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misnomer001

yamnaya SiSBA1 pass

misnomer001
Feb 7th, 2020
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  1. allsnps: YES
  2. ## qpAdm version: 1000
  3. seed: 1877952560
  4. read 1073741824 bytes
  5. read 1324255962 bytes
  6. packed geno read OK
  7. end of inpack
  8.  
  9. left pops:
  10. Russia_Yamnaya_Samara
  11. EEHG
  12. Georgia_Kotias.SG
  13. Ukraine_Globular_Amphora
  14. Shahr_I_Sokhta_BA1
  15.  
  16. right pops:
  17. Russia_MA1_HG
  18. Italy_Villabruna
  19. Russia_Kostenki14
  20. Luxembourg_Loschbour
  21. Anatolia_N
  22. Czech_Vestonice16
  23. Morocco_Iberomaurusian
  24. Russia_Shamanka_EN.SG
  25. Georgia_Satsurblia.SG
  26. Ganj_Dareh_N
  27. Onge.DG
  28. SE_Iberia_MLN
  29. PPN
  30.  
  31. 0 Russia_Yamnaya_Samara 8
  32. 1 EEHG 5
  33. 2 Georgia_Kotias.SG 1
  34. 3 Ukraine_Globular_Amphora 3
  35. 4 Shahr_I_Sokhta_BA1 8
  36. 5 Russia_MA1_HG 1
  37. 6 Italy_Villabruna 1
  38. 7 Russia_Kostenki14 1
  39. 8 Luxembourg_Loschbour 1
  40. 9 Anatolia_N 23
  41. 10 Czech_Vestonice16 1
  42. 11 Morocco_Iberomaurusian 6
  43. 12 Russia_Shamanka_EN.SG 10
  44. 13 Georgia_Satsurblia.SG 1
  45. 14 Ganj_Dareh_N 8
  46. 15 Onge.DG 2
  47. 16 SE_Iberia_MLN 14
  48. 17 PPN 8
  49. jackknife block size: 0.050
  50. snps: 1150468 indivs: 102
  51. number of blocks for block jackknife: 713
  52. ## ncols: 1150468
  53. coverage: Russia_Yamnaya_Samara 1092113
  54. coverage: EEHG 1052093
  55. coverage: Georgia_Kotias.SG 1149097
  56. coverage: Ukraine_Globular_Amphora 1036892
  57. coverage: Shahr_I_Sokhta_BA1 940504
  58. coverage: Russia_MA1_HG 805960
  59. coverage: Italy_Villabruna 883779
  60. coverage: Russia_Kostenki14 1068326
  61. coverage: Luxembourg_Loschbour 460892
  62. coverage: Anatolia_N 1136560
  63. coverage: Czech_Vestonice16 732091
  64. coverage: Morocco_Iberomaurusian 1101342
  65. coverage: Russia_Shamanka_EN.SG 1149998
  66. coverage: Georgia_Satsurblia.SG 801311
  67. coverage: Ganj_Dareh_N 1057358
  68. coverage: Onge.DG 1120748
  69. coverage: SE_Iberia_MLN 985553
  70. coverage: PPN 835499
  71. dof (jackknife): 614.298
  72. numsnps used: 1150468
  73. codimension 1
  74. f4info:
  75. f4rank: 3 dof: 9 chisq: 15.133 tail: 0.0873465929 dofdiff: 11 chisqdiff: -15.133 taildiff: 1
  76. B:
  77. scale 1.000 1.000 1.000
  78. Italy_Villabruna 0.649 1.645 1.373
  79. Russia_Kostenki14 0.764 0.364 0.232
  80. Luxembourg_Loschbour 0.332 0.947 0.934
  81. Anatolia_N 1.487 0.781 0.210
  82. Czech_Vestonice16 0.679 0.580 0.119
  83. Morocco_Iberomaurusian 1.154 0.095 -0.232
  84. Russia_Shamanka_EN.SG 0.624 -0.423 -0.267
  85. Georgia_Satsurblia.SG 0.961 -1.665 1.661
  86. Ganj_Dareh_N 1.198 -1.683 -2.268
  87. Onge.DG 0.835 -0.535 -0.705
  88. SE_Iberia_MLN 1.306 1.027 0.543
  89. PPN 1.317 0.434 -0.555
  90. A:
  91. scale 268.835 604.243 1461.505
  92. EEHG -1.025 0.503 -0.173
  93. Georgia_Kotias.SG 0.888 -1.347 1.523
  94. Ukraine_Globular_Amphora 1.334 1.286 -0.160
  95. Shahr_I_Sokhta_BA1 0.618 -0.527 -1.275
  96.  
