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misnomer001

khvalsynsk+chg+parkhai 14 OG

misnomer001
Dec 29th, 2019
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  1. allsnps: YES
  2. ## qpAdm version: 810
  3. seed: 1748498667
  4.  
  5. left pops:
  6. Steppe_Eneolithic
  7. Russia_Khvalynsk_EN
  8. CHG
  9. Parkhai_EN
  10.  
  11. right pops:
  12. Mbuti.DG
  13. Ust_Ishim.DG
  14. Kostenki14.SG
  15. Russia_MA1.SG
  16. Han.DG
  17. Onge.DG
  18. Papuan.DG
  19. Italy_Villabruna
  20. Czech_Vestonice16
  21. Karitiana.DG
  22. Iberia_ElMiron
  23. Ethiopia_4500BP.SG
  24. Natufian
  25. Ganj_Dareh_N
  26.  
  27. 0 Steppe_Eneolithic 3
  28. 1 Russia_Khvalynsk_EN 3
  29. 2 CHG 2
  30. 3 Parkhai_EN 4
  31. 4 Mbuti.DG 5
  32. 5 Ust_Ishim.DG 1
  33. 6 Kostenki14.SG 1
  34. 7 Russia_MA1.SG 1
  35. 8 Han.DG 4
  36. 9 Onge.DG 2
  37. 10 Papuan.DG 15
  38. 11 Italy_Villabruna 1
  39. 12 Czech_Vestonice16 1
  40. 13 Karitiana.DG 4
  41. 14 Iberia_ElMiron 1
  42. 15 Ethiopia_4500BP.SG 1
  43. 16 Natufian 6
  44. 17 Ganj_Dareh_N 7
  45. jackknife block size: 0.050
  46. snps: 1150542 indivs: 62
  47. number of blocks for block jackknife: 552
  48. ## ncols: 1150542
  49. coverage: Steppe_Eneolithic 1017729
  50. coverage: Russia_Khvalynsk_EN 758497
  51. coverage: CHG 1149558
  52. coverage: Parkhai_EN 995807
  53. coverage: Mbuti.DG 1150376
  54. coverage: Ust_Ishim.DG 1062044
  55. coverage: Kostenki14.SG 1048972
  56. coverage: Russia_MA1.SG 805960
  57. coverage: Han.DG 1150414
  58. coverage: Onge.DG 1120748
  59. coverage: Papuan.DG 1121459
  60. coverage: Italy_Villabruna 883779
  61. coverage: Czech_Vestonice16 732091
  62. coverage: Karitiana.DG 1150373
  63. coverage: Iberia_ElMiron 626974
  64. coverage: Ethiopia_4500BP.SG 1149598
  65. coverage: Natufian 535079
  66. coverage: Ganj_Dareh_N 1029695
  67. dof (jackknife): 466.577
  68. numsnps used: 1150542
  69. codimension 1
  70. f4info:
  71. f4rank: 2 dof: 11 chisq: 9.698 tail: 0.557783159 dofdiff: 13 chisqdiff: -9.698 taildiff: 1
  72. B:
  73. scale 1.000 1.000
  74. Ust_Ishim.DG 0.380 -0.473
  75. Kostenki14.SG 0.783 -0.669
  76. Russia_MA1.SG 1.824 0.279
  77. Han.DG 0.673 -0.345
  78. Onge.DG 0.507 0.123
  79. Papuan.DG 0.546 0.222
  80. Italy_Villabruna 1.752 -0.989
  81. Czech_Vestonice16 0.853 0.021
  82. Karitiana.DG 1.512 -0.214
  83. Iberia_ElMiron 1.147 -0.513
  84. Ethiopia_4500BP.SG 0.034 0.095
  85. Natufian 0.146 0.245
  86. Ganj_Dareh_N -0.700 3.273
  87. A:
  88. scale 431.668 2920.666
  89. Russia_Khvalynsk_EN 0.563 -0.212
  90. CHG -1.149 -1.489
  91. Parkhai_EN -1.167 0.858
  92.  
  93.  
