG
Jew_Yemenite.DG
Samaritan.DG
Aari.DG
Iraqw.DG
Mbuti.DG
Saharawi.DG

0 Esomali 17
1 Kenya_PastoralIA 4
2 Egyptian_SFI-43 1
3 Biaka.DG 2
4 Khomani_San.DG 2
5 Mende.DG 2
6 Luo.DG 2
7 Sardinian.DG 3
8 Cretan.DG 2
9 Russian.DG 2
10 Karitiana.DG 3
11 Abkhasian.DG 2
12 Ulchi.DG 2
13 Druze.DG 2
14 Han.DG 3
15 Iranian.DG 2
16 Balochi.DG 2
17 Jew_Iraqi.DG 2
18 Jew_Yemenite.DG 2
19 Samaritan.DG 1
20 Aari.DG 2
21 Iraqw.DG 2
22 Mbuti.DG 4
23 Saharawi.DG 2
jackknife block size: 0.050
snps: 1143153 indivs: 68
number of blocks for block jackknife: 714
## ncols: 1143153
coverage: Esomali 437337
coverage: Kenya_PastoralIA 661264
coverage: Egyptian_SFI-43 473257
coverage: Biaka.DG 1121248
coverage: Khomani_San.DG 1121214
coverage: Mende.DG 1121272
coverage: Luo.DG 1121311
coverage: Sardinian.DG 1121428
coverage: Cretan.DG 1121014
coverage: Russian.DG 1121371
coverage: Karitiana.DG 1121384
coverage: Abkhasian.DG 1121318
coverage: Ulchi.DG 1121278
coverage: Druze.DG 1121288
coverage: Han.DG 1121405
coverage: Iranian.DG 1121381
coverage: Balochi.DG 1121259
coverage: Jew_Iraqi.DG 1121367
coverage: Jew_Yemenite.DG 1121336
coverage: Samaritan.DG 1115266
coverage: Aari.DG 1121299
coverage: Iraqw.DG 1121349
coverage: Mbuti.DG 1121427
coverage: Saharawi.DG 1121356
Effective number of blocks: 601.352
numsnps used: 180869
codimension 1
f4info:
f4rank: 1 dof: 19 chisq: 13.778 tail: 0.796470537 dofdiff: 21 chisqdiff: -13.778 taildiff: 1
B:
scale 1.000
Khomani_San.DG -0.014
Mende.DG -0.023
Luo.DG -0.010
Sardinian.DG 1.317
Cretan.DG 1.329
Russian.DG 1.277
Karitiana.DG 0.972
Abkhasian.DG 1.276
Ulchi.DG 0.925
Druze.DG 1.290
Han.DG 0.933
Iranian.DG 1.244
Balochi.DG 1.188
Jew_Iraqi.DG 1.283
Jew_Yemenite.DG 1.228
Samaritan.DG 1.263
Aari.DG 0.240
Iraqw.DG 0.352
Mbuti.DG -0.055
Saharawi.DG 1.008
A:
scale 136.495
Kenya_PastoralIA -0.447
Egyptian_SFI-43 1.342


full rank
f4info:
f4rank: 2 dof: 0 chisq: 0.000 tail: 1 dofdiff: 19 chisqdiff: 13.778 taildiff: 0.796470537
B:
scale 287.091 99.075
Khomani_San.DG -0.059 -0.002
Mende.DG 0.021 0.006
Luo.DG 0.042 0.029
Sardinian.DG -1.329 1.306
Cretan.DG -1.278 1.329
Russian.DG -1.244 1.274
Karitiana.DG -1.004 0.981
Abkhasian.DG -1.245 1.279
Ulchi.DG -1.033 0.922
Druze.DG -1.262 1.285
Han.DG -1.021 0.937
Iranian.DG -1.248 1.239
Balochi.DG -1.161 1.187
Jew_Iraqi.DG -1.249 1.281
Jew_Yemenite.DG -1.185 1.232
Samaritan.DG -1.287 1.265
Aari.DG -0.332 0.247
Iraqw.DG -0.386 0.374
Mbuti.DG 0.045 -0.028
Saharawi.DG -1.000 1.009
A:
scale 1.414 1.414
Kenya_PastoralIA 1.414 0.000
Egyptian_SFI-43 0.000 1.414


best coefficients: 0.750 0.250
Jackknife mean: 0.749845321 0.250154679
std. errors: 0.013 0.013

error covariance (* 1,000,000)
159 -159
-159 159


summ: Esomali 2 0.796471 0.750 0.250 159 -159 159

fixed pat wt dof chisq tail prob
00 0 19 13.778 0.796471 0.750 0.250
01 1 20 270.889 0 1.000 0.000
10 1 20 1943.261 0 0.000 1.000
best pat: 00 0.796471 - -
best pat: 01 6.80598e-46 chi(nested): 257.111 p-value for nested model: 7.31575e-58

coeffs: 0.750 0.250

## dscore:: f_4(Base, Fit, Rbase, right2)
## genstat:: f_4(Base, Fit, right1, right2)

details: Kenya_PastoralIA Khomani_San.DG -0.000205 -0.805371
details: Egyptian_SFI-43 Khomani_San.DG -0.000017 -0.062882
dscore: Khomani_San.DG f4: -0.000158 Z: -0.773964

details: Kenya_PastoralIA Mende.DG 0.000071 0.283199
details: Egyptian_SFI-43 Mende.DG 0.000060 0.232150
dscore: Mende.DG f4: 0.000069 Z: 0.337475

details: Kenya_PastoralIA Luo.DG 0.000147 0.597091
details: Egyptian_SFI-43 Luo.DG 0.000291 1.082509
dscore: Luo.DG f4: 0.000183 Z: 0.938405

details: Kenya_PastoralIA Sardinian.DG -0.004628 -12.931521
details: Egyptian_SFI-43 Sardinian.DG 0.013182 34.275237
dscore: Sardinian.DG f4: -0.000176 Z: -0.616769

details: Kenya_PastoralIA Cretan.DG -0.004453 -12.347582
details: Egyptian_SFI-43 Cretan.DG 0.013417 33.310433
dscore: Cretan.DG f4: 0.000013 Z: 0.045857

details: Kenya_PastoralIA Russian.DG -0.004332 -11.777512
details: Egyptian_SFI-43 Russian.DG 0.012862 31.392766
dscore: Russian.DG f4: -0.000035 Z: -0.116942

details: Kenya_PastoralIA Karitiana.DG -0.003498 -9.306553
details: Egyptian_SFI-43 Karitiana.DG 0.009902 24.244770
dscore: Karitiana.DG f4: -0.000149 Z: -0.497838

details: Kenya_PastoralIA Abkhasian.DG -0.004336 -11.781120
details: Egyptian_SFI-43 Abkhasian.DG 0.012911 32.306757
dscore: Abkhasian.DG f4: -0.000025 Z: -0.086103

details: Kenya_PastoralIA Ulchi.DG -0.003597 -9.741030
details: Egyptian_SFI-43 Ulchi.DG 0.009306 24.554639
dscore: Ulchi.DG f4: -0.000372 Z: -1.293110

details: Kenya_PastoralIA Druze.DG -0.004395 -12.255677
details: Egyptian_SFI-43 Druze.DG 0.012968 32.075260
dscore: Druze.DG f4: -0.000056 Z: -0.194679

details: Kenya_PastoralIA Han.DG -0.003556 -10.325676
details: Egyptian_SFI-43 Han.DG 0.009462 25.325641
dscore: Han.DG f4: -0.000303 Z: -1.122767

details: Kenya_PastoralIA Iranian.DG -0.004347 -12.217475
details: Egyptian_SFI-43 Iranian.DG 0.012504 31.204248
dscore: Iranian.DG f4: -0.000135 Z: -0.480997

details: Kenya_PastoralIA Balochi.DG -0.004045 -11.054067
details: Egyptian_SFI-43 Balochi.DG 0.011984 30.203908
dscore: Balochi.DG f4: -0.000039 Z: -0.133351

details: Kenya_PastoralIA Jew_Iraqi.DG -0.004352 -12.186384
details: Egyptian_SFI-43 Jew_Iraqi.DG 0.012930 32.411013
dscore: Jew_Iraqi.DG f4: -0.000033 Z: -0.112422

details: Kenya_PastoralIA Jew_Yemenite.DG -0.004127 -11.068052
details: Egyptian_SFI-43 Jew_Yemenite.DG 0.012439 31.629213
dscore: Jew_Yemenite.DG f4: 0.000013 Z: 0.044784

details: Kenya_PastoralIA Samaritan.DG -0.004483 -10.833502
details: Egyptian_SFI-43 Samaritan.DG 0.012768 26.716744
dscore: Samaritan.DG f4: -0.000171 Z: -0.511244

details: Kenya_PastoralIA Aari.DG -0.001156 -4.161349
details: Egyptian_SFI-43 Aari.DG 0.002498 8.564143
dscore: Aari.DG f4: -0.000242 Z: -1.080008

details: Kenya_PastoralIA Iraqw.DG -0.001344 -4.670680
details: Egyptian_SFI-43 Iraqw.DG 0.003772 12.010689
dscore: Iraqw.DG f4: -0.000066 Z: -0.286863

details: Kenya_PastoralIA Mbuti.DG 0.000156 0.686793
details: Egyptian_SFI-43 Mbuti.DG -0.000287 -1.204324
dscore: Mbuti.DG f4: 0.000045 Z: 0.247868

details: Kenya_PastoralIA Saharawi.DG -0.003484 -10.193377
details: Egyptian_SFI-43 Saharawi.DG 0.010185 27.748131
dscore: Saharawi.DG f4: -0.000068 Z: -0.247592

gendstat: Biaka.DG Khomani_San.DG -0.774
gendstat: Biaka.DG Mende.DG 0.337
gendstat: Biaka.DG Luo.DG 0.938
gendstat: Biaka.DG Sardinian.DG -0.617
gendstat: Biaka.DG Cretan.DG 0.046
gendstat: Biaka.DG Russian.DG -0.117
gendstat: Biaka.DG Karitiana.DG -0.498
gendstat: Biaka.DG Abkhasian.DG -0.086
gendstat: Biaka.DG Ulchi.DG -1.293
gendstat: Biaka.DG Druze.DG -0.195
gendstat: Biaka.DG Han.DG -1.123
gendstat: Biaka.DG Iranian.DG -0.481
gendstat: Biaka.DG Balochi.DG -0.133
gendstat: Biaka.DG Jew_Iraqi.DG -0.112
gendstat: Biaka.DG Jew_Yemenite.DG 0.045
gendstat: Biaka.DG Samaritan.DG -0.511
gendstat: Biaka.DG Aari.DG -1.080
gendstat: Biaka.DG Iraqw.DG -0.287
gendstat: Biaka.DG Mbuti.DG 0.248
gendstat: Biaka.DG Saharawi.DG -0.248
gendstat: Khomani_San.DG Mende.DG 1.012
gendstat: Khomani_San.DG Luo.DG 1.509
gendstat: Khomani_San.DG Sardinian.DG -0.060
gendstat: Khomani_San.DG Cretan.DG 0.569
gendstat: Khomani_San.DG Russian.DG 0.401
gendstat: Khomani_San.DG Karitiana.DG 0.031
gendstat: Khomani_San.DG Abkhasian.DG 0.442
gendstat: Khomani_San.DG Ulchi.DG -0.716
gendstat: Khomani_San.DG Druze.DG 0.341
gendstat: Khomani_San.DG Han.DG -0.507
gendstat: Khomani_San.DG Iranian.DG 0.080
gendstat: Khomani_San.DG Balochi.DG 0.398
gendstat: Khomani_San.DG Jew_Iraqi.DG 0.413
gendstat: Khomani_San.DG Jew_Yemenite.DG 0.554
gendstat: Khomani_San.DG Samaritan.DG -0.036
gendstat: Khomani_San.DG Aari.DG -0.361
gendstat: Khomani_San.DG Iraqw.DG 0.372
gendstat: Khomani_San.DG Mbuti.DG 1.030
gendstat: Khomani_San.DG Saharawi.DG 0.318
gendstat: Mende.DG Luo.DG 0.579
gendstat: Mende.DG Sardinian.DG -0.847
gendstat: Mende.DG Cretan.DG -0.187
gendstat: Mende.DG Russian.DG -0.350
gendstat: Mende.DG Karitiana.DG -0.747
gendstat: Mende.DG Abkhasian.DG -0.323
gendstat: Mende.DG Ulchi.DG -1.537
gendstat: Mende.DG Druze.DG -0.433
gendstat: Mende.DG Han.DG -1.377
gendstat: Mende.DG Iranian.DG -0.720
gendstat: Mende.DG Balochi.DG -0.353
gendstat: Mende.DG Jew_Iraqi.DG -0.346
gendstat: Mende.DG Jew_Yemenite.DG -0.185
gendstat: Mende.DG Samaritan.DG -0.708
gendstat: Mende.DG Aari.DG -1.401
gendstat: Mende.DG Iraqw.DG -0.589
gendstat: Mende.DG Mbuti.DG -0.124
gendstat: Mende.DG Saharawi.DG -0.505
gendstat: Luo.DG Sardinian.DG -1.266
gendstat: Luo.DG Cretan.DG -0.590
gendstat: Luo.DG Russian.DG -0.765
gendstat: Luo.DG Karitiana.DG -1.180
gendstat: Luo.DG Abkhasian.DG -0.732
gendstat: Luo.DG Ulchi.DG -2.013
gendstat: Luo.DG Druze.DG -0.842
gendstat: Luo.DG Han.DG -1.859
gendstat: Luo.DG Iranian.DG -1.156
gendstat: Luo.DG Balochi.DG -0.778
gendstat: Luo.DG Jew_Iraqi.DG -0.758
gendstat: Luo.DG Jew_Yemenite.DG -0.573
gendstat: Luo.DG Samaritan.DG -1.055
gendstat: Luo.DG Aari.DG -1.940
gendstat: Luo.DG Iraqw.DG -1.153
gendstat: Luo.DG Mbuti.DG -0.715
gendstat: Luo.DG Saharawi.DG -0.952
gendstat: Sardinian.DG Cretan.DG 1.001
gendstat: Sardinian.DG Russian.DG 0.775
gendstat: Sardinian.DG Karitiana.DG 0.120
gendstat: Sardinian.DG Abkhasian.DG 0.759
gendstat: Sardinian.DG Ulchi.DG -0.851
gendstat: Sardinian.DG Druze.DG 0.641
gendstat: Sardinian.DG Han.DG -0.576
gendstat: Sardinian.DG Iranian.DG 0.206
gendstat: Sardinian.DG Balochi.DG 0.676
gendstat: Sardinian.DG Jew_Iraqi.DG 0.741
gendstat: Sardinian.DG Jew_Yemenite.DG 0.994
gendstat: Sardinian.DG Samaritan.DG 0.022
gendstat: Sardinian.DG Aari.DG -0.267
gendstat: Sardinian.DG Iraqw.DG 0.467
gendstat: Sardinian.DG Mbuti.DG 0.786
gendstat: Sardinian.DG Saharawi.DG 0.548
gendstat: Cretan.DG Russian.DG -0.249
gendstat: Cretan.DG Karitiana.DG -0.679
gendstat: Cretan.DG Abkhasian.DG -0.186
gendstat: Cretan.DG Ulchi.DG -1.601
gendstat: Cretan.DG Druze.DG -0.337
gendstat: Cretan.DG Han.DG -1.405
gendstat: Cretan.DG Iranian.DG -0.751
gendstat: Cretan.DG Balochi.DG -0.251
gendstat: Cretan.DG Jew_Iraqi.DG -0.229
gendstat: Cretan.DG Jew_Yemenite.DG 0.000
gendstat: Cretan.DG Samaritan.DG -0.719
gendstat: Cretan.DG Aari.DG -0.996
gendstat: Cretan.DG Iraqw.DG -0.320
gendstat: Cretan.DG Mbuti.DG 0.111
gendstat: Cretan.DG Saharawi.DG -0.389
gendstat: Russian.DG Karitiana.DG -0.488
gendstat: Russian.DG Abkhasian.DG 0.045
gendstat: Russian.DG Ulchi.DG -1.498
gendstat: Russian.DG Druze.DG -0.103
gendstat: Russian.DG Han.DG -1.259
gendstat: Russian.DG Iranian.DG -0.515
gendstat: Russian.DG Balochi.DG -0.022
gendstat: Russian.DG Jew_Iraqi.DG 0.009
gendstat: Russian.DG Jew_Yemenite.DG 0.234
gendstat: Russian.DG Samaritan.DG -0.516
gendstat: Russian.DG Aari.DG -0.821
gendstat: Russian.DG Iraqw.DG -0.124
gendstat: Russian.DG Mbuti.DG 0.282
gendstat: Russian.DG Saharawi.DG -0.155
gendstat: Karitiana.DG Abkhasian.DG 0.509
gendstat: Karitiana.DG Ulchi.DG -0.971
gendstat: Karitiana.DG Druze.DG 0.379
gendstat: Karitiana.DG Han.DG -0.734
gendstat: Karitiana.DG Iranian.DG 0.057
gendstat: Karitiana.DG Balochi.DG 0.451
gendstat: Karitiana.DG Jew_Iraqi.DG 0.494
gendstat: Karitiana.DG Jew_Yemenite.DG 0.637
gendstat: Karitiana.DG Samaritan.DG -0.076
gendstat: Karitiana.DG Aari.DG -0.350
gendstat: Karitiana.DG Iraqw.DG 0.314
gendstat: Karitiana.DG Mbuti.DG 0.674
gendstat: Karitiana.DG Saharawi.DG 0.330
gendstat: Abkhasian.DG Ulchi.DG -1.456
gendstat: Abkhasian.DG Druze.DG -0.145
gendstat: Abkhasian.DG Han.DG -1.225
gendstat: Abkhasian.DG Iranian.DG -0.551
gendstat: Abkhasian.DG Balochi.DG -0.065
gendstat: Abkhasian.DG Jew_Iraqi.DG -0.035
gendstat: Abkhasian.DG Jew_Yemenite.DG 0.174
gendstat: Abkhasian.DG Samaritan.DG -0.545
gendstat: Abkhasian.DG Aari.DG -0.848
gendstat: Abkhasian.DG Iraqw.DG -0.162
gendstat: Abkhasian.DG Mbuti.DG 0.247
gendstat: Abkhasian.DG Saharawi.DG -0.189
gendstat: Ulchi.DG Druze.DG 1.311
gendstat: Ulchi.DG Han.DG 0.374
gendstat: Ulchi.DG Iranian.DG 1.020
gendstat: Ulchi.DG Balochi.DG 1.459
gendstat: Ulchi.DG Jew_Iraqi.DG 1.447
gendstat: Ulchi.DG Jew_Yemenite.DG 1.544
gendstat: Ulchi.DG Samaritan.DG 0.690
gendstat: Ulchi.DG Aari.DG 0.492
gendstat: Ulchi.DG Iraqw.DG 1.177
gendstat: Ulchi.DG Mbuti.DG 1.457
gendstat: Ulchi.DG Saharawi.DG 1.295
gendstat: Druze.DG Han.DG -1.066
gendstat: Druze.DG Iranian.DG -0.391
gendstat: Druze.DG Balochi.DG 0.078
gendstat: Druze.DG Jew_Iraqi.DG 0.111
gendstat: Druze.DG Jew_Yemenite.DG 0.330
gendstat: Druze.DG Samaritan.DG -0.449
gendstat: Druze.DG Aari.DG -0.755
gendstat: Druze.DG Iraqw.DG -0.039
gendstat: Druze.DG Mbuti.DG 0.358
gendstat: Druze.DG Saharawi.DG -0.056
gendstat: Han.DG Iranian.DG 0.773
gendstat: Han.DG Balochi.DG 1.215
gendstat: Han.DG Jew_Iraqi.DG 1.239
gendstat: Han.DG Jew_Yemenite.DG 1.363
gendstat: Han.DG Samaritan.DG 0.478
gendstat: Han.DG Aari.DG 0.246
gendstat: Han.DG Iraqw.DG 0.995
gendstat: Han.DG Mbuti.DG 1.303
gendstat: Han.DG Saharawi.DG 1.053
gendstat: Iranian.DG Balochi.DG 0.474
gendstat: Iranian.DG Jew_Iraqi.DG 0.527
gendstat: Iranian.DG Jew_Yemenite.DG 0.732
gendstat: Iranian.DG Samaritan.DG -0.139
gendstat: Iranian.DG Aari.DG -0.431
gendstat: Iranian.DG Iraqw.DG 0.292
gendstat: Iranian.DG Mbuti.DG 0.664
gendstat: Iranian.DG Saharawi.DG 0.336
gendstat: Balochi.DG Jew_Iraqi.DG 0.031
gendstat: Balochi.DG Jew_Yemenite.DG 0.232
gendstat: Balochi.DG Samaritan.DG -0.510
gendstat: Balochi.DG Aari.DG -0.788
gendstat: Balochi.DG Iraqw.DG -0.105
gendstat: Balochi.DG Mbuti.DG 0.293
gendstat: Balochi.DG Saharawi.DG -0.129
gendstat: Jew_Iraqi.DG Jew_Yemenite.DG 0.224
gendstat: Jew_Iraqi.DG Samaritan.DG -0.542
gendstat: Jew_Iraqi.DG Aari.DG -0.817
gendstat: Jew_Iraqi.DG Iraqw.DG -0.132
gendstat: Jew_Iraqi.DG Mbuti.DG 0.273
gendstat: Jew_Iraqi.DG Saharawi.DG -0.170
gendstat: Jew_Yemenite.DG Samaritan.DG -0.676
gendstat: Jew_Yemenite.DG Aari.DG -1.004
gendstat: Jew_Yemenite.DG Iraqw.DG -0.318
gendstat: Jew_Yemenite.DG Mbuti.DG 0.110
gendstat: Jew_Yemenite.DG Saharawi.DG -0.372
gendstat: Samaritan.DG Aari.DG -0.235
gendstat: Samaritan.DG Iraqw.DG 0.357
gendstat: Samaritan.DG Mbuti.DG 0.655
gendstat: Samaritan.DG Saharawi.DG 0.386
gendstat: Aari.DG Iraqw.DG 0.824
gendstat: Aari.DG Mbuti.DG 1.373
gendstat: Aari.DG Saharawi.DG 0.713
gendstat: Iraqw.DG Mbuti.DG 0.500
gendstat: Iraqw.DG Saharawi.DG -0.009
gendstat: Mbuti.DG Saharawi.DG -0.418

Mnemonics
10-30-2021, 06:31 AM
Rendille






left pops:
Rendille1.DG
Kenya_PastoralIA
Egyptian_SFI-43

right pops:
Biaka.DG
Khomani_San.DG
Mende.DG
Luo.DG
Sardinian.DG
Cretan.DG
Russian.DG
Karitiana.DG
Abkhasian.DG
Ulchi.DG
Druze.DG
Han.DG
Iranian.DG
Balochi.DG
Jew_Iraqi.DG
Jew_Yemenite.DG
Samaritan.DG
Aari.DG
Iraqw.DG
Mbuti.DG
Saharawi.DG

