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misnomer001

sarazm2 pass

misnomer001
Aug 2nd, 2022
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  1. qpAdm: parameter file: parqpadm
  2. ### THE INPUT PARAMETERS
  3. ##PARAMETER NAME: VALUE
  4. popleft: left
  5. popright: right
  6. details: YES
  7. allsnps: YES
  8. inbreed: NO
  9. oldallsnps: NO
  10. S1: newpush
  11. S1X: newpush
  12. indivname: newpush.ind
  13. snpname: newpush.snp
  14. genotypename: newpush.geno
  15. ## qpAdm version: 1520
  16. seed: 1161985374
  17. inbreed set NO
  18. inbreed set NO
  19. tmp: /tmp/fsx.16651
  20.  
  21. left pops:
  22. Tajikistan_C_Sarazm
  23. CHG_Kotias
  24. Iran_GanjDareh_N
  25. Tarim_EMBA1
  26. Iran_C_TepeHissar
  27.  
  28. right pops:
  29. Mbuti.DG
  30. Serbia_IronGates_Mesolithic
  31. CHG_Satsurblia
  32. EHG
  33. Sunghir
  34. China_YR_MN
  35. Turkey_Boncuklu_N
  36. Russia_Yana_UP.SG
  37. Russia_Shamanka_Eneolithic.SG
  38. ONG.SG
  39. WSHG
  40. Turkey_N
  41.  
  42. codimension 1
  43. f4info:
  44. f4rank: 3 dof: 8 chisq: 11.161 tail: 0.192725578 dofdiff: 10 chisqdiff: -11.161 taildiff: 1
  45. B:
  46. scale 1.000 1.000 1.000
  47. Serbia_IronGates_Mesolithic 0.517 0.175 0.852
  48. CHG_Satsurblia -0.359 2.984 -0.441
  49. EHG 1.662 -0.463 -0.433
  50. Sunghir 0.445 0.252 0.242
  51. China_YR_MN 0.863 -0.343 -0.535
  52. Turkey_Boncuklu_N -0.100 0.541 1.644
  53. Russia_Yana_UP.SG 0.762 0.079 -0.353
  54. Russia_Shamanka_Eneolithic.SG 1.097 -0.267 -0.884
  55. ONG.SG 0.611 -0.211 -0.494
  56. WSHG 2.161 -1.089 -0.937
  57. Turkey_N -0.246 0.268 2.195
  58. A:
  59. scale 73.188 183.755 540.871
  60. CHG_Kotias -0.019 1.913 -0.012
  61. Iran_GanjDareh_N -0.748 -0.522 -1.662
  62. Tarim_EMBA1 1.822 -0.204 -0.521
  63. Iran_C_TepeHissar -0.348 -0.163 0.984
  64.  
  65.  
  66. full rank
  67. f4info:
  68. f4rank: 4 dof: 0 chisq: 0.000 tail: 1 dofdiff: 8 chisqdiff: 11.161 taildiff: 0.192725578
  69. B:
  70. scale 92.784 109.655 38.974 174.718
  71. Serbia_IronGates_Mesolithic 0.148 -0.958 0.460 -0.183
  72. CHG_Satsurblia 2.982 -0.342 -0.442 -0.286
  73. EHG -0.496 -1.599 1.653 -1.457
  74. Sunghir 0.094 -0.838 0.364 -0.562
  75. China_YR_MN -0.328 -0.707 0.874 -0.849
  76. Turkey_Boncuklu_N 0.374 -0.794 -0.238 0.274
  77. Russia_Yana_UP.SG 0.031 -0.802 0.744 -0.803
  78. Russia_Shamanka_Eneolithic.SG -0.256 -0.853 1.125 -1.117
  79. ONG.SG -0.283 -0.584 0.587 -0.810
  80. WSHG -1.170 -1.880 2.152 -2.093
  81. Turkey_N 0.266 -0.576 -0.334 0.848
  82. A:
  83. scale 2.000 2.000 2.000 2.000
  84. CHG_Kotias 2.000 0.000 0.000 0.000
  85. Iran_GanjDareh_N 0.000 2.000 0.000 0.000
  86. Tarim_EMBA1 0.000 0.000 2.000 0.000
  87. Iran_C_TepeHissar 0.000 0.000 0.000 2.000
  88.  
  89.  