  94. full rank
  95. f4info:
  96. f4rank: 3 dof: 0 chisq: 0.000 tail: 1 dofdiff: 11 chisqdiff: 9.698 taildiff: 0.557783159
  97. B:
  98. scale 1.000 1.000 1.000
  99. Ust_Ishim.DG 0.400 -0.305 1.266
  100. Kostenki14.SG 0.793 -0.477 1.786
  101. Russia_MA1.SG 1.833 0.129 -0.253
  102. Han.DG 0.679 -0.295 0.602
  103. Onge.DG 0.519 0.135 -0.158
  104. Papuan.DG 0.554 0.187 -0.343
  105. Italy_Villabruna 1.744 -1.251 -0.899
  106. Czech_Vestonice16 0.865 -0.004 -0.851
  107. Karitiana.DG 1.525 -0.221 0.609
  108. Iberia_ElMiron 1.141 -0.494 0.812
  109. Ethiopia_4500BP.SG 0.035 0.066 -0.063
  110. Natufian 0.163 0.260 -0.064
  111. Ganj_Dareh_N -0.610 3.255 -2.251
  112. A:
  113. scale 426.180 2530.935 4789.327
  114. Russia_Khvalynsk_EN 0.487 -0.979 -1.403
  115. CHG -1.179 -1.339 -0.289
  116. Parkhai_EN -1.172 0.500 -0.973
  117.  
  118.  
  119. best coefficients: 0.674 0.058 0.268
  120. Jackknife mean: 0.673415990 0.060887981 0.265696029
  121. std. errors: 0.035 0.121 0.095
  122.  
  123. error covariance (* 1000000)
  124. 1230 -3481 2251
  125. -3481 14738 -11257
  126. 2251 -11257 9006
  127.  
  128.  
  129. summ: Steppe_Eneolithic 3 0.557783 0.673 0.061 0.266 1230 -3481 2251 14738 -11257 9006
  130.  
  131. fixed pat wt dof chisq tail prob
  132. 000 0 11 9.698 0.557783 0.674 0.058 0.268
  133. 001 1 12 19.092 0.0863282 0.613 0.387 0.000
  134. 010 1 12 10.079 0.609005 0.688 -0.000 0.312
  135. 100 1 12 62.684 7.28453e-09 0.000 3.341 -2.341 infeasible
  136. 011 2 13 174.263 2.50594e-30 1.000 -0.000 -0.000
  137. 101 2 13 312.532 0 0.000 1.000 -0.000
  138. 110 2 13 726.182 0 0.000 -0.000 1.000
  139. best pat: 000 0.557783 - -
  140. best pat: 010 0.609005 chi(nested): 0.382 p-value for nested model: 0.536659
  141. best pat: 011 2.50594e-30 chi(nested): 164.184 p-value for nested model: 1.37916e-37
  142.  
  143. coeffs: 0.674 0.058 0.268
  144.  
  145. ## dscore:: f_4(Base, Fit, Rbase, right2)
  146. ## genstat:: f_4(Base, Fit, right1, right2)
  147.  
  148. details: Russia_Khvalynsk_EN Ust_Ishim.DG 0.000232 0.778639
  149. details: CHG Ust_Ishim.DG -0.001060 -2.777514
  150. details: Parkhai_EN Ust_Ishim.DG -0.001483 -4.207529
  151. dscore: Ust_Ishim.DG f4: -0.000303 Z: -1.170716
  152.  
  153. details: Russia_Khvalynsk_EN Kostenki14.SG 0.000534 1.533112
  154. details: CHG Kostenki14.SG -0.002070 -5.012412
  155. details: Parkhai_EN Kostenki14.SG -0.002693 -7.632190
  156. dscore: Kostenki14.SG f4: -0.000482 Z: -1.647604
  157.  
  158. details: Russia_Khvalynsk_EN Russia_MA1.SG 0.002128 5.942986
  159. details: CHG Russia_MA1.SG -0.005162 -12.286657
  160. details: Parkhai_EN Russia_MA1.SG -0.004975 -14.520456
  161. dscore: Russia_MA1.SG f4: -0.000198 Z: -0.673707
  162.  
  163. details: Russia_Khvalynsk_EN Han.DG 0.000717 2.567649
  164. details: CHG Han.DG -0.001794 -5.613210
  165. details: Parkhai_EN Han.DG -0.002073 -7.688569
  166. dscore: Han.DG f4: -0.000176 Z: -0.768823
  167.  
  168. details: Russia_Khvalynsk_EN Onge.DG 0.000577 1.959193
  169. details: CHG Onge.DG -0.001544 -4.370506
  170. details: Parkhai_EN Onge.DG -0.001390 -4.591756
  171. dscore: Onge.DG f4: -0.000073 Z: -0.286975
  172.  
  173. details: Russia_Khvalynsk_EN Papuan.DG 0.000651 2.190495
  174. details: CHG Papuan.DG -0.001638 -4.929829
  175. details: Parkhai_EN Papuan.DG -0.001449 -5.409808
  176. dscore: Papuan.DG f4: -0.000045 Z: -0.185301
  177.  
  178. details: Russia_Khvalynsk_EN Italy_Villabruna 0.002763 7.425772
  179. details: CHG Italy_Villabruna -0.004139 -10.042265
  180. details: Parkhai_EN Italy_Villabruna -0.004910 -14.936570
  181. dscore: Italy_Villabruna f4: 0.000307 Z: 1.028741
  182.  