0 Rendille1.DG 1
1 Kenya_PastoralIA 4
2 Egyptian_SFI-43 1
3 Biaka.DG 2
4 Khomani_San.DG 2
5 Mende.DG 2
6 Luo.DG 2
7 Sardinian.DG 3
8 Cretan.DG 2
9 Russian.DG 2
10 Karitiana.DG 3
11 Abkhasian.DG 2
12 Ulchi.DG 2
13 Druze.DG 2
14 Han.DG 3
15 Iranian.DG 2
16 Balochi.DG 2
17 Jew_Iraqi.DG 2
18 Jew_Yemenite.DG 2
19 Samaritan.DG 1
20 Aari.DG 2
21 Iraqw.DG 2
22 Mbuti.DG 4
23 Saharawi.DG 2
jackknife block size: 0.050
snps: 1138625 indivs: 52
number of blocks for block jackknife: 714
## ncols: 1138625
coverage: Rendille1.DG 1120318
coverage: Kenya_PastoralIA 661264
coverage: Egyptian_SFI-43 473257
coverage: Biaka.DG 1121248
coverage: Khomani_San.DG 1121214
coverage: Mende.DG 1121272
coverage: Luo.DG 1121311
coverage: Sardinian.DG 1121428
coverage: Cretan.DG 1121014
coverage: Russian.DG 1121371
coverage: Karitiana.DG 1121384
coverage: Abkhasian.DG 1121318
coverage: Ulchi.DG 1121278
coverage: Druze.DG 1121288
coverage: Han.DG 1121405
coverage: Iranian.DG 1121381
coverage: Balochi.DG 1121259
coverage: Jew_Iraqi.DG 1121367
coverage: Jew_Yemenite.DG 1121336
coverage: Samaritan.DG 1115266
coverage: Aari.DG 1121299
coverage: Iraqw.DG 1121349
coverage: Mbuti.DG 1121427
coverage: Saharawi.DG 1121356
Effective number of blocks: 614.970
numsnps used: 332022
codimension 1
f4info:
f4rank: 1 dof: 19 chisq: 20.679 tail: 0.354812415 dofdiff: 21 chisqdiff: -20.679 taildiff: 1
B:
scale 1.000
Khomani_San.DG -0.037
Mende.DG -0.013
Luo.DG -0.008
Sardinian.DG 1.320
Cretan.DG 1.313
Russian.DG 1.267
Karitiana.DG 1.010
Abkhasian.DG 1.287
Ulchi.DG 0.956
Druze.DG 1.279
Han.DG 0.963
Iranian.DG 1.239
Balochi.DG 1.170
Jew_Iraqi.DG 1.268
Jew_Yemenite.DG 1.215
Samaritan.DG 1.268
Aari.DG 0.250
Iraqw.DG 0.357
Mbuti.DG -0.051
Saharawi.DG 0.994
A:
scale 102.435
Kenya_PastoralIA -0.273
Egyptian_SFI-43 1.388


full rank
f4info:
f4rank: 2 dof: 0 chisq: 0.000 tail: 1 dofdiff: 19 chisqdiff: 20.679 taildiff: 0.354812415
B:
scale 327.722 73.316
Khomani_San.DG -0.152 -0.039
Mende.DG -0.087 0.002
Luo.DG 0.016 0.026
Sardinian.DG -1.223 1.323
Cretan.DG -1.340 1.303
Russian.DG -1.251 1.270
Karitiana.DG -0.897 1.037
Abkhasian.DG -1.157 1.300
Ulchi.DG -1.012 0.961
Druze.DG -1.263 1.274
Han.DG -1.030 0.961
Iranian.DG -1.253 1.232
Balochi.DG -1.181 1.164
Jew_Iraqi.DG -1.319 1.254
Jew_Yemenite.DG -1.179 1.213
Samaritan.DG -1.345 1.261
Aari.DG -0.361 0.262
Iraqw.DG -0.552 0.352
Mbuti.DG 0.015 -0.028
Saharawi.DG -0.974 1.000
A:
scale 1.414 1.414
Kenya_PastoralIA 1.414 0.000
Egyptian_SFI-43 0.000 1.414


best coefficients: 0.836 0.164
Jackknife mean: 0.835329973 0.164670027
std. errors: 0.017 0.017

error covariance (* 1,000,000)
300 -300
-300 300


summ: Rendille1.DG 2 0.354812 0.835 0.165 300 -300 300

fixed pat wt dof chisq tail prob
00 0 19 20.679 0.354812 0.836 0.164
01 1 20 99.370 1.63286e-12 1.000 0.000
10 1 20 1963.488 0 0.000 1.000
best pat: 00 0.354812 - -
best pat: 01 1.63286e-12 chi(nested): 78.691 p-value for nested model: 7.26298e-19

coeffs: 0.836 0.164

## dscore:: f_4(Base, Fit, Rbase, right2)
## genstat:: f_4(Base, Fit, right1, right2)

details: Kenya_PastoralIA Khomani_San.DG -0.000464 -1.489773
details: Egyptian_SFI-43 Khomani_San.DG -0.000529 -1.625834
dscore: Khomani_San.DG f4: -0.000475 Z: -1.667873

details: Kenya_PastoralIA Mende.DG -0.000266 -0.844755
details: Egyptian_SFI-43 Mende.DG 0.000034 0.104732
dscore: Mende.DG f4: -0.000217 Z: -0.749458

details: Kenya_PastoralIA Luo.DG 0.000048 0.155361
details: Egyptian_SFI-43 Luo.DG 0.000352 1.072490
dscore: Luo.DG f4: 0.000098 Z: 0.345740

details: Kenya_PastoralIA Sardinian.DG -0.003733 -7.406406
details: Egyptian_SFI-43 Sardinian.DG 0.018050 34.581220
dscore: Sardinian.DG f4: -0.000155 Z: -0.331285

details: Kenya_PastoralIA Cretan.DG -0.004088 -7.831710
details: Egyptian_SFI-43 Cretan.DG 0.017771 33.038470
dscore: Cretan.DG f4: -0.000498 Z: -1.025404

details: Kenya_PastoralIA Russian.DG -0.003818 -7.475379
details: Egyptian_SFI-43 Russian.DG 0.017319 31.853709
dscore: Russian.DG f4: -0.000346 Z: -0.729868

details: Kenya_PastoralIA Karitiana.DG -0.002737 -5.275307
details: Egyptian_SFI-43 Karitiana.DG 0.014149 26.450217
dscore: Karitiana.DG f4: 0.000037 Z: 0.076598

details: Kenya_PastoralIA Abkhasian.DG -0.003530 -6.816441
details: Egyptian_SFI-43 Abkhasian.DG 0.017732 32.565569
dscore: Abkhasian.DG f4: -0.000038 Z: -0.078634

details: Kenya_PastoralIA Ulchi.DG -0.003088 -6.443155
details: Egyptian_SFI-43 Ulchi.DG 0.013112 26.013875
dscore: Ulchi.DG f4: -0.000427 Z: -0.967175

details: Kenya_PastoralIA Druze.DG -0.003854 -7.565978
details: Egyptian_SFI-43 Druze.DG 0.017376 32.559009
dscore: Druze.DG f4: -0.000367 Z: -0.775371

details: Kenya_PastoralIA Han.DG -0.003144 -6.828665
details: Egyptian_SFI-43 Han.DG 0.013107 27.186204
dscore: Han.DG f4: -0.000475 Z: -1.118992

details: Kenya_PastoralIA Iranian.DG -0.003822 -7.656373
details: Egyptian_SFI-43 Iranian.DG 0.016803 33.162608
dscore: Iranian.DG f4: -0.000434 Z: -0.944036

details: Kenya_PastoralIA Balochi.DG -0.003605 -7.188264
details: Egyptian_SFI-43 Balochi.DG 0.015874 30.481051
dscore: Balochi.DG f4: -0.000406 Z: -0.871357

details: Kenya_PastoralIA Jew_Iraqi.DG -0.004025 -7.723621
details: Egyptian_SFI-43 Jew_Iraqi.DG 0.017105 31.035038
dscore: Jew_Iraqi.DG f4: -0.000554 Z: -1.133480

details: Kenya_PastoralIA Jew_Yemenite.DG -0.003597 -6.865634
details: Egyptian_SFI-43 Jew_Yemenite.DG 0.016549 30.562990
dscore: Jew_Yemenite.DG f4: -0.000288 Z: -0.588656

details: Kenya_PastoralIA Samaritan.DG -0.004103 -6.960953
details: Egyptian_SFI-43 Samaritan.DG 0.017198 27.757234
dscore: Samaritan.DG f4: -0.000605 Z: -1.113660

details: Kenya_PastoralIA Aari.DG -0.001102 -3.208223
details: Egyptian_SFI-43 Aari.DG 0.003578 10.023419
dscore: Aari.DG f4: -0.000334 Z: -1.059685

details: Kenya_PastoralIA Iraqw.DG -0.001684 -4.302547
details: Egyptian_SFI-43 Iraqw.DG 0.004798 12.212925
dscore: Iraqw.DG f4: -0.000619 Z: -1.717394

details: Kenya_PastoralIA Mbuti.DG 0.000047 0.167917
details: Egyptian_SFI-43 Mbuti.DG -0.000382 -1.414224
dscore: Mbuti.DG f4: -0.000024 Z: -0.092644

details: Kenya_PastoralIA Saharawi.DG -0.002973 -6.312320
details: Egyptian_SFI-43 Saharawi.DG 0.013639 27.761553
dscore: Saharawi.DG f4: -0.000245 Z: -0.559410

gendstat: Biaka.DG Khomani_San.DG -1.668
gendstat: Biaka.DG Mende.DG -0.749
gendstat: Biaka.DG Luo.DG 0.346
gendstat: Biaka.DG Sardinian.DG -0.331
gendstat: Biaka.DG Cretan.DG -1.025
gendstat: Biaka.DG Russian.DG -0.730
gendstat: Biaka.DG Karitiana.DG 0.077
gendstat: Biaka.DG Abkhasian.DG -0.079
gendstat: Biaka.DG Ulchi.DG -0.967
gendstat: Biaka.DG Druze.DG -0.775
gendstat: Biaka.DG Han.DG -1.119
gendstat: Biaka.DG Iranian.DG -0.944
gendstat: Biaka.DG Balochi.DG -0.871
gendstat: Biaka.DG Jew_Iraqi.DG -1.133
gendstat: Biaka.DG Jew_Yemenite.DG -0.589
gendstat: Biaka.DG Samaritan.DG -1.114
gendstat: Biaka.DG Aari.DG -1.060
gendstat: Biaka.DG Iraqw.DG -1.717
gendstat: Biaka.DG Mbuti.DG -0.093
gendstat: Biaka.DG Saharawi.DG -0.559
gendstat: Khomani_San.DG Mende.DG 0.844
gendstat: Khomani_San.DG Luo.DG 1.790
gendstat: Khomani_San.DG Sardinian.DG 0.694
gendstat: Khomani_San.DG Cretan.DG -0.049
gendstat: Khomani_San.DG Russian.DG 0.272
gendstat: Khomani_San.DG Karitiana.DG 1.083
gendstat: Khomani_San.DG Abkhasian.DG 0.921
gendstat: Khomani_San.DG Ulchi.DG 0.109
gendstat: Khomani_San.DG Druze.DG 0.232
gendstat: Khomani_San.DG Han.DG -0.001
gendstat: Khomani_San.DG Iranian.DG 0.087
gendstat: Khomani_San.DG Balochi.DG 0.150
gendstat: Khomani_San.DG Jew_Iraqi.DG -0.164
gendstat: Khomani_San.DG Jew_Yemenite.DG 0.386
gendstat: Khomani_San.DG Samaritan.DG -0.246
gendstat: Khomani_San.DG Aari.DG 0.431
gendstat: Khomani_San.DG Iraqw.DG -0.402
gendstat: Khomani_San.DG Mbuti.DG 1.738
gendstat: Khomani_San.DG Saharawi.DG 0.523
gendstat: Mende.DG Luo.DG 1.125
gendstat: Mende.DG Sardinian.DG 0.133
gendstat: Mende.DG Cretan.DG -0.597
gendstat: Mende.DG Russian.DG -0.276
gendstat: Mende.DG Karitiana.DG 0.541
gendstat: Mende.DG Abkhasian.DG 0.381
gendstat: Mende.DG Ulchi.DG -0.489
gendstat: Mende.DG Druze.DG -0.325
gendstat: Mende.DG Han.DG -0.616
gendstat: Mende.DG Iranian.DG -0.491
gendstat: Mende.DG Balochi.DG -0.423
gendstat: Mende.DG Jew_Iraqi.DG -0.712
gendstat: Mende.DG Jew_Yemenite.DG -0.151
gendstat: Mende.DG Samaritan.DG -0.747
gendstat: Mende.DG Aari.DG -0.365
gendstat: Mende.DG Iraqw.DG -1.191
gendstat: Mende.DG Mbuti.DG 0.715
gendstat: Mende.DG Saharawi.DG -0.068
gendstat: Luo.DG Sardinian.DG -0.561
gendstat: Luo.DG Cretan.DG -1.293
gendstat: Luo.DG Russian.DG -0.980
gendstat: Luo.DG Karitiana.DG -0.135
gendstat: Luo.DG Abkhasian.DG -0.296
gendstat: Luo.DG Ulchi.DG -1.230
gendstat: Luo.DG Druze.DG -1.031
gendstat: Luo.DG Han.DG -1.398
gendstat: Luo.DG Iranian.DG -1.218
gendstat: Luo.DG Balochi.DG -1.133
gendstat: Luo.DG Jew_Iraqi.DG -1.374
gendstat: Luo.DG Jew_Yemenite.DG -0.828
gendstat: Luo.DG Samaritan.DG -1.371
gendstat: Luo.DG Aari.DG -1.365
gendstat: Luo.DG Iraqw.DG -2.169
gendstat: Luo.DG Mbuti.DG -0.438
gendstat: Luo.DG Saharawi.DG -0.834
gendstat: Sardinian.DG Cretan.DG -1.282
gendstat: Sardinian.DG Russian.DG -0.684
gendstat: Sardinian.DG Karitiana.DG 0.532
gendstat: Sardinian.DG Abkhasian.DG 0.416
gendstat: Sardinian.DG Ulchi.DG -0.829
gendstat: Sardinian.DG Druze.DG -0.743
gendstat: Sardinian.DG Han.DG -0.993
gendstat: Sardinian.DG Iranian.DG -0.963
gendstat: Sardinian.DG Balochi.DG -0.827
gendstat: Sardinian.DG Jew_Iraqi.DG -1.402
gendstat: Sardinian.DG Jew_Yemenite.DG -0.472
gendstat: Sardinian.DG Samaritan.DG -1.267
gendstat: Sardinian.DG Aari.DG -0.446
gendstat: Sardinian.DG Iraqw.DG -1.285
gendstat: Sardinian.DG Mbuti.DG 0.296
gendstat: Sardinian.DG Saharawi.DG -0.302
gendstat: Cretan.DG Russian.DG 0.526
gendstat: Cretan.DG Karitiana.DG 1.476
gendstat: Cretan.DG Abkhasian.DG 1.506
gendstat: Cretan.DG Ulchi.DG 0.206
gendstat: Cretan.DG Druze.DG 0.452
gendstat: Cretan.DG Han.DG 0.070
gendstat: Cretan.DG Iranian.DG 0.222
gendstat: Cretan.DG Balochi.DG 0.304
gendstat: Cretan.DG Jew_Iraqi.DG -0.186
gendstat: Cretan.DG Jew_Yemenite.DG 0.732
gendstat: Cretan.DG Samaritan.DG -0.287
gendstat: Cretan.DG Aari.DG 0.399
gendstat: Cretan.DG Iraqw.DG -0.317
gendstat: Cretan.DG Mbuti.DG 1.029
gendstat: Cretan.DG Saharawi.DG 0.801
gendstat: Russian.DG Karitiana.DG 1.073
gendstat: Russian.DG Abkhasian.DG 1.010
gendstat: Russian.DG Ulchi.DG -0.236
gendstat: Russian.DG Druze.DG -0.068
gendstat: Russian.DG Han.DG -0.383
gendstat: Russian.DG Iranian.DG -0.294
gendstat: Russian.DG Balochi.DG -0.187
gendstat: Russian.DG Jew_Iraqi.DG -0.669
gendstat: Russian.DG Jew_Yemenite.DG 0.193
gendstat: Russian.DG Samaritan.DG -0.680
gendstat: Russian.DG Aari.DG 0.031
gendstat: Russian.DG Iraqw.DG -0.726
gendstat: Russian.DG Mbuti.DG 0.713
gendstat: Russian.DG Saharawi.DG 0.307
gendstat: Karitiana.DG Abkhasian.DG -0.189
gendstat: Karitiana.DG Ulchi.DG -1.336
gendstat: Karitiana.DG Druze.DG -1.049
gendstat: Karitiana.DG Han.DG -1.603
gendstat: Karitiana.DG Iranian.DG -1.291
gendstat: Karitiana.DG Balochi.DG -1.183
gendstat: Karitiana.DG Jew_Iraqi.DG -1.477
gendstat: Karitiana.DG Jew_Yemenite.DG -0.842
gendstat: Karitiana.DG Samaritan.DG -1.454
gendstat: Karitiana.DG Aari.DG -0.854
gendstat: Karitiana.DG Iraqw.DG -1.584
gendstat: Karitiana.DG Mbuti.DG -0.130
gendstat: Karitiana.DG Saharawi.DG -0.722
gendstat: Abkhasian.DG Ulchi.DG -1.104
gendstat: Abkhasian.DG Druze.DG -1.081
gendstat: Abkhasian.DG Han.DG -1.247
gendstat: Abkhasian.DG Iranian.DG -1.250
gendstat: Abkhasian.DG Balochi.DG -1.176
gendstat: Abkhasian.DG Jew_Iraqi.DG -1.633
gendstat: Abkhasian.DG Jew_Yemenite.DG -0.820
gendstat: Abkhasian.DG Samaritan.DG -1.477
gendstat: Abkhasian.DG Aari.DG -0.734
gendstat: Abkhasian.DG Iraqw.DG -1.543
gendstat: Abkhasian.DG Mbuti.DG 0.032
gendstat: Abkhasian.DG Saharawi.DG -0.633
gendstat: Ulchi.DG Druze.DG 0.169
gendstat: Ulchi.DG Han.DG -0.179
gendstat: Ulchi.DG Iranian.DG -0.021
gendstat: Ulchi.DG Balochi.DG 0.063
gendstat: Ulchi.DG Jew_Iraqi.DG -0.348
gendstat: Ulchi.DG Jew_Yemenite.DG 0.397
gendstat: Ulchi.DG Samaritan.DG -0.426
gendstat: Ulchi.DG Aari.DG 0.235
gendstat: Ulchi.DG Iraqw.DG -0.504
gendstat: Ulchi.DG Mbuti.DG 0.944
gendstat: Ulchi.DG Saharawi.DG 0.515
gendstat: Druze.DG Han.DG -0.311
gendstat: Druze.DG Iranian.DG -0.226
gendstat: Druze.DG Balochi.DG -0.121
gendstat: Druze.DG Jew_Iraqi.DG -0.602
gendstat: Druze.DG Jew_Yemenite.DG 0.258
gendstat: Druze.DG Samaritan.DG -0.640
gendstat: Druze.DG Aari.DG 0.082
gendstat: Druze.DG Iraqw.DG -0.672
gendstat: Druze.DG Mbuti.DG 0.763
gendstat: Druze.DG Saharawi.DG 0.384
gendstat: Han.DG Iranian.DG 0.122
gendstat: Han.DG Balochi.DG 0.211
gendstat: Han.DG Jew_Iraqi.DG -0.221
gendstat: Han.DG Jew_Yemenite.DG 0.554
gendstat: Han.DG Samaritan.DG -0.310
gendstat: Han.DG Aari.DG 0.373
gendstat: Han.DG Iraqw.DG -0.394
gendstat: Han.DG Mbuti.DG 1.082
gendstat: Han.DG Saharawi.DG 0.651
gendstat: Iranian.DG Balochi.DG 0.095
gendstat: Iranian.DG Jew_Iraqi.DG -0.389
gendstat: Iranian.DG Jew_Yemenite.DG 0.491
gendstat: Iranian.DG Samaritan.DG -0.452
gendstat: Iranian.DG Aari.DG 0.252
gendstat: Iranian.DG Iraqw.DG -0.498
gendstat: Iranian.DG Mbuti.DG 0.943
gendstat: Iranian.DG Saharawi.DG 0.610
gendstat: Balochi.DG Jew_Iraqi.DG -0.460
gendstat: Balochi.DG Jew_Yemenite.DG 0.376
gendstat: Balochi.DG Samaritan.DG -0.528
gendstat: Balochi.DG Aari.DG 0.180
gendstat: Balochi.DG Iraqw.DG -0.582
gendstat: Balochi.DG Mbuti.DG 0.873
gendstat: Balochi.DG Saharawi.DG 0.489
gendstat: Jew_Iraqi.DG Jew_Yemenite.DG 0.889
gendstat: Jew_Iraqi.DG Samaritan.DG -0.134
gendstat: Jew_Iraqi.DG Aari.DG 0.514
gendstat: Jew_Iraqi.DG Iraqw.DG -0.168
gendstat: Jew_Iraqi.DG Mbuti.DG 1.129
gendstat: Jew_Iraqi.DG Saharawi.DG 0.987
gendstat: Jew_Yemenite.DG Samaritan.DG -0.863
gendstat: Jew_Yemenite.DG Aari.DG -0.111
gendstat: Jew_Yemenite.DG Iraqw.DG -0.897
gendstat: Jew_Yemenite.DG Mbuti.DG 0.576
gendstat: Jew_Yemenite.DG Saharawi.DG 0.134
gendstat: Samaritan.DG Aari.DG 0.577
gendstat: Samaritan.DG Iraqw.DG -0.034
gendstat: Samaritan.DG Mbuti.DG 1.123
gendstat: Samaritan.DG Saharawi.DG 0.942
gendstat: Aari.DG Iraqw.DG -0.915
gendstat: Aari.DG Mbuti.DG 1.043
gendstat: Aari.DG Saharawi.DG 0.232
gendstat: Iraqw.DG Mbuti.DG 1.796
gendstat: Iraqw.DG Saharawi.DG 1.143
gendstat: Mbuti.DG Saharawi.DG -0.531






left pops:
Rendille2.DG
Kenya_PastoralIA
Egyptian_SFI-43

right pops:
Biaka.DG
Khomani_San.DG
Mende.DG
Luo.DG
Sardinian.DG
Cretan.DG
Russian.DG
Karitiana.DG
Abkhasian.DG
Ulchi.DG
Druze.DG
Han.DG
Iranian.DG
Balochi.DG
Jew_Iraqi.DG
Jew_Yemenite.DG
Samaritan.DG
Aari.DG
Iraqw.DG
Mbuti.DG
Saharawi.DG

0 Rendille2.DG 1
1 Kenya_PastoralIA 4
2 Egyptian_SFI-43 1
3 Biaka.DG 2
4 Khomani_San.DG 2
5 Mende.DG 2
6 Luo.DG 2
7 Sardinian.DG 3
8 Cretan.DG 2
9 Russian.DG 2
10 Karitiana.DG 3
11 Abkhasian.DG 2
12 Ulchi.DG 2
13 Druze.DG 2
14 Han.DG 3
15 Iranian.DG 2
16 Balochi.DG 2
17 Jew_Iraqi.DG 2
18 Jew_Yemenite.DG 2
19 Samaritan.DG 1
20 Aari.DG 2
21 Iraqw.DG 2
22 Mbuti.DG 4
23 Saharawi.DG 2
jackknife block size: 0.050
snps: 1138625 indivs: 52
number of blocks for block jackknife: 714
## ncols: 1138625
coverage: Rendille2.DG 1120058
coverage: Kenya_PastoralIA 661264
coverage: Egyptian_SFI-43 473257
coverage: Biaka.DG 1121248
coverage: Khomani_San.DG 1121214
coverage: Mende.DG 1121272
coverage: Luo.DG 1121311
coverage: Sardinian.DG 1121428
coverage: Cretan.DG 1121014
coverage: Russian.DG 1121371
coverage: Karitiana.DG 1121384
coverage: Abkhasian.DG 1121318
coverage: Ulchi.DG 1121278
coverage: Druze.DG 1121288
coverage: Han.DG 1121405
coverage: Iranian.DG 1121381
coverage: Balochi.DG 1121259
coverage: Jew_Iraqi.DG 1121367
coverage: Jew_Yemenite.DG 1121336
coverage: Samaritan.DG 1115266
coverage: Aari.DG 1121299
coverage: Iraqw.DG 1121349
coverage: Mbuti.DG 1121427
coverage: Saharawi.DG 1121356
Effective number of blocks: 614.972
numsnps used: 331980
codimension 1
f4info:
f4rank: 1 dof: 19 chisq: 21.568 tail: 0.306269686 dofdiff: 21 chisqdiff: -21.568 taildiff: 1
B:
scale 1.000
Khomani_San.DG -0.029
Mende.DG -0.003
Luo.DG -0.011
Sardinian.DG 1.314
Cretan.DG 1.321
Russian.DG 1.274
Karitiana.DG 1.014
Abkhasian.DG 1.284
Ulchi.DG 0.966
Druze.DG 1.270
Han.DG 0.966
Iranian.DG 1.237
Balochi.DG 1.173
Jew_Iraqi.DG 1.271
Jew_Yemenite.DG 1.201
Samaritan.DG 1.265
Aari.DG 0.251
Iraqw.DG 0.355
Mbuti.DG -0.054
Saharawi.DG 0.995
A:
scale 101.074
Kenya_PastoralIA -0.244
Egyptian_SFI-43 1.393


full rank
f4info:
f4rank: 2 dof: 0 chisq: 0.000 tail: 1 dofdiff: 19 chisqdiff: 21.568 taildiff: 0.306269686
B:
scale 386.141 70.956
Khomani_San.DG -0.015 -0.007
Mende.DG 0.035 0.026
Luo.DG 0.007 0.021
Sardinian.DG -1.291 1.308
Cretan.DG -1.249 1.321
Russian.DG -1.160 1.285
Karitiana.DG -0.822 1.047
Abkhasian.DG -1.177 1.292
Ulchi.DG -0.941 0.977
Druze.DG -1.384 1.252
Han.DG -1.039 0.961
Iranian.DG -1.305 1.221
Balochi.DG -1.110 1.177
Jew_Iraqi.DG -1.279 1.264
Jew_Yemenite.DG -1.268 1.196
Samaritan.DG -1.398 1.255
Aari.DG -0.334 0.270
Iraqw.DG -0.577 0.353
Mbuti.DG 0.045 -0.023
Saharawi.DG -0.952 1.003
A:
scale 1.414 1.414
Kenya_PastoralIA 1.414 0.000
Egyptian_SFI-43 0.000 1.414


best coefficients: 0.851 0.149
Jackknife mean: 0.850778039 0.149221961
std. errors: 0.017 0.017

error covariance (* 1,000,000)
295 -295
-295 295


summ: Rendille2.DG 2 0.306270 0.851 0.149 295 -295 295

fixed pat wt dof chisq tail prob
00 0 19 21.568 0.30627 0.851 0.149
01 1 20 89.802 8.02638e-11 1.000 0.000
10 1 20 1858.013 0 0.000 1.000
best pat: 00 0.30627 - -
best pat: 01 8.02638e-11 chi(nested): 68.234 p-value for nested model: 1.45182e-16

coeffs: 0.851 0.149

## dscore:: f_4(Base, Fit, Rbase, right2)
## genstat:: f_4(Base, Fit, right1, right2)

details: Kenya_PastoralIA Khomani_San.DG -0.000038 -0.130069
details: Egyptian_SFI-43 Khomani_San.DG -0.000103 -0.303021
dscore: Khomani_San.DG f4: -0.000048 Z: -0.175621

details: Kenya_PastoralIA Mende.DG 0.000091 0.294709
details: Egyptian_SFI-43 Mende.DG 0.000373 1.165355
dscore: Mende.DG f4: 0.000133 Z: 0.466013

details: Kenya_PastoralIA Luo.DG 0.000019 0.059745
details: Egyptian_SFI-43 Luo.DG 0.000297 0.868170
dscore: Luo.DG f4: 0.000060 Z: 0.204036

details: Kenya_PastoralIA Sardinian.DG -0.003342 -6.939094
details: Egyptian_SFI-43 Sardinian.DG 0.018430 34.193106
dscore: Sardinian.DG f4: -0.000101 Z: -0.221872

details: Kenya_PastoralIA Cretan.DG -0.003233 -6.727803
details: Egyptian_SFI-43 Cretan.DG 0.018621 34.019563
dscore: Cretan.DG f4: 0.000021 Z: 0.045339

details: Kenya_PastoralIA Russian.DG -0.003004 -6.173202
details: Egyptian_SFI-43 Russian.DG 0.018107 33.005254
dscore: Russian.DG f4: 0.000139 Z: 0.304425

details: Kenya_PastoralIA Karitiana.DG -0.002129 -4.363364
details: Egyptian_SFI-43 Karitiana.DG 0.014749 26.637370
dscore: Karitiana.DG f4: 0.000384 Z: 0.841955

details: Kenya_PastoralIA Abkhasian.DG -0.003049 -6.371773
details: Egyptian_SFI-43 Abkhasian.DG 0.018207 34.845206
dscore: Abkhasian.DG f4: 0.000116 Z: 0.259526

details: Kenya_PastoralIA Ulchi.DG -0.002437 -5.166277
details: Egyptian_SFI-43 Ulchi.DG 0.013765 26.404436
dscore: Ulchi.DG f4: -0.000025 Z: -0.055626

details: Kenya_PastoralIA Druze.DG -0.003584 -7.239644
details: Egyptian_SFI-43 Druze.DG 0.017638 32.091462
dscore: Druze.DG f4: -0.000424 Z: -0.910070

