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misnomer001

megiddo outlier sintashta

misnomer001
May 31st, 2020
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  1. allsnps: YES
  2. ## qpAdm version: 1000
  3. seed: 1866715640
  4. read 1073741824 bytes
  5. read 2147483648 bytes
  6. read 2202161218 bytes
  7. packed geno read OK
  8. end of inpack
  9.  
  10. left pops:
  11. Megiddo_MLBA_outlierfamily
  12. Megiddo_MLBA
  13. Russia_MLBA_Sintashta
  14. Uzbekistan_BA_Dzharkutan1
  15.  
  16. right pops:
  17. Cameroon_SMA.DG
  18. EEHG
  19. WSHG
  20. PPN
  21. WEHG
  22. Anatolia_N
  23. Iran_GanjDareh_N
  24. Russia_UstBelaya_Angara
  25. ONG.SG
  26. Botai
  27. Russia_Steppe_Catacomb
  28.  
  29. 0 Megiddo_MLBA_outlierfamily 2
  30. 1 Megiddo_MLBA 22
  31. 2 Russia_MLBA_Sintashta 36
  32. 3 Uzbekistan_BA_Dzharkutan1 7
  33. 4 Cameroon_SMA.DG 1
  34. 5 EEHG 5
  35. 6 WSHG 3
  36. 7 PPN 11
  37. 8 WEHG 33
  38. 9 Anatolia_N 22
  39. 10 Iran_GanjDareh_N 8
  40. 11 Russia_UstBelaya_Angara 8
  41. 12 ONG.SG 6
  42. 13 Botai 2
  43. 14 Russia_Steppe_Catacomb 4
  44. jackknife block size: 0.050
  45. snps: 1150506 indivs: 170
  46. number of blocks for block jackknife: 713
  47. ## ncols: 1150506
  48. coverage: Megiddo_MLBA_outlierfamily 625041
  49. coverage: Megiddo_MLBA 989505
  50. coverage: Russia_MLBA_Sintashta 1128449
  51. coverage: Uzbekistan_BA_Dzharkutan1 1054006
  52. coverage: Cameroon_SMA.DG 1140138
  53. coverage: EEHG 1052093
  54. coverage: WSHG 858019
  55. coverage: PPN 847771
  56. coverage: WEHG 1140599
  57. coverage: Anatolia_N 1139031
  58. coverage: Iran_GanjDareh_N 1057358
  59. coverage: Russia_UstBelaya_Angara 1072574
  60. coverage: ONG.SG 1143397
  61. coverage: Botai 926654
  62. coverage: Russia_Steppe_Catacomb 863785
  63. dof (jackknife): 623.252
  64. numsnps used: 1150506
  65. codimension 1
  66. f4info:
  67. f4rank: 2 dof: 8 chisq: 8.326 tail: 0.402263447 dofdiff: 10 chisqdiff: -8.326 taildiff: 1
  68. B:
  69. scale 1.000 1.000
  70. EEHG 1.474 0.310
  71. WSHG 1.426 -0.344
  72. PPN -0.742 1.699
  73. WEHG 1.399 1.348
  74. Anatolia_N -0.183 1.554
  75. Iran_GanjDareh_N -0.094 -1.460
  76. Russia_UstBelaya_Angara 0.674 -0.391
  77. ONG.SG 0.344 -0.387
  78. Botai 1.309 -0.381
  79. Russia_Steppe_Catacomb 0.978 0.298
  80. A:
  81. scale 654.846 1092.057
  82. Megiddo_MLBA -0.669 0.261
  83. Russia_MLBA_Sintashta 1.595 0.234
  84. Uzbekistan_BA_Dzharkutan1 0.099 -1.696
  85.  
  86.  
  87. full rank
  88. f4info:
  89. f4rank: 3 dof: 0 chisq: 0.000 tail: 1 dofdiff: 8 chisqdiff: 8.326 taildiff: 0.402263447
  90. B:
  91. scale 935.581 406.540 622.928
  92. EEHG -1.223 1.550 -0.113
  93. WSHG -1.503 1.372 0.403
  94. PPN 0.956 -0.634 -1.814
  95. WEHG -1.043 1.519 -1.197
  96. Anatolia_N 0.541 -0.026 -1.527
  97. Iran_GanjDareh_N -0.252 -0.213 1.385
  98. Russia_UstBelaya_Angara -0.769 0.631 0.408
  99. ONG.SG -0.283 0.380 0.488
  100. Botai -1.292 1.298 0.501
  101. Russia_Steppe_Catacomb -1.243 0.855 -0.443
  102. A:
  103. scale 1.732 1.732 1.732
  104. Megiddo_MLBA 1.732 0.000 0.000
  105. Russia_MLBA_Sintashta 0.000 1.732 0.000
  106. Uzbekistan_BA_Dzharkutan1 0.000 0.000 1.732
  107.  
