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misnomer001

spgt chokhopani outgroup

misnomer001
Jan 10th, 2020
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  1. allsnps: YES
  2. ## qpAdm version: 810
  3. seed: 1611733945
  4.  
  5. left pops:
  6. SPGT
  7. InPe
  8. Armenia_MBA.SG
  9. Molaly_LBA
  10.  
  11. right pops:
  12. Kazakhstan_Botai.SG
  13. Ganj_Dareh_N
  14. PPN
  15. Anatolia_N
  16. Iberia_MN
  17. Russia_MA1.SG
  18. Georgia_Satsurblia.SG
  19. Kostenki14.SG
  20. Russia_Karelia_HG
  21. Serbia_Iron_Gates_HG
  22. Tyumen_HG
  23. Onge.DG
  24. Russia_Shamanka_EN.SG
  25. Nepal_Chokhopani_2700BP.SG
  26.  
  27. 0 SPGT 85
  28. 1 InPe 10
  29. 2 Armenia_MBA.SG 4
  30. 3 Molaly_LBA 1
  31. 4 Kazakhstan_Botai.SG 3
  32. 5 Ganj_Dareh_N 7
  33. 6 PPN 8
  34. 7 Anatolia_N 22
  35. 8 Iberia_MN 4
  36. 9 Russia_MA1.SG 1
  37. 10 Georgia_Satsurblia.SG 1
  38. 11 Kostenki14.SG 1
  39. 12 Russia_Karelia_HG 2
  40. 13 Serbia_Iron_Gates_HG 32
  41. 14 Tyumen_HG 2
  42. 15 Onge.DG 2
  43. 16 Russia_Shamanka_EN.SG 10
  44. 17 Nepal_Chokhopani_2700BP.SG 1
  45. jackknife block size: 0.050
  46. snps: 1150477 indivs: 196
  47. number of blocks for block jackknife: 552
  48. ## ncols: 1150477
  49. coverage: SPGT 1134632
  50. coverage: InPe 878190
  51. coverage: Armenia_MBA.SG 919421
  52. coverage: Molaly_LBA 732706
  53. coverage: Kazakhstan_Botai.SG 1149870
  54. coverage: Ganj_Dareh_N 1029695
  55. coverage: PPN 835499
  56. coverage: Anatolia_N 1134099
  57. coverage: Iberia_MN 967760
  58. coverage: Russia_MA1.SG 805960
  59. coverage: Georgia_Satsurblia.SG 801311
  60. coverage: Kostenki14.SG 1048972
  61. coverage: Russia_Karelia_HG 1010733
  62. coverage: Serbia_Iron_Gates_HG 1139259
  63. coverage: Tyumen_HG 807474
  64. coverage: Onge.DG 1120748
  65. coverage: Russia_Shamanka_EN.SG 1149998
  66. coverage: Nepal_Chokhopani_2700BP.SG 1147419
  67. dof (jackknife): 467.227
  68. numsnps used: 1150477
  69. codimension 1
  70. f4info:
  71. f4rank: 2 dof: 11 chisq: 14.048 tail: 0.230328591 dofdiff: 13 chisqdiff: -14.048 taildiff: 1
  72. B:
  73. scale 1.000 1.000
  74. Ganj_Dareh_N 0.265 2.141
  75. PPN 1.722 0.156
  76. Anatolia_N 1.778 -0.117
  77. Iberia_MN 1.585 -0.219
  78. Russia_MA1.SG 0.067 0.793
  79. Georgia_Satsurblia.SG 0.975 0.631
  80. Kostenki14.SG 0.352 0.718
  81. Russia_Karelia_HG 0.697 -0.119
  82. Serbia_Iron_Gates_HG 1.114 -0.768
  83. Tyumen_HG -0.112 0.465
  84. Onge.DG -0.596 2.042
  85. Russia_Shamanka_EN.SG -0.727 0.831
  86. Nepal_Chokhopani_2700BP.SG -0.767 1.053
  87. A:
  88. scale 759.868 1109.728
  89. InPe -0.027 0.771
  90. Armenia_MBA.SG 1.611 -0.252
  91. Molaly_LBA -0.635 -1.530
  92.  
