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misnomer001

parkhai_en

misnomer001
May 23rd, 2020
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  1. allsnps: YES
  2. ## qpAdm version: 1000
  3. seed: 1848567057
  4. read 1073741824 bytes
  5. read 2146675633 bytes
  6. packed geno read OK
  7. end of inpack
  8.  
  9. left pops:
  10. Turkmenistan_C_Parkhai
  11. Iran_GanjDareh_N
  12. Georgia_Kotias.SG
  13. WSHG
  14. Anatolia_N
  15.  
  16. right pops:
  17. Mbuti.DG
  18. Russia_Ust_Ishim.DG
  19. Russia_Kostenki14.SG
  20. Russia_MA1_HG.SG
  21. Han.DG
  22. ONG.SG
  23. Papuan.DG
  24. Italy_North_Villabruna_HG
  25. Czech_Vestonice16
  26. Iberia_ElMiron
  27. Ethiopia_4500BP_published.SG
  28. Karitiana.DG
  29. Israel_Natufian
  30. Georgia_Satsurblia.SG
  31. Russia_HG_Karelia
  32.  
  33. 0 Turkmenistan_C_Parkhai 4
  34. 1 Iran_GanjDareh_N 8
  35. 2 Georgia_Kotias.SG 1
  36. 3 WSHG 3
  37. 4 Anatolia_N 22
  38. 5 Mbuti.DG 4
  39. 6 Russia_Ust_Ishim.DG 1
  40. 7 Russia_Kostenki14.SG 1
  41. 8 Russia_MA1_HG.SG 1
  42. 9 Han.DG 3
  43. 10 ONG.SG 6
  44. 11 Papuan.DG 15
  45. 12 Italy_North_Villabruna_HG 1
  46. 13 Czech_Vestonice16 1
  47. 14 Iberia_ElMiron 1
  48. 15 Ethiopia_4500BP_published.SG 1
  49. 16 Karitiana.DG 3
  50. 17 Israel_Natufian 6
  51. 18 Georgia_Satsurblia.SG 1
  52. 19 Russia_HG_Karelia 2
  53. jackknife block size: 0.050
  54. snps: 1150509 indivs: 85
  55. number of blocks for block jackknife: 713
  56. ## ncols: 1150509
  57. coverage: Turkmenistan_C_Parkhai 995807
  58. coverage: Iran_GanjDareh_N 1057358
  59. coverage: Georgia_Kotias.SG 1149097
  60. coverage: WSHG 858019
  61. coverage: Anatolia_N 1139031
  62. coverage: Mbuti.DG 1121438
  63. coverage: Russia_Ust_Ishim.DG 1062044
  64. coverage: Russia_Kostenki14.SG 1048972
  65. coverage: Russia_MA1_HG.SG 805960
  66. coverage: Han.DG 1121416
  67. coverage: ONG.SG 1143397
  68. coverage: Papuan.DG 1121459
  69. coverage: Italy_North_Villabruna_HG 883779
  70. coverage: Czech_Vestonice16 732091
  71. coverage: Iberia_ElMiron 626974
  72. coverage: Ethiopia_4500BP_published.SG 1149598
  73. coverage: Karitiana.DG 1121394
  74. coverage: Israel_Natufian 535079
  75. coverage: Georgia_Satsurblia.SG 801311
  76. coverage: Russia_HG_Karelia 1010733
  77. dof (jackknife): 618.828
  78. numsnps used: 1150509
  79. codimension 1
  80. f4info:
  81. f4rank: 3 dof: 11 chisq: 6.671 tail: 0.825084041 dofdiff: 13 chisqdiff: -6.671 taildiff: 1
  82. B:
  83. scale 1.000 1.000 1.000
  84. Russia_Ust_Ishim.DG 0.404 0.030 0.014
  85. Russia_Kostenki14.SG 0.561 0.609 0.195
  86. Russia_MA1_HG.SG 1.705 -1.071 -0.639
  87. Han.DG 0.842 -0.465 -0.190
  88. ONG.SG 0.520 -0.305 -0.104
  89. Papuan.DG 0.563 -0.378 -0.299
  90. Italy_North_Villabruna_HG 0.882 1.509 0.379
  91. Czech_Vestonice16 0.635 1.008 0.136
  92. Iberia_ElMiron 0.759 1.123 0.188
  93. Ethiopia_4500BP_published.SG -0.031 0.085 0.011
  94. Karitiana.DG 1.681 -1.103 -0.560
  95. Israel_Natufian -0.006 2.238 0.308
  96. Georgia_Satsurblia.SG -0.329 -1.001 3.564
  97. Russia_HG_Karelia 2.151 -0.489 -0.332
  98. A:
  99. scale 332.596 889.623 1020.997
  100. Iran_GanjDareh_N -0.317 -0.395 -0.347
  101. Georgia_Kotias.SG 0.211 -0.301 1.943
  102. WSHG 1.940 -0.275 -0.181
  103. Anatolia_N 0.301 1.918 0.269
  104.  
