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Thread: Vasilyevka 3 (Mesolithic Ukraine) in Eurogenes K36

  1. #1
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    Poland

    Vasilyevka 3 (Mesolithic Ukraine) in Eurogenes K36

    I uploaded to Gedmatch genome from Vasilyevka 3.

    The Neolithic Transition in the Baltic Was Not Driven by Admixture with Early European Farmers, 2017
    https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5321670/


    Kit T457572

    18 000 snps used in K36 evaluation

    East_Central_Euro 25.73
    Eastern_Euro 9.99
    Fennoscandian 30.60
    North_Atlantic 4.33
    North_Sea 29.34


    nMonte

    HTML Code:
    "1. CLOSEST SINGLE ITEM DISTANCES"
            Estonian     Sweden_north Russian_Novgorod     Norway_north 
            23.74453         25.90313         25.99571         26.92863 
             Latvian    Pl_Kashubians Russian_Kostroma           Sweden 
            28.10779         28.25326         28.62113         28.99123
    Karelian_Tver 33.25
    Lithuanian 29.60
    North_Dutch 29.40
    PL_Sudovia 4.85
    Finnish_SW 2.15
    Latvian 0.30
    Sweden_north 0.15
    Norway_north 0.15
    Sweden 0.10
    Estonian 0.05

    nMonte restricted


    Karelian_Tver 35.9
    Lithuanian 32.3
    North_Dutch 30.2

    PL_Sudovia 1.6
    Finnish_SW 0.0

    HTML Code:
    [1] "CORRELATION OF ADMIXTURE POPULATIONS"
                  North_Dutch Lithuanian PL_Sudovia Karelian_Tver
    North_Dutch          1.00       0.47       0.50          0.47
    Lithuanian           0.47       1.00       0.99          0.63
    PL_Sudovia           0.50       0.99       1.00          0.58
    Karelian_Tver        0.47       0.63       0.58          1.00

    In nMonte seems to be 1/3 Germanic, 1/3 Baltic, 1/3 Finno-Slavic (Tver Karelians are mixed with Russians I suppose).


    Admix4


    Least-squares method.

    Using 1 population approximation:
    1 Estonian @ 23,747173
    2 Sweden_north @ 25,906729
    3 Norway_north @ 26,426233
    4 Latvian @ 28,133875
    5 Russian_Kostroma @ 28,624434

    6 Sweden @ 28,994993
    7 PL_Podlasie_East_Mazovia @ 28,997355
    8 PL_Sudovia @ 29,054564
    9 Pl_Kashubians @ 29,074166
    10 Russian_Perm @ 29,113383
    11 Sorb_Lusatia @ 29,225064
    12 Russian_North @ 29,533022
    13 Lithuanian @ 29,715208
    14 Pl_north @ 29,877729
    15 Russian_Novgorod_Pskov @ 30,042417
    16 Russian_Novgorod_Yaroslavl @ 30,094919
    17 PL_SE_Carpathia @ 30,429696
    18 Russian_Meshtchyora @ 30,69738
    19 Russian_Tver @ 30,74154
    20 German_East @ 30,77772
    330 iterations.

    Using 2 populations approximation:
    1 Norway_north+PL_Sudovia @ 21,136797
    2 Norway_north+Lithuanian @ 21,219923
    3 Norway_north+Latvian @ 21,371872
    4 PL_Sudovia+Finnish_SW @ 21,887706
    5 Norway_north+PL_Podlasie_East_Mazovia @ 22,249682
     

    6 Sweden_north+Estonian @ 22,272131
    7 Sweden_north+Latvian @ 22,312206
    8 Sweden_north+Lithuanian @ 22,49015
    9 Sweden_north+PL_Sudovia @ 22,585287
    10 Norway_north+Estonian @ 22,62809
    11 Sweden+Estonian @ 22,706222
    12 Norway_north+Russian_Novgorod_Pskov @ 22,74863
    13 North_Dutch+Estonian @ 23,212011
    14 Pl_north+Finnish_SW @ 23,267816
    15 Denmark+Estonian @ 23,363433
    16 PL_Podlasie_East_Mazovia+Finnish_SW @ 23,419981
    17 PL_Sudovia+Estonian @ 23,428161
    18 Norway+Estonian @ 23,473736
    19 Sweden_north+PL_Podlasie_East_Mazovia @ 23,478679
    20 Sweden+Latvian @ 23,492483
    54615 iterations.