  183. details: Russia_Khvalynsk_EN Czech_Vestonice16 0.001243 3.720613
  184. details: CHG Czech_Vestonice16 -0.002354 -6.452130
  185. details: Parkhai_EN Czech_Vestonice16 -0.002237 -6.871069
  186. dscore: Czech_Vestonice16 f4: 0.000102 Z: 0.364687
  187.  
  188. details: Russia_Khvalynsk_EN Karitiana.DG 0.001635 5.089357
  189. details: CHG Karitiana.DG -0.004185 -11.413402
  190. details: Parkhai_EN Karitiana.DG -0.004411 -13.551468
  191. dscore: Karitiana.DG f4: -0.000323 Z: -1.216027
  192.  
  193. details: Russia_Khvalynsk_EN Iberia_ElMiron 0.001263 3.920970
  194. details: CHG Iberia_ElMiron -0.002968 -8.810573
  195. details: Parkhai_EN Iberia_ElMiron -0.003427 -11.740550
  196. dscore: Iberia_ElMiron f4: -0.000239 Z: -0.905219
  197.  
  198. details: Russia_Khvalynsk_EN Ethiopia_4500BP.SG 0.000030 0.124568
  199. details: CHG Ethiopia_4500BP.SG -0.000155 -0.544404
  200. details: Parkhai_EN Ethiopia_4500BP.SG -0.000088 -0.370661
  201. dscore: Ethiopia_4500BP.SG f4: -0.000012 Z: -0.059296
  202.  
  203. details: Russia_Khvalynsk_EN Natufian 0.000105 0.400680
  204. details: CHG Natufian -0.000615 -2.473305
  205. details: Parkhai_EN Natufian -0.000392 -1.686351
  206. dscore: Natufian f4: -0.000070 Z: -0.326202
  207.  
  208. details: Russia_Khvalynsk_EN Ganj_Dareh_N -0.001291 -4.800501
  209. details: CHG Ganj_Dareh_N 0.000071 0.216196
  210. details: Parkhai_EN Ganj_Dareh_N 0.002753 9.242695
  211. dscore: Ganj_Dareh_N f4: -0.000129 Z: -0.564192
  212.  
  213. gendstat: Mbuti.DG Ust_Ishim.DG -1.171
  214. gendstat: Mbuti.DG Kostenki14.SG -1.648
  215. gendstat: Mbuti.DG Russia_MA1.SG -0.674
  216. gendstat: Mbuti.DG Han.DG -0.769
  217. gendstat: Mbuti.DG Onge.DG -0.287
  218. gendstat: Mbuti.DG Papuan.DG -0.185
  219. gendstat: Mbuti.DG Italy_Villabruna 1.029
  220. gendstat: Mbuti.DG Czech_Vestonice16 0.365
  221. gendstat: Mbuti.DG Karitiana.DG -1.216
  222. gendstat: Mbuti.DG Iberia_ElMiron -0.905
  223. gendstat: Mbuti.DG Ethiopia_4500BP.SG -0.059
  224. gendstat: Mbuti.DG Natufian -0.326
  225. gendstat: Mbuti.DG Ganj_Dareh_N -0.564
  226. gendstat: Ust_Ishim.DG Kostenki14.SG -0.542
  227. gendstat: Ust_Ishim.DG Russia_MA1.SG 0.299
  228. gendstat: Ust_Ishim.DG Han.DG 0.482
  229. gendstat: Ust_Ishim.DG Onge.DG 0.795
  230. gendstat: Ust_Ishim.DG Papuan.DG 0.925
  231. gendstat: Ust_Ishim.DG Italy_Villabruna 1.869
  232. gendstat: Ust_Ishim.DG Czech_Vestonice16 1.250
  233. gendstat: Ust_Ishim.DG Karitiana.DG -0.068
  234. gendstat: Ust_Ishim.DG Iberia_ElMiron 0.204
  235. gendstat: Ust_Ishim.DG Ethiopia_4500BP.SG 0.955
  236. gendstat: Ust_Ishim.DG Natufian 0.774
  237. gendstat: Ust_Ishim.DG Ganj_Dareh_N 0.598
  238. gendstat: Kostenki14.SG Russia_MA1.SG 0.792
  239. gendstat: Kostenki14.SG Han.DG 1.029
  240. gendstat: Kostenki14.SG Onge.DG 1.255
  241. gendstat: Kostenki14.SG Papuan.DG 1.432
  242. gendstat: Kostenki14.SG Italy_Villabruna 2.273
  243. gendstat: Kostenki14.SG Czech_Vestonice16 1.751
  244. gendstat: Kostenki14.SG Karitiana.DG 0.483
