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misnomer001

dinkhaB v2 pass

misnomer001
Aug 27th, 2022
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  1. qpAdm: parameter file: parqpa2
  2. ### THE INPUT PARAMETERS
  3. ##PARAMETER NAME: VALUE
  4. S1: southmerged1
  5. S1X: southmerged1
  6. indivname: southmerged1.ind
  7. snpname: southmerged1.snp
  8. genotypename: southmerged1.geno
  9. popleft: left
  10. popright: right
  11. details: YES
  12. allsnps: YES
  13. inbreed: NO
  14. oldallsnps: NO
  15. ## qpAdm version: 1520
  16. seed: 1144595936
  17. inbreed set NO
  18. inbreed set NO
  19. tmp: /tmp/fsx.16887
  20.  
  21. left pops:
  22. IRN_DinkhaTepe_BIA_B
  23. Azerbaijan_Caucasus_lowlands_LN
  24. IVCp
  25. Uzbekistan_Bustan_BA
  26. Russia_Steppe_Catacomb
  27.  
  28. right pops:
  29. Mbuti.DG
  30. Turkey_N
  31. ONG.SG
  32. Tarim_EMBA1
  33. PPN
  34. CHG
  35. EHG
  36. Iran_HajjiFiruz_N
  37. Serbia_IronGates_Mesolithic
  38. Iran_GanjDareh_N
  39. Israel_C
  40. Iran_C_SehGabi
  41.  
  42. codimension 1
  43. f4info:
  44. f4rank: 3 dof: 8 chisq: 3.630 tail: 0.888882778 dofdiff: 10 chisqdiff: -3.630 taildiff: 1
  45. B:
  46. scale 1.000 1.000 1.000
  47. Turkey_N 1.467 0.586 -0.758
  48. ONG.SG -0.939 -0.282 0.213
  49. Tarim_EMBA1 -1.353 1.521 0.331
  50. PPN 1.374 0.463 -0.842
  51. CHG 0.360 0.589 0.866
  52. EHG -0.837 2.029 -0.322
  53. Iran_HajjiFiruz_N 0.932 0.292 0.636
  54. Serbia_IronGates_Mesolithic -0.058 1.805 -1.050
  55. Iran_GanjDareh_N 0.148 -0.150 2.402
  56. Israel_C 1.370 0.441 -0.592
  57. Iran_C_SehGabi 0.804 0.161 1.040
  58. A:
  59. scale 151.791 159.749 502.923
  60. Azerbaijan_Caucasus_lowlands_LN 0.681 -0.017 -0.732
  61. IVCp -1.599 -1.143 -0.530
  62. Uzbekistan_Bustan_BA -0.315 0.024 1.781
  63. Russia_Steppe_Catacomb -0.938 1.641 -0.099
  64.  
  65.  
  66. full rank
  67. f4info:
  68. f4rank: 4 dof: 0 chisq: 0.000 tail: 1 dofdiff: 8 chisqdiff: 3.630 taildiff: 0.888882778
  69. B:
  70. scale 203.336 81.710 231.808 79.749
  71. Turkey_N 1.554 -1.566 -1.274 -0.220
  72. ONG.SG -0.890 0.942 0.675 0.246
  73. Tarim_EMBA1 -1.366 0.222 1.002 1.920
  74. PPN 1.552 -1.406 -1.297 -0.267
  75. CHG 0.226 -0.721 0.681 0.333
  76. EHG -0.723 -0.465 0.206 2.095
  77. Iran_HajjiFiruz_N 0.560 -1.064 0.071 -0.229
  78. Serbia_IronGates_Mesolithic 0.223 -0.941 -0.747 1.540
  79. Iran_GanjDareh_N -0.613 -0.278 1.897 -0.234
  80. Israel_C 1.389 -1.420 -1.126 -0.299
  81. Iran_C_SehGabi 0.527 -0.886 0.551 -0.255
  82. A:
  83. scale 2.000 2.000 2.000 2.000
  84. Azerbaijan_Caucasus_lowlands_LN 2.000 0.000 0.000 0.000
  85. IVCp 0.000 2.000 0.000 0.000
  86. Uzbekistan_Bustan_BA 0.000 0.000 2.000 0.000
  87. Russia_Steppe_Catacomb 0.000 0.000 0.000 2.000
  88.  