    Using 3 populations approximation:
    1 50% PL_Sudovia +25% North_Dutch +25% Finnish_SW @ 19,537826
    2 50% PL_Sudovia +25% Norway_north +25% Finnish_SW @ 19,626667
    3 50% PL_Sudovia +25% Sweden_north +25% Finnish_SW @ 19,756027
    4 50% PL_Sudovia +25% Sweden +25% Finnish_SW @ 19,854882
    5 50% PL_Sudovia +25% Denmark +25% Finnish_SW @ 19,966515
     

    6 50% Lithuanian +25% North_Dutch +25% Finnish_SW @ 20,084936
    7 50% PL_Sudovia +25% Norway +25% Finnish_SW @ 20,093955
    8 50% PL_Sudovia +25% North_Dutch +25% Finnish_East @ 20,386734
    9 50% PL_Sudovia +25% North_Dutch +25% Finnish_Inkeri @ 20,468669
    10 50% Latvian +25% North_Dutch +25% Finnish_SW @ 20,470819
    11 50% PL_Sudovia +25% Central_Dutch +25% Finnish_SW @ 20,569004
    12 50% Lithuanian +25% Sweden +25% Finnish_SW @ 20,594656
    13 50% Lithuanian +25% Denmark +25% Finnish_SW @ 20,606473
    14 50% PL_Sudovia +25% German_North +25% Finnish_SW @ 20,61282
    15 50% Lithuanian +25% Norway_north +25% Finnish_SW @ 20,686284
    16 50% Lithuanian +25% Sweden_north +25% Finnish_SW @ 20,715025
    17 50% PL_Sudovia +25% SE_England +25% Finnish_SW @ 20,743174
    18 50% Lithuanian +25% Norway +25% Finnish_SW @ 20,764417
    19 50% PL_Sudovia +25% Scotland +25% Finnish_SW @ 20,861659
    20 50% PL_Podlasie_East_Mazovia +25% North_Dutch +25% Finnish_SW @ 20,872963
    17687725 iterations.


    Using 4 populations approximation:
    1 North_Dutch+PL_Sudovia+PL_Sudovia+Finnish_SW @ 19,537826
    2 Norway_north+PL_Sudovia+PL_Sudovia+Finnish_SW @ 19,626667
    3 North_Dutch+Lithuanian+PL_Sudovia+Finnish_SW @ 19,71177
    4 Sweden_north+PL_Sudovia+PL_Sudovia+Finnish_SW @ 19,756027
    5 Sweden+PL_Sudovia+PL_Sudovia+Finnish_SW @ 19,854882
     