  93.  
  94. full rank
  95. f4info:
  96. f4rank: 3 dof: 0 chisq: 0.000 tail: 1 dofdiff: 11 chisqdiff: 14.048 taildiff: 0.230328591
  97. B:
  98. scale 1.000 1.000 1.000
  99. Ganj_Dareh_N 0.358 2.097 -1.882
  100. PPN 1.747 0.064 -0.052
  101. Anatolia_N 1.786 -0.250 -0.354
  102. Iberia_MN 1.601 -0.355 0.530
  103. Russia_MA1.SG 0.090 0.780 -0.402
  104. Georgia_Satsurblia.SG 1.009 0.563 -0.165
  105. Kostenki14.SG 0.402 0.672 -0.011
  106. Russia_Karelia_HG 0.702 -0.206 -0.221
  107. Serbia_Iron_Gates_HG 1.103 -0.831 1.452
  108. Tyumen_HG -0.089 0.428 -0.612
  109. Onge.DG -0.477 2.056 -0.487
  110. Russia_Shamanka_EN.SG -0.646 0.863 2.457
  111. Nepal_Chokhopani_2700BP.SG -0.719 1.072 0.227
  112. A:
  113. scale 769.165 1229.949 7160.371
  114. InPe 0.118 1.037 0.832
  115. Armenia_MBA.SG 1.641 -0.355 0.193
  116. Molaly_LBA -0.541 -1.341 1.507
  117.  
  118.  
  119. best coefficients: 0.598 0.121 0.281
  120. Jackknife mean: 0.597827594 0.121077221 0.281095185
  121. std. errors: 0.022 0.020 0.028
  122.  
  123. error covariance (* 1000000)
  124. 504 -45 -459
  125. -45 398 -353
  126. -459 -353 812
  127.  
  128.  
  129. summ: SPGT 3 0.230329 0.598 0.121 0.281 504 -45 -459 398 -353 812
  130.  
  131. fixed pat wt dof chisq tail prob
  132. 000 0 11 14.048 0.230329 0.598 0.121 0.281
  133. 001 1 12 106.581 2.83205e-17 0.781 0.219 -0.000
  134. 010 1 12 42.303 2.96136e-05 0.600 0.000 0.400
  135. 100 1 12 167.141 1.83368e-29 0.000 -0.328 1.328 infeasible
  136. 011 2 13 234.576 0 1.000 0.000 -0.000
  137. 101 2 13 733.531 0 0.000 1.000 -0.000
  138. 110 2 13 186.193 0 0.000 0.000 1.000
  139. best pat: 000 0.230329 - -
  140. best pat: 010 2.96136e-05 chi(nested): 28.255 p-value for nested model: 1.06366e-07
  141. best pat: 110 9.21896e-33 chi(nested): 143.890 p-value for nested model: 3.75433e-33
  142.  
  143. coeffs: 0.598 0.121 0.281
  144.  
  145. ## dscore:: f_4(Base, Fit, Rbase, right2)
  146. ## genstat:: f_4(Base, Fit, right1, right2)
  147.  
  148. details: InPe Ganj_Dareh_N 0.001603 8.923127
  149. details: Armenia_MBA.SG Ganj_Dareh_N 0.000127 0.456053
  150. details: Molaly_LBA Ganj_Dareh_N -0.002977 -9.435554
  151. dscore: Ganj_Dareh_N f4: 0.000136 Z: 0.973063
  152.  
  153. details: InPe PPN 0.000330 1.674170
  154. details: Armenia_MBA.SG PPN 0.003751 12.167470
  155. details: Molaly_LBA PPN -0.001321 -3.848755
  156. dscore: PPN f4: 0.000279 Z: 1.832030
  157.  