details: Kenya_PastoralIA Han.DG -0.002692 -6.025142
details: Egyptian_SFI-43 Han.DG 0.013540 27.052123
dscore: Han.DG f4: -0.000275 Z: -0.658363

details: Kenya_PastoralIA Iranian.DG -0.003381 -7.060123
details: Egyptian_SFI-43 Iranian.DG 0.017212 32.307101
dscore: Iranian.DG f4: -0.000315 Z: -0.700665

details: Kenya_PastoralIA Balochi.DG -0.002874 -6.139558
details: Egyptian_SFI-43 Balochi.DG 0.016590 31.851121
dscore: Balochi.DG f4: 0.000024 Z: 0.053957

details: Kenya_PastoralIA Jew_Iraqi.DG -0.003311 -6.678145
details: Egyptian_SFI-43 Jew_Iraqi.DG 0.017812 32.590011
dscore: Jew_Iraqi.DG f4: -0.000166 Z: -0.354760

details: Kenya_PastoralIA Jew_Yemenite.DG -0.003283 -6.727759
details: Egyptian_SFI-43 Jew_Yemenite.DG 0.016851 32.898482
dscore: Jew_Yemenite.DG f4: -0.000285 Z: -0.629207

details: Kenya_PastoralIA Samaritan.DG -0.003621 -6.246048
details: Egyptian_SFI-43 Samaritan.DG 0.017685 27.533436
dscore: Samaritan.DG f4: -0.000448 Z: -0.827526

details: Kenya_PastoralIA Aari.DG -0.000866 -2.573071
details: Egyptian_SFI-43 Aari.DG 0.003807 10.459660
dscore: Aari.DG f4: -0.000170 Z: -0.545895

details: Kenya_PastoralIA Iraqw.DG -0.001493 -4.106083
details: Egyptian_SFI-43 Iraqw.DG 0.004980 12.180809
dscore: Iraqw.DG f4: -0.000529 Z: -1.554851

details: Kenya_PastoralIA Mbuti.DG 0.000117 0.440473
details: Egyptian_SFI-43 Mbuti.DG -0.000328 -1.174801
dscore: Mbuti.DG f4: 0.000051 Z: 0.206557

details: Kenya_PastoralIA Saharawi.DG -0.002465 -5.538360
details: Egyptian_SFI-43 Saharawi.DG 0.014141 28.459852
dscore: Saharawi.DG f4: 0.000008 Z: 0.018250

gendstat: Biaka.DG Khomani_San.DG -0.176
gendstat: Biaka.DG Mende.DG 0.466
gendstat: Biaka.DG Luo.DG 0.204
gendstat: Biaka.DG Sardinian.DG -0.222
gendstat: Biaka.DG Cretan.DG 0.045
gendstat: Biaka.DG Russian.DG 0.304
gendstat: Biaka.DG Karitiana.DG 0.842
gendstat: Biaka.DG Abkhasian.DG 0.260
gendstat: Biaka.DG Ulchi.DG -0.056
gendstat: Biaka.DG Druze.DG -0.910
gendstat: Biaka.DG Han.DG -0.658
gendstat: Biaka.DG Iranian.DG -0.701
gendstat: Biaka.DG Balochi.DG 0.054
gendstat: Biaka.DG Jew_Iraqi.DG -0.355
gendstat: Biaka.DG Jew_Yemenite.DG -0.629
gendstat: Biaka.DG Samaritan.DG -0.828
gendstat: Biaka.DG Aari.DG -0.546
gendstat: Biaka.DG Iraqw.DG -1.555
gendstat: Biaka.DG Mbuti.DG 0.207
gendstat: Biaka.DG Saharawi.DG 0.018
gendstat: Khomani_San.DG Mende.DG 0.585
gendstat: Khomani_San.DG Luo.DG 0.339
gendstat: Khomani_San.DG Sardinian.DG -0.114
gendstat: Khomani_San.DG Cretan.DG 0.146
gendstat: Khomani_San.DG Russian.DG 0.392
gendstat: Khomani_San.DG Karitiana.DG 0.914
gendstat: Khomani_San.DG Abkhasian.DG 0.357
gendstat: Khomani_San.DG Ulchi.DG 0.051
gendstat: Khomani_San.DG Druze.DG -0.787
gendstat: Khomani_San.DG Han.DG -0.517
gendstat: Khomani_San.DG Iranian.DG -0.568
gendstat: Khomani_San.DG Balochi.DG 0.157
gendstat: Khomani_San.DG Jew_Iraqi.DG -0.244
gendstat: Khomani_San.DG Jew_Yemenite.DG -0.508
gendstat: Khomani_San.DG Samaritan.DG -0.729
gendstat: Khomani_San.DG Aari.DG -0.375
gendstat: Khomani_San.DG Iraqw.DG -1.409
gendstat: Khomani_San.DG Mbuti.DG 0.387
gendstat: Khomani_San.DG Saharawi.DG 0.127
gendstat: Mende.DG Luo.DG -0.265
gendstat: Mende.DG Sardinian.DG -0.521
gendstat: Mende.DG Cretan.DG -0.250
gendstat: Mende.DG Russian.DG 0.014
gendstat: Mende.DG Karitiana.DG 0.554
gendstat: Mende.DG Abkhasian.DG -0.039
gendstat: Mende.DG Ulchi.DG -0.365
gendstat: Mende.DG Druze.DG -1.214
gendstat: Mende.DG Han.DG -0.989
gendstat: Mende.DG Iranian.DG -1.011
gendstat: Mende.DG Balochi.DG -0.249
gendstat: Mende.DG Jew_Iraqi.DG -0.647
gendstat: Mende.DG Jew_Yemenite.DG -0.942
gendstat: Mende.DG Samaritan.DG -1.074
gendstat: Mende.DG Aari.DG -0.968
gendstat: Mende.DG Iraqw.DG -2.030
gendstat: Mende.DG Mbuti.DG -0.311
gendstat: Mende.DG Saharawi.DG -0.300
gendstat: Luo.DG Sardinian.DG -0.360
gendstat: Luo.DG Cretan.DG -0.091
gendstat: Luo.DG Russian.DG 0.176
gendstat: Luo.DG Karitiana.DG 0.716
gendstat: Luo.DG Abkhasian.DG 0.128
gendstat: Luo.DG Ulchi.DG -0.200
gendstat: Luo.DG Druze.DG -1.060
gendstat: Luo.DG Han.DG -0.841
gendstat: Luo.DG Iranian.DG -0.851
gendstat: Luo.DG Balochi.DG -0.085
gendstat: Luo.DG Jew_Iraqi.DG -0.488
gendstat: Luo.DG Jew_Yemenite.DG -0.774
gendstat: Luo.DG Samaritan.DG -0.955
gendstat: Luo.DG Aari.DG -0.751
gendstat: Luo.DG Iraqw.DG -1.823
gendstat: Luo.DG Mbuti.DG -0.034
gendstat: Luo.DG Saharawi.DG -0.127
gendstat: Sardinian.DG Cretan.DG 0.455
gendstat: Sardinian.DG Russian.DG 0.879
gendstat: Sardinian.DG Karitiana.DG 1.357
gendstat: Sardinian.DG Abkhasian.DG 0.777
gendstat: Sardinian.DG Ulchi.DG 0.227
gendstat: Sardinian.DG Druze.DG -1.172
gendstat: Sardinian.DG Han.DG -0.539
gendstat: Sardinian.DG Iranian.DG -0.722
gendstat: Sardinian.DG Balochi.DG 0.416
gendstat: Sardinian.DG Jew_Iraqi.DG -0.220
gendstat: Sardinian.DG Jew_Yemenite.DG -0.649
gendstat: Sardinian.DG Samaritan.DG -0.902
gendstat: Sardinian.DG Aari.DG -0.176
gendstat: Sardinian.DG Iraqw.DG -1.105
gendstat: Sardinian.DG Mbuti.DG 0.342
gendstat: Sardinian.DG Saharawi.DG 0.349
gendstat: Cretan.DG Russian.DG 0.406
gendstat: Cretan.DG Karitiana.DG 1.016
gendstat: Cretan.DG Abkhasian.DG 0.330
gendstat: Cretan.DG Ulchi.DG -0.129
gendstat: Cretan.DG Druze.DG -1.433
gendstat: Cretan.DG Han.DG -0.915
gendstat: Cretan.DG Iranian.DG -1.081
gendstat: Cretan.DG Balochi.DG 0.010
gendstat: Cretan.DG Jew_Iraqi.DG -0.593
gendstat: Cretan.DG Jew_Yemenite.DG -0.994
gendstat: Cretan.DG Samaritan.DG -1.166
gendstat: Cretan.DG Aari.DG -0.481
gendstat: Cretan.DG Iraqw.DG -1.379
gendstat: Cretan.DG Mbuti.DG 0.068
gendstat: Cretan.DG Saharawi.DG -0.039
gendstat: Russian.DG Karitiana.DG 0.692
gendstat: Russian.DG Abkhasian.DG -0.081
gendstat: Russian.DG Ulchi.DG -0.470
gendstat: Russian.DG Druze.DG -1.853
gendstat: Russian.DG Han.DG -1.221
gendstat: Russian.DG Iranian.DG -1.520
gendstat: Russian.DG Balochi.DG -0.373
gendstat: Russian.DG Jew_Iraqi.DG -1.025
gendstat: Russian.DG Jew_Yemenite.DG -1.389
gendstat: Russian.DG Samaritan.DG -1.497
gendstat: Russian.DG Aari.DG -0.781
gendstat: Russian.DG Iraqw.DG -1.710
gendstat: Russian.DG Mbuti.DG -0.200
gendstat: Russian.DG Saharawi.DG -0.403
gendstat: Karitiana.DG Abkhasian.DG -0.774
gendstat: Karitiana.DG Ulchi.DG -1.209
gendstat: Karitiana.DG Druze.DG -2.134
gendstat: Karitiana.DG Han.DG -2.060
gendstat: Karitiana.DG Iranian.DG -1.938
gendstat: Karitiana.DG Balochi.DG -1.005
gendstat: Karitiana.DG Jew_Iraqi.DG -1.467
gendstat: Karitiana.DG Jew_Yemenite.DG -1.792
gendstat: Karitiana.DG Samaritan.DG -1.827
gendstat: Karitiana.DG Aari.DG -1.382
gendstat: Karitiana.DG Iraqw.DG -2.178
gendstat: Karitiana.DG Mbuti.DG -0.744
gendstat: Karitiana.DG Saharawi.DG -0.967
gendstat: Abkhasian.DG Ulchi.DG -0.412
gendstat: Abkhasian.DG Druze.DG -1.796
gendstat: Abkhasian.DG Han.DG -1.202
gendstat: Abkhasian.DG Iranian.DG -1.473
gendstat: Abkhasian.DG Balochi.DG -0.304
gendstat: Abkhasian.DG Jew_Iraqi.DG -0.936
gendstat: Abkhasian.DG Jew_Yemenite.DG -1.353
gendstat: Abkhasian.DG Samaritan.DG -1.418
gendstat: Abkhasian.DG Aari.DG -0.732
gendstat: Abkhasian.DG Iraqw.DG -1.703
gendstat: Abkhasian.DG Mbuti.DG -0.151
gendstat: Abkhasian.DG Saharawi.DG -0.329
gendstat: Ulchi.DG Druze.DG -1.116
gendstat: Ulchi.DG Han.DG -0.925
gendstat: Ulchi.DG Iranian.DG -0.814
gendstat: Ulchi.DG Balochi.DG 0.142
gendstat: Ulchi.DG Jew_Iraqi.DG -0.397
gendstat: Ulchi.DG Jew_Yemenite.DG -0.731
gendstat: Ulchi.DG Samaritan.DG -0.927
gendstat: Ulchi.DG Aari.DG -0.372
gendstat: Ulchi.DG Iraqw.DG -1.256
gendstat: Ulchi.DG Mbuti.DG 0.176
gendstat: Ulchi.DG Saharawi.DG 0.087
gendstat: Druze.DG Han.DG 0.421
gendstat: Druze.DG Iranian.DG 0.346
gendstat: Druze.DG Balochi.DG 1.348
gendstat: Druze.DG Jew_Iraqi.DG 0.822
gendstat: Druze.DG Jew_Yemenite.DG 0.453
gendstat: Druze.DG Samaritan.DG -0.060
gendstat: Druze.DG Aari.DG 0.619
gendstat: Druze.DG Iraqw.DG -0.260
gendstat: Druze.DG Mbuti.DG 1.037
gendstat: Druze.DG Saharawi.DG 1.285
gendstat: Han.DG Iranian.DG -0.120
gendstat: Han.DG Balochi.DG 0.931
gendstat: Han.DG Jew_Iraqi.DG 0.319
gendstat: Han.DG Jew_Yemenite.DG -0.031
gendstat: Han.DG Samaritan.DG -0.401
gendstat: Han.DG Aari.DG 0.285
gendstat: Han.DG Iraqw.DG -0.663
gendstat: Han.DG Mbuti.DG 0.804
gendstat: Han.DG Saharawi.DG 0.795
gendstat: Iranian.DG Balochi.DG 1.120
gendstat: Iranian.DG Jew_Iraqi.DG 0.484
gendstat: Iranian.DG Jew_Yemenite.DG 0.097
gendstat: Iranian.DG Samaritan.DG -0.336
gendstat: Iranian.DG Aari.DG 0.353
gendstat: Iranian.DG Iraqw.DG -0.536
gendstat: Iranian.DG Mbuti.DG 0.834
gendstat: Iranian.DG Saharawi.DG 1.039
gendstat: Balochi.DG Jew_Iraqi.DG -0.606
gendstat: Balochi.DG Jew_Yemenite.DG -0.968
gendstat: Balochi.DG Samaritan.DG -1.160
gendstat: Balochi.DG Aari.DG -0.492
gendstat: Balochi.DG Iraqw.DG -1.416
gendstat: Balochi.DG Mbuti.DG 0.065
gendstat: Balochi.DG Saharawi.DG -0.049
gendstat: Jew_Iraqi.DG Jew_Yemenite.DG -0.391
gendstat: Jew_Iraqi.DG Samaritan.DG -0.696
gendstat: Jew_Iraqi.DG Aari.DG -0.010
gendstat: Jew_Iraqi.DG Iraqw.DG -0.895
gendstat: Jew_Iraqi.DG Mbuti.DG 0.469
gendstat: Jew_Iraqi.DG Saharawi.DG 0.511
gendstat: Jew_Yemenite.DG Samaritan.DG -0.403
gendstat: Jew_Yemenite.DG Aari.DG 0.290
gendstat: Jew_Yemenite.DG Iraqw.DG -0.632
gendstat: Jew_Yemenite.DG Mbuti.DG 0.761
gendstat: Jew_Yemenite.DG Saharawi.DG 0.905
gendstat: Samaritan.DG Aari.DG 0.580
gendstat: Samaritan.DG Iraqw.DG -0.169
gendstat: Samaritan.DG Mbuti.DG 0.943
gendstat: Samaritan.DG Saharawi.DG 1.096
gendstat: Aari.DG Iraqw.DG -1.140
gendstat: Aari.DG Mbuti.DG 0.750
gendstat: Aari.DG Saharawi.DG 0.479
gendstat: Iraqw.DG Mbuti.DG 1.837
gendstat: Iraqw.DG Saharawi.DG 1.449
gendstat: Mbuti.DG Saharawi.DG -0.105

drobbah
10-30-2021, 06:14 PM
Does that mean we also have Anatolian Barcin ancestry?

Aben Aboo
10-30-2021, 06:39 PM
Does that mean we also have Anatolian Barcin ancestry?

If it's the case, marhâban:biggrin1:

Mnemonics
10-31-2021, 12:25 AM
Does that mean we also have Anatolian Barcin ancestry?

I would assume that some is embedded in the Levant_BA related admixture in Somalis, but overall we have less Anatolia related admixture than is present in Kenya_PastoralN due to the extra Iran_N related ancestry. We also show more direct Iberomaurusian related ancestry despite having less overall due to the decline in Natufian.


I suspect we might eventually find some AEA + Iberomaurusian populations somewhere near Sudan that could explain that extra Iberomaurusian.

drobbah
10-31-2021, 06:42 PM
I ran a bunch of Horners and the Yemenite Jew average using the Egyptian + IA Kenyan sample and Cushitic can be modelled as a mix between the two except the Omotic Wolayta and the Ari samples.

Horner Ethio-Semites and Cushitic speakers



Target: Ethiopian_Tigray
Distance: 3.5696% / 0.03569634 | ADC: 0.25x RC
56.6 KEN_Pastoral_IA
43.4 Levant_Beirut_IAIII_Egyptian:SFI-43

Target: Ethiopian_Amhara
Distance: 3.6157% / 0.03615692 | ADC: 0.25x RC
59.0 KEN_Pastoral_IA
41.0 Levant_Beirut_IAIII_Egyptian:SFI-43

Target: Borana_Oromo:OROMO16
Distance: 3.4584% / 0.03458431 | ADC: 0.25x RC
78.2 KEN_Pastoral_IA
18.0 Levant_Beirut_IAIII_Egyptian:SFI-43
2.0 BGR_Bacho_Kiro_MUP
1.8 RUS_Ust_Ishim

Target: Drobbah_FTDNA_scaled
Distance: 3.7267% / 0.03726741 | ADC: 0.25x RC
76.2 KEN_Pastoral_IA
23.8 Levant_Beirut_IAIII_Egyptian:SFI-43



Iraqw,Wolayta & Ari


Target: Ethiopian_Ari
Distance: 3.2699% / 0.03269921 | ADC: 0.25x RC
49.8 KEN_Pastoral_IA
39.2 ETH_4500BP
6.8 Levant_JOR_EBA
3.6 ZAF_1200BP
0.6 CHN_Baojianshan_7300BP

Target: Iraqw
Distance: 2.4485% / 0.02448462 | ADC: 0.25x RC
75.6 KEN_Pastoral_IA
10.0 KEN_LSA
7.6 Levant_JOR_EBA
6.8 Levant_Beirut_IAIII_Egyptian:SFI-43


Target: Ethiopian_Wolayta
Distance: 3.2921% / 0.03292060 | ADC: 0.25x RC
79.4 KEN_Pastoral_IA
17.2 Levant_JOR_EBA
3.4 Levant_Beirut_IAIII_Egyptian:SFI-43



The Yemenite Jew and Egyptian in comparison


Target: Egyptian
Distance: 1.4564% / 0.01456360 | ADC: 0.25x RC
79.4 Levant_Beirut_IAIII_Egyptian
7.6 KEN_Kakapel_300BP
6.2 UZB_Sappali_Tepe_BA_o
3.6 Levant_Beirut_Hellenistic
3.2 KEN_Pastoral_IA

Target: Yemenite_Jew
Distance: 4.0542% / 0.04054230 | ADC: 0.25x RC
74.8 Levant_JOR_EBA
22.0 Levant_Beirut_IAIII_Egyptian:SFI-43
3.2 KEN_Pastoral_IA

Mnemonics
11-01-2021, 10:47 PM
Models with ancients




left pops:
Rendille1.DG
Kenya_PastoralIA
Egyptian_SFI-43

right pops:
South_Africa_2000BP
Cameroon_SMA.SG
Mota
Bahamas_SouthAndros_Ceramic.SG
Greece_Koufonisi_Cycladic_EBA.SG
Anatolia_N.SG
CHG
Iran_TepeAbdulHosein_N.SG
Lebanon_MBA.SG
Yana_UP
Swiss_HG
Rome_Imperial
DevilsGate_N
Guanche
Kenya_PastoralN

0 Rendille1.DG 1
1 Kenya_PastoralIA 4
2 Egyptian_SFI-43 1
3 South_Africa_2000BP 4
4 Cameroon_SMA.SG 2
5 Mota 1
6 Bahamas_SouthAndros_Ceramic.SG 4
7 Greece_Koufonisi_Cycladic_EBA.SG 2
8 Anatolia_N.SG 5
9 CHG 2
10 Iran_TepeAbdulHosein_N.SG 3
11 Lebanon_MBA.SG 5
12 Yana_UP 2
13 Swiss_HG 1
14 Rome_Imperial 43
15 DevilsGate_N 4
16 Guanche 4
17 Kenya_PastoralN 5
jackknife block size: 0.050
snps: 1150436 indivs: 93
number of blocks for block jackknife: 714
## ncols: 1150436
coverage: Rendille1.DG 1120318
coverage: Kenya_PastoralIA 661264
coverage: Egyptian_SFI-43 473257
coverage: South_Africa_2000BP 1135129
coverage: Cameroon_SMA.SG 1148760
coverage: Mota 1134612
coverage: Bahamas_SouthAndros_Ceramic.SG 1150077
coverage: Greece_Koufonisi_Cycladic_EBA.SG 1139387
coverage: Anatolia_N.SG 1056084
coverage: CHG 1134595
coverage: Iran_TepeAbdulHosein_N.SG 1061032
coverage: Lebanon_MBA.SG 1138714
coverage: Yana_UP 1135189
coverage: Swiss_HG 1130733
coverage: Rome_Imperial 1128057
coverage: DevilsGate_N 1134715
coverage: Guanche 1140173
coverage: Kenya_PastoralN 1029040
Effective number of blocks: 624.915
numsnps used: 325334
codimension 1
f4info:
f4rank: 1 dof: 13 chisq: 7.694 tail: 0.862964688 dofdiff: 15 chisqdiff: -7.694 taildiff: 1
B:
scale 1.000
Cameroon_SMA.SG 0.036
Mota 0.123
Bahamas_SouthAndros_Ceramic.SG 0.979
Greece_Koufonisi_Cycladic_EBA.SG 1.267
Anatolia_N.SG 1.252
CHG 1.125
Iran_TepeAbdulHosein_N.SG 1.114
Lebanon_MBA.SG 1.246
Yana_UP 0.984
Swiss_HG 1.120
Rome_Imperial 1.229
DevilsGate_N 0.899
Guanche 1.012
Kenya_PastoralN 0.476
A:
scale 100.597
Kenya_PastoralIA -0.296
Egyptian_SFI-43 1.383


full rank
f4info:
f4rank: 2 dof: 0 chisq: 0.000 tail: 1 dofdiff: 13 chisqdiff: 7.694 taildiff: 0.862964688
B:
scale 344.074 71.561
Cameroon_SMA.SG -0.037 0.052
Mota -0.076 0.141
Bahamas_SouthAndros_Ceramic.SG -0.910 0.991
Greece_Koufonisi_Cycladic_EBA.SG -1.194 1.274
Anatolia_N.SG -1.185 1.254
CHG -1.147 1.125
Iran_TepeAbdulHosein_N.SG -1.106 1.112
Lebanon_MBA.SG -1.219 1.242
Yana_UP -1.052 0.978
Swiss_HG -1.196 1.113
Rome_Imperial -1.271 1.218
DevilsGate_N -0.822 0.917
Guanche -1.108 1.002
Kenya_PastoralN -0.506 0.478
A:
scale 1.414 1.414
Kenya_PastoralIA 1.414 0.000
Egyptian_SFI-43 0.000 1.414


best coefficients: 0.824 0.176
Jackknife mean: 0.823676206 0.176323794
std. errors: 0.018 0.018

error covariance (* 1,000,000)
317 -317
-317 317


summ: Rendille1.DG 2 0.862965 0.824 0.176 317 -317 317

fixed pat wt dof chisq tail prob
00 0 13 7.694 0.862965 0.824 0.176
01 1 14 90.794 2.68622e-13 1.000 0.000
10 1 14 1768.354 0 0.000 1.000
best pat: 00 0.862965 - -
best pat: 01 2.68622e-13 chi(nested): 83.100 p-value for nested model: 7.7995e-20

coeffs: 0.824 0.176

## dscore:: f_4(Base, Fit, Rbase, right2)
## genstat:: f_4(Base, Fit, right1, right2)

details: Kenya_PastoralIA Cameroon_SMA.SG -0.000106 -0.317779
details: Egyptian_SFI-43 Cameroon_SMA.SG 0.000732 2.158235
dscore: Cameroon_SMA.SG f4: 0.000041 Z: 0.137233

details: Kenya_PastoralIA Mota -0.000222 -0.518609
details: Egyptian_SFI-43 Mota 0.001977 4.458237
dscore: Mota f4: 0.000166 Z: 0.425714

details: Kenya_PastoralIA Bahamas_SouthAndros_Ceramic.SG -0.002645 -5.278648
details: Egyptian_SFI-43 Bahamas_SouthAndros_Ceramic.SG 0.013848 26.759780
dscore: Bahamas_SouthAndros_Ceramic.SG f4: 0.000263 Z: 0.573900

details: Kenya_PastoralIA Greece_Koufonisi_Cycladic_EBA.SG -0.003469 -6.712802
details: Egyptian_SFI-43 Greece_Koufonisi_Cycladic_EBA.SG 0.017807 31.841489
dscore: Greece_Koufonisi_Cycladic_EBA.SG f4: 0.000283 Z: 0.590076

details: Kenya_PastoralIA Anatolia_N.SG -0.003443 -6.794481
details: Egyptian_SFI-43 Anatolia_N.SG 0.017528 33.226337
dscore: Anatolia_N.SG f4: 0.000255 Z: 0.542653

details: Kenya_PastoralIA CHG -0.003333 -6.430881
details: Egyptian_SFI-43 CHG 0.015718 29.911738
dscore: CHG f4: 0.000026 Z: 0.055466

details: Kenya_PastoralIA Iran_TepeAbdulHosein_N.SG -0.003213 -6.421604
details: Egyptian_SFI-43 Iran_TepeAbdulHosein_N.SG 0.015542 30.789361
dscore: Iran_TepeAbdulHosein_N.SG f4: 0.000094 Z: 0.203729

details: Kenya_PastoralIA Lebanon_MBA.SG -0.003542 -7.409509
details: Egyptian_SFI-43 Lebanon_MBA.SG 0.017358 35.838663
dscore: Lebanon_MBA.SG f4: 0.000143 Z: 0.327609

details: Kenya_PastoralIA Yana_UP -0.003058 -6.173713
details: Egyptian_SFI-43 Yana_UP 0.013674 26.439844
dscore: Yana_UP f4: -0.000108 Z: -0.239113

details: Kenya_PastoralIA Swiss_HG -0.003477 -6.077756
details: Egyptian_SFI-43 Swiss_HG 0.015556 24.915895
dscore: Swiss_HG f4: -0.000121 Z: -0.229997

details: Kenya_PastoralIA Rome_Imperial -0.003695 -8.158664
details: Egyptian_SFI-43 Rome_Imperial 0.017026 37.062759
dscore: Rome_Imperial f4: -0.000041 Z: -0.098353