    6 North_Dutch+Latvian+PL_Sudovia+Finnish_SW @ 19,859099
    7 Denmark+PL_Sudovia+PL_Sudovia+Finnish_SW @ 19,966515
    8 Norway_north+Lithuanian+PL_Sudovia+Finnish_SW @ 20,06371
    9 North_Dutch+Lithuanian+Lithuanian+Finnish_SW @ 20,084936
    10 Norway+PL_Sudovia+PL_Sudovia+Finnish_SW @ 20,093955
    11 Sweden+Lithuanian+PL_Sudovia+Finnish_SW @ 20,128744
    12 Sweden_north+Lithuanian+PL_Sudovia+Finnish_SW @ 20,141863
    13 North_Dutch+PL_Sudovia+PL_Podlasie_East_Mazovia+Fi nnish_SW @ 20,160458
    14 Denmark+Lithuanian+PL_Sudovia+Finnish_SW @ 20,18991
    15 North_Dutch+Latvian+Lithuanian+Finnish_SW @ 20,231635
    16 Norway_north+PL_Sudovia+PL_Podlasie_East_Mazovia+F innish_SW @ 20,306981
    17 Sweden+Latvian+PL_Sudovia+Finnish_SW @ 20,308354
    18 Norway+Lithuanian+PL_Sudovia+Finnish_SW @ 20,333526
    19 Denmark+Latvian+PL_Sudovia+Finnish_SW @ 20,355075
    20 Sweden_north+Latvian+PL_Sudovia+Finnish_SW @ 20,363409
    21 Norway_north+Latvian+PL_Sudovia+Finnish_SW @ 20,374917
    22 North_Dutch+PL_Sudovia+Estonian+Finnish_SW @ 20,375788
    23 North_Dutch+PL_Sudovia+PL_Sudovia+Finnish_East @ 20,386734
    24 Sweden_north+PL_Sudovia+PL_Podlasie_East_Mazovia+F innish_SW @ 20,388361
    25 North_Dutch+Lithuanian+PL_Podlasie_East_Mazovia+Fi nnish_SW @ 20,399142
    26 Sweden+PL_Sudovia+PL_Podlasie_East_Mazovia+Finnish _SW @ 20,44283
    27 North_Dutch+PL_Sudovia+PL_Sudovia+Finnish_Inkeri @ 20,468669
    28 North_Dutch+Latvian+Latvian+Finnish_SW @ 20,470819
    29 Norway+Latvian+PL_Sudovia+Finnish_SW @ 20,516309
    30 North_Dutch+Russian_Novgorod_Pskov+PL_Sudovia+Finn ish_SW @ 20,534761
    31 North_Dutch+Latvian+PL_Podlasie_East_Mazovia+Finni sh_SW @ 20,564793
    32 Central_Dutch+PL_Sudovia+PL_Sudovia+Finnish_SW @ 20,569004
    33 Denmark+PL_Sudovia+PL_Podlasie_East_Mazovia+Finnis h_SW @ 20,578281
    34 Sweden+Lithuanian+Lithuanian+Finnish_SW @ 20,594656
    35 Denmark+Lithuanian+Lithuanian+Finnish_SW @ 20,606473
    36 German_North+PL_Sudovia+PL_Sudovia+Finnish_SW @ 20,61282
    37 Norway_north+Lithuanian+Lithuanian+Finnish_SW @ 20,686284
    38 Norway+PL_Sudovia+PL_Podlasie_East_Mazovia+Finnish _SW @ 20,687064
    39 Norway_north+PL_Sudovia+Pl_north+Finnish_SW @ 20,697901
    40 Central_Dutch+Lithuanian+PL_Sudovia+Finnish_SW @ 20,704186
    498569870 iterations.




    Gaussian method.
    Noise dispersion set to 0,130062

    Using 1 population approximation:
    1 Lithuanian @ 4,381905
    2 PL_Sudovia @ 4,448283
    3 Latvian @ 4,523686
    4 PL_Podlasie_East_Mazovia @ 4,629877
    5 Estonian @ 4,701441

    6 Sweden_north @ 4,83071
    7 Pl_Kashubians @ 4,848568
    8 Sorb_Lusatia @ 4,850447
    9 PL_Wielkopolska @ 5,025964
    10 Pl_north @ 5,067228
    11 Norway_north @ 5,092913
    12 German_East @ 5,160978
    13 Sweden @ 5,178364
    14 PL_Mazovia @ 5,190868
    15 PL_SE_Carpathia @ 5,194995
    16 Denmark @ 5,237289
    17 Norway @ 5,263031
    18 Russian_Novgorod_Pskov @ 5,411633
    19 Russian_Novgorod_Yaroslavl @ 5,454716
    20 PL_average @ 5,483662
    330 iterations.