  158. details: InPe Anatolia_N 0.000043 0.283321
  159. details: Armenia_MBA.SG Anatolia_N 0.003907 15.155034
  160. details: Molaly_LBA Anatolia_N -0.001068 -3.498490
  161. dscore: Anatolia_N f4: 0.000198 Z: 1.580081
  162.  
  163. details: InPe Iberia_MN 0.000013 0.081049
  164. details: Armenia_MBA.SG Iberia_MN 0.003576 12.633859
  165. details: Molaly_LBA Iberia_MN -0.000631 -1.923797
  166. dscore: Iberia_MN f4: 0.000263 Z: 1.913543
  167.  
  168. details: InPe Russia_MA1.SG 0.000629 3.187274
  169. details: Armenia_MBA.SG Russia_MA1.SG -0.000030 -0.105113
  170. details: Molaly_LBA Russia_MA1.SG -0.001025 -3.255857
  171. dscore: Russia_MA1.SG f4: 0.000084 Z: 0.535527
  172.  
  173. details: InPe Georgia_Satsurblia.SG 0.000622 2.801223
  174. details: Armenia_MBA.SG Georgia_Satsurblia.SG 0.001997 6.130388
  175. details: Molaly_LBA Georgia_Satsurblia.SG -0.001401 -4.027906
  176. dscore: Georgia_Satsurblia.SG f4: 0.000220 Z: 1.273360
  177.  
  178. details: InPe Kostenki14.SG 0.000649 3.101129
  179. details: Armenia_MBA.SG Kostenki14.SG 0.000702 2.287822
  180. details: Molaly_LBA Kostenki14.SG -0.001017 -2.871831
  181. dscore: Kostenki14.SG f4: 0.000187 Z: 1.127713
  182.  
  183. details: InPe Russia_Karelia_HG -0.000076 -0.423011
  184. details: Armenia_MBA.SG Russia_Karelia_HG 0.001590 5.881356
  185. details: Molaly_LBA Russia_Karelia_HG -0.000316 -1.033788
  186. dscore: Russia_Karelia_HG f4: 0.000058 Z: 0.402092
  187.  
  188. details: InPe Serbia_Iron_Gates_HG -0.000351 -2.433568
  189. details: Armenia_MBA.SG Serbia_Iron_Gates_HG 0.002657 11.417451
  190. details: Molaly_LBA Serbia_Iron_Gates_HG 0.000408 1.462339
  191. dscore: Serbia_Iron_Gates_HG f4: 0.000226 Z: 1.879604
  192.  
  193. details: InPe Tyumen_HG 0.000271 1.464154
  194. details: Armenia_MBA.SG Tyumen_HG -0.000309 -1.200094
  195. details: Molaly_LBA Tyumen_HG -0.000586 -1.761722
  196. dscore: Tyumen_HG f4: -0.000040 Z: -0.274937
  197.  
  198. details: InPe Onge.DG 0.001632 9.067479
  199. details: Armenia_MBA.SG Onge.DG -0.001606 -5.685270
  200. details: Molaly_LBA Onge.DG -0.002012 -6.035437
  201. dscore: Onge.DG f4: 0.000216 Z: 1.482093
  202.  
  203. details: InPe Russia_Shamanka_EN.SG 0.000932 6.146983
  204. details: Armenia_MBA.SG Russia_Shamanka_EN.SG -0.001541 -6.729238
  205. details: Molaly_LBA Russia_Shamanka_EN.SG 0.000046 0.144583
  206. dscore: Russia_Shamanka_EN.SG f4: 0.000384 Z: 3.001895
  207.  
  208. details: InPe Nepal_Chokhopani_2700BP.SG 0.000857 4.617029
  209. details: Armenia_MBA.SG Nepal_Chokhopani_2700BP.SG -0.001808 -6.440249
  210. details: Molaly_LBA Nepal_Chokhopani_2700BP.SG -0.000579 -1.557617
  211. dscore: Nepal_Chokhopani_2700BP.SG f4: 0.000131 Z: 0.861963
  212.  