details: Kenya_PastoralIA DevilsGate_N -0.002389 -4.927237
details: Egyptian_SFI-43 DevilsGate_N 0.012809 25.405223
dscore: DevilsGate_N f4: 0.000291 Z: 0.657735

details: Kenya_PastoralIA Guanche -0.003219 -6.558041
details: Egyptian_SFI-43 Guanche 0.013997 26.470604
dscore: Guanche f4: -0.000184 Z: -0.406536

details: Kenya_PastoralIA Kenya_PastoralN -0.001472 -3.840206
details: Egyptian_SFI-43 Kenya_PastoralN 0.006679 17.375371
dscore: Kenya_PastoralN f4: -0.000034 Z: -0.098125

gendstat: South_Africa_2000BP Cameroon_SMA.SG 0.137
gendstat: South_Africa_2000BP Mota 0.426
gendstat: South_Africa_2000BP Bahamas_SouthAndros_Ceramic.SG 0.574
gendstat: South_Africa_2000BP Greece_Koufonisi_Cycladic_EBA.SG 0.590
gendstat: South_Africa_2000BP Anatolia_N.SG 0.543
gendstat: South_Africa_2000BP CHG 0.055
gendstat: South_Africa_2000BP Iran_TepeAbdulHosein_N.SG 0.204
gendstat: South_Africa_2000BP Lebanon_MBA.SG 0.328
gendstat: South_Africa_2000BP Yana_UP -0.239
gendstat: South_Africa_2000BP Swiss_HG -0.230
gendstat: South_Africa_2000BP Rome_Imperial -0.098
gendstat: South_Africa_2000BP DevilsGate_N 0.658
gendstat: South_Africa_2000BP Guanche -0.407
gendstat: South_Africa_2000BP Kenya_PastoralN -0.098
gendstat: Cameroon_SMA.SG Mota 0.305
gendstat: Cameroon_SMA.SG Bahamas_SouthAndros_Ceramic.SG 0.484
gendstat: Cameroon_SMA.SG Greece_Koufonisi_Cycladic_EBA.SG 0.504
gendstat: Cameroon_SMA.SG Anatolia_N.SG 0.452
gendstat: Cameroon_SMA.SG CHG -0.032
gendstat: Cameroon_SMA.SG Iran_TepeAbdulHosein_N.SG 0.112
gendstat: Cameroon_SMA.SG Lebanon_MBA.SG 0.231
gendstat: Cameroon_SMA.SG Yana_UP -0.331
gendstat: Cameroon_SMA.SG Swiss_HG -0.309
gendstat: Cameroon_SMA.SG Rome_Imperial -0.198
gendstat: Cameroon_SMA.SG DevilsGate_N 0.568
gendstat: Cameroon_SMA.SG Guanche -0.512
gendstat: Cameroon_SMA.SG Kenya_PastoralN -0.215
gendstat: Mota Bahamas_SouthAndros_Ceramic.SG 0.195
gendstat: Mota Greece_Koufonisi_Cycladic_EBA.SG 0.228
gendstat: Mota Anatolia_N.SG 0.174
gendstat: Mota CHG -0.276
gendstat: Mota Iran_TepeAbdulHosein_N.SG -0.145
gendstat: Mota Lebanon_MBA.SG -0.048
gendstat: Mota Yana_UP -0.579
gendstat: Mota Swiss_HG -0.519
gendstat: Mota Rome_Imperial -0.456
gendstat: Mota DevilsGate_N 0.264
gendstat: Mota Guanche -0.713
gendstat: Mota Kenya_PastoralN -0.493
gendstat: Bahamas_SouthAndros_Ceramic.SG Greece_Koufonisi_Cycladic_EBA.SG 0.052
gendstat: Bahamas_SouthAndros_Ceramic.SG Anatolia_N.SG -0.023
gendstat: Bahamas_SouthAndros_Ceramic.SG CHG -0.616
gendstat: Bahamas_SouthAndros_Ceramic.SG Iran_TepeAbdulHosein_N.SG -0.462
gendstat: Bahamas_SouthAndros_Ceramic.SG Lebanon_MBA.SG -0.354
gendstat: Bahamas_SouthAndros_Ceramic.SG Yana_UP -1.071
gendstat: Bahamas_SouthAndros_Ceramic.SG Swiss_HG -0.862
gendstat: Bahamas_SouthAndros_Ceramic.SG Rome_Imperial -1.016
gendstat: Bahamas_SouthAndros_Ceramic.SG DevilsGate_N 0.088
gendstat: Bahamas_SouthAndros_Ceramic.SG Guanche -1.131
gendstat: Bahamas_SouthAndros_Ceramic.SG Kenya_PastoralN -0.809
gendstat: Greece_Koufonisi_Cycladic_EBA.SG Anatolia_N.SG -0.089
gendstat: Greece_Koufonisi_Cycladic_EBA.SG CHG -0.732
gendstat: Greece_Koufonisi_Cycladic_EBA.SG Iran_TepeAbdulHosein_N.SG -0.524
gendstat: Greece_Koufonisi_Cycladic_EBA.SG Lebanon_MBA.SG -0.461
gendstat: Greece_Koufonisi_Cycladic_EBA.SG Yana_UP -1.082
gendstat: Greece_Koufonisi_Cycladic_EBA.SG Swiss_HG -0.950
gendstat: Greece_Koufonisi_Cycladic_EBA.SG Rome_Imperial -1.321
gendstat: Greece_Koufonisi_Cycladic_EBA.SG DevilsGate_N 0.022
gendstat: Greece_Koufonisi_Cycladic_EBA.SG Guanche -1.238
gendstat: Greece_Koufonisi_Cycladic_EBA.SG Kenya_PastoralN -0.874
gendstat: Anatolia_N.SG CHG -0.655
gendstat: Anatolia_N.SG Iran_TepeAbdulHosein_N.SG -0.455
gendstat: Anatolia_N.SG Lebanon_MBA.SG -0.391
gendstat: Anatolia_N.SG Yana_UP -1.005
gendstat: Anatolia_N.SG Swiss_HG -0.944
gendstat: Anatolia_N.SG Rome_Imperial -1.309
gendstat: Anatolia_N.SG DevilsGate_N 0.099
gendstat: Anatolia_N.SG Guanche -1.265
gendstat: Anatolia_N.SG Kenya_PastoralN -0.793
gendstat: CHG Iran_TepeAbdulHosein_N.SG 0.195
gendstat: CHG Lebanon_MBA.SG 0.360
gendstat: CHG Yana_UP -0.352
gendstat: CHG Swiss_HG -0.337
gendstat: CHG Rome_Imperial -0.244
gendstat: CHG DevilsGate_N 0.667
gendstat: CHG Guanche -0.534
gendstat: CHG Kenya_PastoralN -0.160
gendstat: Iran_TepeAbdulHosein_N.SG Lebanon_MBA.SG 0.156
gendstat: Iran_TepeAbdulHosein_N.SG Yana_UP -0.560
gendstat: Iran_TepeAbdulHosein_N.SG Swiss_HG -0.505
gendstat: Iran_TepeAbdulHosein_N.SG Rome_Imperial -0.510
gendstat: Iran_TepeAbdulHosein_N.SG DevilsGate_N 0.543
gendstat: Iran_TepeAbdulHosein_N.SG Guanche -0.728
gendstat: Iran_TepeAbdulHosein_N.SG Kenya_PastoralN -0.345
gendstat: Lebanon_MBA.SG Yana_UP -0.756
gendstat: Lebanon_MBA.SG Swiss_HG -0.686
gendstat: Lebanon_MBA.SG Rome_Imperial -0.962
gendstat: Lebanon_MBA.SG DevilsGate_N 0.428
gendstat: Lebanon_MBA.SG Guanche -0.986
gendstat: Lebanon_MBA.SG Kenya_PastoralN -0.547
gendstat: Yana_UP Swiss_HG -0.031
gendstat: Yana_UP Rome_Imperial 0.236
gendstat: Yana_UP DevilsGate_N 1.158
gendstat: Yana_UP Guanche -0.198
gendstat: Yana_UP Kenya_PastoralN 0.206
gendstat: Swiss_HG Rome_Imperial 0.229
gendstat: Swiss_HG DevilsGate_N 0.952
gendstat: Swiss_HG Guanche -0.144
gendstat: Swiss_HG Kenya_PastoralN 0.199
gendstat: Rome_Imperial DevilsGate_N 1.116
gendstat: Rome_Imperial Guanche -0.495
gendstat: Rome_Imperial Kenya_PastoralN 0.024
gendstat: DevilsGate_N Guanche -1.200
gendstat: DevilsGate_N Kenya_PastoralN -0.926
gendstat: Guanche Kenya_PastoralN 0.443




left pops:
SomaliHigh
Kenya_PastoralIA
Egyptian_SFI-43

right pops:
South_Africa_2000BP
Cameroon_SMA.SG
Mota
Bahamas_SouthAndros_Ceramic.SG
Greece_Koufonisi_Cycladic_EBA.SG
Anatolia_N.SG
CHG
Iran_TepeAbdulHosein_N.SG
Lebanon_MBA.SG
Yana_UP
Swiss_HG
Rome_Imperial
DevilsGate_N
Guanche
Kenya_PastoralN

0 SomaliHigh 4
1 Kenya_PastoralIA 4
2 Egyptian_SFI-43 1
3 South_Africa_2000BP 4
4 Cameroon_SMA.SG 2
5 Mota 1
6 Bahamas_SouthAndros_Ceramic.SG 4
7 Greece_Koufonisi_Cycladic_EBA.SG 2
8 Anatolia_N.SG 5
9 CHG 2
10 Iran_TepeAbdulHosein_N.SG 3
11 Lebanon_MBA.SG 5
12 Yana_UP 2
13 Swiss_HG 1
14 Rome_Imperial 43
15 DevilsGate_N 4
16 Guanche 4
17 Kenya_PastoralN 5
jackknife block size: 0.050
snps: 1150437 indivs: 96
number of blocks for block jackknife: 714
## ncols: 1150437
coverage: SomaliHigh 1039653
coverage: Kenya_PastoralIA 661264
coverage: Egyptian_SFI-43 473257
coverage: South_Africa_2000BP 1135129
coverage: Cameroon_SMA.SG 1148760
coverage: Mota 1134612
coverage: Bahamas_SouthAndros_Ceramic.SG 1150077
coverage: Greece_Koufonisi_Cycladic_EBA.SG 1139387
coverage: Anatolia_N.SG 1056084
coverage: CHG 1134595
coverage: Iran_TepeAbdulHosein_N.SG 1061032
coverage: Lebanon_MBA.SG 1138714
coverage: Yana_UP 1135189
coverage: Swiss_HG 1130733
coverage: Rome_Imperial 1128057
coverage: DevilsGate_N 1134715
coverage: Guanche 1140173
coverage: Kenya_PastoralN 1029040
Effective number of blocks: 626.777
numsnps used: 307176
codimension 1
f4info:
f4rank: 1 dof: 13 chisq: 8.176 tail: 0.831972947 dofdiff: 15 chisqdiff: -8.176 taildiff: 1
B:
scale 1.000
Cameroon_SMA.SG 0.031
Mota 0.116
Bahamas_SouthAndros_Ceramic.SG 0.976
Greece_Koufonisi_Cycladic_EBA.SG 1.268
Anatolia_N.SG 1.244
CHG 1.135
Iran_TepeAbdulHosein_N.SG 1.118
Lebanon_MBA.SG 1.234
Yana_UP 0.989
Swiss_HG 1.122
Rome_Imperial 1.228
DevilsGate_N 0.906
Guanche 1.015
Kenya_PastoralN 0.472
A:
scale 104.897
Kenya_PastoralIA -0.430
Egyptian_SFI-43 1.347


full rank
f4info:
f4rank: 2 dof: 0 chisq: 0.000 tail: 1 dofdiff: 13 chisqdiff: 8.176 taildiff: 0.831972947
B:
scale 241.564 76.722
Cameroon_SMA.SG -0.085 0.039
Mota -0.121 0.130
Bahamas_SouthAndros_Ceramic.SG -1.002 0.974
Greece_Koufonisi_Cycladic_EBA.SG -1.209 1.276
Anatolia_N.SG -1.203 1.250
CHG -1.090 1.139
Iran_TepeAbdulHosein_N.SG -1.090 1.116
Lebanon_MBA.SG -1.272 1.224
Yana_UP -0.954 1.002
Swiss_HG -1.148 1.120
Rome_Imperial -1.253 1.218
DevilsGate_N -0.932 0.905
Guanche -1.076 1.008
Kenya_PastoralN -0.497 0.474
A:
scale 1.414 1.414
Kenya_PastoralIA 1.414 0.000
Egyptian_SFI-43 0.000 1.414


best coefficients: 0.758 0.242
Jackknife mean: 0.758174765 0.241825235
std. errors: 0.014 0.014

error covariance (* 1,000,000)
185 -185
-185 185


summ: SomaliHigh 2 0.831973 0.758 0.242 185 -185 185

fixed pat wt dof chisq tail prob
00 0 13 8.176 0.831973 0.758 0.242
01 1 14 243.652 0 1.000 0.000
10 1 14 2004.035 0 0.000 1.000
best pat: 00 0.831973 - -
best pat: 01 5.89609e-44 chi(nested): 235.476 p-value for nested model: 3.81219e-53

coeffs: 0.758 0.242

## dscore:: f_4(Base, Fit, Rbase, right2)
## genstat:: f_4(Base, Fit, right1, right2)

details: Kenya_PastoralIA Cameroon_SMA.SG -0.000351 -1.165857
details: Egyptian_SFI-43 Cameroon_SMA.SG 0.000507 1.611245
dscore: Cameroon_SMA.SG f4: -0.000143 Z: -0.561726

details: Kenya_PastoralIA Mota -0.000500 -1.321469
details: Egyptian_SFI-43 Mota 0.001698 4.359425
dscore: Mota f4: 0.000032 Z: 0.099873

details: Kenya_PastoralIA Bahamas_SouthAndros_Ceramic.SG -0.004148 -10.106523
details: Egyptian_SFI-43 Bahamas_SouthAndros_Ceramic.SG 0.012695 28.216999
dscore: Bahamas_SouthAndros_Ceramic.SG f4: -0.000074 Z: -0.212587

details: Kenya_PastoralIA Greece_Koufonisi_Cycladic_EBA.SG -0.005007 -11.233100
details: Egyptian_SFI-43 Greece_Koufonisi_Cycladic_EBA.SG 0.016633 34.278629
dscore: Greece_Koufonisi_Cycladic_EBA.SG f4: 0.000228 Z: 0.596331

details: Kenya_PastoralIA Anatolia_N.SG -0.004982 -11.533547
details: Egyptian_SFI-43 Anatolia_N.SG 0.016289 35.182947
dscore: Anatolia_N.SG f4: 0.000163 Z: 0.438336

details: Kenya_PastoralIA CHG -0.004513 -10.158718
details: Egyptian_SFI-43 CHG 0.014849 31.736796
dscore: CHG f4: 0.000170 Z: 0.451617

details: Kenya_PastoralIA Iran_TepeAbdulHosein_N.SG -0.004511 -10.471740
details: Egyptian_SFI-43 Iran_TepeAbdulHosein_N.SG 0.014543 32.306939
dscore: Iran_TepeAbdulHosein_N.SG f4: 0.000098 Z: 0.264695

details: Kenya_PastoralIA Lebanon_MBA.SG -0.005266 -12.708091
details: Egyptian_SFI-43 Lebanon_MBA.SG 0.015953 36.502929
dscore: Lebanon_MBA.SG f4: -0.000133 Z: -0.376562

details: Kenya_PastoralIA Yana_UP -0.003950 -9.244820
details: Egyptian_SFI-43 Yana_UP 0.013056 27.311454
dscore: Yana_UP f4: 0.000163 Z: 0.451365

details: Kenya_PastoralIA Swiss_HG -0.004753 -9.964994
details: Egyptian_SFI-43 Swiss_HG 0.014602 26.320727
dscore: Swiss_HG f4: -0.000071 Z: -0.175063

details: Kenya_PastoralIA Rome_Imperial -0.005185 -13.607062
details: Egyptian_SFI-43 Rome_Imperial 0.015873 39.820192
dscore: Rome_Imperial f4: -0.000092 Z: -0.282044

details: Kenya_PastoralIA DevilsGate_N -0.003858 -9.127245
details: Egyptian_SFI-43 DevilsGate_N 0.011799 25.528693
dscore: DevilsGate_N f4: -0.000071 Z: -0.195353

details: Kenya_PastoralIA Guanche -0.004452 -10.170347
details: Egyptian_SFI-43 Guanche 0.013136 28.140204
dscore: Guanche f4: -0.000198 Z: -0.530422

details: Kenya_PastoralIA Kenya_PastoralN -0.002056 -6.248258
details: Egyptian_SFI-43 Kenya_PastoralN 0.006185 18.053311
dscore: Kenya_PastoralN f4: -0.000063 Z: -0.227913

gendstat: South_Africa_2000BP Cameroon_SMA.SG -0.562
gendstat: South_Africa_2000BP Mota 0.100
gendstat: South_Africa_2000BP Bahamas_SouthAndros_Ceramic.SG -0.213
gendstat: South_Africa_2000BP Greece_Koufonisi_Cycladic_EBA.SG 0.596
gendstat: South_Africa_2000BP Anatolia_N.SG 0.438
gendstat: South_Africa_2000BP CHG 0.452
gendstat: South_Africa_2000BP Iran_TepeAbdulHosein_N.SG 0.265
gendstat: South_Africa_2000BP Lebanon_MBA.SG -0.377
gendstat: South_Africa_2000BP Yana_UP 0.451
gendstat: South_Africa_2000BP Swiss_HG -0.175
gendstat: South_Africa_2000BP Rome_Imperial -0.282
gendstat: South_Africa_2000BP DevilsGate_N -0.195
gendstat: South_Africa_2000BP Guanche -0.530
gendstat: South_Africa_2000BP Kenya_PastoralN -0.228
gendstat: Cameroon_SMA.SG Mota 0.556
gendstat: Cameroon_SMA.SG Bahamas_SouthAndros_Ceramic.SG 0.198
gendstat: Cameroon_SMA.SG Greece_Koufonisi_Cycladic_EBA.SG 0.964
gendstat: Cameroon_SMA.SG Anatolia_N.SG 0.805
gendstat: Cameroon_SMA.SG CHG 0.827
gendstat: Cameroon_SMA.SG Iran_TepeAbdulHosein_N.SG 0.663
gendstat: Cameroon_SMA.SG Lebanon_MBA.SG 0.028
gendstat: Cameroon_SMA.SG Yana_UP 0.833
gendstat: Cameroon_SMA.SG Swiss_HG 0.178
gendstat: Cameroon_SMA.SG Rome_Imperial 0.156
gendstat: Cameroon_SMA.SG DevilsGate_N 0.197
gendstat: Cameroon_SMA.SG Guanche -0.148
gendstat: Cameroon_SMA.SG Kenya_PastoralN 0.288
gendstat: Mota Bahamas_SouthAndros_Ceramic.SG -0.280
gendstat: Mota Greece_Koufonisi_Cycladic_EBA.SG 0.476
gendstat: Mota Anatolia_N.SG 0.336
gendstat: Mota CHG 0.346
gendstat: Mota Iran_TepeAbdulHosein_N.SG 0.170
gendstat: Mota Lebanon_MBA.SG -0.432
gendstat: Mota Yana_UP 0.347
gendstat: Mota Swiss_HG -0.237
gendstat: Mota Rome_Imperial -0.350
gendstat: Mota DevilsGate_N -0.262
gendstat: Mota Guanche -0.579
gendstat: Mota Kenya_PastoralN -0.297
gendstat: Bahamas_SouthAndros_Ceramic.SG Greece_Koufonisi_Cycladic_EBA.SG 1.022
gendstat: Bahamas_SouthAndros_Ceramic.SG Anatolia_N.SG 0.812
gendstat: Bahamas_SouthAndros_Ceramic.SG CHG 0.818
gendstat: Bahamas_SouthAndros_Ceramic.SG Iran_TepeAbdulHosein_N.SG 0.606
gendstat: Bahamas_SouthAndros_Ceramic.SG Lebanon_MBA.SG -0.222
gendstat: Bahamas_SouthAndros_Ceramic.SG Yana_UP 0.855
gendstat: Bahamas_SouthAndros_Ceramic.SG Swiss_HG 0.008
gendstat: Bahamas_SouthAndros_Ceramic.SG Rome_Imperial -0.080
gendstat: Bahamas_SouthAndros_Ceramic.SG DevilsGate_N 0.012
gendstat: Bahamas_SouthAndros_Ceramic.SG Guanche -0.415
gendstat: Bahamas_SouthAndros_Ceramic.SG Kenya_PastoralN 0.039
gendstat: Greece_Koufonisi_Cycladic_EBA.SG Anatolia_N.SG -0.241
gendstat: Greece_Koufonisi_Cycladic_EBA.SG CHG -0.196
gendstat: Greece_Koufonisi_Cycladic_EBA.SG Iran_TepeAbdulHosein_N.SG -0.438
gendstat: Greece_Koufonisi_Cycladic_EBA.SG Lebanon_MBA.SG -1.439
gendstat: Greece_Koufonisi_Cycladic_EBA.SG Yana_UP -0.217
gendstat: Greece_Koufonisi_Cycladic_EBA.SG Swiss_HG -0.874
gendstat: Greece_Koufonisi_Cycladic_EBA.SG Rome_Imperial -1.545
gendstat: Greece_Koufonisi_Cycladic_EBA.SG DevilsGate_N -0.945
gendstat: Greece_Koufonisi_Cycladic_EBA.SG Guanche -1.457
gendstat: Greece_Koufonisi_Cycladic_EBA.SG Kenya_PastoralN -0.987
gendstat: Anatolia_N.SG CHG 0.024
gendstat: Anatolia_N.SG Iran_TepeAbdulHosein_N.SG -0.217
gendstat: Anatolia_N.SG Lebanon_MBA.SG -1.238
gendstat: Anatolia_N.SG Yana_UP -0.000
gendstat: Anatolia_N.SG Swiss_HG -0.694
gendstat: Anatolia_N.SG Rome_Imperial -1.309
gendstat: Anatolia_N.SG DevilsGate_N -0.734
gendstat: Anatolia_N.SG Guanche -1.202
gendstat: Anatolia_N.SG Kenya_PastoralN -0.782
gendstat: CHG Iran_TepeAbdulHosein_N.SG -0.259
gendstat: CHG Lebanon_MBA.SG -1.130
gendstat: CHG Yana_UP -0.023
gendstat: CHG Swiss_HG -0.687
gendstat: CHG Rome_Imperial -1.161
gendstat: CHG DevilsGate_N -0.762
gendstat: CHG Guanche -1.195
gendstat: CHG Kenya_PastoralN -0.766
gendstat: Iran_TepeAbdulHosein_N.SG Lebanon_MBA.SG -0.871
gendstat: Iran_TepeAbdulHosein_N.SG Yana_UP 0.218
gendstat: Iran_TepeAbdulHosein_N.SG Swiss_HG -0.488
gendstat: Iran_TepeAbdulHosein_N.SG Rome_Imperial -0.854
gendstat: Iran_TepeAbdulHosein_N.SG DevilsGate_N -0.570
gendstat: Iran_TepeAbdulHosein_N.SG Guanche -0.954
gendstat: Iran_TepeAbdulHosein_N.SG Kenya_PastoralN -0.553
gendstat: Lebanon_MBA.SG Yana_UP 1.088
gendstat: Lebanon_MBA.SG Swiss_HG 0.195
gendstat: Lebanon_MBA.SG Rome_Imperial 0.257
gendstat: Lebanon_MBA.SG DevilsGate_N 0.223
gendstat: Lebanon_MBA.SG Guanche -0.245
gendstat: Lebanon_MBA.SG Kenya_PastoralN 0.270
gendstat: Yana_UP Swiss_HG -0.679
gendstat: Yana_UP Rome_Imperial -1.119
gendstat: Yana_UP DevilsGate_N -0.793
gendstat: Yana_UP Guanche -1.161
gendstat: Yana_UP Kenya_PastoralN -0.784
gendstat: Swiss_HG Rome_Imperial -0.072
gendstat: Swiss_HG DevilsGate_N 0.001
gendstat: Swiss_HG Guanche -0.375
gendstat: Swiss_HG Kenya_PastoralN 0.024
gendstat: Rome_Imperial DevilsGate_N 0.085
gendstat: Rome_Imperial Guanche -0.468
gendstat: Rome_Imperial Kenya_PastoralN 0.128
gendstat: DevilsGate_N Guanche -0.404
gendstat: DevilsGate_N Kenya_PastoralN 0.026
gendstat: Guanche Kenya_PastoralN 0.460

Mnemonics
11-01-2021, 10:58 PM
Pagani Ethiopian Somalis







left pops:
Esomali
Kenya_PastoralIA
Egyptian_SFI-43

right pops:
South_Africa_2000BP
Cameroon_SMA.SG
Mota
Bahamas_SouthAndros_Ceramic.SG
Greece_Koufonisi_Cycladic_EBA.SG
Anatolia_N.SG
CHG
Iran_TepeAbdulHosein_N.SG
Lebanon_MBA.SG
Yana_UP
Swiss_HG
Rome_Imperial
DevilsGate_N
Guanche
Kenya_PastoralN