    Using 2 populations approximation:
    1 Norway_north+Lithuanian @ 4,128272
    2 Norway_north+Latvian @ 4,171281
    3 Norway_north+PL_Sudovia @ 4,184617
    4 Sweden_north+Lithuanian @ 4,238073
    5 Norway_north+PL_Podlasie_East_Mazovia @ 4,259108
     

    6 Sweden_north+Latvian @ 4,277936
    7 Denmark+Lithuanian @ 4,285307
    8 Denmark+Latvian @ 4,314841
    9 North_Dutch+Lithuanian @ 4,318528
    10 Norway+Lithuanian @ 4,330245
    11 Norway+Latvian @ 4,338013
    12 Sweden_north+PL_Sudovia @ 4,338755
    13 North_Dutch+Latvian @ 4,344244
    14 Lithuanian+Lithuanian @ 4,381905
    15 Sweden_north+PL_Podlasie_East_Mazovia @ 4,383222
    16 PL_Sudovia+Finnish_SW @ 4,386227
    17 PL_Sudovia+Estonian @ 4,386331
    18 Lithuanian+PL_Sudovia @ 4,414519
    19 Latvian+PL_Sudovia @ 4,423069
    20 Sweden+Lithuanian @ 4,431376
    54615 iterations.


    Using 3 populations approximation:
    1 50% Norway_north +25% Lithuanian +25% Lithuanian @ 4,128272
    2 50% Norway_north +25% Latvian +25% Lithuanian @ 4,149409
    3 50% Norway_north +25% Lithuanian +25% PL_Sudovia @ 4,15737
    4 50% Norway_north +25% Latvian +25% PL_Sudovia @ 4,170863
    5 50% Norway_north +25% Latvian +25% Latvian @ 4,171281
    6 50% PL_Sudovia +25% PL_Sudovia +25% Finnish_East @ 4,181362
     

    7 50% Norway_north +25% PL_Sudovia +25% PL_Sudovia @ 4,184617
    8 50% Norway_north +25% Lithuanian +25% PL_Podlasie_East_Mazovia @ 4,192506
    9 50% Lithuanian +25% Sweden_north +25% Norway_north @ 4,195467
    10 50% Lithuanian +25% Denmark +25% Norway_north @ 4,196957
    11 50% PL_Sudovia +25% PL_Sudovia +25% Finnish_SW @ 4,19766
    12 50% Lithuanian +25% Norway +25% Norway_north @ 4,209278
    13 50% Norway_north +25% Latvian +25% PL_Podlasie_East_Mazovia @ 4,211618
    14 50% Norway_north +25% PL_Sudovia +25% PL_Podlasie_East_Mazovia @ 4,222918
    15 50% Latvian +25% Denmark +25% Norway_north @ 4,226756
    16 50% Latvian +25% Sweden_north +25% Norway_north @ 4,233681
    17 50% Latvian +25% Norway +25% Norway_north @ 4,237164
    18 50% Sweden_north +25% Lithuanian +25% Lithuanian @ 4,238073
    19 50% Lithuanian +25% Norway_north +25% Lithuanian @ 4,239883
    20 50% PL_Sudovia +25% Norway_north +25% Finnish_SW @ 4,240179
    13923357 iterations.


    Using 4 populations approximation:
    1 Norway_north+Norway_north+Lithuanian+Lithuanian @ 4,128272
    2 Norway_north+Norway_north+Latvian+Lithuanian @ 4,149409
    3 Norway_north+Norway_north+Lithuanian+PL_Sudovia @ 4,15737
    4 Norway_north+Norway_north+Latvian+PL_Sudovia @ 4,170863
    5 Norway_north+Norway_north+Latvian+Latvian @ 4,171281
    6 PL_Sudovia+PL_Sudovia+PL_Sudovia+Finnish_East @ 4,181362
     