  213. gendstat: Kazakhstan_Botai.SG Ganj_Dareh_N 0.973
  214. gendstat: Kazakhstan_Botai.SG PPN 1.832
  215. gendstat: Kazakhstan_Botai.SG Anatolia_N 1.580
  216. gendstat: Kazakhstan_Botai.SG Iberia_MN 1.914
  217. gendstat: Kazakhstan_Botai.SG Russia_MA1.SG 0.536
  218. gendstat: Kazakhstan_Botai.SG Georgia_Satsurblia.SG 1.273
  219. gendstat: Kazakhstan_Botai.SG Kostenki14.SG 1.128
  220. gendstat: Kazakhstan_Botai.SG Russia_Karelia_HG 0.402
  221. gendstat: Kazakhstan_Botai.SG Serbia_Iron_Gates_HG 1.880
  222. gendstat: Kazakhstan_Botai.SG Tyumen_HG -0.275
  223. gendstat: Kazakhstan_Botai.SG Onge.DG 1.482
  224. gendstat: Kazakhstan_Botai.SG Russia_Shamanka_EN.SG 3.002
  225. gendstat: Kazakhstan_Botai.SG Nepal_Chokhopani_2700BP.SG 0.862
  226. gendstat: Ganj_Dareh_N PPN 0.937
  227. gendstat: Ganj_Dareh_N Anatolia_N 0.503
  228. gendstat: Ganj_Dareh_N Iberia_MN 0.904
  229. gendstat: Ganj_Dareh_N Russia_MA1.SG -0.276
  230. gendstat: Ganj_Dareh_N Georgia_Satsurblia.SG 0.487
  231. gendstat: Ganj_Dareh_N Kostenki14.SG 0.277
  232. gendstat: Ganj_Dareh_N Russia_Karelia_HG -0.453
  233. gendstat: Ganj_Dareh_N Serbia_Iron_Gates_HG 0.645
  234. gendstat: Ganj_Dareh_N Tyumen_HG -0.971
  235. gendstat: Ganj_Dareh_N Onge.DG 0.495
  236. gendstat: Ganj_Dareh_N Russia_Shamanka_EN.SG 1.598
  237. gendstat: Ganj_Dareh_N Nepal_Chokhopani_2700BP.SG -0.030
  238. gendstat: PPN Anatolia_N -0.732
  239. gendstat: PPN Iberia_MN -0.127
  240. gendstat: PPN Russia_MA1.SG -0.985
  241. gendstat: PPN Georgia_Satsurblia.SG -0.314
  242. gendstat: PPN Kostenki14.SG -0.516
  243. gendstat: PPN Russia_Karelia_HG -1.267
  244. gendstat: PPN Serbia_Iron_Gates_HG -0.401
  245. gendstat: PPN Tyumen_HG -1.638
  246. gendstat: PPN Onge.DG -0.371
  247. gendstat: PPN Russia_Shamanka_EN.SG 0.660
  248. gendstat: PPN Nepal_Chokhopani_2700BP.SG -0.807
  249. gendstat: Anatolia_N Iberia_MN 0.709
  250. gendstat: Anatolia_N Russia_MA1.SG -0.655
  251. gendstat: Anatolia_N Georgia_Satsurblia.SG 0.136
  252. gendstat: Anatolia_N Kostenki14.SG -0.075
  253. gendstat: Anatolia_N Russia_Karelia_HG -0.919
  254. gendstat: Anatolia_N Serbia_Iron_Gates_HG 0.288
  255. gendstat: Anatolia_N Tyumen_HG -1.348
  256. gendstat: Anatolia_N Onge.DG 0.118
  257. gendstat: Anatolia_N Russia_Shamanka_EN.SG 1.387
  258. gendstat: Anatolia_N Nepal_Chokhopani_2700BP.SG -0.422
  259. gendstat: Iberia_MN Russia_MA1.SG -0.976
  260. gendstat: Iberia_MN Georgia_Satsurblia.SG -0.238
  261. gendstat: Iberia_MN Kostenki14.SG -0.440