  90. best coefficients: 0.121 0.222 0.183 0.474
  91. totmean: 0.121 0.222 0.183 0.474
  92. boot mean: 0.121 0.222 0.183 0.474
  93. std. errors: 0.039 0.084 0.013 0.071
  94.  
  95. error covariance (* 1,000,000)
  96. 1505 -1485 81 -101
  97. -1485 6973 -381 -5108
  98. 81 -381 160 140
  99. -101 -5108 140 5069
  100.  
  101.  
  102. summ: Tajikistan_C_Sarazm 4 0.192726 0.121 0.222 0.183 0.474 1505 -1485 81 -101 6973 ...
  103. -381 -5108 160 140 5069
  104.  
  105. fixed pat wt dof chisq tail prob
  106. 0000 0 8 11.161 0.192726 0.121 0.222 0.183 0.474
  107. 0001 1 9 50.790 7.64977e-08 0.138 0.694 0.167 0.000
  108. 0010 1 9 164.693 0 -0.167 1.430 0.000 -0.263 infeasible
  109. 0100 1 9 22.306 0.00795747 0.174 0.000 0.195 0.631
  110. 1000 1 9 20.546 0.014825 0.000 0.351 0.173 0.476
  111. 0011 2 10 361.831 0 -1.895 2.895 0.000 0.000 infeasible
  112. 0101 2 10 183.192 0 0.784 0.000 0.216 0.000
  113. 0110 2 10 407.239 0 -6.261 0.000 0.000 7.261 infeasible
  114. 1001 2 10 57.427 1.10795e-08 0.000 0.845 0.155 0.000
  115. 1010 2 10 167.827 0 0.000 1.228 0.000 -0.228 infeasible
  116. 1100 2 10 45.887 1.5031e-06 0.000 0.000 0.191 0.809
  117. 0111 3 11 346.311 0 1.000 0.000 0.000 0.000
  118. 1011 3 11 170.910 0 0.000 1.000 0.000 0.000
  119. 1101 3 11 2739.490 0 0.000 0.000 1.000 0.000
  120. 1110 3 11 262.117 0 0.000 0.000 0.000 1.000
  121. best pat: 0000 0.192726 - -
  122. best pat: 1000 0.014825 chi(nested): 9.385 p-value for nested model: 0.0021878
  123. best pat: 1100 1.5031e-06 chi(nested): 25.341 p-value for nested model: 4.80349e-07
  124. best pat: 1011 7.66508e-31 not nested
  125.  
  126. coeffs: 0.121 0.222 0.183 0.474
  127.  
  128. ## dscore:: f_4(Base, Fit, Rbase, right2)
  129. ## genstat:: f_4(Base, Fit, right1, right2)
  130.  
  131. details: CHG_Kotias Serbia_IronGates_Mesolithic 0.001596 1.067178
  132. details: Iran_GanjDareh_N Serbia_IronGates_Mesolithic -0.008736 -7.710531
  133. details: Tarim_EMBA1 Serbia_IronGates_Mesolithic 0.011792 9.526077
  134. details: Iran_C_TepeHissar Serbia_IronGates_Mesolithic -0.001045 -1.032357
  135. dscore: Serbia_IronGates_Mesolithic f4: -0.000086 Z: -0.090818
  136.  
  137. details: CHG_Kotias CHG_Satsurblia 0.032135 13.597921
  138. details: Iran_GanjDareh_N CHG_Satsurblia -0.003120 -1.888715
  139. details: Tarim_EMBA1 CHG_Satsurblia -0.011351 -6.243720
  140. details: Iran_C_TepeHissar CHG_Satsurblia -0.001636 -1.106498
  141. dscore: CHG_Satsurblia f4: 0.000329 Z: 0.233204
  142.  
  143. details: CHG_Kotias EHG -0.005342 -2.954044
  144. details: Iran_GanjDareh_N EHG -0.014580 -10.554888
  145. details: Tarim_EMBA1 EHG 0.042403 26.903031
  146. details: Iran_C_TepeHissar EHG -0.008337 -6.776489
  147. dscore: EHG f4: -0.000073 Z: -0.062848
  148.  
  149. details: CHG_Kotias Sunghir 0.001012 0.633613
  150. details: Iran_GanjDareh_N Sunghir -0.007646 -6.035724
  151. details: Tarim_EMBA1 Sunghir 0.009352 6.585990
  152. details: Iran_C_TepeHissar Sunghir -0.003217 -2.913301
  153. dscore: Sunghir f4: -0.001390 Z: -1.316506
  154.  