    7 Norway_north+Norway_north+PL_Sudovia+PL_Sudovia @ 4,184617
    8 Norway_north+Norway_north+Lithuanian+PL_Podlasie_E ast_Mazovia @ 4,192506
    9 Sweden_north+Norway_north+Lithuanian+Lithuanian @ 4,195467
    10 Denmark+Norway_north+Lithuanian+Lithuanian @ 4,196957
    11 PL_Sudovia+PL_Sudovia+PL_Sudovia+Finnish_SW @ 4,19766
    12 North_Dutch+Norway_north+Lithuanian+Lithuanian @ 4,202381
    13 Norway+Norway_north+Lithuanian+Lithuanian @ 4,209278
    14 Norway_north+Norway_north+Latvian+PL_Podlasie_East _Mazovia @ 4,211618
    15 Denmark+Norway_north+Latvian+Lithuanian @ 4,212017
    16 North_Dutch+Norway_north+Latvian+Lithuanian @ 4,214382
    17 Sweden_north+Norway_north+Latvian+Lithuanian @ 4,214711
    18 Norway+Norway_north+Latvian+Lithuanian @ 4,222834
    19 Norway_north+Norway_north+PL_Sudovia+PL_Podlasie_E ast_Mazovia @ 4,222918
    20 North_Dutch+Norway_north+Latvian+Latvian @ 4,226066
    21 Denmark+Norway_north+Latvian+Latvian @ 4,226756
    22 Sweden_north+Norway_north+Latvian+Latvian @ 4,233681
    23 Sweden_north+Norway_north+Lithuanian+PL_Sudovia @ 4,234633
    24 Norway+Norway_north+Latvian+Latvian @ 4,237164
    25 Sweden_north+Sweden_north+Lithuanian+Lithuanian @ 4,238073
    26 Norway_north+Lithuanian+Lithuanian+Lithuanian @ 4,239883
    27 Norway_north+PL_Sudovia+PL_Sudovia+Finnish_SW @ 4,240179
    28 Sweden_north+Norway_north+Latvian+PL_Sudovia @ 4,243807
    29 North_Dutch+PL_Sudovia+PL_Sudovia+Finnish_East @ 4,244937
    30 Lithuanian+PL_Sudovia+PL_Sudovia+Finnish_SW @ 4,24949
    31 Norway_north+PL_Sudovia+PL_Sudovia+Estonian @ 4,25163
    32 North_Dutch+Lithuanian+Lithuanian+Finnish_SW @ 4,255556
    33 Norway_north+Norway_north+Lithuanian+Estonian @ 4,256371
    34 Norway_north+Lithuanian+Lithuanian+PL_Sudovia @ 4,257379
    35 Norway_north+Latvian+Lithuanian+Lithuanian @ 4,257574
    36 Norway_north+Latvian+Lithuanian+PL_Sudovia @ 4,258136
    37 Denmark+Norway_north+Lithuanian+PL_Sudovia @ 4,258721
    38 Norway_north+Norway_north+PL_Podlasie_East_Mazovia +PL_Podlasie_East_Mazovia @ 4,259108
    39 Norway_north+Latvian+PL_Sudovia+PL_Sudovia @ 4,25929
    40 Norway_north+Latvian+Latvian+PL_Sudovia @ 4,259533
    501424353 iterations.



    In Admix4 if we take both methods together we have similar results but instead of Finnish or Baltic we have Pl_Sudovia or less likely Pl_Podlasie. So North Eastern Poles with heavy Baltic ancestry.
    Last edited by lukaszM; 07-12-2017 at 09:10 PM.

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  3. #2
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    Poland

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  5. #3
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    I know most of them are after him But still interesting



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  7. #4
    Ergo:


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  9. #5
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    Poland
    From original paper. Compare with Tolan map...


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  11. #6
    Quote Originally Posted by lukaszM View Post
    I uploaded to Gedmatch genome from Vasilyevka 3.
    How do you think, does it mean, that Vasilievka was from
    the north, or the present north "is from" the Vasilievka?

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    Eurogenes EUtest V2 K15 Oracle results:
    Kit T457572

    Admix Results (sorted):

    # Population Percent
    1 North_Sea 31.76
    2 Eastern_Euro 26.23
    3 Baltic 22.75
    4 Atlantic 19.26

    Single Population Sharing:

    # Population (source) Distance
    1 Finnish 9.4
    2 Southwest_Finnish 9.48
    3 Estonian 10.14
    4 East_Finnish 10.52
    5 Polish 12.52
    6 North_Swedish 12.82
    7 Kargopol_Russian 14.07
    8 South_Polish 14.15
    9 Ukrainian 14.44
    10 Belorussian 14.66
    11 Estonian_Polish 14.79
    12 Southwest_Russian 14.82
    13 Russian_Smolensk 15.37
    14 Ukrainian_Lviv 15.62
    15 Ukrainian_Belgorod 15.75
    16 East_German 16.58
    17 Lithuanian 16.6
    18 La_Brana-1 16.74
    19 Swedish 16.92
    20 Erzya 17.21