0 Esomali 17
1 Kenya_PastoralIA 4
2 Egyptian_SFI-43 1
3 South_Africa_2000BP 4
4 Cameroon_SMA.SG 2
5 Mota 1
6 Bahamas_SouthAndros_Ceramic.SG 4
7 Greece_Koufonisi_Cycladic_EBA.SG 2
8 Anatolia_N.SG 5
9 CHG 2
10 Iran_TepeAbdulHosein_N.SG 3
11 Lebanon_MBA.SG 5
12 Yana_UP 2
13 Swiss_HG 1
14 Rome_Imperial 43
15 DevilsGate_N 4
16 Guanche 4
17 Kenya_PastoralN 5
jackknife block size: 0.050
snps: 1150438 indivs: 109
number of blocks for block jackknife: 714
## ncols: 1150438
coverage: Esomali 437337
coverage: Kenya_PastoralIA 661264
coverage: Egyptian_SFI-43 473257
coverage: South_Africa_2000BP 1135129
coverage: Cameroon_SMA.SG 1148760
coverage: Mota 1134612
coverage: Bahamas_SouthAndros_Ceramic.SG 1150077
coverage: Greece_Koufonisi_Cycladic_EBA.SG 1139387
coverage: Anatolia_N.SG 1056084
coverage: CHG 1134595
coverage: Iran_TepeAbdulHosein_N.SG 1061032
coverage: Lebanon_MBA.SG 1138714
coverage: Yana_UP 1135189
coverage: Swiss_HG 1130733
coverage: Rome_Imperial 1128057
coverage: DevilsGate_N 1134715
coverage: Guanche 1140173
coverage: Kenya_PastoralN 1029040
Effective number of blocks: 630.418
numsnps used: 182749
codimension 1
f4info:
f4rank: 1 dof: 13 chisq: 9.115 tail: 0.764227969 dofdiff: 15 chisqdiff: -9.115 taildiff: 1
B:
scale 1.000
Cameroon_SMA.SG 0.022
Mota 0.078
Bahamas_SouthAndros_Ceramic.SG 0.943
Greece_Koufonisi_Cycladic_EBA.SG 1.286
Anatolia_N.SG 1.272
CHG 1.118
Iran_TepeAbdulHosein_N.SG 1.133
Lebanon_MBA.SG 1.256
Yana_UP 0.972
Swiss_HG 1.110
Rome_Imperial 1.234
DevilsGate_N 0.888
Guanche 1.005
Kenya_PastoralN 0.473
A:
scale 132.791
Kenya_PastoralIA -0.461
Egyptian_SFI-43 1.337


full rank
f4info:
f4rank: 2 dof: 0 chisq: 0.000 tail: 1 dofdiff: 13 chisqdiff: 9.115 taildiff: 0.764227969
B:
scale 276.057 98.415
Cameroon_SMA.SG -0.074 0.035
Mota -0.166 0.081
Bahamas_SouthAndros_Ceramic.SG -0.939 0.948
Greece_Koufonisi_Cycladic_EBA.SG -1.236 1.287
Anatolia_N.SG -1.178 1.287
CHG -1.096 1.125
Iran_TepeAbdulHosein_N.SG -1.058 1.143
Lebanon_MBA.SG -1.296 1.240
Yana_UP -1.019 0.965
Swiss_HG -1.149 1.099
Rome_Imperial -1.232 1.228
DevilsGate_N -0.965 0.886
Guanche -1.049 1.005
Kenya_PastoralN -0.509 0.479
A:
scale 1.414 1.414
Kenya_PastoralIA 1.414 0.000
Egyptian_SFI-43 0.000 1.414


best coefficients: 0.743 0.257
Jackknife mean: 0.743405123 0.256594877
std. errors: 0.013 0.013

error covariance (* 1,000,000)
178 -178
-178 178


summ: Esomali 2 0.764228 0.743 0.257 178 -178 178

fixed pat wt dof chisq tail prob
00 0 13 9.115 0.764228 0.743 0.257
01 1 14 250.480 0 1.000 0.000
10 1 14 1802.533 0 0.000 1.000
best pat: 00 0.764228 - -
best pat: 01 2.28647e-45 chi(nested): 241.366 p-value for nested model: 1.98127e-54

coeffs: 0.743 0.257

## dscore:: f_4(Base, Fit, Rbase, right2)
## genstat:: f_4(Base, Fit, right1, right2)

details: Kenya_PastoralIA Cameroon_SMA.SG -0.000268 -0.870999
details: Egyptian_SFI-43 Cameroon_SMA.SG 0.000360 1.130622
dscore: Cameroon_SMA.SG f4: -0.000107 Z: -0.435022

details: Kenya_PastoralIA Mota -0.000601 -1.574566
details: Egyptian_SFI-43 Mota 0.000826 2.132219
dscore: Mota f4: -0.000235 Z: -0.768133

details: Kenya_PastoralIA Bahamas_SouthAndros_Ceramic.SG -0.003403 -8.688622
details: Egyptian_SFI-43 Bahamas_SouthAndros_Ceramic.SG 0.009634 23.419899
dscore: Bahamas_SouthAndros_Ceramic.SG f4: -0.000059 Z: -0.190867

details: Kenya_PastoralIA Greece_Koufonisi_Cycladic_EBA.SG -0.004478 -10.495517
details: Egyptian_SFI-43 Greece_Koufonisi_Cycladic_EBA.SG 0.013077 29.886929
dscore: Greece_Koufonisi_Cycladic_EBA.SG f4: 0.000026 Z: 0.075629

details: Kenya_PastoralIA Anatolia_N.SG -0.004266 -11.104303
details: Egyptian_SFI-43 Anatolia_N.SG 0.013075 31.741906
dscore: Anatolia_N.SG f4: 0.000182 Z: 0.591365

details: Kenya_PastoralIA CHG -0.003971 -9.416160
details: Egyptian_SFI-43 CHG 0.011427 26.279255
dscore: CHG f4: -0.000021 Z: -0.062655

details: Kenya_PastoralIA Iran_TepeAbdulHosein_N.SG -0.003834 -9.089714
details: Egyptian_SFI-43 Iran_TepeAbdulHosein_N.SG 0.011615 27.723257
dscore: Iran_TepeAbdulHosein_N.SG f4: 0.000129 Z: 0.382745

details: Kenya_PastoralIA Lebanon_MBA.SG -0.004694 -12.381130
details: Egyptian_SFI-43 Lebanon_MBA.SG 0.012602 31.859295
dscore: Lebanon_MBA.SG f4: -0.000257 Z: -0.845067

details: Kenya_PastoralIA Yana_UP -0.003691 -9.180937
details: Egyptian_SFI-43 Yana_UP 0.009804 22.669781
dscore: Yana_UP f4: -0.000229 Z: -0.717584

details: Kenya_PastoralIA Swiss_HG -0.004161 -9.606867
details: Egyptian_SFI-43 Swiss_HG 0.011165 21.951120
dscore: Swiss_HG f4: -0.000229 Z: -0.654207

details: Kenya_PastoralIA Rome_Imperial -0.004463 -12.855109
details: Egyptian_SFI-43 Rome_Imperial 0.012478 35.453136
dscore: Rome_Imperial f4: -0.000117 Z: -0.421600

details: Kenya_PastoralIA DevilsGate_N -0.003496 -8.611544
details: Egyptian_SFI-43 DevilsGate_N 0.009008 21.581222
dscore: DevilsGate_N f4: -0.000288 Z: -0.903584

details: Kenya_PastoralIA Guanche -0.003802 -9.190145
details: Egyptian_SFI-43 Guanche 0.010209 23.283898
dscore: Guanche f4: -0.000207 Z: -0.627847

details: Kenya_PastoralIA Kenya_PastoralN -0.001845 -5.530556
details: Egyptian_SFI-43 Kenya_PastoralN 0.004872 15.326483
dscore: Kenya_PastoralN f4: -0.000122 Z: -0.465256

gendstat: South_Africa_2000BP Cameroon_SMA.SG -0.435
gendstat: South_Africa_2000BP Mota -0.768
gendstat: South_Africa_2000BP Bahamas_SouthAndros_Ceramic.SG -0.191
gendstat: South_Africa_2000BP Greece_Koufonisi_Cycladic_EBA.SG 0.076
gendstat: South_Africa_2000BP Anatolia_N.SG 0.591
gendstat: South_Africa_2000BP CHG -0.063
gendstat: South_Africa_2000BP Iran_TepeAbdulHosein_N.SG 0.383
gendstat: South_Africa_2000BP Lebanon_MBA.SG -0.845
gendstat: South_Africa_2000BP Yana_UP -0.718
gendstat: South_Africa_2000BP Swiss_HG -0.654
gendstat: South_Africa_2000BP Rome_Imperial -0.422
gendstat: South_Africa_2000BP DevilsGate_N -0.904
gendstat: South_Africa_2000BP Guanche -0.628
gendstat: South_Africa_2000BP Kenya_PastoralN -0.465
gendstat: Cameroon_SMA.SG Mota -0.430
gendstat: Cameroon_SMA.SG Bahamas_SouthAndros_Ceramic.SG 0.164
gendstat: Cameroon_SMA.SG Greece_Koufonisi_Cycladic_EBA.SG 0.407
gendstat: Cameroon_SMA.SG Anatolia_N.SG 0.935
gendstat: Cameroon_SMA.SG CHG 0.261
gendstat: Cameroon_SMA.SG Iran_TepeAbdulHosein_N.SG 0.710
gendstat: Cameroon_SMA.SG Lebanon_MBA.SG -0.514
gendstat: Cameroon_SMA.SG Yana_UP -0.397
gendstat: Cameroon_SMA.SG Swiss_HG -0.356
gendstat: Cameroon_SMA.SG Rome_Imperial -0.038
gendstat: Cameroon_SMA.SG DevilsGate_N -0.599
gendstat: Cameroon_SMA.SG Guanche -0.313
gendstat: Cameroon_SMA.SG Kenya_PastoralN -0.058
gendstat: Mota Bahamas_SouthAndros_Ceramic.SG 0.521
gendstat: Mota Greece_Koufonisi_Cycladic_EBA.SG 0.712
gendstat: Mota Anatolia_N.SG 1.191
gendstat: Mota CHG 0.589
gendstat: Mota Iran_TepeAbdulHosein_N.SG 1.014
gendstat: Mota Lebanon_MBA.SG -0.067
gendstat: Mota Yana_UP 0.017
gendstat: Mota Swiss_HG 0.014
gendstat: Mota Rome_Imperial 0.378
gendstat: Mota DevilsGate_N -0.156
gendstat: Mota Guanche 0.077
gendstat: Mota Kenya_PastoralN 0.377
gendstat: Bahamas_SouthAndros_Ceramic.SG Greece_Koufonisi_Cycladic_EBA.SG 0.321
gendstat: Bahamas_SouthAndros_Ceramic.SG Anatolia_N.SG 0.953
gendstat: Bahamas_SouthAndros_Ceramic.SG CHG 0.138
gendstat: Bahamas_SouthAndros_Ceramic.SG Iran_TepeAbdulHosein_N.SG 0.724
gendstat: Bahamas_SouthAndros_Ceramic.SG Lebanon_MBA.SG -0.829
gendstat: Bahamas_SouthAndros_Ceramic.SG Yana_UP -0.702
gendstat: Bahamas_SouthAndros_Ceramic.SG Swiss_HG -0.579
gendstat: Bahamas_SouthAndros_Ceramic.SG Rome_Imperial -0.310
gendstat: Bahamas_SouthAndros_Ceramic.SG DevilsGate_N -1.000
gendstat: Bahamas_SouthAndros_Ceramic.SG Guanche -0.536
gendstat: Bahamas_SouthAndros_Ceramic.SG Kenya_PastoralN -0.254
gendstat: Greece_Koufonisi_Cycladic_EBA.SG Anatolia_N.SG 0.638
gendstat: Greece_Koufonisi_Cycladic_EBA.SG CHG -0.165
gendstat: Greece_Koufonisi_Cycladic_EBA.SG Iran_TepeAbdulHosein_N.SG 0.373
gendstat: Greece_Koufonisi_Cycladic_EBA.SG Lebanon_MBA.SG -1.219
gendstat: Greece_Koufonisi_Cycladic_EBA.SG Yana_UP -0.931
gendstat: Greece_Koufonisi_Cycladic_EBA.SG Swiss_HG -0.830
gendstat: Greece_Koufonisi_Cycladic_EBA.SG Rome_Imperial -0.732
gendstat: Greece_Koufonisi_Cycladic_EBA.SG DevilsGate_N -1.133
gendstat: Greece_Koufonisi_Cycladic_EBA.SG Guanche -0.787
gendstat: Greece_Koufonisi_Cycladic_EBA.SG Kenya_PastoralN -0.560
gendstat: Anatolia_N.SG CHG -0.767
gendstat: Anatolia_N.SG Iran_TepeAbdulHosein_N.SG -0.200
gendstat: Anatolia_N.SG Lebanon_MBA.SG -1.967
gendstat: Anatolia_N.SG Yana_UP -1.582
gendstat: Anatolia_N.SG Swiss_HG -1.401
gendstat: Anatolia_N.SG Rome_Imperial -1.737
gendstat: Anatolia_N.SG DevilsGate_N -1.771
gendstat: Anatolia_N.SG Guanche -1.437
gendstat: Anatolia_N.SG Kenya_PastoralN -1.159
gendstat: CHG Iran_TepeAbdulHosein_N.SG 0.561
gendstat: CHG Lebanon_MBA.SG -0.928
gendstat: CHG Yana_UP -0.744
gendstat: CHG Swiss_HG -0.673
gendstat: CHG Rome_Imperial -0.442
gendstat: CHG DevilsGate_N -0.967
gendstat: CHG Guanche -0.606
gendstat: CHG Kenya_PastoralN -0.360
gendstat: Iran_TepeAbdulHosein_N.SG Lebanon_MBA.SG -1.556
gendstat: Iran_TepeAbdulHosein_N.SG Yana_UP -1.245
gendstat: Iran_TepeAbdulHosein_N.SG Swiss_HG -1.134
gendstat: Iran_TepeAbdulHosein_N.SG Rome_Imperial -1.195
gendstat: Iran_TepeAbdulHosein_N.SG DevilsGate_N -1.517
gendstat: Iran_TepeAbdulHosein_N.SG Guanche -1.132
gendstat: Iran_TepeAbdulHosein_N.SG Kenya_PastoralN -0.935
gendstat: Lebanon_MBA.SG Yana_UP 0.112
gendstat: Lebanon_MBA.SG Swiss_HG 0.096
gendstat: Lebanon_MBA.SG Rome_Imperial 0.904
gendstat: Lebanon_MBA.SG DevilsGate_N -0.125
gendstat: Lebanon_MBA.SG Guanche 0.192
gendstat: Lebanon_MBA.SG Kenya_PastoralN 0.557
gendstat: Yana_UP Swiss_HG -0.002
gendstat: Yana_UP Rome_Imperial 0.539
gendstat: Yana_UP DevilsGate_N -0.225
gendstat: Yana_UP Guanche 0.073
gendstat: Yana_UP Kenya_PastoralN 0.410
gendstat: Swiss_HG Rome_Imperial 0.452
gendstat: Swiss_HG DevilsGate_N -0.197
gendstat: Swiss_HG Guanche 0.069
gendstat: Swiss_HG Kenya_PastoralN 0.355
gendstat: Rome_Imperial DevilsGate_N -0.812
gendstat: Rome_Imperial Guanche -0.400
gendstat: Rome_Imperial Kenya_PastoralN -0.023
gendstat: DevilsGate_N Guanche 0.274
gendstat: DevilsGate_N Kenya_PastoralN 0.663
gendstat: Guanche Kenya_PastoralN 0.307




Pagani Somalis






left pops:
Somali
Kenya_PastoralIA
Egyptian_SFI-43

right pops:
South_Africa_2000BP
Cameroon_SMA.SG
Mota
Bahamas_SouthAndros_Ceramic.SG
Greece_Koufonisi_Cycladic_EBA.SG
Anatolia_N.SG
CHG
Iran_TepeAbdulHosein_N.SG
Lebanon_MBA.SG
Yana_UP
Swiss_HG
Rome_Imperial
DevilsGate_N
Guanche
Kenya_PastoralN

0 Somali 21
1 Kenya_PastoralIA 4
2 Egyptian_SFI-43 1
3 South_Africa_2000BP 4
4 Cameroon_SMA.SG 2
5 Mota 1
6 Bahamas_SouthAndros_Ceramic.SG 4
7 Greece_Koufonisi_Cycladic_EBA.SG 2
8 Anatolia_N.SG 5
9 CHG 2
10 Iran_TepeAbdulHosein_N.SG 3
11 Lebanon_MBA.SG 5
12 Yana_UP 2
13 Swiss_HG 1
14 Rome_Imperial 43
15 DevilsGate_N 4
16 Guanche 4
17 Kenya_PastoralN 5
jackknife block size: 0.050
snps: 1150438 indivs: 113
number of blocks for block jackknife: 714
## ncols: 1150438
coverage: Somali 438427
coverage: Kenya_PastoralIA 661264
coverage: Egyptian_SFI-43 473257
coverage: South_Africa_2000BP 1135129
coverage: Cameroon_SMA.SG 1148760
coverage: Mota 1134612
coverage: Bahamas_SouthAndros_Ceramic.SG 1150077
coverage: Greece_Koufonisi_Cycladic_EBA.SG 1139387
coverage: Anatolia_N.SG 1056084
coverage: CHG 1134595
coverage: Iran_TepeAbdulHosein_N.SG 1061032
coverage: Lebanon_MBA.SG 1138714
coverage: Yana_UP 1135189
coverage: Swiss_HG 1130733
coverage: Rome_Imperial 1128057
coverage: DevilsGate_N 1134715
coverage: Guanche 1140173
coverage: Kenya_PastoralN 1029040
Effective number of blocks: 630.978
numsnps used: 182799
codimension 1
f4info:
f4rank: 1 dof: 13 chisq: 13.898 tail: 0.381034442 dofdiff: 15 chisqdiff: -13.898 taildiff: 1
B:
scale 1.000
Cameroon_SMA.SG 0.013
Mota 0.073
Bahamas_SouthAndros_Ceramic.SG 0.950
Greece_Koufonisi_Cycladic_EBA.SG 1.283
Anatolia_N.SG 1.272
CHG 1.121
Iran_TepeAbdulHosein_N.SG 1.136
Lebanon_MBA.SG 1.254
Yana_UP 0.973
Swiss_HG 1.113
Rome_Imperial 1.234
DevilsGate_N 0.884
Guanche 1.003
Kenya_PastoralN 0.460
A:
scale 134.371
Kenya_PastoralIA -0.476
Egyptian_SFI-43 1.332


full rank
f4info:
f4rank: 2 dof: 0 chisq: 0.000 tail: 1 dofdiff: 13 chisqdiff: 13.898 taildiff: 0.381034442
B:
scale 256.754 100.569
Cameroon_SMA.SG -0.128 0.015
Mota -0.187 0.070
Bahamas_SouthAndros_Ceramic.SG -0.909 0.961
Greece_Koufonisi_Cycladic_EBA.SG -1.246 1.285
Anatolia_N.SG -1.171 1.289
CHG -1.097 1.127
Iran_TepeAbdulHosein_N.SG -1.063 1.145
Lebanon_MBA.SG -1.296 1.237
Yana_UP -1.012 0.967
Swiss_HG -1.135 1.105
Rome_Imperial -1.226 1.228
DevilsGate_N -0.961 0.886
Guanche -1.060 0.997
Kenya_PastoralN -0.568 0.457
A:
scale 1.414 1.414
Kenya_PastoralIA 1.414 0.000
Egyptian_SFI-43 0.000 1.414


best coefficients: 0.737 0.263
Jackknife mean: 0.736691833 0.263308167
std. errors: 0.013 0.013

error covariance (* 1,000,000)
181 -181
-181 181


summ: Somali 2 0.381034 0.737 0.263 181 -181 181

fixed pat wt dof chisq tail prob
00 0 13 13.898 0.381034 0.737 0.263
01 1 14 262.365 0 1.000 0.000
10 1 14 1757.368 0 0.000 1.000
best pat: 00 0.381034 - -
best pat: 01 7.91226e-48 chi(nested): 248.466 p-value for nested model: 5.60785e-56

coeffs: 0.737 0.263

## dscore:: f_4(Base, Fit, Rbase, right2)
## genstat:: f_4(Base, Fit, right1, right2)

details: Kenya_PastoralIA Cameroon_SMA.SG -0.000498 -1.624879
details: Egyptian_SFI-43 Cameroon_SMA.SG 0.000149 0.476818
dscore: Cameroon_SMA.SG f4: -0.000328 Z: -1.355601

details: Kenya_PastoralIA Mota -0.000726 -1.940930
details: Egyptian_SFI-43 Mota 0.000697 1.802028
dscore: Mota f4: -0.000352 Z: -1.184677

details: Kenya_PastoralIA Bahamas_SouthAndros_Ceramic.SG -0.003539 -8.994995
details: Egyptian_SFI-43 Bahamas_SouthAndros_Ceramic.SG 0.009560 22.985451
dscore: Bahamas_SouthAndros_Ceramic.SG f4: -0.000092 Z: -0.298703

details: Kenya_PastoralIA Greece_Koufonisi_Cycladic_EBA.SG -0.004851 -11.518180
details: Egyptian_SFI-43 Greece_Koufonisi_Cycladic_EBA.SG 0.012777 28.982193
dscore: Greece_Koufonisi_Cycladic_EBA.SG f4: -0.000212 Z: -0.635691

details: Kenya_PastoralIA Anatolia_N.SG -0.004561 -11.891126
details: Egyptian_SFI-43 Anatolia_N.SG 0.012817 31.503206
dscore: Anatolia_N.SG f4: 0.000012 Z: 0.040049

details: Kenya_PastoralIA CHG -0.004274 -10.077501
details: Egyptian_SFI-43 CHG 0.011204 25.987764
dscore: CHG f4: -0.000201 Z: -0.599474

details: Kenya_PastoralIA Iran_TepeAbdulHosein_N.SG -0.004141 -9.759818
details: Egyptian_SFI-43 Iran_TepeAbdulHosein_N.SG 0.011380 27.399985
dscore: Iran_TepeAbdulHosein_N.SG f4: -0.000056 Z: -0.167501

details: Kenya_PastoralIA Lebanon_MBA.SG -0.005047 -13.178240
details: Egyptian_SFI-43 Lebanon_MBA.SG 0.012297 30.974745
dscore: Lebanon_MBA.SG f4: -0.000482 Z: -1.581421

details: Kenya_PastoralIA Yana_UP -0.003941 -9.941811
details: Egyptian_SFI-43 Yana_UP 0.009613 21.997085
dscore: Yana_UP f4: -0.000374 Z: -1.197028

details: Kenya_PastoralIA Swiss_HG -0.004420 -10.180139
details: Egyptian_SFI-43 Swiss_HG 0.010984 21.975992
dscore: Swiss_HG f4: -0.000366 Z: -1.060189

details: Kenya_PastoralIA Rome_Imperial -0.004776 -13.723995
details: Egyptian_SFI-43 Rome_Imperial 0.012207 34.691135
dscore: Rome_Imperial f4: -0.000307 Z: -1.110091

details: Kenya_PastoralIA DevilsGate_N -0.003744 -9.311656
details: Egyptian_SFI-43 DevilsGate_N 0.008806 20.781738
dscore: DevilsGate_N f4: -0.000442 Z: -1.402411

details: Kenya_PastoralIA Guanche -0.004130 -9.974282
details: Egyptian_SFI-43 Guanche 0.009913 22.609146
dscore: Guanche f4: -0.000435 Z: -1.321739

details: Kenya_PastoralIA Kenya_PastoralN -0.002211 -6.686241
details: Egyptian_SFI-43 Kenya_PastoralN 0.004541 14.094957
dscore: Kenya_PastoralN f4: -0.000435 Z: -1.680025