  155. details: CHG_Kotias China_YR_MN -0.003537 -2.210702
  156. details: Iran_GanjDareh_N China_YR_MN -0.006449 -5.266051
  157. details: Tarim_EMBA1 China_YR_MN 0.022433 15.577939
  158. details: Iran_C_TepeHissar China_YR_MN -0.004857 -4.204286
  159. dscore: China_YR_MN f4: -0.000055 Z: -0.050321
  160.  
  161. details: CHG_Kotias Turkey_Boncuklu_N 0.004035 2.619780
  162. details: Iran_GanjDareh_N Turkey_Boncuklu_N -0.007242 -6.159999
  163. details: Tarim_EMBA1 Turkey_Boncuklu_N -0.006117 -4.771094
  164. details: Iran_C_TepeHissar Turkey_Boncuklu_N 0.001568 1.462863
  165. dscore: Turkey_Boncuklu_N f4: -0.001500 Z: -1.497270
  166.  
  167. details: CHG_Kotias Russia_Yana_UP.SG 0.000337 0.197458
  168. details: Iran_GanjDareh_N Russia_Yana_UP.SG -0.007310 -5.632241
  169. details: Tarim_EMBA1 Russia_Yana_UP.SG 0.019083 13.653018
  170. details: Iran_C_TepeHissar Russia_Yana_UP.SG -0.004598 -3.847440
  171. dscore: Russia_Yana_UP.SG f4: -0.000270 Z: -0.240870
  172.  
  173. details: CHG_Kotias Russia_Shamanka_Eneolithic.SG -0.002764 -1.859145
  174. details: Iran_GanjDareh_N Russia_Shamanka_Eneolithic.SG -0.007777 -6.709780
  175. details: Tarim_EMBA1 Russia_Shamanka_Eneolithic.SG 0.028865 21.665476
  176. details: Iran_C_TepeHissar Russia_Shamanka_Eneolithic.SG -0.006396 -6.001455
  177. dscore: Russia_Shamanka_Eneolithic.SG f4: 0.000192 Z: 0.190128
  178.  
  179. details: CHG_Kotias ONG.SG -0.003046 -1.982457
  180. details: Iran_GanjDareh_N ONG.SG -0.005325 -4.261895
  181. details: Tarim_EMBA1 ONG.SG 0.015061 10.801639
  182. details: Iran_C_TepeHissar ONG.SG -0.004635 -4.202869
  183. dscore: ONG.SG f4: -0.000991 Z: -0.932730
  184.  
  185. details: CHG_Kotias WSHG -0.012607 -6.953356
  186. details: Iran_GanjDareh_N WSHG -0.017140 -11.692940
  187. details: Tarim_EMBA1 WSHG 0.055227 33.363799
  188. details: Iran_C_TepeHissar WSHG -0.011981 -9.057922
  189. dscore: WSHG f4: -0.000897 Z: -0.714036
  190.  
  191. details: CHG_Kotias Turkey_N 0.002865 2.094248
  192. details: Iran_GanjDareh_N Turkey_N -0.005257 -5.214795
  193. details: Tarim_EMBA1 Turkey_N -0.008576 -7.655204
  194. details: Iran_C_TepeHissar Turkey_N 0.004856 5.399906
  195. dscore: Turkey_N f4: -0.000092 Z: -0.108639
  196.  