  105.  
  106. full rank
  107. f4info:
  108. f4rank: 4 dof: 0 chisq: 0.000 tail: 1 dofdiff: 11 chisqdiff: 6.671 taildiff: 0.825084041
  109. B:
  110. scale 1056.365 522.824 166.001 450.386
  111. Russia_Ust_Ishim.DG -0.361 0.190 0.410 0.241
  112. Russia_Kostenki14.SG -0.612 0.415 0.548 0.947
  113. Russia_MA1_HG.SG -1.082 0.060 1.736 -0.432
  114. Han.DG -0.416 0.229 0.879 -0.069
  115. ONG.SG -0.422 0.110 0.539 -0.089
  116. Papuan.DG -0.285 -0.036 0.588 -0.161
  117. Italy_North_Villabruna_HG -1.695 0.445 0.782 1.882
  118. Czech_Vestonice16 -1.450 0.055 0.534 1.181
  119. Iberia_ElMiron -1.113 0.360 0.717 1.521
  120. Ethiopia_4500BP_published.SG 0.112 0.035 -0.017 0.114
  121. Karitiana.DG -0.775 0.253 1.737 -0.386
  122. Israel_Natufian -1.187 -0.107 -0.116 2.198
  123. Georgia_Satsurblia.SG -0.456 3.621 -0.355 -0.667
  124. Russia_HG_Karelia -1.857 0.454 2.132 0.362
  125. A:
  126. scale 2.000 2.000 2.000 2.000
  127. Iran_GanjDareh_N 2.000 0.000 0.000 0.000
  128. Georgia_Kotias.SG 0.000 2.000 0.000 0.000
  129. WSHG 0.000 0.000 2.000 0.000
  130. Anatolia_N 0.000 0.000 0.000 2.000
  131.  
  132.  
  133. best coefficients: 0.663 0.103 0.072 0.163
  134. Jackknife mean: 0.661756474 0.103077220 0.071959256 0.163207051
  135. std. errors: 0.040 0.031 0.013 0.022
  136.  
  137. error covariance (* 1,000,000)
  138. 1586 -951 -193 -442
  139. -951 948 40 -36
  140. -193 40 179 -25
  141. -442 -36 -25 503
  142.  
  143.  
  144. summ: Turkmenistan_C_Parkhai 4 0.825084 0.662 0.103 0.072 0.163 1586 -951 -193 -442 948 ...
  145. 40 -36 179 -25 503
  146.  
  147. fixed pat wt dof chisq tail prob
  148. 0000 0 11 6.671 0.825084 0.663 0.103 0.072 0.163
  149. 0001 1 12 52.195 5.72549e-07 0.850 0.078 0.073 0.000
  150. 0010 1 12 32.795 0.00104177 0.759 0.077 0.000 0.165
  151. 0100 1 12 17.963 0.116814 0.773 0.000 0.066 0.161
  152. 1000 1 12 184.821 0 0.000 0.616 0.116 0.268
  153. 0011 2 13 75.189 8.7783e-11 0.962 0.038 0.000 0.000
  154. 0101 2 13 58.632 9.21626e-08 0.930 0.000 0.070 0.000
  155. 0110 2 13 39.988 0.000138847 0.838 0.000 0.000 0.162
  156. 1001 2 13 252.121 0 0.000 0.889 0.111 0.000
  157. 1010 2 13 222.272 0 0.000 0.742 0.000 0.258
  158. 1100 2 13 664.184 0 0.000 0.000 0.197 0.803
  159. 0111 3 14 76.629 1.18796e-10 1.000 0.000 0.000 0.000
  160. 1011 3 14 271.151 0 0.000 1.000 0.000 0.000
  161. 1101 3 14 1971.885 0 0.000 0.000 1.000 0.000
  162. 1110 3 14 792.355 0 0.000 0.000 0.000 1.000
  163. best pat: 0000 0.825084 - -
  164. best pat: 0100 0.116814 chi(nested): 11.292 p-value for nested model: 0.000778254
  165. best pat: 0110 0.000138847 chi(nested): 22.025 p-value for nested model: 2.69133e-06
  166. best pat: 0111 1.18796e-10 chi(nested): 36.640 p-value for nested model: 1.42055e-09
  167.  