gendstat: South_Africa_2000BP Cameroon_SMA.SG -1.356
gendstat: South_Africa_2000BP Mota -1.185
gendstat: South_Africa_2000BP Bahamas_SouthAndros_Ceramic.SG -0.299
gendstat: South_Africa_2000BP Greece_Koufonisi_Cycladic_EBA.SG -0.636
gendstat: South_Africa_2000BP Anatolia_N.SG 0.040
gendstat: South_Africa_2000BP CHG -0.599
gendstat: South_Africa_2000BP Iran_TepeAbdulHosein_N.SG -0.168
gendstat: South_Africa_2000BP Lebanon_MBA.SG -1.581
gendstat: South_Africa_2000BP Yana_UP -1.197
gendstat: South_Africa_2000BP Swiss_HG -1.060
gendstat: South_Africa_2000BP Rome_Imperial -1.110
gendstat: South_Africa_2000BP DevilsGate_N -1.402
gendstat: South_Africa_2000BP Guanche -1.322
gendstat: South_Africa_2000BP Kenya_PastoralN -1.680
gendstat: Cameroon_SMA.SG Mota -0.081
gendstat: Cameroon_SMA.SG Bahamas_SouthAndros_Ceramic.SG 0.778
gendstat: Cameroon_SMA.SG Greece_Koufonisi_Cycladic_EBA.SG 0.351
gendstat: Cameroon_SMA.SG Anatolia_N.SG 1.091
gendstat: Cameroon_SMA.SG CHG 0.382
gendstat: Cameroon_SMA.SG Iran_TepeAbdulHosein_N.SG 0.812
gendstat: Cameroon_SMA.SG Lebanon_MBA.SG -0.515
gendstat: Cameroon_SMA.SG Yana_UP -0.149
gendstat: Cameroon_SMA.SG Swiss_HG -0.113
gendstat: Cameroon_SMA.SG Rome_Imperial 0.076
gendstat: Cameroon_SMA.SG DevilsGate_N -0.370
gendstat: Cameroon_SMA.SG Guanche -0.327
gendstat: Cameroon_SMA.SG Kenya_PastoralN -0.417
gendstat: Mota Bahamas_SouthAndros_Ceramic.SG 0.771
gendstat: Mota Greece_Koufonisi_Cycladic_EBA.SG 0.391
gendstat: Mota Anatolia_N.SG 1.075
gendstat: Mota CHG 0.417
gendstat: Mota Iran_TepeAbdulHosein_N.SG 0.835
gendstat: Mota Lebanon_MBA.SG -0.403
gendstat: Mota Yana_UP -0.067
gendstat: Mota Swiss_HG -0.039
gendstat: Mota Rome_Imperial 0.147
gendstat: Mota DevilsGate_N -0.267
gendstat: Mota Guanche -0.236
gendstat: Mota Kenya_PastoralN -0.284
gendstat: Bahamas_SouthAndros_Ceramic.SG Greece_Koufonisi_Cycladic_EBA.SG -0.450
gendstat: Bahamas_SouthAndros_Ceramic.SG Anatolia_N.SG 0.411
gendstat: Bahamas_SouthAndros_Ceramic.SG CHG -0.399
gendstat: Bahamas_SouthAndros_Ceramic.SG Iran_TepeAbdulHosein_N.SG 0.138
gendstat: Bahamas_SouthAndros_Ceramic.SG Lebanon_MBA.SG -1.621
gendstat: Bahamas_SouthAndros_Ceramic.SG Yana_UP -1.180
gendstat: Bahamas_SouthAndros_Ceramic.SG Swiss_HG -0.915
gendstat: Bahamas_SouthAndros_Ceramic.SG Rome_Imperial -1.115
gendstat: Bahamas_SouthAndros_Ceramic.SG DevilsGate_N -1.575
gendstat: Bahamas_SouthAndros_Ceramic.SG Guanche -1.234
gendstat: Bahamas_SouthAndros_Ceramic.SG Kenya_PastoralN -1.383
gendstat: Greece_Koufonisi_Cycladic_EBA.SG Anatolia_N.SG 0.924
gendstat: Greece_Koufonisi_Cycladic_EBA.SG CHG 0.040
gendstat: Greece_Koufonisi_Cycladic_EBA.SG Iran_TepeAbdulHosein_N.SG 0.561
gendstat: Greece_Koufonisi_Cycladic_EBA.SG Lebanon_MBA.SG -1.153
gendstat: Greece_Koufonisi_Cycladic_EBA.SG Yana_UP -0.597
gendstat: Greece_Koufonisi_Cycladic_EBA.SG Swiss_HG -0.501
gendstat: Greece_Koufonisi_Cycladic_EBA.SG Rome_Imperial -0.483
gendstat: Greece_Koufonisi_Cycladic_EBA.SG DevilsGate_N -0.845
gendstat: Greece_Koufonisi_Cycladic_EBA.SG Guanche -0.754
gendstat: Greece_Koufonisi_Cycladic_EBA.SG Kenya_PastoralN -0.849
gendstat: Anatolia_N.SG CHG -0.805
gendstat: Anatolia_N.SG Iran_TepeAbdulHosein_N.SG -0.262
gendstat: Anatolia_N.SG Lebanon_MBA.SG -2.254
gendstat: Anatolia_N.SG Yana_UP -1.548
gendstat: Anatolia_N.SG Swiss_HG -1.301
gendstat: Anatolia_N.SG Rome_Imperial -1.870
gendstat: Anatolia_N.SG DevilsGate_N -1.732
gendstat: Anatolia_N.SG Guanche -1.627
gendstat: Anatolia_N.SG Kenya_PastoralN -1.762
gendstat: CHG Iran_TepeAbdulHosein_N.SG 0.538
gendstat: CHG Lebanon_MBA.SG -1.107
gendstat: CHG Yana_UP -0.636
gendstat: CHG Swiss_HG -0.537
gendstat: CHG Rome_Imperial -0.485
gendstat: CHG DevilsGate_N -0.854
gendstat: CHG Guanche -0.762
gendstat: CHG Kenya_PastoralN -0.825
gendstat: Iran_TepeAbdulHosein_N.SG Lebanon_MBA.SG -1.733
gendstat: Iran_TepeAbdulHosein_N.SG Yana_UP -1.123
gendstat: Iran_TepeAbdulHosein_N.SG Swiss_HG -1.004
gendstat: Iran_TepeAbdulHosein_N.SG Rome_Imperial -1.230
gendstat: Iran_TepeAbdulHosein_N.SG DevilsGate_N -1.386
gendstat: Iran_TepeAbdulHosein_N.SG Guanche -1.295
gendstat: Iran_TepeAbdulHosein_N.SG Kenya_PastoralN -1.413
gendstat: Lebanon_MBA.SG Yana_UP 0.440
gendstat: Lebanon_MBA.SG Swiss_HG 0.415
gendstat: Lebanon_MBA.SG Rome_Imperial 1.143
gendstat: Lebanon_MBA.SG DevilsGate_N 0.164
gendstat: Lebanon_MBA.SG Guanche 0.186
gendstat: Lebanon_MBA.SG Kenya_PastoralN 0.201
gendstat: Yana_UP Swiss_HG 0.027
gendstat: Yana_UP Rome_Imperial 0.330
gendstat: Yana_UP DevilsGate_N -0.262
gendstat: Yana_UP Guanche -0.206
gendstat: Yana_UP Kenya_PastoralN -0.235
gendstat: Swiss_HG Rome_Imperial 0.240
gendstat: Swiss_HG DevilsGate_N -0.253
gendstat: Swiss_HG Guanche -0.217
gendstat: Swiss_HG Kenya_PastoralN -0.227
gendstat: Rome_Imperial DevilsGate_N -0.637
gendstat: Rome_Imperial Guanche -0.568
gendstat: Rome_Imperial Kenya_PastoralN -0.644
gendstat: DevilsGate_N Guanche 0.024
gendstat: DevilsGate_N Kenya_PastoralN 0.028
gendstat: Guanche Kenya_PastoralN -0.000

warsame
12-26-2021, 04:28 AM
yes, i have L3i2
and i'm somali from Dilla Awdal somalia

warsame
12-26-2021, 04:32 AM
Cushitic and Semitic nothing to do DNA for that reason don't confuse languages, culture and haplogroup

NetNomad
01-16-2022, 04:32 PM
Cushitic and Semitic nothing to do DNA for that reason don't confuse languages, culture and haplogroup

Population geneticists use terms originating from the field of linguistics to describe autosomal clusters all the time.

Semitic is from the Neolithic Southern Levant. Cushitic is from Northeast Africa.

Both were spread by people and therefore have genetic markers associated with them. Do not insert political ideology into anthropology.

Gentica277282
02-05-2022, 11:01 PM
So is the thesis that Somalis have Levantine jor Eba like ancestry

Mnemonics
02-06-2022, 12:01 AM
So is the thesis that Somalis have Levantine jor Eba like ancestry

It seems to be more Egyptian-like than Jordan_EBA. Jordan_EBA has too little Iberomaursusian-like and AEA ancestry for a simple model to work.






left pops:
Somali
Kenya_PastoralIA
Ancient_Egyptian

right pops:
Cameroon_SMA.SG
Mota
South_Africa_HG
BachoKiro
Eastern_Euro_UP.SG
DevilsGate_N.SG
Yana_UP
Kazakhstan_Botai_Eneolithic.SG
Lebanon_MBA.SG
Ancient_Egyptian.SG
Barcin_N.SG
Boncuklu_N.SG
Iran_N.SG
Russia_Mesolithic.SG
CHG
Portugal_MN.SG
British_Mesolithic.SG
Lebanon_IA3.SG
Italy_Mesolithic.SG
Italy_N.SG
Russia_Afanasievo.SG
Guanche.SG

0 Somali 40
1 Kenya_PastoralIA 3
2 Ancient_Egyptian 2
3 Cameroon_SMA.SG 3
4 Mota 1
5 South_Africa_HG 4
6 BachoKiro 3
7 Eastern_Euro_UP.SG 3
8 DevilsGate_N.SG 4
9 Yana_UP 2
10 Kazakhstan_Botai_Eneolithic.SG 3
11 Lebanon_MBA.SG 5
12 Ancient_Egyptian.SG 2
13 Barcin_N.SG 3
14 Boncuklu_N.SG 6
15 Iran_N.SG 4
16 Russia_Mesolithic.SG 2
17 CHG 2
18 Portugal_MN.SG 6
19 British_Mesolithic.SG 3
20 Lebanon_IA3.SG 8
21 Italy_Mesolithic.SG 3
22 Italy_N.SG 8
23 Russia_Afanasievo.SG 5
24 Guanche.SG 4
jackknife block size: 0.050
snps: 1150454 indivs: 129
number of blocks for block jackknife: 714
## ncols: 1150454
coverage: Somali 438471
coverage: Kenya_PastoralIA 654056
coverage: Ancient_Egyptian 544572
coverage: Cameroon_SMA.SG 1149654
coverage: Mota 1134612
coverage: South_Africa_HG 1135129
coverage: BachoKiro 990561
coverage: Eastern_Euro_UP.SG 1150149
coverage: DevilsGate_N.SG 1134715
coverage: Yana_UP 1135189
coverage: Kazakhstan_Botai_Eneolithic.SG 1149869
coverage: Lebanon_MBA.SG 1138714
coverage: Ancient_Egyptian.SG 1076292
coverage: Barcin_N.SG 1150122
coverage: Boncuklu_N.SG 1138952
coverage: Iran_N.SG 1149571
coverage: Russia_Mesolithic.SG 1144318
coverage: CHG 1134595
coverage: Portugal_MN.SG 1149987
coverage: British_Mesolithic.SG 1149936
coverage: Lebanon_IA3.SG 1144168
coverage: Italy_Mesolithic.SG 1141309
coverage: Italy_N.SG 1142684
coverage: Russia_Afanasievo.SG 1148121
coverage: Guanche.SG 1140173
Effective number of blocks: 638.179
numsnps used: 220276
codimension 1
f4info:
f4rank: 1 dof: 20 chisq: 10.895 tail: 0.948909937 dofdiff: 22 chisqdiff: -10.895 taildiff: 1
B:
scale 1.000
Mota 0.001
South_Africa_HG -0.068
BachoKiro 0.779
Eastern_Euro_UP.SG 0.998
DevilsGate_N.SG 0.832
Yana_UP 0.915
Kazakhstan_Botai_Eneolithic.SG 0.984
Lebanon_MBA.SG 1.147
Ancient_Egyptian.SG 1.120
Barcin_N.SG 1.157
Boncuklu_N.SG 1.188
Iran_N.SG 1.014
Russia_Mesolithic.SG 1.040
CHG 1.086
Portugal_MN.SG 1.168
British_Mesolithic.SG 1.059
Lebanon_IA3.SG 1.132
Italy_Mesolithic.SG 1.076
Italy_N.SG 1.179
Russia_Afanasievo.SG 1.089
Guanche.SG 0.885
A:
scale 106.440
Kenya_PastoralIA -0.464
Ancient_Egyptian 1.336


full rank
f4info:
f4rank: 2 dof: 0 chisq: 0.000 tail: 1 dofdiff: 20 chisqdiff: 10.895 taildiff: 0.948909937
B:
scale 217.136 77.522
Mota -0.051 0.038
South_Africa_HG 0.022 -0.028
BachoKiro -0.778 0.791
Eastern_Euro_UP.SG -1.034 0.993
DevilsGate_N.SG -0.879 0.836
Yana_UP -0.955 0.912
Kazakhstan_Botai_Eneolithic.SG -0.998 0.996
Lebanon_MBA.SG -1.145 1.141
Ancient_Egyptian.SG -1.119 1.106
Barcin_N.SG -1.123 1.153
Boncuklu_N.SG -1.118 1.188
Iran_N.SG -1.004 1.020
Russia_Mesolithic.SG -1.052 1.048
CHG -1.067 1.085
Portugal_MN.SG -1.181 1.161
British_Mesolithic.SG -1.036 1.065
Lebanon_IA3.SG -1.115 1.131
Italy_Mesolithic.SG -1.072 1.079
Italy_N.SG -1.167 1.173
Russia_Afanasievo.SG -1.103 1.090
Guanche.SG -0.936 0.890
A:
scale 1.414 1.414
Kenya_PastoralIA 1.414 0.000
Ancient_Egyptian 0.000 1.414


best coefficients: 0.742 0.258
Jackknife mean: 0.741835103 0.258164897
std. errors: 0.012 0.012

error covariance (* 1,000,000)
143 -143
-143 143


summ: Somali 2 0.948910 0.742 0.258 143 -143 143

fixed pat wt dof chisq tail prob
00 0 20 10.895 0.94891 0.742 0.258
01 1 21 289.688 0 1.000 0.000
10 1 21 2532.549 0 0.000 1.000
best pat: 00 0.94891 - -
best pat: 01 3.96791e-49 chi(nested): 278.793 p-value for nested model: 1.37593e-62

coeffs: 0.742 0.258

## dscore:: f_4(Base, Fit, Rbase, right2)
## genstat:: f_4(Base, Fit, right1, right2)

details: Kenya_PastoralIA Mota -0.000235 -0.613785
details: Ancient_Egyptian Mota 0.000496 1.280190
dscore: Mota f4: -0.000047 Z: -0.153721

details: Kenya_PastoralIA South_Africa_HG 0.000101 0.365294
details: Ancient_Egyptian South_Africa_HG -0.000359 -1.200534
dscore: South_Africa_HG f4: -0.000018 Z: -0.081145

details: Kenya_PastoralIA BachoKiro -0.003581 -9.275768
details: Ancient_Egyptian BachoKiro 0.010204 25.093046
dscore: BachoKiro f4: -0.000026 Z: -0.085324

details: Kenya_PastoralIA Eastern_Euro_UP.SG -0.004760 -12.211033
details: Ancient_Egyptian Eastern_Euro_UP.SG 0.012815 31.749765
dscore: Eastern_Euro_UP.SG f4: -0.000228 Z: -0.758800

details: Kenya_PastoralIA DevilsGate_N.SG -0.004049 -10.346363
details: Ancient_Egyptian DevilsGate_N.SG 0.010789 26.498725
dscore: DevilsGate_N.SG f4: -0.000222 Z: -0.725001

details: Kenya_PastoralIA Yana_UP -0.004396 -11.381934
details: Ancient_Egyptian Yana_UP 0.011766 28.131189
dscore: Yana_UP f4: -0.000228 Z: -0.746524

details: Kenya_PastoralIA Kazakhstan_Botai_Eneolithic.SG -0.004597 -11.903328
details: Ancient_Egyptian Kazakhstan_Botai_Eneolithic.SG 0.012850 30.753598
dscore: Kazakhstan_Botai_Eneolithic.SG f4: -0.000098 Z: -0.323865

details: Kenya_PastoralIA Lebanon_MBA.SG -0.005272 -13.776894
details: Ancient_Egyptian Lebanon_MBA.SG 0.014725 37.847250
dscore: Lebanon_MBA.SG f4: -0.000115 Z: -0.386766

details: Kenya_PastoralIA Ancient_Egyptian.SG -0.005152 -12.014099
details: Ancient_Egyptian Ancient_Egyptian.SG 0.014267 33.695065
dscore: Ancient_Egyptian.SG f4: -0.000144 Z: -0.423650

details: Kenya_PastoralIA Barcin_N.SG -0.005173 -12.941831
details: Ancient_Egyptian Barcin_N.SG 0.014867 36.626820
dscore: Barcin_N.SG f4: -0.000005 Z: -0.014828

details: Kenya_PastoralIA Boncuklu_N.SG -0.005149 -13.513215
details: Ancient_Egyptian Boncuklu_N.SG 0.015319 38.414050
dscore: Boncuklu_N.SG f4: 0.000129 Z: 0.432534

details: Kenya_PastoralIA Iran_N.SG -0.004622 -11.777803
details: Ancient_Egyptian Iran_N.SG 0.013151 32.909067
dscore: Iran_N.SG f4: -0.000038 Z: -0.124975

details: Kenya_PastoralIA Russia_Mesolithic.SG -0.004847 -11.443154
details: Ancient_Egyptian Russia_Mesolithic.SG 0.013522 30.783611
dscore: Russia_Mesolithic.SG f4: -0.000109 Z: -0.330661

details: Kenya_PastoralIA CHG -0.004915 -11.304581
details: Ancient_Egyptian CHG 0.013997 31.672279
dscore: CHG f4: -0.000038 Z: -0.112456

details: Kenya_PastoralIA Portugal_MN.SG -0.005440 -14.297827
details: Ancient_Egyptian Portugal_MN.SG 0.014973 38.727623
dscore: Portugal_MN.SG f4: -0.000176 Z: -0.591516

details: Kenya_PastoralIA British_Mesolithic.SG -0.004772 -12.062398
details: Ancient_Egyptian British_Mesolithic.SG 0.013737 32.213492
dscore: British_Mesolithic.SG f4: 0.000001 Z: 0.003997

details: Kenya_PastoralIA Lebanon_IA3.SG -0.005133 -13.412536
details: Ancient_Egyptian Lebanon_IA3.SG 0.014587 39.285972
dscore: Lebanon_IA3.SG f4: -0.000047 Z: -0.160805

details: Kenya_PastoralIA Italy_Mesolithic.SG -0.004936 -11.977310
details: Ancient_Egyptian Italy_Mesolithic.SG 0.013919 31.135205
dscore: Italy_Mesolithic.SG f4: -0.000074 Z: -0.223770

details: Kenya_PastoralIA Italy_N.SG -0.005376 -14.232470
details: Ancient_Egyptian Italy_N.SG 0.015133 40.458933
dscore: Italy_N.SG f4: -0.000087 Z: -0.292761

details: Kenya_PastoralIA Russia_Afanasievo.SG -0.005081 -13.045001
details: Ancient_Egyptian Russia_Afanasievo.SG 0.014060 35.475978
dscore: Russia_Afanasievo.SG f4: -0.000144 Z: -0.475508

details: Kenya_PastoralIA Guanche.SG -0.004312 -10.537667
details: Ancient_Egyptian Guanche.SG 0.011480 26.994319
dscore: Guanche.SG f4: -0.000239 Z: -0.746440

gendstat: Cameroon_SMA.SG Mota -0.154
gendstat: Cameroon_SMA.SG South_Africa_HG -0.081
gendstat: Cameroon_SMA.SG BachoKiro -0.085
gendstat: Cameroon_SMA.SG Eastern_Euro_UP.SG -0.759
gendstat: Cameroon_SMA.SG DevilsGate_N.SG -0.725
gendstat: Cameroon_SMA.SG Yana_UP -0.747
gendstat: Cameroon_SMA.SG Kazakhstan_Botai_Eneolithic.SG -0.324
gendstat: Cameroon_SMA.SG Lebanon_MBA.SG -0.387
gendstat: Cameroon_SMA.SG Ancient_Egyptian.SG -0.424
gendstat: Cameroon_SMA.SG Barcin_N.SG -0.015
gendstat: Cameroon_SMA.SG Boncuklu_N.SG 0.433
gendstat: Cameroon_SMA.SG Iran_N.SG -0.125
gendstat: Cameroon_SMA.SG Russia_Mesolithic.SG -0.331
gendstat: Cameroon_SMA.SG CHG -0.112
gendstat: Cameroon_SMA.SG Portugal_MN.SG -0.592
gendstat: Cameroon_SMA.SG British_Mesolithic.SG 0.004
gendstat: Cameroon_SMA.SG Lebanon_IA3.SG -0.161
gendstat: Cameroon_SMA.SG Italy_Mesolithic.SG -0.224
gendstat: Cameroon_SMA.SG Italy_N.SG -0.293
gendstat: Cameroon_SMA.SG Russia_Afanasievo.SG -0.476
gendstat: Cameroon_SMA.SG Guanche.SG -0.746
gendstat: Mota South_Africa_HG 0.096
gendstat: Mota BachoKiro 0.059
gendstat: Mota Eastern_Euro_UP.SG -0.527
gendstat: Mota DevilsGate_N.SG -0.495
gendstat: Mota Yana_UP -0.496
gendstat: Mota Kazakhstan_Botai_Eneolithic.SG -0.148
gendstat: Mota Lebanon_MBA.SG -0.199
gendstat: Mota Ancient_Egyptian.SG -0.253
gendstat: Mota Barcin_N.SG 0.116
gendstat: Mota Boncuklu_N.SG 0.501
gendstat: Mota Iran_N.SG 0.024
gendstat: Mota Russia_Mesolithic.SG -0.174
gendstat: Mota CHG 0.023
gendstat: Mota Portugal_MN.SG -0.379
gendstat: Mota British_Mesolithic.SG 0.135
gendstat: Mota Lebanon_IA3.SG -0.002
gendstat: Mota Italy_Mesolithic.SG -0.073
gendstat: Mota Italy_N.SG -0.117
gendstat: Mota Russia_Afanasievo.SG -0.281
gendstat: Mota Guanche.SG -0.517
gendstat: South_Africa_HG BachoKiro -0.027
gendstat: South_Africa_HG Eastern_Euro_UP.SG -0.694
gendstat: South_Africa_HG DevilsGate_N.SG -0.655
gendstat: South_Africa_HG Yana_UP -0.672
gendstat: South_Africa_HG Kazakhstan_Botai_Eneolithic.SG -0.260
gendstat: South_Africa_HG Lebanon_MBA.SG -0.326
gendstat: South_Africa_HG Ancient_Egyptian.SG -0.369
gendstat: South_Africa_HG Barcin_N.SG 0.041
gendstat: South_Africa_HG Boncuklu_N.SG 0.490
gendstat: South_Africa_HG Iran_N.SG -0.067
gendstat: South_Africa_HG Russia_Mesolithic.SG -0.274
gendstat: South_Africa_HG CHG -0.062
gendstat: South_Africa_HG Portugal_MN.SG -0.528
gendstat: South_Africa_HG British_Mesolithic.SG 0.060
gendstat: South_Africa_HG Lebanon_IA3.SG -0.098
gendstat: South_Africa_HG Italy_Mesolithic.SG -0.169
gendstat: South_Africa_HG Italy_N.SG -0.234
gendstat: South_Africa_HG Russia_Afanasievo.SG -0.416
gendstat: South_Africa_HG Guanche.SG -0.679
gendstat: BachoKiro Eastern_Euro_UP.SG -0.757
gendstat: BachoKiro DevilsGate_N.SG -0.721
gendstat: BachoKiro Yana_UP -0.726
gendstat: BachoKiro Kazakhstan_Botai_Eneolithic.SG -0.266
gendstat: BachoKiro Lebanon_MBA.SG -0.346
gendstat: BachoKiro Ancient_Egyptian.SG -0.398
gendstat: BachoKiro Barcin_N.SG 0.076
gendstat: BachoKiro Boncuklu_N.SG 0.568
gendstat: BachoKiro Iran_N.SG -0.044
gendstat: BachoKiro Russia_Mesolithic.SG -0.280
gendstat: BachoKiro CHG -0.040
gendstat: BachoKiro Portugal_MN.SG -0.588
gendstat: BachoKiro British_Mesolithic.SG 0.100
gendstat: BachoKiro Lebanon_IA3.SG -0.082
gendstat: BachoKiro Italy_Mesolithic.SG -0.164
gendstat: BachoKiro Italy_N.SG -0.236
gendstat: BachoKiro Russia_Afanasievo.SG -0.444
gendstat: BachoKiro Guanche.SG -0.709
gendstat: Eastern_Euro_UP.SG DevilsGate_N.SG 0.021
gendstat: Eastern_Euro_UP.SG Yana_UP -0.001
gendstat: Eastern_Euro_UP.SG Kazakhstan_Botai_Eneolithic.SG 0.544
gendstat: Eastern_Euro_UP.SG Lebanon_MBA.SG 0.497
gendstat: Eastern_Euro_UP.SG Ancient_Egyptian.SG 0.309
gendstat: Eastern_Euro_UP.SG Barcin_N.SG 0.936
gendstat: Eastern_Euro_UP.SG Boncuklu_N.SG 1.531
gendstat: Eastern_Euro_UP.SG Iran_N.SG 0.762
gendstat: Eastern_Euro_UP.SG Russia_Mesolithic.SG 0.443
gendstat: Eastern_Euro_UP.SG CHG 0.677
gendstat: Eastern_Euro_UP.SG Portugal_MN.SG 0.243
gendstat: Eastern_Euro_UP.SG British_Mesolithic.SG 0.949
gendstat: Eastern_Euro_UP.SG Lebanon_IA3.SG 0.816
gendstat: Eastern_Euro_UP.SG Italy_Mesolithic.SG 0.590
gendstat: Eastern_Euro_UP.SG Italy_N.SG 0.636
gendstat: Eastern_Euro_UP.SG Russia_Afanasievo.SG 0.356
gendstat: Eastern_Euro_UP.SG Guanche.SG -0.043
gendstat: DevilsGate_N.SG Yana_UP -0.022
gendstat: DevilsGate_N.SG Kazakhstan_Botai_Eneolithic.SG 0.508
gendstat: DevilsGate_N.SG Lebanon_MBA.SG 0.420
gendstat: DevilsGate_N.SG Ancient_Egyptian.SG 0.258
gendstat: DevilsGate_N.SG Barcin_N.SG 0.826
gendstat: DevilsGate_N.SG Boncuklu_N.SG 1.336
gendstat: DevilsGate_N.SG Iran_N.SG 0.709
gendstat: DevilsGate_N.SG Russia_Mesolithic.SG 0.386
gendstat: DevilsGate_N.SG CHG 0.614
gendstat: DevilsGate_N.SG Portugal_MN.SG 0.187
gendstat: DevilsGate_N.SG British_Mesolithic.SG 0.819
gendstat: DevilsGate_N.SG Lebanon_IA3.SG 0.685
gendstat: DevilsGate_N.SG Italy_Mesolithic.SG 0.495
gendstat: DevilsGate_N.SG Italy_N.SG 0.556
gendstat: DevilsGate_N.SG Russia_Afanasievo.SG 0.297
gendstat: DevilsGate_N.SG Guanche.SG -0.057
gendstat: Yana_UP Kazakhstan_Botai_Eneolithic.SG 0.536
gendstat: Yana_UP Lebanon_MBA.SG 0.462
gendstat: Yana_UP Ancient_Egyptian.SG 0.291
gendstat: Yana_UP Barcin_N.SG 0.857
gendstat: Yana_UP Boncuklu_N.SG 1.439
gendstat: Yana_UP Iran_N.SG 0.747
gendstat: Yana_UP Russia_Mesolithic.SG 0.417
gendstat: Yana_UP CHG 0.677
gendstat: Yana_UP Portugal_MN.SG 0.225
gendstat: Yana_UP British_Mesolithic.SG 0.912
gendstat: Yana_UP Lebanon_IA3.SG 0.723
gendstat: Yana_UP Italy_Mesolithic.SG 0.548
gendstat: Yana_UP Italy_N.SG 0.596
gendstat: Yana_UP Russia_Afanasievo.SG 0.341
gendstat: Yana_UP Guanche.SG -0.039
gendstat: Kazakhstan_Botai_Eneolithic.SG Lebanon_MBA.SG -0.078
gendstat: Kazakhstan_Botai_Eneolithic.SG Ancient_Egyptian.SG -0.167
gendstat: Kazakhstan_Botai_Eneolithic.SG Barcin_N.SG 0.402
gendstat: Kazakhstan_Botai_Eneolithic.SG Boncuklu_N.SG 0.989
gendstat: Kazakhstan_Botai_Eneolithic.SG Iran_N.SG 0.255
gendstat: Kazakhstan_Botai_Eneolithic.SG Russia_Mesolithic.SG -0.049
gendstat: Kazakhstan_Botai_Eneolithic.SG CHG 0.224
gendstat: Kazakhstan_Botai_Eneolithic.SG Portugal_MN.SG -0.373
gendstat: Kazakhstan_Botai_Eneolithic.SG British_Mesolithic.SG 0.407
gendstat: Kazakhstan_Botai_Eneolithic.SG Lebanon_IA3.SG 0.232
gendstat: Kazakhstan_Botai_Eneolithic.SG Italy_Mesolithic.SG 0.089
gendstat: Kazakhstan_Botai_Eneolithic.SG Italy_N.SG 0.052
gendstat: Kazakhstan_Botai_Eneolithic.SG Russia_Afanasievo.SG -0.214
gendstat: Kazakhstan_Botai_Eneolithic.SG Guanche.SG -0.494
gendstat: Lebanon_MBA.SG Ancient_Egyptian.SG -0.117
gendstat: Lebanon_MBA.SG Barcin_N.SG 0.542
gendstat: Lebanon_MBA.SG Boncuklu_N.SG 1.188
gendstat: Lebanon_MBA.SG Iran_N.SG 0.363
gendstat: Lebanon_MBA.SG Russia_Mesolithic.SG 0.021
gendstat: Lebanon_MBA.SG CHG 0.315
gendstat: Lebanon_MBA.SG Portugal_MN.SG -0.341
gendstat: Lebanon_MBA.SG British_Mesolithic.SG 0.496
gendstat: Lebanon_MBA.SG Lebanon_IA3.SG 0.354
gendstat: Lebanon_MBA.SG Italy_Mesolithic.SG 0.161
gendstat: Lebanon_MBA.SG Italy_N.SG 0.161
gendstat: Lebanon_MBA.SG Russia_Afanasievo.SG -0.142
gendstat: Lebanon_MBA.SG Guanche.SG -0.480
gendstat: Ancient_Egyptian.SG Barcin_N.SG 0.554
gendstat: Ancient_Egyptian.SG Boncuklu_N.SG 1.082
gendstat: Ancient_Egyptian.SG Iran_N.SG 0.388
gendstat: Ancient_Egyptian.SG Russia_Mesolithic.SG 0.119
gendstat: Ancient_Egyptian.SG CHG 0.354
gendstat: Ancient_Egyptian.SG Portugal_MN.SG -0.137
gendstat: Ancient_Egyptian.SG British_Mesolithic.SG 0.519
gendstat: Ancient_Egyptian.SG Lebanon_IA3.SG 0.399
gendstat: Ancient_Egyptian.SG Italy_Mesolithic.SG 0.232
gendstat: Ancient_Egyptian.SG Italy_N.SG 0.247
gendstat: Ancient_Egyptian.SG Russia_Afanasievo.SG -0.003
gendstat: Ancient_Egyptian.SG Guanche.SG -0.309
gendstat: Barcin_N.SG Boncuklu_N.SG 0.662
gendstat: Barcin_N.SG Iran_N.SG -0.143
gendstat: Barcin_N.SG Russia_Mesolithic.SG -0.392
gendstat: Barcin_N.SG CHG -0.127
gendstat: Barcin_N.SG Portugal_MN.SG -0.928
gendstat: Barcin_N.SG British_Mesolithic.SG 0.024
gendstat: Barcin_N.SG Lebanon_IA3.SG -0.219
gendstat: Barcin_N.SG Italy_Mesolithic.SG -0.265
gendstat: Barcin_N.SG Italy_N.SG -0.463
gendstat: Barcin_N.SG Russia_Afanasievo.SG -0.626
gendstat: Barcin_N.SG Guanche.SG -0.904
gendstat: Boncuklu_N.SG Iran_N.SG -0.739
gendstat: Boncuklu_N.SG Russia_Mesolithic.SG -0.906
gendstat: Boncuklu_N.SG CHG -0.629
gendstat: Boncuklu_N.SG Portugal_MN.SG -1.700
gendstat: Boncuklu_N.SG British_Mesolithic.SG -0.538
gendstat: Boncuklu_N.SG Lebanon_IA3.SG -0.929
gendstat: Boncuklu_N.SG Italy_Mesolithic.SG -0.780
gendstat: Boncuklu_N.SG Italy_N.SG -1.236
gendstat: Boncuklu_N.SG Russia_Afanasievo.SG -1.271
gendstat: Boncuklu_N.SG Guanche.SG -1.391
gendstat: Iran_N.SG Russia_Mesolithic.SG -0.261
gendstat: Iran_N.SG CHG -0.000
gendstat: Iran_N.SG Portugal_MN.SG -0.629
gendstat: Iran_N.SG British_Mesolithic.SG 0.154
gendstat: Iran_N.SG Lebanon_IA3.SG -0.043
gendstat: Iran_N.SG Italy_Mesolithic.SG -0.127
gendstat: Iran_N.SG Italy_N.SG -0.230
gendstat: Iran_N.SG Russia_Afanasievo.SG -0.459
gendstat: Iran_N.SG Guanche.SG -0.704
gendstat: Russia_Mesolithic.SG CHG 0.234
gendstat: Russia_Mesolithic.SG Portugal_MN.SG -0.278
gendstat: Russia_Mesolithic.SG British_Mesolithic.SG 0.422
gendstat: Russia_Mesolithic.SG Lebanon_IA3.SG 0.247
gendstat: Russia_Mesolithic.SG Italy_Mesolithic.SG 0.126
gendstat: Russia_Mesolithic.SG Italy_N.SG 0.093
gendstat: Russia_Mesolithic.SG Russia_Afanasievo.SG -0.146
gendstat: Russia_Mesolithic.SG Guanche.SG -0.436
gendstat: CHG Portugal_MN.SG -0.554
gendstat: CHG British_Mesolithic.SG 0.139
gendstat: CHG Lebanon_IA3.SG -0.037
gendstat: CHG Italy_Mesolithic.SG -0.117
gendstat: CHG Italy_N.SG -0.199
gendstat: CHG Russia_Afanasievo.SG -0.411
gendstat: CHG Guanche.SG -0.656
gendstat: Portugal_MN.SG British_Mesolithic.SG 0.853
gendstat: Portugal_MN.SG Lebanon_IA3.SG 0.751
gendstat: Portugal_MN.SG Italy_Mesolithic.SG 0.448
gendstat: Portugal_MN.SG Italy_N.SG 0.594
gendstat: Portugal_MN.SG Russia_Afanasievo.SG 0.159
gendstat: Portugal_MN.SG Guanche.SG -0.253
gendstat: British_Mesolithic.SG Lebanon_IA3.SG -0.209
gendstat: British_Mesolithic.SG Italy_Mesolithic.SG -0.365
gendstat: British_Mesolithic.SG Italy_N.SG -0.397
gendstat: British_Mesolithic.SG Russia_Afanasievo.SG -0.628
gendstat: British_Mesolithic.SG Guanche.SG -0.901
gendstat: Lebanon_IA3.SG Italy_Mesolithic.SG -0.106
gendstat: Lebanon_IA3.SG Italy_N.SG -0.237
gendstat: Lebanon_IA3.SG Russia_Afanasievo.SG -0.469
gendstat: Lebanon_IA3.SG Guanche.SG -0.764
gendstat: Italy_Mesolithic.SG Italy_N.SG -0.052
gendstat: Italy_Mesolithic.SG Russia_Afanasievo.SG -0.279
gendstat: Italy_Mesolithic.SG Guanche.SG -0.573
gendstat: Italy_N.SG Russia_Afanasievo.SG -0.289
gendstat: Italy_N.SG Guanche.SG -0.614
gendstat: Russia_Afanasievo.SG Guanche.SG -0.351