  262. gendstat: Iberia_MN Russia_Karelia_HG -1.263
  263. gendstat: Iberia_MN Serbia_Iron_Gates_HG -0.324
  264. gendstat: Iberia_MN Tyumen_HG -1.629
  265. gendstat: Iberia_MN Onge.DG -0.296
  266. gendstat: Iberia_MN Russia_Shamanka_EN.SG 0.815
  267. gendstat: Iberia_MN Nepal_Chokhopani_2700BP.SG -0.751
  268. gendstat: Russia_MA1.SG Georgia_Satsurblia.SG 0.623
  269. gendstat: Russia_MA1.SG Kostenki14.SG 0.519
  270. gendstat: Russia_MA1.SG Russia_Karelia_HG -0.135
  271. gendstat: Russia_MA1.SG Serbia_Iron_Gates_HG 0.846
  272. gendstat: Russia_MA1.SG Tyumen_HG -0.627
  273. gendstat: Russia_MA1.SG Onge.DG 0.677
  274. gendstat: Russia_MA1.SG Russia_Shamanka_EN.SG 1.614
  275. gendstat: Russia_MA1.SG Nepal_Chokhopani_2700BP.SG 0.237
  276. gendstat: Georgia_Satsurblia.SG Kostenki14.SG -0.164
  277. gendstat: Georgia_Satsurblia.SG Russia_Karelia_HG -0.805
  278. gendstat: Georgia_Satsurblia.SG Serbia_Iron_Gates_HG 0.037
  279. gendstat: Georgia_Satsurblia.SG Tyumen_HG -1.269
  280. gendstat: Georgia_Satsurblia.SG Onge.DG -0.021
  281. gendstat: Georgia_Satsurblia.SG Russia_Shamanka_EN.SG 0.906
  282. gendstat: Georgia_Satsurblia.SG Nepal_Chokhopani_2700BP.SG -0.433
  283. gendstat: Kostenki14.SG Russia_Karelia_HG -0.723
  284. gendstat: Kostenki14.SG Serbia_Iron_Gates_HG 0.264
  285. gendstat: Kostenki14.SG Tyumen_HG -1.129
  286. gendstat: Kostenki14.SG Onge.DG 0.158
  287. gendstat: Kostenki14.SG Russia_Shamanka_EN.SG 1.135
  288. gendstat: Kostenki14.SG Nepal_Chokhopani_2700BP.SG -0.284
  289. gendstat: Russia_Karelia_HG Serbia_Iron_Gates_HG 1.224
  290. gendstat: Russia_Karelia_HG Tyumen_HG -0.525
  291. gendstat: Russia_Karelia_HG Onge.DG 0.907
  292. gendstat: Russia_Karelia_HG Russia_Shamanka_EN.SG 1.955
  293. gendstat: Russia_Karelia_HG Nepal_Chokhopani_2700BP.SG 0.378
  294. gendstat: Serbia_Iron_Gates_HG Tyumen_HG -1.590
  295. gendstat: Serbia_Iron_Gates_HG Onge.DG -0.069
  296. gendstat: Serbia_Iron_Gates_HG Russia_Shamanka_EN.SG 1.125
  297. gendstat: Serbia_Iron_Gates_HG Nepal_Chokhopani_2700BP.SG -0.566
  298. gendstat: Tyumen_HG Onge.DG 1.372
  299. gendstat: Tyumen_HG Russia_Shamanka_EN.SG 2.381
  300. gendstat: Tyumen_HG Nepal_Chokhopani_2700BP.SG 0.838
  301. gendstat: Onge.DG Russia_Shamanka_EN.SG 1.298
  302. gendstat: Onge.DG Nepal_Chokhopani_2700BP.SG -0.541
  303. gendstat: Russia_Shamanka_EN.SG Nepal_Chokhopani_2700BP.SG -1.975
  304.  
  305. ## end of run
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