  108.  
  109. best coefficients: 0.619 0.251 0.130
  110. Jackknife mean: 0.618663905 0.251322675 0.130013420
  111. std. errors: 0.034 0.029 0.036
  112.  
  113. error covariance (* 1,000,000)
  114. 1159 -361 -798
  115. -361 851 -491
  116. -798 -491 1289
  117.  
  118.  
  119. summ: Megiddo_MLBA_outlierfamily 3 0.402263 0.619 0.251 0.130 1159 -361 -798 851 -491 ...
  120. 1289
  121.  
  122. fixed pat wt dof chisq tail prob
  123. 000 0 8 8.326 0.402263 0.619 0.251 0.130
  124. 001 1 9 22.954 0.00630123 0.703 0.297 0.000
  125. 010 1 9 79.565 1.97208e-13 0.721 0.000 0.279
  126. 100 1 9 311.979 0 0.000 0.418 0.582
  127. 011 2 10 143.188 9.35655e-26 1.000 0.000 0.000
  128. 101 2 10 625.000 0 0.000 1.000 0.000
  129. 110 2 10 468.307 0 0.000 0.000 1.000
  130. best pat: 000 0.402263 - -
  131. best pat: 001 0.00630123 chi(nested): 14.627 p-value for nested model: 0.000130998
  132. best pat: 011 9.35655e-26 chi(nested): 120.234 p-value for nested model: 5.6226e-28
  133.  
  134. coeffs: 0.619 0.251 0.130
  135.  
  136. ## dscore:: f_4(Base, Fit, Rbase, right2)
  137. ## genstat:: f_4(Base, Fit, right1, right2)
  138.  
  139. details: Megiddo_MLBA EEHG -0.001307 -4.470596
  140. details: Russia_MLBA_Sintashta EEHG 0.003813 12.791525
  141. details: Uzbekistan_BA_Dzharkutan1 EEHG -0.000181 -0.597304
  142. dscore: EEHG f4: 0.000126 Z: 0.446292
  143.  
  144. details: Megiddo_MLBA WSHG -0.001607 -4.814757
  145. details: Russia_MLBA_Sintashta WSHG 0.003375 9.893761
  146. details: Uzbekistan_BA_Dzharkutan1 WSHG 0.000647 1.798985
  147. dscore: WSHG f4: -0.000061 Z: -0.187953
  148.  
  149. details: Megiddo_MLBA PPN 0.001022 3.429275
  150. details: Russia_MLBA_Sintashta PPN -0.001560 -5.183260
  151. details: Uzbekistan_BA_Dzharkutan1 PPN -0.002913 -9.053338
  152. dscore: PPN f4: -0.000139 Z: -0.479719
  153.  
  154. details: Megiddo_MLBA WEHG -0.001115 -3.917945
  155. details: Russia_MLBA_Sintashta WEHG 0.003736 12.459858
  156. details: Uzbekistan_BA_Dzharkutan1 WEHG -0.001921 -6.319053
  157. dscore: WEHG f4: -0.000000 Z: -0.000546
  158.  
  159. details: Megiddo_MLBA Anatolia_N 0.000578 2.197356
  160. details: Russia_MLBA_Sintashta Anatolia_N -0.000064 -0.239197
  161. details: Uzbekistan_BA_Dzharkutan1 Anatolia_N -0.002451 -8.752111
  162. dscore: Anatolia_N f4: 0.000023 Z: 0.089370
  163.  
  164. details: Megiddo_MLBA Iran_GanjDareh_N -0.000269 -1.030568
  165. details: Russia_MLBA_Sintashta Iran_GanjDareh_N -0.000523 -1.962002
  166. details: Uzbekistan_BA_Dzharkutan1 Iran_GanjDareh_N 0.002223 8.006844
  167. dscore: Iran_GanjDareh_N f4: -0.000009 Z: -0.035395
  168.  
  169. details: Megiddo_MLBA Russia_UstBelaya_Angara -0.000822 -3.009221
  170. details: Russia_MLBA_Sintashta Russia_UstBelaya_Angara 0.001552 5.588751
  171. details: Uzbekistan_BA_Dzharkutan1 Russia_UstBelaya_Angara 0.000654 2.284469
  172. dscore: Russia_UstBelaya_Angara f4: -0.000033 Z: -0.124868
  173.  
  174. details: Megiddo_MLBA ONG.SG -0.000302 -1.111652
  175. details: Russia_MLBA_Sintashta ONG.SG 0.000936 3.325871
  176. details: Uzbekistan_BA_Dzharkutan1 ONG.SG 0.000783 2.702653
  177. dscore: ONG.SG f4: 0.000150 Z: 0.566356
  178.  