  97.  
  98. full rank
  99. f4info:
  100. f4rank: 4 dof: 0 chisq: 0.000 tail: 1 dofdiff: 9 chisqdiff: 15.133 taildiff: 0.0873465929
  101. B:
  102. scale 266.743 253.965 173.800 350.256
  103. Italy_Villabruna -0.284 0.082 1.197 -0.333
  104. Russia_Kostenki14 -0.730 0.542 0.818 0.490
  105. Luxembourg_Loschbour -0.169 0.007 0.641 -0.287
  106. Anatolia_N -1.340 0.925 1.598 0.949
  107. Czech_Vestonice16 -0.507 0.378 0.851 0.411
  108. Morocco_Iberomaurusian -1.115 0.956 1.074 1.057
  109. Russia_Shamanka_EN.SG -0.661 0.790 0.445 0.823
  110. Georgia_Satsurblia.SG -1.387 2.267 0.219 0.816
  111. Ganj_Dareh_N -1.525 1.420 0.487 2.207
  112. Onge.DG -0.957 0.869 0.571 1.109
  113. SE_Iberia_MLN -1.102 0.719 1.529 0.634
  114. PPN -1.115 0.857 1.382 1.238
  115. A:
  116. scale 2.000 2.000 2.000 2.000
  117. EEHG 2.000 0.000 0.000 0.000
  118. Georgia_Kotias.SG 0.000 2.000 0.000 0.000
  119. Ukraine_Globular_Amphora 0.000 0.000 2.000 0.000
  120. Shahr_I_Sokhta_BA1 0.000 0.000 0.000 2.000
  121.  
  122.  
  123. best coefficients: 0.467 0.222 0.125 0.186
  124. Jackknife mean: 0.467574536 0.221248250 0.125102881 0.186074332
  125. std. errors: 0.016 0.027 0.014 0.027
  126.  
  127. error covariance (* 1,000,000)
  128. 264 -86 -103 -76
  129. -86 706 -17 -603
  130. -103 -17 182 -62
  131. -76 -603 -62 742
  132.  
  133.  
  134. summ: Russia_Yamnaya_Samara 4 0.087347 0.468 0.221 0.125 0.186 264 -86 -103 -76 706 ...
  135. -17 -603 182 -62 742
  136.  
  137. fixed pat wt dof chisq tail prob
  138. 0000 0 9 15.133 0.0873466 0.467 0.222 0.125 0.186
  139. 0001 1 10 53.653 5.63082e-08 0.482 0.383 0.135 0.000
  140. 0010 1 10 100.173 5.03233e-17 0.537 0.270 0.000 0.193
  141. 0100 1 10 92.299 1.87288e-15 0.492 0.000 0.129 0.379
  142. 1000 1 10 346.725 0 0.000 4.217 0.049 -3.266 infeasible
  143. 0011 2 11 126.511 8.83374e-22 0.543 0.457 0.000 0.000
  144. 0101 2 11 501.964 0 0.785 0.000 0.215 0.000
  145. 0110 2 11 167.003 4.87953e-30 0.570 0.000 0.000 0.430
  146. 1001 2 11 468.419 0 0.000 0.813 0.187 0.000
  147. 1010 2 11 341.184 0 0.000 2.967 0.000 -1.967 infeasible
  148. 1100 2 11 777.197 0 0.000 0.000 0.336 0.664
  149. 0111 3 12 641.307 0 1.000 0.000 0.000 0.000
  150. 1011 3 12 503.923 0 0.000 1.000 0.000 0.000
  151. 1101 3 12 1714.476 0 0.000 0.000 1.000 0.000
  152. 1110 3 12 1088.579 0 0.000 0.000 0.000 1.000
  153. best pat: 0000 0.0873466 - -
  154. best pat: 0001 5.63082e-08 chi(nested): 38.520 p-value for nested model: 5.42003e-10
  155. best pat: 0011 8.83374e-22 chi(nested): 72.858 p-value for nested model: 1.39335e-17
  156. best pat: 1011 3.24104e-100 chi(nested): 377.412 p-value for nested model: 4.55358e-84
  157.  