  89.  
  90. best coefficients: 0.530 0.123 0.259 0.088
  91. totmean: 0.530 0.123 0.259 0.088
  92. boot mean: 0.530 0.123 0.259 0.087
  93. std. errors: 0.023 0.029 0.043 0.015
  94.  
  95. error covariance (* 1,000,000)
  96. 526 288 -761 -53
  97. 288 835 -1011 -112
  98. -761 -1011 1832 -60
  99. -53 -112 -60 224
  100.  
  101.  
  102. summ: IRN_DinkhaTepe_BIA_B 4 0.888883 0.530 0.123 0.259 0.087 526 288 -761 -53 835 ...
  103. -1011 -112 1832 -60 224
  104.  
  105. fixed pat wt dof chisq tail prob
  106. 0000 0 8 3.630 0.888883 0.530 0.123 0.259 0.088
  107. 0001 1 9 37.229 2.39496e-05 0.561 0.171 0.268 0.000
  108. 0010 1 9 35.233 5.42009e-05 0.643 0.264 0.000 0.093
  109. 0100 1 9 23.711 0.00478208 0.495 0.000 0.403 0.102
  110. 1000 1 9 364.778 0 0.000 -0.619 1.551 0.069 infeasible
  111. 0011 2 10 65.471 3.29407e-10 0.682 0.318 0.000 0.000
  112. 0101 2 10 69.528 5.46783e-11 0.507 0.000 0.493 0.000
  113. 0110 2 10 196.964 0 0.803 0.000 0.000 0.197
  114. 1001 2 10 393.521 0 0.000 -0.691 1.691 0.000 infeasible
  115. 1010 2 10 1643.011 0 0.000 0.076 0.000 0.924
  116. 1100 2 10 566.684 0 0.000 0.000 0.995 0.005
  117. 0111 3 11 303.628 0 1.000 0.000 0.000 0.000
  118. 1011 3 11 1478.079 0 0.000 1.000 0.000 0.000
  119. 1101 3 11 566.571 0 0.000 0.000 1.000 0.000
  120. 1110 3 11 1647.040 0 0.000 0.000 0.000 1.000
  121. best pat: 0000 0.888883 - -
  122. best pat: 0100 0.00478208 chi(nested): 20.081 p-value for nested model: 7.42176e-06
  123. best pat: 0011 3.29407e-10 not nested
  124. best pat: 0111 1.50656e-58 chi(nested): 238.158 p-value for nested model: 9.91826e-54
  125.  
  126. coeffs: 0.530 0.123 0.259 0.088
  127.  
  128. ## dscore:: f_4(Base, Fit, Rbase, right2)
  129. ## genstat:: f_4(Base, Fit, right1, right2)
  130.  
  131. details: Azerbaijan_Caucasus_lowlands_LN Turkey_N 0.007642 8.372232
  132. details: IVCp Turkey_N -0.019163 -25.080160
  133. details: Uzbekistan_Bustan_BA Turkey_N -0.005494 -8.612110
  134. details: Russia_Steppe_Catacomb Turkey_N -0.002761 -3.730890
  135. dscore: Turkey_N f4: 0.000024 Z: 0.038963
  136.  
  137. details: Azerbaijan_Caucasus_lowlands_LN ONG.SG -0.004375 -4.416392
  138. details: IVCp ONG.SG 0.011525 13.828177
  139. details: Uzbekistan_Bustan_BA ONG.SG 0.002910 4.071442
  140. details: Russia_Steppe_Catacomb ONG.SG 0.003079 3.743238
  141. dscore: ONG.SG f4: 0.000125 Z: 0.195235
  142.  
  143. details: Azerbaijan_Caucasus_lowlands_LN Tarim_EMBA1 -0.006720 -6.089095
  144. details: IVCp Tarim_EMBA1 0.002720 3.002603
  145. details: Uzbekistan_Bustan_BA Tarim_EMBA1 0.004324 5.441527
  146. details: Russia_Steppe_Catacomb Tarim_EMBA1 0.024072 24.033514
  147. dscore: Tarim_EMBA1 f4: 0.000002 Z: 0.003018
  148.  