Gentica277282
02-06-2022, 12:15 AM
It seems to be more Egyptian-like than Jordan_EBA. Jordan_EBA has too little Iberomaursusian-like and AEA ancestry for a simple model to work.






left pops:
Somali
Kenya_PastoralIA
Ancient_Egyptian

right pops:
Cameroon_SMA.SG
Mota
South_Africa_HG
BachoKiro
Eastern_Euro_UP.SG
DevilsGate_N.SG
Yana_UP
Kazakhstan_Botai_Eneolithic.SG
Lebanon_MBA.SG
Ancient_Egyptian.SG
Barcin_N.SG
Boncuklu_N.SG
Iran_N.SG
Russia_Mesolithic.SG
CHG
Portugal_MN.SG
British_Mesolithic.SG
Lebanon_IA3.SG
Italy_Mesolithic.SG
Italy_N.SG
Russia_Afanasievo.SG
Guanche.SG

0 Somali 40
1 Kenya_PastoralIA 3
2 Ancient_Egyptian 2
3 Cameroon_SMA.SG 3
4 Mota 1
5 South_Africa_HG 4
6 BachoKiro 3
7 Eastern_Euro_UP.SG 3
8 DevilsGate_N.SG 4
9 Yana_UP 2
10 Kazakhstan_Botai_Eneolithic.SG 3
11 Lebanon_MBA.SG 5
12 Ancient_Egyptian.SG 2
13 Barcin_N.SG 3
14 Boncuklu_N.SG 6
15 Iran_N.SG 4
16 Russia_Mesolithic.SG 2
17 CHG 2
18 Portugal_MN.SG 6
19 British_Mesolithic.SG 3
20 Lebanon_IA3.SG 8
21 Italy_Mesolithic.SG 3
22 Italy_N.SG 8
23 Russia_Afanasievo.SG 5
24 Guanche.SG 4
jackknife block size: 0.050
snps: 1150454 indivs: 129
number of blocks for block jackknife: 714
## ncols: 1150454
coverage: Somali 438471
coverage: Kenya_PastoralIA 654056
coverage: Ancient_Egyptian 544572
coverage: Cameroon_SMA.SG 1149654
coverage: Mota 1134612
coverage: South_Africa_HG 1135129
coverage: BachoKiro 990561
coverage: Eastern_Euro_UP.SG 1150149
coverage: DevilsGate_N.SG 1134715
coverage: Yana_UP 1135189
coverage: Kazakhstan_Botai_Eneolithic.SG 1149869
coverage: Lebanon_MBA.SG 1138714
coverage: Ancient_Egyptian.SG 1076292
coverage: Barcin_N.SG 1150122
coverage: Boncuklu_N.SG 1138952
coverage: Iran_N.SG 1149571
coverage: Russia_Mesolithic.SG 1144318
coverage: CHG 1134595
coverage: Portugal_MN.SG 1149987
coverage: British_Mesolithic.SG 1149936
coverage: Lebanon_IA3.SG 1144168
coverage: Italy_Mesolithic.SG 1141309
coverage: Italy_N.SG 1142684
coverage: Russia_Afanasievo.SG 1148121
coverage: Guanche.SG 1140173
Effective number of blocks: 638.179
numsnps used: 220276
codimension 1
f4info:
f4rank: 1 dof: 20 chisq: 10.895 tail: 0.948909937 dofdiff: 22 chisqdiff: -10.895 taildiff: 1
B:
scale 1.000
Mota 0.001
South_Africa_HG -0.068
BachoKiro 0.779
Eastern_Euro_UP.SG 0.998
DevilsGate_N.SG 0.832
Yana_UP 0.915
Kazakhstan_Botai_Eneolithic.SG 0.984
Lebanon_MBA.SG 1.147
Ancient_Egyptian.SG 1.120
Barcin_N.SG 1.157
Boncuklu_N.SG 1.188
Iran_N.SG 1.014
Russia_Mesolithic.SG 1.040
CHG 1.086
Portugal_MN.SG 1.168
British_Mesolithic.SG 1.059
Lebanon_IA3.SG 1.132
Italy_Mesolithic.SG 1.076
Italy_N.SG 1.179
Russia_Afanasievo.SG 1.089
Guanche.SG 0.885
A:
scale 106.440
Kenya_PastoralIA -0.464
Ancient_Egyptian 1.336


full rank
f4info:
f4rank: 2 dof: 0 chisq: 0.000 tail: 1 dofdiff: 20 chisqdiff: 10.895 taildiff: 0.948909937
B:
scale 217.136 77.522
Mota -0.051 0.038
South_Africa_HG 0.022 -0.028
BachoKiro -0.778 0.791
Eastern_Euro_UP.SG -1.034 0.993
DevilsGate_N.SG -0.879 0.836
Yana_UP -0.955 0.912
Kazakhstan_Botai_Eneolithic.SG -0.998 0.996
Lebanon_MBA.SG -1.145 1.141
Ancient_Egyptian.SG -1.119 1.106
Barcin_N.SG -1.123 1.153
Boncuklu_N.SG -1.118 1.188
Iran_N.SG -1.004 1.020
Russia_Mesolithic.SG -1.052 1.048
CHG -1.067 1.085
Portugal_MN.SG -1.181 1.161
British_Mesolithic.SG -1.036 1.065
Lebanon_IA3.SG -1.115 1.131
Italy_Mesolithic.SG -1.072 1.079
Italy_N.SG -1.167 1.173
Russia_Afanasievo.SG -1.103 1.090
Guanche.SG -0.936 0.890
A:
scale 1.414 1.414
Kenya_PastoralIA 1.414 0.000
Ancient_Egyptian 0.000 1.414


best coefficients: 0.742 0.258
Jackknife mean: 0.741835103 0.258164897
std. errors: 0.012 0.012

error covariance (* 1,000,000)
143 -143
-143 143


summ: Somali 2 0.948910 0.742 0.258 143 -143 143

fixed pat wt dof chisq tail prob
00 0 20 10.895 0.94891 0.742 0.258
01 1 21 289.688 0 1.000 0.000
10 1 21 2532.549 0 0.000 1.000
best pat: 00 0.94891 - -
best pat: 01 3.96791e-49 chi(nested): 278.793 p-value for nested model: 1.37593e-62

coeffs: 0.742 0.258

## dscore:: f_4(Base, Fit, Rbase, right2)
## genstat:: f_4(Base, Fit, right1, right2)

details: Kenya_PastoralIA Mota -0.000235 -0.613785
details: Ancient_Egyptian Mota 0.000496 1.280190
dscore: Mota f4: -0.000047 Z: -0.153721

details: Kenya_PastoralIA South_Africa_HG 0.000101 0.365294
details: Ancient_Egyptian South_Africa_HG -0.000359 -1.200534
dscore: South_Africa_HG f4: -0.000018 Z: -0.081145

details: Kenya_PastoralIA BachoKiro -0.003581 -9.275768
details: Ancient_Egyptian BachoKiro 0.010204 25.093046
dscore: BachoKiro f4: -0.000026 Z: -0.085324

details: Kenya_PastoralIA Eastern_Euro_UP.SG -0.004760 -12.211033
details: Ancient_Egyptian Eastern_Euro_UP.SG 0.012815 31.749765
dscore: Eastern_Euro_UP.SG f4: -0.000228 Z: -0.758800

details: Kenya_PastoralIA DevilsGate_N.SG -0.004049 -10.346363
details: Ancient_Egyptian DevilsGate_N.SG 0.010789 26.498725
dscore: DevilsGate_N.SG f4: -0.000222 Z: -0.725001

details: Kenya_PastoralIA Yana_UP -0.004396 -11.381934
details: Ancient_Egyptian Yana_UP 0.011766 28.131189
dscore: Yana_UP f4: -0.000228 Z: -0.746524

details: Kenya_PastoralIA Kazakhstan_Botai_Eneolithic.SG -0.004597 -11.903328
details: Ancient_Egyptian Kazakhstan_Botai_Eneolithic.SG 0.012850 30.753598
dscore: Kazakhstan_Botai_Eneolithic.SG f4: -0.000098 Z: -0.323865

details: Kenya_PastoralIA Lebanon_MBA.SG -0.005272 -13.776894
details: Ancient_Egyptian Lebanon_MBA.SG 0.014725 37.847250
dscore: Lebanon_MBA.SG f4: -0.000115 Z: -0.386766

details: Kenya_PastoralIA Ancient_Egyptian.SG -0.005152 -12.014099
details: Ancient_Egyptian Ancient_Egyptian.SG 0.014267 33.695065
dscore: Ancient_Egyptian.SG f4: -0.000144 Z: -0.423650

details: Kenya_PastoralIA Barcin_N.SG -0.005173 -12.941831
details: Ancient_Egyptian Barcin_N.SG 0.014867 36.626820
dscore: Barcin_N.SG f4: -0.000005 Z: -0.014828

details: Kenya_PastoralIA Boncuklu_N.SG -0.005149 -13.513215
details: Ancient_Egyptian Boncuklu_N.SG 0.015319 38.414050
dscore: Boncuklu_N.SG f4: 0.000129 Z: 0.432534

details: Kenya_PastoralIA Iran_N.SG -0.004622 -11.777803
details: Ancient_Egyptian Iran_N.SG 0.013151 32.909067
dscore: Iran_N.SG f4: -0.000038 Z: -0.124975

details: Kenya_PastoralIA Russia_Mesolithic.SG -0.004847 -11.443154
details: Ancient_Egyptian Russia_Mesolithic.SG 0.013522 30.783611
dscore: Russia_Mesolithic.SG f4: -0.000109 Z: -0.330661

details: Kenya_PastoralIA CHG -0.004915 -11.304581
details: Ancient_Egyptian CHG 0.013997 31.672279
dscore: CHG f4: -0.000038 Z: -0.112456

details: Kenya_PastoralIA Portugal_MN.SG -0.005440 -14.297827
details: Ancient_Egyptian Portugal_MN.SG 0.014973 38.727623
dscore: Portugal_MN.SG f4: -0.000176 Z: -0.591516

details: Kenya_PastoralIA British_Mesolithic.SG -0.004772 -12.062398
details: Ancient_Egyptian British_Mesolithic.SG 0.013737 32.213492
dscore: British_Mesolithic.SG f4: 0.000001 Z: 0.003997

details: Kenya_PastoralIA Lebanon_IA3.SG -0.005133 -13.412536
details: Ancient_Egyptian Lebanon_IA3.SG 0.014587 39.285972
dscore: Lebanon_IA3.SG f4: -0.000047 Z: -0.160805

details: Kenya_PastoralIA Italy_Mesolithic.SG -0.004936 -11.977310
details: Ancient_Egyptian Italy_Mesolithic.SG 0.013919 31.135205
dscore: Italy_Mesolithic.SG f4: -0.000074 Z: -0.223770

details: Kenya_PastoralIA Italy_N.SG -0.005376 -14.232470
details: Ancient_Egyptian Italy_N.SG 0.015133 40.458933
dscore: Italy_N.SG f4: -0.000087 Z: -0.292761

details: Kenya_PastoralIA Russia_Afanasievo.SG -0.005081 -13.045001
details: Ancient_Egyptian Russia_Afanasievo.SG 0.014060 35.475978
dscore: Russia_Afanasievo.SG f4: -0.000144 Z: -0.475508

details: Kenya_PastoralIA Guanche.SG -0.004312 -10.537667
details: Ancient_Egyptian Guanche.SG 0.011480 26.994319
dscore: Guanche.SG f4: -0.000239 Z: -0.746440