  158. coeffs: 0.467 0.222 0.125 0.186
  159.  
  160. ## dscore:: f_4(Base, Fit, Rbase, right2)
  161. ## genstat:: f_4(Base, Fit, right1, right2)
  162.  
  163. details: EEHG Italy_Villabruna -0.001063 -2.990243
  164. details: Georgia_Kotias.SG Italy_Villabruna 0.000324 0.740717
  165. details: Ukraine_Globular_Amphora Italy_Villabruna 0.006887 19.345544
  166. details: Shahr_I_Sokhta_BA1 Italy_Villabruna -0.000950 -3.106109
  167. dscore: Italy_Villabruna f4: 0.000263 Z: 1.065608
  168.  
  169. details: EEHG Russia_Kostenki14 -0.002736 -7.376261
  170. details: Georgia_Kotias.SG Russia_Kostenki14 0.002135 4.705939
  171. details: Ukraine_Globular_Amphora Russia_Kostenki14 0.004709 12.623191
  172. details: Shahr_I_Sokhta_BA1 Russia_Kostenki14 0.001399 4.410045
  173. dscore: Russia_Kostenki14 f4: 0.000046 Z: 0.180569
  174.  
  175. details: EEHG Luxembourg_Loschbour -0.000635 -2.500698
  176. details: Georgia_Kotias.SG Luxembourg_Loschbour 0.000026 0.087376
  177. details: Ukraine_Globular_Amphora Luxembourg_Loschbour 0.003689 14.745688
  178. details: Shahr_I_Sokhta_BA1 Luxembourg_Loschbour -0.000820 -3.666384
  179. dscore: Luxembourg_Loschbour f4: 0.000020 Z: 0.113344
  180.  
  181. details: EEHG Anatolia_N -0.005024 -16.195343
  182. details: Georgia_Kotias.SG Anatolia_N 0.003642 8.956021
  183. details: Ukraine_Globular_Amphora Anatolia_N 0.009194 28.995024
  184. details: Shahr_I_Sokhta_BA1 Anatolia_N 0.002708 9.762501
  185. dscore: Anatolia_N f4: 0.000116 Z: 0.519352
  186.  
  187. details: EEHG Czech_Vestonice16 -0.001902 -6.007026
  188. details: Georgia_Kotias.SG Czech_Vestonice16 0.001487 3.805869
  189. details: Ukraine_Globular_Amphora Czech_Vestonice16 0.004896 15.406660
  190. details: Shahr_I_Sokhta_BA1 Czech_Vestonice16 0.001173 4.041501
  191. dscore: Czech_Vestonice16 f4: 0.000273 Z: 1.199261
  192.  
  193. details: EEHG Morocco_Iberomaurusian -0.004180 -12.798825
  194. details: Georgia_Kotias.SG Morocco_Iberomaurusian 0.003766 8.484467
  195. details: Ukraine_Globular_Amphora Morocco_Iberomaurusian 0.006181 18.716986
  196. details: Shahr_I_Sokhta_BA1 Morocco_Iberomaurusian 0.003018 10.477599
  197. dscore: Morocco_Iberomaurusian f4: 0.000218 Z: 0.923894
  198.  
  199. details: EEHG Russia_Shamanka_EN.SG -0.002478 -8.185943
  200. details: Georgia_Kotias.SG Russia_Shamanka_EN.SG 0.003110 7.783344
  201. details: Ukraine_Globular_Amphora Russia_Shamanka_EN.SG 0.002560 8.766943
  202. details: Shahr_I_Sokhta_BA1 Russia_Shamanka_EN.SG 0.002350 8.818392
  203. dscore: Russia_Shamanka_EN.SG f4: 0.000289 Z: 1.376586
  204.  
  205. details: EEHG Georgia_Satsurblia.SG -0.005200 -16.449189
  206. details: Georgia_Kotias.SG Georgia_Satsurblia.SG 0.008925 18.906829
  207. details: Ukraine_Globular_Amphora Georgia_Satsurblia.SG 0.001257 3.889106
  208. details: Shahr_I_Sokhta_BA1 Georgia_Satsurblia.SG 0.002331 8.474838
  209. dscore: Georgia_Satsurblia.SG f4: 0.000140 Z: 0.600117
  210.  