  197. gendstat: Mbuti.DG Serbia_IronGates_Mesolithic -0.091
  198. gendstat: Mbuti.DG CHG_Satsurblia 0.233
  199. gendstat: Mbuti.DG EHG -0.063
  200. gendstat: Mbuti.DG Sunghir -1.317
  201. gendstat: Mbuti.DG China_YR_MN -0.050
  202. gendstat: Mbuti.DG Turkey_Boncuklu_N -1.497
  203. gendstat: Mbuti.DG Russia_Yana_UP.SG -0.241
  204. gendstat: Mbuti.DG Russia_Shamanka_Eneolithic.SG 0.190
  205. gendstat: Mbuti.DG ONG.SG -0.933
  206. gendstat: Mbuti.DG WSHG -0.714
  207. gendstat: Mbuti.DG Turkey_N -0.109
  208. gendstat: Serbia_IronGates_Mesolithic CHG_Satsurblia 0.315
  209. gendstat: Serbia_IronGates_Mesolithic EHG 0.015
  210. gendstat: Serbia_IronGates_Mesolithic Sunghir -1.548
  211. gendstat: Serbia_IronGates_Mesolithic China_YR_MN 0.031
  212. gendstat: Serbia_IronGates_Mesolithic Turkey_Boncuklu_N -1.846
  213. gendstat: Serbia_IronGates_Mesolithic Russia_Yana_UP.SG -0.198
  214. gendstat: Serbia_IronGates_Mesolithic Russia_Shamanka_Eneolithic.SG 0.308
  215. gendstat: Serbia_IronGates_Mesolithic ONG.SG -0.888
  216. gendstat: Serbia_IronGates_Mesolithic WSHG -0.799
  217. gendstat: Serbia_IronGates_Mesolithic Turkey_N -0.009
  218. gendstat: CHG_Satsurblia EHG -0.274
  219. gendstat: CHG_Satsurblia Sunghir -1.213
  220. gendstat: CHG_Satsurblia China_YR_MN -0.267
  221. gendstat: CHG_Satsurblia Turkey_Boncuklu_N -1.359
  222. gendstat: CHG_Satsurblia Russia_Yana_UP.SG -0.399
  223. gendstat: CHG_Satsurblia Russia_Shamanka_Eneolithic.SG -0.101
  224. gendstat: CHG_Satsurblia ONG.SG -0.904
  225. gendstat: CHG_Satsurblia WSHG -0.804
  226. gendstat: CHG_Satsurblia Turkey_N -0.336
  227. gendstat: EHG Sunghir -1.241
  228. gendstat: EHG China_YR_MN 0.016
  229. gendstat: EHG Turkey_Boncuklu_N -1.332
  230. gendstat: EHG Russia_Yana_UP.SG -0.177
  231. gendstat: EHG Russia_Shamanka_Eneolithic.SG 0.246
  232. gendstat: EHG ONG.SG -0.789
  233. gendstat: EHG WSHG -0.830
  234. gendstat: EHG Turkey_N -0.020
  235. gendstat: Sunghir China_YR_MN 1.271
  236. gendstat: Sunghir Turkey_Boncuklu_N -0.119
  237. gendstat: Sunghir Russia_Yana_UP.SG 1.135
  238. gendstat: Sunghir Russia_Shamanka_Eneolithic.SG 1.633
  239. gendstat: Sunghir ONG.SG 0.389
  240. gendstat: Sunghir WSHG 0.425
  241. gendstat: Sunghir Turkey_N 1.475
  242. gendstat: China_YR_MN Turkey_Boncuklu_N -1.314
  243. gendstat: China_YR_MN Russia_Yana_UP.SG -0.202
  244. gendstat: China_YR_MN Russia_Shamanka_Eneolithic.SG 0.362
  245. gendstat: China_YR_MN ONG.SG -1.029
  246. gendstat: China_YR_MN WSHG -0.699
  247. gendstat: China_YR_MN Turkey_N -0.037
  248. gendstat: Turkey_Boncuklu_N Russia_Yana_UP.SG 1.159
  249. gendstat: Turkey_Boncuklu_N Russia_Shamanka_Eneolithic.SG 1.705
  250. gendstat: Turkey_Boncuklu_N ONG.SG 0.467
  251. gendstat: Turkey_Boncuklu_N WSHG 0.507
  252. gendstat: Turkey_Boncuklu_N Turkey_N 2.252
  253. gendstat: Russia_Yana_UP.SG Russia_Shamanka_Eneolithic.SG 0.470
  254. gendstat: Russia_Yana_UP.SG ONG.SG -0.684
  255. gendstat: Russia_Yana_UP.SG WSHG -0.563
  256. gendstat: Russia_Yana_UP.SG Turkey_N 0.184
  257. gendstat: Russia_Shamanka_Eneolithic.SG ONG.SG -1.448
  258. gendstat: Russia_Shamanka_Eneolithic.SG WSHG -0.983
  259. gendstat: Russia_Shamanka_Eneolithic.SG Turkey_N -0.317
  260. gendstat: ONG.SG WSHG 0.077
  261. gendstat: ONG.SG Turkey_N 0.897
  262. gendstat: WSHG Turkey_N 0.710
  263.  
  264. removing /tmp/fsx.16651
  265. ##end of qpAdm: 25.989 seconds cpu 0.582 Mbytes in use
  266.  
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