  168. coeffs: 0.663 0.103 0.072 0.163
  169.  
  170. ## dscore:: f_4(Base, Fit, Rbase, right2)
  171. ## genstat:: f_4(Base, Fit, right1, right2)
  172.  
  173. details: Iran_GanjDareh_N Russia_Ust_Ishim.DG -0.000342 -1.235486
  174. details: Georgia_Kotias.SG Russia_Ust_Ishim.DG 0.000364 0.870050
  175. details: WSHG Russia_Ust_Ishim.DG 0.002470 6.554325
  176. details: Anatolia_N Russia_Ust_Ishim.DG 0.000536 1.865456
  177. dscore: Russia_Ust_Ishim.DG f4: 0.000075 Z: 0.312729
  178.  
  179. details: Iran_GanjDareh_N Russia_Kostenki14.SG -0.000579 -1.954863
  180. details: Georgia_Kotias.SG Russia_Kostenki14.SG 0.000795 1.764634
  181. details: WSHG Russia_Kostenki14.SG 0.003301 8.453970
  182. details: Anatolia_N Russia_Kostenki14.SG 0.002103 6.657663
  183. dscore: Russia_Kostenki14.SG f4: 0.000278 Z: 1.083542
  184.  
  185. details: Iran_GanjDareh_N Russia_MA1_HG.SG -0.001024 -3.490555
  186. details: Georgia_Kotias.SG Russia_MA1_HG.SG 0.000115 0.269713
  187. details: WSHG Russia_MA1_HG.SG 0.010456 25.382512
  188. details: Anatolia_N Russia_MA1_HG.SG -0.000959 -3.240163
  189. dscore: Russia_MA1_HG.SG f4: -0.000072 Z: -0.284543
  190.  
  191. details: Iran_GanjDareh_N Han.DG -0.000394 -1.581376
  192. details: Georgia_Kotias.SG Han.DG 0.000437 1.239385
  193. details: WSHG Han.DG 0.005293 15.646092
  194. details: Anatolia_N Han.DG -0.000153 -0.645095
  195. dscore: Han.DG f4: 0.000139 Z: 0.648329
  196.  
  197. details: Iran_GanjDareh_N ONG.SG -0.000399 -1.585272
  198. details: Georgia_Kotias.SG ONG.SG 0.000211 0.601513
  199. details: WSHG ONG.SG 0.003249 9.912964
  200. details: Anatolia_N ONG.SG -0.000198 -0.852303
  201. dscore: ONG.SG f4: -0.000042 Z: -0.195236
  202.  
  203. details: Iran_GanjDareh_N Papuan.DG -0.000270 -1.095384
  204. details: Georgia_Kotias.SG Papuan.DG -0.000068 -0.189493
  205. details: WSHG Papuan.DG 0.003541 10.238629
  206. details: Anatolia_N Papuan.DG -0.000358 -1.555144
  207. dscore: Papuan.DG f4: 0.000010 Z: 0.049486
  208.  
  209. details: Iran_GanjDareh_N Italy_North_Villabruna_HG -0.001604 -5.306228
  210. details: Georgia_Kotias.SG Italy_North_Villabruna_HG 0.000851 1.932668
  211. details: WSHG Italy_North_Villabruna_HG 0.004708 11.237131
  212. details: Anatolia_N Italy_North_Villabruna_HG 0.004178 14.100013
  213. dscore: Italy_North_Villabruna_HG f4: 0.000043 Z: 0.171409
  214.  