  211. details: EEHG Ganj_Dareh_N -0.005719 -17.752446
  212. details: Georgia_Kotias.SG Ganj_Dareh_N 0.005591 13.245906
  213. details: Ukraine_Globular_Amphora Ganj_Dareh_N 0.002800 8.761568
  214. details: Shahr_I_Sokhta_BA1 Ganj_Dareh_N 0.006301 22.029179
  215. dscore: Ganj_Dareh_N f4: 0.000088 Z: 0.390588
  216.  
  217. details: EEHG Onge.DG -0.003589 -10.915977
  218. details: Georgia_Kotias.SG Onge.DG 0.003422 7.693681
  219. details: Ukraine_Globular_Amphora Onge.DG 0.003283 10.045104
  220. details: Shahr_I_Sokhta_BA1 Onge.DG 0.003168 10.748617
  221. dscore: Onge.DG f4: 0.000082 Z: 0.355589
  222.  
  223. details: EEHG SE_Iberia_MLN -0.004132 -13.599419
  224. details: Georgia_Kotias.SG SE_Iberia_MLN 0.002833 7.250069
  225. details: Ukraine_Globular_Amphora SE_Iberia_MLN 0.008797 27.736043
  226. details: Shahr_I_Sokhta_BA1 SE_Iberia_MLN 0.001811 6.588211
  227. dscore: SE_Iberia_MLN f4: 0.000137 Z: 0.627721
  228.  
  229. details: EEHG PPN -0.004180 -14.336563
  230. details: Georgia_Kotias.SG PPN 0.003376 8.845270
  231. details: Ukraine_Globular_Amphora PPN 0.007951 25.065950
  232. details: Shahr_I_Sokhta_BA1 PPN 0.003535 12.637930
  233. dscore: PPN f4: 0.000449 Z: 2.093179
  234.  
  235. gendstat: Russia_MA1_HG Italy_Villabruna 1.066
  236. gendstat: Russia_MA1_HG Russia_Kostenki14 0.181
  237. gendstat: Russia_MA1_HG Luxembourg_Loschbour 0.113
  238. gendstat: Russia_MA1_HG Anatolia_N 0.519
  239. gendstat: Russia_MA1_HG Czech_Vestonice16 1.199
  240. gendstat: Russia_MA1_HG Morocco_Iberomaurusian 0.924
  241. gendstat: Russia_MA1_HG Russia_Shamanka_EN.SG 1.377
  242. gendstat: Russia_MA1_HG Georgia_Satsurblia.SG 0.600
  243. gendstat: Russia_MA1_HG Ganj_Dareh_N 0.391
  244. gendstat: Russia_MA1_HG Onge.DG 0.356
  245. gendstat: Russia_MA1_HG SE_Iberia_MLN 0.628
  246. gendstat: Russia_MA1_HG PPN 2.093
  247. gendstat: Italy_Villabruna Russia_Kostenki14 -0.918
  248. gendstat: Italy_Villabruna Luxembourg_Loschbour -1.136
  249. gendstat: Italy_Villabruna Anatolia_N -0.761
  250. gendstat: Italy_Villabruna Czech_Vestonice16 0.044
  251. gendstat: Italy_Villabruna Morocco_Iberomaurusian -0.205
  252. gendstat: Italy_Villabruna Russia_Shamanka_EN.SG 0.129
  253. gendstat: Italy_Villabruna Georgia_Satsurblia.SG -0.484
  254. gendstat: Italy_Villabruna Ganj_Dareh_N -0.824
  255. gendstat: Italy_Villabruna Onge.DG -0.796
  256. gendstat: Italy_Villabruna SE_Iberia_MLN -0.655
  257. gendstat: Italy_Villabruna PPN 0.869
  258. gendstat: Russia_Kostenki14 Luxembourg_Loschbour -0.107
  259. gendstat: Russia_Kostenki14 Anatolia_N 0.362
  260. gendstat: Russia_Kostenki14 Czech_Vestonice16 0.963
  261. gendstat: Russia_Kostenki14 Morocco_Iberomaurusian 0.795
  262. gendstat: Russia_Kostenki14 Russia_Shamanka_EN.SG 1.253
  263. gendstat: Russia_Kostenki14 Georgia_Satsurblia.SG 0.382