    Mixed Mode Population Sharing:

    # Primary Population (source) Secondary Population (source) Distance
    1 61.1% Estonian + 38.9% North_Swedish @ 7.78
    2 60.5% North_Swedish + 39.5% Erzya @ 8.12
    3 53.7% North_Swedish + 46.3% Kargopol_Russian @ 8.2
    4 75.4% Estonian + 24.6% West_Norwegian @ 8.24
    5 55.9% Southwest_Finnish + 44.1% Estonian @ 8.29
    6 73.4% Estonian + 26.6% Norwegian @ 8.34
    7 59.7% North_Swedish + 40.3% Lithuanian @ 8.41
    8 55.7% North_Swedish + 44.3% Estonian_Polish @ 8.42
    9 75.8% Estonian + 24.2% Danish @ 8.44
    10 54.5% Erzya + 45.5% West_Norwegian @ 8.51
    11 61.6% Kargopol_Russian + 38.4% West_Norwegian @ 8.53
    12 55.5% North_Swedish + 44.5% Belorussian @ 8.54
    13 72.9% Estonian + 27.1% Swedish @ 8.56
    14 80.4% Estonian + 19.6% Orcadian @ 8.59
    15 79.4% Estonian + 20.6% West_Scottish @ 8.62
    16 56% North_Swedish + 44% Southwest_Russian @ 8.64
    17 56.7% Kargopol_Russian + 43.3% Swedish @ 8.69
    18 79.9% Southwest_Finnish + 20.1% Erzya @ 8.71
    19 78% Estonian + 22% North_Dutch @ 8.72
    20 59.6% Finnish + 40.4% Estonian @ 8.72
    Last edited by lukaszM; 07-12-2017 at 09:03 PM.

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  14. #8
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    Quote Originally Posted by Rethel View Post
    How do you think, does it mean, that Vasilievka was from
    the north, or the present north "is from" the Vasilievka?
    I will upload also Latvian hunters and neolithics (from the same paper) so we will compare.
    Last edited by lukaszM; 07-12-2017 at 09:05 PM.

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    Poland
    MDLP K16

    Admix Results (sorted):

    # Population Percent
    1 NorthEastEuropean 49.63
    2 Steppe 32.14
    3 Neolithic 17.09
    4 Subsaharian 1.15

    Single Population Sharing:

    # Population (source) Distance
    1 Latvian_Dobele 19.94
    2 Estonian 20.74
    3 Latvian_Cesis 20.8
    4 Latvian 21.4
    5 Finn 21.77
    6 Finn 21.78
    7 Ingrians 22.03
    8 Finn 22.25
    9 Lithuanian 22.69
    10 Karelian 23.06
    11 Finn 23.21
    12 Finn 23.29
    13 Finn 23.62
    14 Vepsa 23.76
    15 Russian 24.11
    16 Russian 24.14
    17 Icelandic 24.35
    18 Russian 24.37
    19 Russians-West 24.59
    20 Russian 24.76

    Mixed Mode Population Sharing:

    # Primary Population (source) Secondary Population (source) Distance
    1 94.9% Latvian_Dobele + 5.1% Saami_WGA @ 19.92
    2 100% Latvian_Dobele + and so on

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  18. #10
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    Poland
    From original paper:
    The ancient Latvian and Ukrainian samples fall close to modern Northern and Eastern European populations in PCA analysis
    Fully concordant with my analysis. Please don't tell me linux convertion of genome change much in results...


    In my opinion Vasilyevka seems to be ancestral to Balto-Slavo-Germanic northern part of PIE. Similarity to modern Finnish is caused by their assimilation of similar substrate.
    Last edited by lukaszM; 07-12-2017 at 10:09 PM.

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