  215. details: Iran_GanjDareh_N Czech_Vestonice16 -0.001373 -4.835488
  216. details: Georgia_Kotias.SG Czech_Vestonice16 0.000106 0.251238
  217. details: WSHG Czech_Vestonice16 0.003218 8.559161
  218. details: Anatolia_N Czech_Vestonice16 0.002622 8.559317
  219. dscore: Czech_Vestonice16 f4: -0.000240 Z: -0.970651
  220.  
  221. details: Iran_GanjDareh_N Iberia_ElMiron -0.001054 -4.005518
  222. details: Georgia_Kotias.SG Iberia_ElMiron 0.000688 1.851745
  223. details: WSHG Iberia_ElMiron 0.004317 11.511038
  224. details: Anatolia_N Iberia_ElMiron 0.003377 12.393569
  225. dscore: Iberia_ElMiron f4: 0.000233 Z: 1.026592
  226.  
  227. details: Iran_GanjDareh_N Ethiopia_4500BP_published.SG 0.000106 0.503885
  228. details: Georgia_Kotias.SG Ethiopia_4500BP_published.SG 0.000067 0.217539
  229. details: WSHG Ethiopia_4500BP_published.SG -0.000102 -0.409713
  230. details: Anatolia_N Ethiopia_4500BP_published.SG 0.000253 1.239644
  231. dscore: Ethiopia_4500BP_published.SG f4: 0.000111 Z: 0.613509
  232.  
  233. details: Iran_GanjDareh_N Karitiana.DG -0.000733 -2.628337
  234. details: Georgia_Kotias.SG Karitiana.DG 0.000484 1.222854
  235. details: WSHG Karitiana.DG 0.010462 27.361859
  236. details: Anatolia_N Karitiana.DG -0.000858 -3.132459
  237. dscore: Karitiana.DG f4: 0.000176 Z: 0.733793
  238.  
  239. details: Iran_GanjDareh_N Israel_Natufian -0.001124 -5.295235
  240. details: Georgia_Kotias.SG Israel_Natufian -0.000205 -0.677149
  241. details: WSHG Israel_Natufian -0.000700 -2.515948
  242. details: Anatolia_N Israel_Natufian 0.004881 19.433842
  243. dscore: Israel_Natufian f4: -0.000021 Z: -0.113586
  244.  
  245. details: Iran_GanjDareh_N Georgia_Satsurblia.SG -0.000431 -1.550330
  246. details: Georgia_Kotias.SG Georgia_Satsurblia.SG 0.006925 15.120983
  247. details: WSHG Georgia_Satsurblia.SG -0.002138 -5.776504
  248. details: Anatolia_N Georgia_Satsurblia.SG -0.001481 -4.960540
  249. dscore: Georgia_Satsurblia.SG f4: 0.000030 Z: 0.123664
  250.  
  251. details: Iran_GanjDareh_N Russia_HG_Karelia -0.001758 -5.742022
  252. details: Georgia_Kotias.SG Russia_HG_Karelia 0.000868 1.852911
  253. details: WSHG Russia_HG_Karelia 0.012843 31.384560
  254. details: Anatolia_N Russia_HG_Karelia 0.000803 2.669155
  255. dscore: Russia_HG_Karelia f4: -0.000022 Z: -0.084441
  256.  