gendstat: Cameroon_SMA.SG Mota -0.154
gendstat: Cameroon_SMA.SG South_Africa_HG -0.081
gendstat: Cameroon_SMA.SG BachoKiro -0.085
gendstat: Cameroon_SMA.SG Eastern_Euro_UP.SG -0.759
gendstat: Cameroon_SMA.SG DevilsGate_N.SG -0.725
gendstat: Cameroon_SMA.SG Yana_UP -0.747
gendstat: Cameroon_SMA.SG Kazakhstan_Botai_Eneolithic.SG -0.324
gendstat: Cameroon_SMA.SG Lebanon_MBA.SG -0.387
gendstat: Cameroon_SMA.SG Ancient_Egyptian.SG -0.424
gendstat: Cameroon_SMA.SG Barcin_N.SG -0.015
gendstat: Cameroon_SMA.SG Boncuklu_N.SG 0.433
gendstat: Cameroon_SMA.SG Iran_N.SG -0.125
gendstat: Cameroon_SMA.SG Russia_Mesolithic.SG -0.331
gendstat: Cameroon_SMA.SG CHG -0.112
gendstat: Cameroon_SMA.SG Portugal_MN.SG -0.592
gendstat: Cameroon_SMA.SG British_Mesolithic.SG 0.004
gendstat: Cameroon_SMA.SG Lebanon_IA3.SG -0.161
gendstat: Cameroon_SMA.SG Italy_Mesolithic.SG -0.224
gendstat: Cameroon_SMA.SG Italy_N.SG -0.293
gendstat: Cameroon_SMA.SG Russia_Afanasievo.SG -0.476
gendstat: Cameroon_SMA.SG Guanche.SG -0.746
gendstat: Mota South_Africa_HG 0.096
gendstat: Mota BachoKiro 0.059
gendstat: Mota Eastern_Euro_UP.SG -0.527
gendstat: Mota DevilsGate_N.SG -0.495
gendstat: Mota Yana_UP -0.496
gendstat: Mota Kazakhstan_Botai_Eneolithic.SG -0.148
gendstat: Mota Lebanon_MBA.SG -0.199
gendstat: Mota Ancient_Egyptian.SG -0.253
gendstat: Mota Barcin_N.SG 0.116
gendstat: Mota Boncuklu_N.SG 0.501
gendstat: Mota Iran_N.SG 0.024
gendstat: Mota Russia_Mesolithic.SG -0.174
gendstat: Mota CHG 0.023
gendstat: Mota Portugal_MN.SG -0.379
gendstat: Mota British_Mesolithic.SG 0.135
gendstat: Mota Lebanon_IA3.SG -0.002
gendstat: Mota Italy_Mesolithic.SG -0.073
gendstat: Mota Italy_N.SG -0.117
gendstat: Mota Russia_Afanasievo.SG -0.281
gendstat: Mota Guanche.SG -0.517
gendstat: South_Africa_HG BachoKiro -0.027
gendstat: South_Africa_HG Eastern_Euro_UP.SG -0.694
gendstat: South_Africa_HG DevilsGate_N.SG -0.655
gendstat: South_Africa_HG Yana_UP -0.672
gendstat: South_Africa_HG Kazakhstan_Botai_Eneolithic.SG -0.260
gendstat: South_Africa_HG Lebanon_MBA.SG -0.326
gendstat: South_Africa_HG Ancient_Egyptian.SG -0.369
gendstat: South_Africa_HG Barcin_N.SG 0.041
gendstat: South_Africa_HG Boncuklu_N.SG 0.490
gendstat: South_Africa_HG Iran_N.SG -0.067
gendstat: South_Africa_HG Russia_Mesolithic.SG -0.274
gendstat: South_Africa_HG CHG -0.062
gendstat: South_Africa_HG Portugal_MN.SG -0.528
gendstat: South_Africa_HG British_Mesolithic.SG 0.060
gendstat: South_Africa_HG Lebanon_IA3.SG -0.098
gendstat: South_Africa_HG Italy_Mesolithic.SG -0.169
gendstat: South_Africa_HG Italy_N.SG -0.234
gendstat: South_Africa_HG Russia_Afanasievo.SG -0.416
gendstat: South_Africa_HG Guanche.SG -0.679
gendstat: BachoKiro Eastern_Euro_UP.SG -0.757
gendstat: BachoKiro DevilsGate_N.SG -0.721
gendstat: BachoKiro Yana_UP -0.726
gendstat: BachoKiro Kazakhstan_Botai_Eneolithic.SG -0.266
gendstat: BachoKiro Lebanon_MBA.SG -0.346
gendstat: BachoKiro Ancient_Egyptian.SG -0.398
gendstat: BachoKiro Barcin_N.SG 0.076
gendstat: BachoKiro Boncuklu_N.SG 0.568
gendstat: BachoKiro Iran_N.SG -0.044
gendstat: BachoKiro Russia_Mesolithic.SG -0.280
gendstat: BachoKiro CHG -0.040
gendstat: BachoKiro Portugal_MN.SG -0.588
gendstat: BachoKiro British_Mesolithic.SG 0.100
gendstat: BachoKiro Lebanon_IA3.SG -0.082
gendstat: BachoKiro Italy_Mesolithic.SG -0.164
gendstat: BachoKiro Italy_N.SG -0.236
gendstat: BachoKiro Russia_Afanasievo.SG -0.444
gendstat: BachoKiro Guanche.SG -0.709
gendstat: Eastern_Euro_UP.SG DevilsGate_N.SG 0.021
gendstat: Eastern_Euro_UP.SG Yana_UP -0.001
gendstat: Eastern_Euro_UP.SG Kazakhstan_Botai_Eneolithic.SG 0.544
gendstat: Eastern_Euro_UP.SG Lebanon_MBA.SG 0.497
gendstat: Eastern_Euro_UP.SG Ancient_Egyptian.SG 0.309
gendstat: Eastern_Euro_UP.SG Barcin_N.SG 0.936
gendstat: Eastern_Euro_UP.SG Boncuklu_N.SG 1.531
gendstat: Eastern_Euro_UP.SG Iran_N.SG 0.762
gendstat: Eastern_Euro_UP.SG Russia_Mesolithic.SG 0.443
gendstat: Eastern_Euro_UP.SG CHG 0.677
gendstat: Eastern_Euro_UP.SG Portugal_MN.SG 0.243
gendstat: Eastern_Euro_UP.SG British_Mesolithic.SG 0.949
gendstat: Eastern_Euro_UP.SG Lebanon_IA3.SG 0.816
gendstat: Eastern_Euro_UP.SG Italy_Mesolithic.SG 0.590
gendstat: Eastern_Euro_UP.SG Italy_N.SG 0.636
gendstat: Eastern_Euro_UP.SG Russia_Afanasievo.SG 0.356
gendstat: Eastern_Euro_UP.SG Guanche.SG -0.043
gendstat: DevilsGate_N.SG Yana_UP -0.022
gendstat: DevilsGate_N.SG Kazakhstan_Botai_Eneolithic.SG 0.508
gendstat: DevilsGate_N.SG Lebanon_MBA.SG 0.420
gendstat: DevilsGate_N.SG Ancient_Egyptian.SG 0.258
gendstat: DevilsGate_N.SG Barcin_N.SG 0.826
gendstat: DevilsGate_N.SG Boncuklu_N.SG 1.336
gendstat: DevilsGate_N.SG Iran_N.SG 0.709
gendstat: DevilsGate_N.SG Russia_Mesolithic.SG 0.386
gendstat: DevilsGate_N.SG CHG 0.614
gendstat: DevilsGate_N.SG Portugal_MN.SG 0.187
gendstat: DevilsGate_N.SG British_Mesolithic.SG 0.819
gendstat: DevilsGate_N.SG Lebanon_IA3.SG 0.685
gendstat: DevilsGate_N.SG Italy_Mesolithic.SG 0.495
gendstat: DevilsGate_N.SG Italy_N.SG 0.556
gendstat: DevilsGate_N.SG Russia_Afanasievo.SG 0.297
gendstat: DevilsGate_N.SG Guanche.SG -0.057
gendstat: Yana_UP Kazakhstan_Botai_Eneolithic.SG 0.536
gendstat: Yana_UP Lebanon_MBA.SG 0.462
gendstat: Yana_UP Ancient_Egyptian.SG 0.291
gendstat: Yana_UP Barcin_N.SG 0.857
gendstat: Yana_UP Boncuklu_N.SG 1.439
gendstat: Yana_UP Iran_N.SG 0.747
gendstat: Yana_UP Russia_Mesolithic.SG 0.417
gendstat: Yana_UP CHG 0.677
gendstat: Yana_UP Portugal_MN.SG 0.225
gendstat: Yana_UP British_Mesolithic.SG 0.912
gendstat: Yana_UP Lebanon_IA3.SG 0.723
gendstat: Yana_UP Italy_Mesolithic.SG 0.548
gendstat: Yana_UP Italy_N.SG 0.596
gendstat: Yana_UP Russia_Afanasievo.SG 0.341
gendstat: Yana_UP Guanche.SG -0.039
gendstat: Kazakhstan_Botai_Eneolithic.SG Lebanon_MBA.SG -0.078
gendstat: Kazakhstan_Botai_Eneolithic.SG Ancient_Egyptian.SG -0.167
gendstat: Kazakhstan_Botai_Eneolithic.SG Barcin_N.SG 0.402
gendstat: Kazakhstan_Botai_Eneolithic.SG Boncuklu_N.SG 0.989
gendstat: Kazakhstan_Botai_Eneolithic.SG Iran_N.SG 0.255
gendstat: Kazakhstan_Botai_Eneolithic.SG Russia_Mesolithic.SG -0.049
gendstat: Kazakhstan_Botai_Eneolithic.SG CHG 0.224
gendstat: Kazakhstan_Botai_Eneolithic.SG Portugal_MN.SG -0.373
gendstat: Kazakhstan_Botai_Eneolithic.SG British_Mesolithic.SG 0.407
gendstat: Kazakhstan_Botai_Eneolithic.SG Lebanon_IA3.SG 0.232
gendstat: Kazakhstan_Botai_Eneolithic.SG Italy_Mesolithic.SG 0.089
gendstat: Kazakhstan_Botai_Eneolithic.SG Italy_N.SG 0.052
gendstat: Kazakhstan_Botai_Eneolithic.SG Russia_Afanasievo.SG -0.214
gendstat: Kazakhstan_Botai_Eneolithic.SG Guanche.SG -0.494
gendstat: Lebanon_MBA.SG Ancient_Egyptian.SG -0.117
gendstat: Lebanon_MBA.SG Barcin_N.SG 0.542
gendstat: Lebanon_MBA.SG Boncuklu_N.SG 1.188
gendstat: Lebanon_MBA.SG Iran_N.SG 0.363
gendstat: Lebanon_MBA.SG Russia_Mesolithic.SG 0.021
gendstat: Lebanon_MBA.SG CHG 0.315
gendstat: Lebanon_MBA.SG Portugal_MN.SG -0.341
gendstat: Lebanon_MBA.SG British_Mesolithic.SG 0.496
gendstat: Lebanon_MBA.SG Lebanon_IA3.SG 0.354
gendstat: Lebanon_MBA.SG Italy_Mesolithic.SG 0.161
gendstat: Lebanon_MBA.SG Italy_N.SG 0.161
gendstat: Lebanon_MBA.SG Russia_Afanasievo.SG -0.142
gendstat: Lebanon_MBA.SG Guanche.SG -0.480
gendstat: Ancient_Egyptian.SG Barcin_N.SG 0.554
gendstat: Ancient_Egyptian.SG Boncuklu_N.SG 1.082
gendstat: Ancient_Egyptian.SG Iran_N.SG 0.388
gendstat: Ancient_Egyptian.SG Russia_Mesolithic.SG 0.119
gendstat: Ancient_Egyptian.SG CHG 0.354
gendstat: Ancient_Egyptian.SG Portugal_MN.SG -0.137
gendstat: Ancient_Egyptian.SG British_Mesolithic.SG 0.519
gendstat: Ancient_Egyptian.SG Lebanon_IA3.SG 0.399
gendstat: Ancient_Egyptian.SG Italy_Mesolithic.SG 0.232
gendstat: Ancient_Egyptian.SG Italy_N.SG 0.247
gendstat: Ancient_Egyptian.SG Russia_Afanasievo.SG -0.003
gendstat: Ancient_Egyptian.SG Guanche.SG -0.309
gendstat: Barcin_N.SG Boncuklu_N.SG 0.662
gendstat: Barcin_N.SG Iran_N.SG -0.143
gendstat: Barcin_N.SG Russia_Mesolithic.SG -0.392
gendstat: Barcin_N.SG CHG -0.127
gendstat: Barcin_N.SG Portugal_MN.SG -0.928
gendstat: Barcin_N.SG British_Mesolithic.SG 0.024
gendstat: Barcin_N.SG Lebanon_IA3.SG -0.219
gendstat: Barcin_N.SG Italy_Mesolithic.SG -0.265
gendstat: Barcin_N.SG Italy_N.SG -0.463
gendstat: Barcin_N.SG Russia_Afanasievo.SG -0.626
gendstat: Barcin_N.SG Guanche.SG -0.904
gendstat: Boncuklu_N.SG Iran_N.SG -0.739
gendstat: Boncuklu_N.SG Russia_Mesolithic.SG -0.906
gendstat: Boncuklu_N.SG CHG -0.629
gendstat: Boncuklu_N.SG Portugal_MN.SG -1.700
gendstat: Boncuklu_N.SG British_Mesolithic.SG -0.538
gendstat: Boncuklu_N.SG Lebanon_IA3.SG -0.929
gendstat: Boncuklu_N.SG Italy_Mesolithic.SG -0.780
gendstat: Boncuklu_N.SG Italy_N.SG -1.236
gendstat: Boncuklu_N.SG Russia_Afanasievo.SG -1.271
gendstat: Boncuklu_N.SG Guanche.SG -1.391
gendstat: Iran_N.SG Russia_Mesolithic.SG -0.261
gendstat: Iran_N.SG CHG -0.000
gendstat: Iran_N.SG Portugal_MN.SG -0.629
gendstat: Iran_N.SG British_Mesolithic.SG 0.154
gendstat: Iran_N.SG Lebanon_IA3.SG -0.043
gendstat: Iran_N.SG Italy_Mesolithic.SG -0.127
gendstat: Iran_N.SG Italy_N.SG -0.230
gendstat: Iran_N.SG Russia_Afanasievo.SG -0.459
gendstat: Iran_N.SG Guanche.SG -0.704
gendstat: Russia_Mesolithic.SG CHG 0.234
gendstat: Russia_Mesolithic.SG Portugal_MN.SG -0.278
gendstat: Russia_Mesolithic.SG British_Mesolithic.SG 0.422
gendstat: Russia_Mesolithic.SG Lebanon_IA3.SG 0.247
gendstat: Russia_Mesolithic.SG Italy_Mesolithic.SG 0.126
gendstat: Russia_Mesolithic.SG Italy_N.SG 0.093
gendstat: Russia_Mesolithic.SG Russia_Afanasievo.SG -0.146
gendstat: Russia_Mesolithic.SG Guanche.SG -0.436
gendstat: CHG Portugal_MN.SG -0.554
gendstat: CHG British_Mesolithic.SG 0.139
gendstat: CHG Lebanon_IA3.SG -0.037
gendstat: CHG Italy_Mesolithic.SG -0.117
gendstat: CHG Italy_N.SG -0.199
gendstat: CHG Russia_Afanasievo.SG -0.411
gendstat: CHG Guanche.SG -0.656
gendstat: Portugal_MN.SG British_Mesolithic.SG 0.853
gendstat: Portugal_MN.SG Lebanon_IA3.SG 0.751
gendstat: Portugal_MN.SG Italy_Mesolithic.SG 0.448
gendstat: Portugal_MN.SG Italy_N.SG 0.594
gendstat: Portugal_MN.SG Russia_Afanasievo.SG 0.159
gendstat: Portugal_MN.SG Guanche.SG -0.253
gendstat: British_Mesolithic.SG Lebanon_IA3.SG -0.209
gendstat: British_Mesolithic.SG Italy_Mesolithic.SG -0.365
gendstat: British_Mesolithic.SG Italy_N.SG -0.397
gendstat: British_Mesolithic.SG Russia_Afanasievo.SG -0.628
gendstat: British_Mesolithic.SG Guanche.SG -0.901
gendstat: Lebanon_IA3.SG Italy_Mesolithic.SG -0.106
gendstat: Lebanon_IA3.SG Italy_N.SG -0.237
gendstat: Lebanon_IA3.SG Russia_Afanasievo.SG -0.469
gendstat: Lebanon_IA3.SG Guanche.SG -0.764
gendstat: Italy_Mesolithic.SG Italy_N.SG -0.052
gendstat: Italy_Mesolithic.SG Russia_Afanasievo.SG -0.279
gendstat: Italy_Mesolithic.SG Guanche.SG -0.573
gendstat: Italy_N.SG Russia_Afanasievo.SG -0.289
gendstat: Italy_N.SG Guanche.SG -0.614
gendstat: Russia_Afanasievo.SG Guanche.SG -0.351





Yeah I noticed Jordan eba doesn’t absorb as much ibm as earlier samples do

afbarwaaqo
02-14-2022, 02:23 AM
Does anybody know how much ANE somalis have on average due to our CHG relate ancestry?

drobbah
02-14-2022, 05:04 PM
I had a feeling reer Puntland (& Eastern SL) had higher levels of Arab ancestry compared to other Somalis.It isn't surprising as they are geographically very close to Socotra and have literal Mehri clans living among them.

Target: Somali_Somalia
Distance: 1.4759% / 0.01475949 | ADC: 0.25x RC
89.4 Kenya_Pastorals
8.0 Yemenite_Jew
2.6 Morocco_UP_Taforalt_(Iberomaurusian)

Target: Somali_Somaliland
Distance: 1.4403% / 0.01440274 | ADC: 0.25x RC
91.8 Kenya_Pastorals
5.0 Yemenite_Jew
3.2 Morocco_UP_Taforalt_(Iberomaurusian)

Target: Somali_Ethiopia
Distance: 1.8335% / 0.01833501 | ADC: 0.25x RC
93.6 Kenya_Pastorals
4.8 Yemenite_Jew
1.6 Morocco_UP_Taforalt_(Iberomaurusian)


My father (who has no recent foreign ancestry) still seems to be the most indigenous sample unlike my mother (his first cousin) who has a Yemeni great grandmother with DNA matches to prove it as well.
Target: Drobbah_Father
Distance: 1.7852% / 0.01785216 | ADC: 0.25x RC
97.2 Kenya_Pastorals
2.8 Morocco_UP_Taforalt_(Iberomaurusian)

Target: Drobbah_Mother_scaled
Distance: 2.1253% / 0.02125299 | ADC: 0.25x RC
90.8 Kenya_Pastorals
7.2 Yemenite_Jew
2.0 Morocco_UP_Taforalt_(Iberomaurusian)



The heterogenous nature of Arab ancestry among Somali imo kind of discredits walaalkay Awale's theory of Yemeni admixture arriving 1000 BCE via either intra-horn (Ethio Semitic variety despiteSomalis lacking J-P56) movements or direct pre-Islamic Arabian input.I think the vast majority of Arabian ancestry in Somalis is from the Islamic era and varies depending on the region the Somali hails from (Berbera,Puntland,Banadir,Harar etc).A southerner with peninsular Arab ancestry might have for example picked that up from the Banadiris (and accompany minor South Asian ancestry)while a Somali in the hills near Harar could have picked up the Ethio-Semitic variety of Arabian ancestry. Yet there are still probably a large percentage of Somalis similar to my father (albeit a little less Mota shifted then him) that don't carry Arabian ancestry.

afbarwaaqo
03-01-2022, 07:07 PM
here's how the results look when i take out Natufian

Target: Somali
Distance: 5.5232% / 0.05523227
52.0 SUDANESE7
17.8 Levant_PPNC
14.0 EGY_Late_Period
7.8 MAR_Taforalt
6.0 Levant_JOR_EBA
2.4 ETH_4500BP

drobbah
03-02-2022, 07:14 PM
It seems Somalis unlike the Northern Horners (Ethio-Semitic & Northern Cushitic) seem to prefer the Christian Nubians over the Arabs.Would love to hear what @Mnemonics, @NetNomad, & @Awale think of this.Posted the G25 runs here (https://anthrogenica.com/showthread.php?23077-Medieval-genomes-from-Nubia&p=835327#post835327)

drobbah
03-18-2022, 03:30 PM
Kenya_Pastoral = Both Ken_N & Ken_PIA samples


Target: SOMALI15
Distance: 2.8969% / 0.02896870
94.2 Kenya_Pastoral
5.2 Sardinia_CA_(North_African_Profile)
0.6 Egypt_Late_Period

Target: Somali_Somaliland
Distance: 1.5576% / 0.01557582
93.0 Kenya_Pastoral
4.8 Sardinia_CA_(North_African_Profile)
1.8 Jordan_EBA_'Ain_Ghazal_(Levant_EBA_South)
0.4 Egypt_Late_Period

Target: Somali_Ethiopia
Distance: 1.9216% / 0.01921583
95.0 Kenya_Pastoral
2.2 Jordan_EBA_'Ain_Ghazal_(Levant_EBA_South)
2.2 Sardinia_CA_(North_African_Profile)
0.6 Egypt_Late_Period

Target: Somali_Somalia
Distance: 1.6567% / 0.01656707
91.4 Kenya_Pastoral
4.8 Jordan_EBA_'Ain_Ghazal_(Levant_EBA_South)
3.8 Sardinia_CA_(North_African_Profile)

Target: Drobbah_FTDNA_scaled
Distance: 1.8479% / 0.01847942
90.6 Kenya_Pastoral
6.6 Sardinia_CA_(North_African_Profile)
2.0 Egypt_Late_Period
0.8 Jordan_EBA_'Ain_Ghazal_(Levant_EBA_South)

Target: Drobbah_Mother_scaled
Distance: 2.0824% / 0.02082384
91.0 Kenya_Pastoral
5.8 Egypt_Late_Period
3.2 Sardinia_CA_(North_African_Profile)

Target: Drobbah_Father
Distance: 1.8438% / 0.01843793
96.6 Kenya_Pastoral
3.4 Sardinia_CA_(North_African_Profile)



Ethio-Semitic Amhara and Christian Nubians in comparison:

Target: Nubia_Medieval_Christian_Era_Kulubnarti_R
Distance: 1.6705% / 0.01670521
46.6 Kenya_Pastoral
18.6 Egypt_Late_Period
13.0 Dinka
11.6 Jordan_EBA_'Ain_Ghazal_(Levant_EBA_South)
10.2 Sardinia_CA_(North_African_Profile)

Target: Nubia_Medieval_Christian_Era_Kulubnarti_S
Distance: 1.8612% / 0.01861223
34.8 Kenya_Pastoral
20.2 Dinka
20.0 Egypt_Late_Period
15.8 Jordan_EBA_'Ain_Ghazal_(Levant_EBA_South)
9.2 Sardinia_CA_(North_African_Profile)

Target: Amhara
Distance: 1.7848% / 0.01784817
76.4 Kenya_Pastoral
20.6 Jordan_EBA_'Ain_Ghazal_(Levant_EBA_South)
3.0 Sardinia_CA_(North_African_Profile)

Gentica277282
03-18-2022, 03:46 PM
Can anyone explain the south Asian ancestry in Somalis

Gentica277282
03-18-2022, 03:50 PM
here's how the results look when i take out Natufian

Target: Somali
Distance: 5.5232% / 0.05523227
52.0 SUDANESE7
17.8 Levant_PPNC
14.0 EGY_Late_Period
7.8 MAR_Taforalt
6.0 Levant_JOR_EBA
2.4 ETH_4500BP

Target: Somali
Distance: 3.2596% / 0.03259559
45.2 East-African-Pastoralist
29.8 Levant_Natufian
10.4 East-Saharian_African
7.8 Iberomaurusian
5.6 Nilo-Saharian_Pastoralist
1.2 Steppe_Pastoralist

Target: Somali
Distance: 5.1062% / 0.05106191
65.8 East-African-Pastoralist
16.8 Iberomaurusian
12.6 Early_European_Farmer
2.6 Iran_Neolithic
2.2 Ancient_Iberian_Hunter-Gatherer

Without natufian it will just replace it with eef because it’s the next closest related component

Gentica277282
03-18-2022, 03:55 PM
I had a feeling reer Puntland (& Eastern SL) had higher levels of Arab ancestry compared to other Somalis.It isn't surprising as they are geographically very close to Socotra and have literal Mehri clans living among them.

Target: Somali_Somalia
Distance: 1.4759% / 0.01475949 | ADC: 0.25x RC
89.4 Kenya_Pastorals
8.0 Yemenite_Jew
2.6 Morocco_UP_Taforalt_(Iberomaurusian)

Target: Somali_Somaliland
Distance: 1.4403% / 0.01440274 | ADC: 0.25x RC
91.8 Kenya_Pastorals
5.0 Yemenite_Jew
3.2 Morocco_UP_Taforalt_(Iberomaurusian)

Target: Somali_Ethiopia
Distance: 1.8335% / 0.01833501 | ADC: 0.25x RC
93.6 Kenya_Pastorals
4.8 Yemenite_Jew
1.6 Morocco_UP_Taforalt_(Iberomaurusian)


My father (who has no recent foreign ancestry) still seems to be the most indigenous sample unlike my mother (his first cousin) who has a Yemeni great grandmother with DNA matches to prove it as well.
Target: Drobbah_Father
Distance: 1.7852% / 0.01785216 | ADC: 0.25x RC
97.2 Kenya_Pastorals
2.8 Morocco_UP_Taforalt_(Iberomaurusian)

Target: Drobbah_Mother_scaled
Distance: 2.1253% / 0.02125299 | ADC: 0.25x RC
90.8 Kenya_Pastorals
7.2 Yemenite_Jew
2.0 Morocco_UP_Taforalt_(Iberomaurusian)



The heterogenous nature of Arab ancestry among Somali imo kind of discredits walaalkay Awale's theory of Yemeni admixture arriving 1000 BCE via either intra-horn (Ethio Semitic variety despiteSomalis lacking J-P56) movements or direct pre-Islamic Arabian input.I think the vast majority of Arabian ancestry in Somalis is from the Islamic era and varies depending on the region the Somali hails from (Berbera,Puntland,Banadir,Harar etc).A southerner with peninsular Arab ancestry might have for example picked that up from the Banadiris (and accompany minor South Asian ancestry)while a Somali in the hills near Harar could have picked up the Ethio-Semitic variety of Arabian ancestry. Yet there are still probably a large percentage of Somalis similar to my father (albeit a little less Mota shifted then him) that don't carry Arabian ancestry.

Can you paste your mothers cords

drobbah
03-18-2022, 11:04 PM
Can anyone explain the south Asian ancestry in Somalis
Indian ocean connections. You can find South Asian ancestry in individuals in the Muslim regions of the Horn,Arabian Peninsula,Swahili coast and SE Asia (but their South Asian ancestry probably predates Islam & rise of Malay culture)

Flub
03-19-2022, 04:35 AM
If Iran Neolithic is associated with J what is T then? Unknown Hunter Gatherer(UHG)?
Using ancient genomes to model Somalis (with vahaduo gedmatch calculators) besides the Basal Eurasian, the closest other population came to be Peștera cu Oase(Oase_1) from Natufian.
Oase_1 had K2a* which K2a like T both came from K could be an indicator of genetic proximity. By the way, I think the Iran-Neolithic in Somalis would mostly be due to the Southern Arabian input unless Rendille, Iraqw and other pre Omo-Tana cushites having it aswell.

Mnemonics
03-19-2022, 07:40 AM
If Iran Neolithic is associated with J what is T then? Unknown Hunter Gatherer(UHG)?
Using ancient genomes to model Somalis (with vahaduo gedmatch calculators) besides the Basal Eurasian, the closest other population came to be Peștera cu Oase(Oase_1) from Natufian.
Oase_1 had K2a* which K2a like T both came from K could be an indicator of genetic proximity. By the way, I think the Iran-Neolithic in Somalis would mostly be due to the Southern Arabian input unless Rendille, Iraqw and other pre Omo-Tana cushites having it aswell.

T-L162 is probably Anatolian in origin rather than Iran_N related. EEF populations have it while not having much Iran_N type ancestry.
It might be a minor lineage that moved westward after the split between LT or it may be part of a later movement with some of those H and L branches that pop up in Anatolia_N rich populations.

Rendille have the Iran_N ancestry present in Somalis but the Iraqw lack it.
One of the Rendille has significantly more Iran_N type ancestry than the other.

drobbah
03-19-2022, 05:12 PM
T-L162 is probably Anatolian in origin rather than Iran_N related. EEF populations have it while not having much Iran_N type ancestry.
It might be a minor lineage that moved westward after the split between LT or it may be part of a later movement with some of those H and L branches that pop up in Anatolia_N rich populations.

Rendille have the Iran_N ancestry present in Somalis but the Iraqw lack it.
One of the Rendille has significantly more Iran_N type ancestry than the other.
One of those Rendille is far more Northern Oromo admixed then the other

Target: Rendille:T_Rendille-2.DG
Distance: 1.6282% / 0.01628159
35.8 Somali:Drobbah_Father
29.6 Ethiopian_Oromo:OROMO20
25.0 Masai_Kenya
5.8 Ethiopian_Oromo:OROMO12
3.8 Ethiopian_Oromo:OROMO8

Target: Rendille:T_Rendille-1.DG
Distance: 2.1392% / 0.02139180
27.6 Somali:Drobbah_Father
26.6 Masai_Kenya
16.6 Ethiopian_Oromo:OROMO3
11.6 Ethiopian_Oromo:OROMO12
9.2 Ethiopian_Oromo:OROMO18
8.4 Ethiopian_Oromo:OROMO1

Gentica277282
03-19-2022, 05:22 PM
T-L162 is probably Anatolian in origin rather than Iran_N related. EEF populations have it while not having much Iran_N type ancestry.
It might be a minor lineage that moved westward after the split between LT or it may be part of a later movement with some of those H and L branches that pop up in Anatolia_N rich populations.

Rendille have the Iran_N ancestry present in Somalis but the Iraqw lack it.
One of the Rendille has significantly more Iran_N type ancestry than the other.

Target: Rendille:T_Rendille-2.DG
Distance: 3.0717% / 0.03071682
44.8 East-African-Pastoralist
25.6 Levant_Natufian
16.0 East-Saharian_African
6.6 Iberomaurusian
6.6 Nilo-Saharian_Pastoralist
0.4 Central-African_Rainforest_Hunter_Gatherer

Target: Rendille:T_Rendille-1.DG
Distance: 3.7145% / 0.03714525
44.2 East-African-Pastoralist
25.0 Levant_Natufian
15.4 East-Saharian_African
7.0 Iberomaurusian
6.8 Nilo-Saharian_Pastoralist
1.6 Scandinavian_Hunter-Gatherer

Without natufian
Target: Rendille:T_Rendille-2.DG
Distance: 4.6240% / 0.04623997
64.4 East-African-Pastoralist
14.6 Iberomaurusian
10.6 Early_European_Farmer
7.4 East-Saharian_African
2.8 Iran_Neolithic
0.2 Nilo-Saharian_Pastoralist

Target: Rendille:T_Rendille-1.DG
Distance: 5.0857% / 0.05085653
65.4 East-African-Pastoralist
14.8 Iberomaurusian
9.0 Early_European_Farmer
5.4 East-Saharian_African
3.2 Iran_Neolithic
2.2 Western_Hunter-Gatherer


Im guessing the Iranian Neolithic is absorbed into the natufian component

Mnemonics
03-19-2022, 07:51 PM
One of those Rendille is far more Northern Oromo admixed then the other

Target: Rendille:T_Rendille-2.DG
Distance: 1.6282% / 0.01628159
35.8 Somali:Drobbah_Father
29.6 Ethiopian_Oromo:OROMO20
25.0 Masai_Kenya
5.8 Ethiopian_Oromo:OROMO12
3.8 Ethiopian_Oromo:OROMO8

Target: Rendille:T_Rendille-1.DG
Distance: 2.1392% / 0.02139180
27.6 Somali:Drobbah_Father
26.6 Masai_Kenya
16.6 Ethiopian_Oromo:OROMO3
11.6 Ethiopian_Oromo:OROMO12
9.2 Ethiopian_Oromo:OROMO18
8.4 Ethiopian_Oromo:OROMO1

I guess thats G25's way of compensating for the extra Wes Asian affinity but in qpAdm Rendille1 gets very slightly more Iran_N than the diploid Amhara sample which makes it seem pretty unlikely that the extra West Asian affinity is the result of admixture from Oromos (who already have a slightly lower West Asian/Levantine ratio than Somalis in qpAdm)

drobbah
03-19-2022, 09:00 PM
I guess thats G25's way of compensating for the extra Wes Asian affinity but in qpAdm Rendille1 gets very slightly more Iran_N than the diploid Amhara sample which makes it seem pretty unlikely that the extra West Asian affinity is the result of admixture from Oromos (who already have a slightly lower West Asian/Levantine ratio than Somalis in qpAdm)
The Oromo are not a monolith, many of the samples are not that different from the Amhara & Agaws while some are even more SSA then the Wolaytas.The expansion into Northern Kenya was mostly lead by Boranas and we have historical evidence that these two communities interacted with each other.At one point the Boranas were the supreme power in Southern Ethiopia and Northern Kenya even forcing other Somalioid ethnic groups like the Degodia,Ajuuraan & Garre to pay tribute.It was only untill the arrival of Somali (Af Maxaa) pastoralists from the North did the tide turn against the Boranas.This shouldn't surprise us when the Rendille turnout to be a three-way admixture between Somaloids,the Oromoid Borana & Samburu.

Target: Rendille:T_Rendille-2.DG
Distance: 1.6564% / 0.01656353
43.0 Somali
34.2 Masai
22.8 OROMO12(Ethio_Semitic_Profile)

Target: Rendille:T_Rendille-1.DG
Distance: 1.9652% / 0.01965221
42.2 Masai
40.2 OROMO12(Ethio_Semitic_Profile)
17.6 Somali



Target: Rendille:T_Rendille-1.DG
Distance: 2.3683% / 0.02368316 | ADC: 0.25x RC
88.8 Kenya_Pastoral
11.2 Dinka

Target: Rendille:T_Rendille-2.DG
Distance: 1.7994% / 0.01799440 | ADC: 0.25x RC
94.6 Kenya_Pastoral
5.4 Yemeni_Amran



https://i.imgur.com/s7cn9AY.png