  149. details: Azerbaijan_Caucasus_lowlands_LN PPN 0.007631 7.341432
  150. details: IVCp PPN -0.017212 -19.734226
  151. details: Uzbekistan_Bustan_BA PPN -0.005593 -7.388468
  152. details: Russia_Steppe_Catacomb PPN -0.003344 -3.919348
  153. dscore: PPN f4: 0.000181 Z: 0.260913
  154.  
  155. details: Azerbaijan_Caucasus_lowlands_LN CHG 0.001110 0.933489
  156. details: IVCp CHG -0.008828 -9.364434
  157. details: Uzbekistan_Bustan_BA CHG 0.002936 3.608336
  158. details: Russia_Steppe_Catacomb CHG 0.004173 4.373040
  159. dscore: CHG f4: 0.000628 Z: 0.810083
  160.  
  161. details: Azerbaijan_Caucasus_lowlands_LN EHG -0.003554 -3.240247
  162. details: IVCp EHG -0.005689 -6.316264
  163. details: Uzbekistan_Bustan_BA EHG 0.000888 1.130650
  164. details: Russia_Steppe_Catacomb EHG 0.026274 26.621437
  165. dscore: EHG f4: -0.000054 Z: -0.073924
  166.  
  167. details: Azerbaijan_Caucasus_lowlands_LN Iran_HajjiFiruz_N 0.002755 2.515057
  168. details: IVCp Iran_HajjiFiruz_N -0.013027 -14.841472
  169. details: Uzbekistan_Bustan_BA Iran_HajjiFiruz_N 0.000308 0.397528
  170. details: Russia_Steppe_Catacomb Iran_HajjiFiruz_N -0.002872 -3.178205
  171. dscore: Iran_HajjiFiruz_N f4: -0.000316 Z: -0.437333
  172.  
  173. details: Azerbaijan_Caucasus_lowlands_LN Serbia_IronGates_Mesolithic 0.001098 1.171156
  174. details: IVCp Serbia_IronGates_Mesolithic -0.011516 -13.493375
  175. details: Uzbekistan_Bustan_BA Serbia_IronGates_Mesolithic -0.003224 -4.631508
  176. details: Russia_Steppe_Catacomb Serbia_IronGates_Mesolithic 0.019312 21.347311
  177. dscore: Serbia_IronGates_Mesolithic f4: 0.000018 Z: 0.028109
  178.  
  179. details: Azerbaijan_Caucasus_lowlands_LN Iran_GanjDareh_N -0.003016 -3.108895
  180. details: IVCp Iran_GanjDareh_N -0.003408 -4.318244
  181. details: Uzbekistan_Bustan_BA Iran_GanjDareh_N 0.008182 11.583131
  182. details: Russia_Steppe_Catacomb Iran_GanjDareh_N -0.002940 -3.607745
  183. dscore: Iran_GanjDareh_N f4: -0.000153 Z: -0.236590
  184.  
  185. details: Azerbaijan_Caucasus_lowlands_LN Israel_C 0.006829 7.638017
  186. details: IVCp Israel_C -0.017380 -21.742976
  187. details: Uzbekistan_Bustan_BA Israel_C -0.004857 -7.759233
  188. details: Russia_Steppe_Catacomb Israel_C -0.003755 -5.223812
  189. dscore: Israel_C f4: -0.000109 Z: -0.182284
  190.  
  191. details: Azerbaijan_Caucasus_lowlands_LN Iran_C_SehGabi 0.002594 2.789603
  192. details: IVCp Iran_C_SehGabi -0.010844 -13.390906
  193. details: Uzbekistan_Bustan_BA Iran_C_SehGabi 0.002375 3.282812
  194. details: Russia_Steppe_Catacomb Iran_C_SehGabi -0.003192 -3.946199
  195. dscore: Iran_C_SehGabi f4: 0.000376 Z: 0.587681
  196.  