  245. gendstat: Kostenki14.SG Iberia_ElMiron 0.776
  246. gendstat: Kostenki14.SG Ethiopia_4500BP.SG 1.406
  247. gendstat: Kostenki14.SG Natufian 1.327
  248. gendstat: Kostenki14.SG Ganj_Dareh_N 1.149
  249. gendstat: Russia_MA1.SG Han.DG 0.074
  250. gendstat: Russia_MA1.SG Onge.DG 0.375
  251. gendstat: Russia_MA1.SG Papuan.DG 0.489
  252. gendstat: Russia_MA1.SG Italy_Villabruna 1.428
  253. gendstat: Russia_MA1.SG Czech_Vestonice16 0.898
  254. gendstat: Russia_MA1.SG Karitiana.DG -0.406
  255. gendstat: Russia_MA1.SG Iberia_ElMiron -0.119
  256. gendstat: Russia_MA1.SG Ethiopia_4500BP.SG 0.553
  257. gendstat: Russia_MA1.SG Natufian 0.390
  258. gendstat: Russia_MA1.SG Ganj_Dareh_N 0.222
  259. gendstat: Han.DG Onge.DG 0.442
  260. gendstat: Han.DG Papuan.DG 0.580
  261. gendstat: Han.DG Italy_Villabruna 1.520
  262. gendstat: Han.DG Czech_Vestonice16 0.914
  263. gendstat: Han.DG Karitiana.DG -0.651
  264. gendstat: Han.DG Iberia_ElMiron -0.219
  265. gendstat: Han.DG Ethiopia_4500BP.SG 0.611
  266. gendstat: Han.DG Natufian 0.398
  267. gendstat: Han.DG Ganj_Dareh_N 0.191
  268. gendstat: Onge.DG Papuan.DG 0.116
  269. gendstat: Onge.DG Italy_Villabruna 1.102
  270. gendstat: Onge.DG Czech_Vestonice16 0.532
  271. gendstat: Onge.DG Karitiana.DG -0.874
  272. gendstat: Onge.DG Iberia_ElMiron -0.525
  273. gendstat: Onge.DG Ethiopia_4500BP.SG 0.205
  274. gendstat: Onge.DG Natufian 0.010
  275. gendstat: Onge.DG Ganj_Dareh_N -0.213
  276. gendstat: Papuan.DG Italy_Villabruna 1.029
  277. gendstat: Papuan.DG Czech_Vestonice16 0.469
  278. gendstat: Papuan.DG Karitiana.DG -1.021
  279. gendstat: Papuan.DG Iberia_ElMiron -0.633
  280. gendstat: Papuan.DG Ethiopia_4500BP.SG 0.114
  281. gendstat: Papuan.DG Natufian -0.091
  282. gendstat: Papuan.DG Ganj_Dareh_N -0.329
  283. gendstat: Italy_Villabruna Czech_Vestonice16 -0.622
  284. gendstat: Italy_Villabruna Karitiana.DG -1.782
  285. gendstat: Italy_Villabruna Iberia_ElMiron -1.803
  286. gendstat: Italy_Villabruna Ethiopia_4500BP.SG -0.961
  287. gendstat: Italy_Villabruna Natufian -1.198
  288. gendstat: Italy_Villabruna Ganj_Dareh_N -1.365
  289. gendstat: Czech_Vestonice16 Karitiana.DG -1.281
  290. gendstat: Czech_Vestonice16 Iberia_ElMiron -1.102
  291. gendstat: Czech_Vestonice16 Ethiopia_4500BP.SG -0.359
  292. gendstat: Czech_Vestonice16 Natufian -0.561
  293. gendstat: Czech_Vestonice16 Ganj_Dareh_N -0.728
  294. gendstat: Karitiana.DG Iberia_ElMiron 0.270
  295. gendstat: Karitiana.DG Ethiopia_4500BP.SG 1.039
  296. gendstat: Karitiana.DG Natufian 0.808
  297. gendstat: Karitiana.DG Ganj_Dareh_N 0.679
  298. gendstat: Iberia_ElMiron Ethiopia_4500BP.SG 0.727
  299. gendstat: Iberia_ElMiron Natufian 0.567
  300. gendstat: Iberia_ElMiron Ganj_Dareh_N 0.369
  301. gendstat: Ethiopia_4500BP.SG Natufian -0.210
  302. gendstat: Ethiopia_4500BP.SG Ganj_Dareh_N -0.420
  303. gendstat: Natufian Ganj_Dareh_N -0.220
  304.  
  305. ## end of run
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