  264. gendstat: Russia_Kostenki14 Ganj_Dareh_N 0.206
  265. gendstat: Russia_Kostenki14 Onge.DG 0.168
  266. gendstat: Russia_Kostenki14 SE_Iberia_MLN 0.441
  267. gendstat: Russia_Kostenki14 PPN 1.864
  268. gendstat: Luxembourg_Loschbour Anatolia_N 0.484
  269. gendstat: Luxembourg_Loschbour Czech_Vestonice16 1.136
  270. gendstat: Luxembourg_Loschbour Morocco_Iberomaurusian 0.894
  271. gendstat: Luxembourg_Loschbour Russia_Shamanka_EN.SG 1.331
  272. gendstat: Luxembourg_Loschbour Georgia_Satsurblia.SG 0.512
  273. gendstat: Luxembourg_Loschbour Ganj_Dareh_N 0.324
  274. gendstat: Luxembourg_Loschbour Onge.DG 0.282
  275. gendstat: Luxembourg_Loschbour SE_Iberia_MLN 0.579
  276. gendstat: Luxembourg_Loschbour PPN 2.130
  277. gendstat: Anatolia_N Czech_Vestonice16 0.775
  278. gendstat: Anatolia_N Morocco_Iberomaurusian 0.658
  279. gendstat: Anatolia_N Russia_Shamanka_EN.SG 1.194
  280. gendstat: Anatolia_N Georgia_Satsurblia.SG 0.125
  281. gendstat: Anatolia_N Ganj_Dareh_N -0.204
  282. gendstat: Anatolia_N Onge.DG -0.212
  283. gendstat: Anatolia_N SE_Iberia_MLN 0.195
  284. gendstat: Anatolia_N PPN 2.473
  285. gendstat: Czech_Vestonice16 Morocco_Iberomaurusian -0.251
  286. gendstat: Czech_Vestonice16 Russia_Shamanka_EN.SG 0.079
  287. gendstat: Czech_Vestonice16 Georgia_Satsurblia.SG -0.511
  288. gendstat: Czech_Vestonice16 Ganj_Dareh_N -0.848
  289. gendstat: Czech_Vestonice16 Onge.DG -0.842
  290. gendstat: Czech_Vestonice16 SE_Iberia_MLN -0.667
  291. gendstat: Czech_Vestonice16 PPN 0.822
  292. gendstat: Morocco_Iberomaurusian Russia_Shamanka_EN.SG 0.431
  293. gendstat: Morocco_Iberomaurusian Georgia_Satsurblia.SG -0.358
  294. gendstat: Morocco_Iberomaurusian Ganj_Dareh_N -0.753
  295. gendstat: Morocco_Iberomaurusian Onge.DG -0.730
  296. gendstat: Morocco_Iberomaurusian SE_Iberia_MLN -0.470
  297. gendstat: Morocco_Iberomaurusian PPN 1.302
  298. gendstat: Russia_Shamanka_EN.SG Georgia_Satsurblia.SG -0.727
  299. gendstat: Russia_Shamanka_EN.SG Ganj_Dareh_N -1.281
  300. gendstat: Russia_Shamanka_EN.SG Onge.DG -1.400
  301. gendstat: Russia_Shamanka_EN.SG SE_Iberia_MLN -0.963
  302. gendstat: Russia_Shamanka_EN.SG PPN 0.927
  303. gendstat: Georgia_Satsurblia.SG Ganj_Dareh_N -0.268
  304. gendstat: Georgia_Satsurblia.SG Onge.DG -0.275
  305. gendstat: Georgia_Satsurblia.SG SE_Iberia_MLN -0.014
  306. gendstat: Georgia_Satsurblia.SG PPN 1.448
  307. gendstat: Ganj_Dareh_N Onge.DG -0.041
  308. gendstat: Ganj_Dareh_N SE_Iberia_MLN 0.309
  309. gendstat: Ganj_Dareh_N PPN 2.088
  310. gendstat: Onge.DG SE_Iberia_MLN 0.306
  311. gendstat: Onge.DG PPN 1.885
  312. gendstat: SE_Iberia_MLN PPN 2.079
  313.  
  314. ##end of qpAdm: 251.821 seconds cpu 1441.575 Mbytes in use
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