  179. details: Megiddo_MLBA Botai -0.001381 -4.436008
  180. details: Russia_MLBA_Sintashta Botai 0.003193 10.052188
  181. details: Uzbekistan_BA_Dzharkutan1 Botai 0.000804 2.531819
  182. dscore: Botai f4: 0.000053 Z: 0.175876
  183.  
  184. details: Megiddo_MLBA Russia_Steppe_Catacomb -0.001328 -4.581377
  185. details: Russia_MLBA_Sintashta Russia_Steppe_Catacomb 0.002104 7.108357
  186. details: Uzbekistan_BA_Dzharkutan1 Russia_Steppe_Catacomb -0.000712 -2.337897
  187. dscore: Russia_Steppe_Catacomb f4: -0.000385 Z: -1.374911
  188.  
  189. gendstat: Cameroon_SMA.DG EEHG 0.446
  190. gendstat: Cameroon_SMA.DG WSHG -0.188
  191. gendstat: Cameroon_SMA.DG PPN -0.480
  192. gendstat: Cameroon_SMA.DG WEHG -0.001
  193. gendstat: Cameroon_SMA.DG Anatolia_N 0.089
  194. gendstat: Cameroon_SMA.DG Iran_GanjDareh_N -0.035
  195. gendstat: Cameroon_SMA.DG Russia_UstBelaya_Angara -0.125
  196. gendstat: Cameroon_SMA.DG ONG.SG 0.566
  197. gendstat: Cameroon_SMA.DG Botai 0.176
  198. gendstat: Cameroon_SMA.DG Russia_Steppe_Catacomb -1.375
  199. gendstat: EEHG WSHG -0.735
  200. gendstat: EEHG PPN -0.962
  201. gendstat: EEHG WEHG -0.623
  202. gendstat: EEHG Anatolia_N -0.455
  203. gendstat: EEHG Iran_GanjDareh_N -0.526
  204. gendstat: EEHG Russia_UstBelaya_Angara -0.695
  205. gendstat: EEHG ONG.SG 0.092
  206. gendstat: EEHG Botai -0.291
  207. gendstat: EEHG Russia_Steppe_Catacomb -2.213
  208. gendstat: WSHG PPN -0.237
  209. gendstat: WSHG WEHG 0.237
  210. gendstat: WSHG Anatolia_N 0.291
  211. gendstat: WSHG Iran_GanjDareh_N 0.180
  212. gendstat: WSHG Russia_UstBelaya_Angara 0.110
  213. gendstat: WSHG ONG.SG 0.743
  214. gendstat: WSHG Botai 0.450
  215. gendstat: WSHG Russia_Steppe_Catacomb -1.139
  216. gendstat: PPN WEHG 0.586
  217. gendstat: PPN Anatolia_N 0.855
  218. gendstat: PPN Iran_GanjDareh_N 0.487
  219. gendstat: PPN Russia_UstBelaya_Angara 0.406
  220. gendstat: PPN ONG.SG 1.063
  221. gendstat: PPN Botai 0.642
  222. gendstat: PPN Russia_Steppe_Catacomb -0.898
  223. gendstat: WEHG Anatolia_N 0.126
  224. gendstat: WEHG Iran_GanjDareh_N -0.037
  225. gendstat: WEHG Russia_UstBelaya_Angara -0.150
  226. gendstat: WEHG ONG.SG 0.624
  227. gendstat: WEHG Botai 0.209
  228. gendstat: WEHG Russia_Steppe_Catacomb -1.743
  229. gendstat: Anatolia_N Iran_GanjDareh_N -0.150
  230. gendstat: Anatolia_N Russia_UstBelaya_Angara -0.256
  231. gendstat: Anatolia_N ONG.SG 0.551
  232. gendstat: Anatolia_N Botai 0.110
  233. gendstat: Anatolia_N Russia_Steppe_Catacomb -1.927
  234. gendstat: Iran_GanjDareh_N Russia_UstBelaya_Angara -0.109
  235. gendstat: Iran_GanjDareh_N ONG.SG 0.696
  236. gendstat: Iran_GanjDareh_N Botai 0.224
  237. gendstat: Iran_GanjDareh_N Russia_Steppe_Catacomb -1.567
  238. gendstat: Russia_UstBelaya_Angara ONG.SG 0.910
  239. gendstat: Russia_UstBelaya_Angara Botai 0.373
  240. gendstat: Russia_UstBelaya_Angara Russia_Steppe_Catacomb -1.475
  241. gendstat: ONG.SG Botai -0.360
  242. gendstat: ONG.SG Russia_Steppe_Catacomb -2.037
  243. gendstat: Botai Russia_Steppe_Catacomb -1.577
  244.  
  245. ##end of qpAdm: 385.556 seconds cpu 1294.561 Mbytes in use
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