  257. gendstat: Mbuti.DG Russia_Ust_Ishim.DG 0.313
  258. gendstat: Mbuti.DG Russia_Kostenki14.SG 1.084
  259. gendstat: Mbuti.DG Russia_MA1_HG.SG -0.285
  260. gendstat: Mbuti.DG Han.DG 0.648
  261. gendstat: Mbuti.DG ONG.SG -0.195
  262. gendstat: Mbuti.DG Papuan.DG 0.049
  263. gendstat: Mbuti.DG Italy_North_Villabruna_HG 0.171
  264. gendstat: Mbuti.DG Czech_Vestonice16 -0.971
  265. gendstat: Mbuti.DG Iberia_ElMiron 1.027
  266. gendstat: Mbuti.DG Ethiopia_4500BP_published.SG 0.614
  267. gendstat: Mbuti.DG Karitiana.DG 0.734
  268. gendstat: Mbuti.DG Israel_Natufian -0.114
  269. gendstat: Mbuti.DG Georgia_Satsurblia.SG 0.124
  270. gendstat: Mbuti.DG Russia_HG_Karelia -0.084
  271. gendstat: Russia_Ust_Ishim.DG Russia_Kostenki14.SG 0.715
  272. gendstat: Russia_Ust_Ishim.DG Russia_MA1_HG.SG -0.503
  273. gendstat: Russia_Ust_Ishim.DG Han.DG 0.250
  274. gendstat: Russia_Ust_Ishim.DG ONG.SG -0.477
  275. gendstat: Russia_Ust_Ishim.DG Papuan.DG -0.258
  276. gendstat: Russia_Ust_Ishim.DG Italy_North_Villabruna_HG -0.110
  277. gendstat: Russia_Ust_Ishim.DG Czech_Vestonice16 -1.082
  278. gendstat: Russia_Ust_Ishim.DG Iberia_ElMiron 0.585
  279. gendstat: Russia_Ust_Ishim.DG Ethiopia_4500BP_published.SG 0.132
  280. gendstat: Russia_Ust_Ishim.DG Karitiana.DG 0.367
  281. gendstat: Russia_Ust_Ishim.DG Israel_Natufian -0.369
  282. gendstat: Russia_Ust_Ishim.DG Georgia_Satsurblia.SG -0.157
  283. gendstat: Russia_Ust_Ishim.DG Russia_HG_Karelia -0.329
  284. gendstat: Russia_Kostenki14.SG Russia_MA1_HG.SG -1.188
  285. gendstat: Russia_Kostenki14.SG Han.DG -0.526
  286. gendstat: Russia_Kostenki14.SG ONG.SG -1.204
  287. gendstat: Russia_Kostenki14.SG Papuan.DG -1.046
  288. gendstat: Russia_Kostenki14.SG Italy_North_Villabruna_HG -0.787
  289. gendstat: Russia_Kostenki14.SG Czech_Vestonice16 -1.811
  290. gendstat: Russia_Kostenki14.SG Iberia_ElMiron -0.168
  291. gendstat: Russia_Kostenki14.SG Ethiopia_4500BP_published.SG -0.568
  292. gendstat: Russia_Kostenki14.SG Karitiana.DG -0.367
  293. gendstat: Russia_Kostenki14.SG Israel_Natufian -1.108
  294. gendstat: Russia_Kostenki14.SG Georgia_Satsurblia.SG -0.830
  295. gendstat: Russia_Kostenki14.SG Russia_HG_Karelia -1.014
  296. gendstat: Russia_MA1_HG.SG Han.DG 0.826
  297. gendstat: Russia_MA1_HG.SG ONG.SG 0.115
  298. gendstat: Russia_MA1_HG.SG Papuan.DG 0.316
  299. gendstat: Russia_MA1_HG.SG Italy_North_Villabruna_HG 0.390
  300. gendstat: Russia_MA1_HG.SG Czech_Vestonice16 -0.565
  301. gendstat: Russia_MA1_HG.SG Iberia_ElMiron 1.067
  302. gendstat: Russia_MA1_HG.SG Ethiopia_4500BP_published.SG 0.642
  303. gendstat: Russia_MA1_HG.SG Karitiana.DG 0.953
  304. gendstat: Russia_MA1_HG.SG Israel_Natufian 0.191
  305. gendstat: Russia_MA1_HG.SG Georgia_Satsurblia.SG 0.355
  306. gendstat: Russia_MA1_HG.SG Russia_HG_Karelia 0.186
  307. gendstat: Han.DG ONG.SG -0.924
  308. gendstat: Han.DG Papuan.DG -0.653
  309. gendstat: Han.DG Italy_North_Villabruna_HG -0.369
  310. gendstat: Han.DG Czech_Vestonice16 -1.420
  311. gendstat: Han.DG Iberia_ElMiron 0.367
  312. gendstat: Han.DG Ethiopia_4500BP_published.SG -0.112
  313. gendstat: Han.DG Karitiana.DG 0.186
  314. gendstat: Han.DG Israel_Natufian -0.672
  315. gendstat: Han.DG Georgia_Satsurblia.SG -0.412
  316. gendstat: Han.DG Russia_HG_Karelia -0.636
  317. gendstat: ONG.SG Papuan.DG 0.268
  318. gendstat: ONG.SG Italy_North_Villabruna_HG 0.317
  319. gendstat: ONG.SG Czech_Vestonice16 -0.740
  320. gendstat: ONG.SG Iberia_ElMiron 1.095
  321. gendstat: ONG.SG Ethiopia_4500BP_published.SG 0.629
  322. gendstat: ONG.SG Karitiana.DG 0.930
  323. gendstat: ONG.SG Israel_Natufian 0.087
  324. gendstat: ONG.SG Georgia_Satsurblia.SG 0.276
  325. gendstat: ONG.SG Russia_HG_Karelia 0.075
  326. gendstat: Papuan.DG Italy_North_Villabruna_HG 0.124
  327. gendstat: Papuan.DG Czech_Vestonice16 -0.954
  328. gendstat: Papuan.DG Iberia_ElMiron 0.898
  329. gendstat: Papuan.DG Ethiopia_4500BP_published.SG 0.417
  330. gendstat: Papuan.DG Karitiana.DG 0.723
  331. gendstat: Papuan.DG Israel_Natufian -0.132
  332. gendstat: Papuan.DG Georgia_Satsurblia.SG 0.074
  333. gendstat: Papuan.DG Russia_HG_Karelia -0.126
  334. gendstat: Italy_North_Villabruna_HG Czech_Vestonice16 -1.008
  335. gendstat: Italy_North_Villabruna_HG Iberia_ElMiron 0.718
  336. gendstat: Italy_North_Villabruna_HG Ethiopia_4500BP_published.SG 0.235
  337. gendstat: Italy_North_Villabruna_HG Karitiana.DG 0.484
  338. gendstat: Italy_North_Villabruna_HG Israel_Natufian -0.242
  339. gendstat: Italy_North_Villabruna_HG Georgia_Satsurblia.SG -0.043
  340. gendstat: Italy_North_Villabruna_HG Russia_HG_Karelia -0.237
  341. gendstat: Czech_Vestonice16 Iberia_ElMiron 1.712
  342. gendstat: Czech_Vestonice16 Ethiopia_4500BP_published.SG 1.237
  343. gendstat: Czech_Vestonice16 Karitiana.DG 1.465
  344. gendstat: Czech_Vestonice16 Israel_Natufian 0.814
  345. gendstat: Czech_Vestonice16 Georgia_Satsurblia.SG 0.871
  346. gendstat: Czech_Vestonice16 Russia_HG_Karelia 0.736
  347. gendstat: Iberia_ElMiron Ethiopia_4500BP_published.SG -0.460
  348. gendstat: Iberia_ElMiron Karitiana.DG -0.216
  349. gendstat: Iberia_ElMiron Israel_Natufian -1.020
  350. gendstat: Iberia_ElMiron Georgia_Satsurblia.SG -0.731
  351. gendstat: Iberia_ElMiron Russia_HG_Karelia -0.895
  352. gendstat: Ethiopia_4500BP_published.SG Karitiana.DG 0.241
  353. gendstat: Ethiopia_4500BP_published.SG Israel_Natufian -0.558
  354. gendstat: Ethiopia_4500BP_published.SG Georgia_Satsurblia.SG -0.285
  355. gendstat: Ethiopia_4500BP_published.SG Russia_HG_Karelia -0.449
  356. gendstat: Karitiana.DG Israel_Natufian -0.730
  357. gendstat: Karitiana.DG Georgia_Satsurblia.SG -0.513
  358. gendstat: Karitiana.DG Russia_HG_Karelia -0.755
  359. gendstat: Israel_Natufian Georgia_Satsurblia.SG 0.191
  360. gendstat: Israel_Natufian Russia_HG_Karelia -0.004
  361. gendstat: Georgia_Satsurblia.SG Russia_HG_Karelia -0.173
  362.  
  363. ##end of qpAdm: 393.309 seconds cpu 1534.497 Mbytes in use
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