  197. gendstat: Mbuti.DG Turkey_N 0.039
  198. gendstat: Mbuti.DG ONG.SG 0.195
  199. gendstat: Mbuti.DG Tarim_EMBA1 0.003
  200. gendstat: Mbuti.DG PPN 0.261
  201. gendstat: Mbuti.DG CHG 0.810
  202. gendstat: Mbuti.DG EHG -0.074
  203. gendstat: Mbuti.DG Iran_HajjiFiruz_N -0.437
  204. gendstat: Mbuti.DG Serbia_IronGates_Mesolithic 0.028
  205. gendstat: Mbuti.DG Iran_GanjDareh_N -0.237
  206. gendstat: Mbuti.DG Israel_C -0.182
  207. gendstat: Mbuti.DG Iran_C_SehGabi 0.588
  208. gendstat: Turkey_N ONG.SG 0.153
  209. gendstat: Turkey_N Tarim_EMBA1 -0.031
  210. gendstat: Turkey_N PPN 0.336
  211. gendstat: Turkey_N CHG 0.862
  212. gendstat: Turkey_N EHG -0.123
  213. gendstat: Turkey_N Iran_HajjiFiruz_N -0.578
  214. gendstat: Turkey_N Serbia_IronGates_Mesolithic -0.013
  215. gendstat: Turkey_N Iran_GanjDareh_N -0.295
  216. gendstat: Turkey_N Israel_C -0.401
  217. gendstat: Turkey_N Iran_C_SehGabi 0.698
  218. gendstat: ONG.SG Tarim_EMBA1 -0.168
  219. gendstat: ONG.SG PPN 0.076
  220. gendstat: ONG.SG CHG 0.639
  221. gendstat: ONG.SG EHG -0.240
  222. gendstat: ONG.SG Iran_HajjiFiruz_N -0.597
  223. gendstat: ONG.SG Serbia_IronGates_Mesolithic -0.166
  224. gendstat: ONG.SG Iran_GanjDareh_N -0.408
  225. gendstat: ONG.SG Israel_C -0.363
  226. gendstat: ONG.SG Iran_C_SehGabi 0.383
  227. gendstat: Tarim_EMBA1 PPN 0.221
  228. gendstat: Tarim_EMBA1 CHG 0.745
  229. gendstat: Tarim_EMBA1 EHG -0.086
  230. gendstat: Tarim_EMBA1 Iran_HajjiFiruz_N -0.407
  231. gendstat: Tarim_EMBA1 Serbia_IronGates_Mesolithic 0.024
  232. gendstat: Tarim_EMBA1 Iran_GanjDareh_N -0.216
  233. gendstat: Tarim_EMBA1 Israel_C -0.160
  234. gendstat: Tarim_EMBA1 Iran_C_SehGabi 0.521
  235. gendstat: PPN CHG 0.552
  236. gendstat: PPN EHG -0.324
  237. gendstat: PPN Iran_HajjiFiruz_N -0.725
  238. gendstat: PPN Serbia_IronGates_Mesolithic -0.271
  239. gendstat: PPN Iran_GanjDareh_N -0.473
  240. gendstat: PPN Israel_C -0.594
  241. gendstat: PPN Iran_C_SehGabi 0.305
  242. gendstat: CHG EHG -0.836
  243. gendstat: CHG Iran_HajjiFiruz_N -1.217
  244. gendstat: CHG Serbia_IronGates_Mesolithic -0.852
  245. gendstat: CHG Iran_GanjDareh_N -1.088
  246. gendstat: CHG Israel_C -1.060
  247. gendstat: CHG Iran_C_SehGabi -0.349
  248. gendstat: EHG Iran_HajjiFiruz_N -0.334
  249. gendstat: EHG Serbia_IronGates_Mesolithic 0.130
  250. gendstat: EHG Iran_GanjDareh_N -0.142
  251. gendstat: EHG Israel_C -0.086
  252. gendstat: EHG Iran_C_SehGabi 0.630
  253. gendstat: Iran_HajjiFiruz_N Serbia_IronGates_Mesolithic 0.512
  254. gendstat: Iran_HajjiFiruz_N Iran_GanjDareh_N 0.242
  255. gendstat: Iran_HajjiFiruz_N Israel_C 0.337
  256. gendstat: Iran_HajjiFiruz_N Iran_C_SehGabi 1.054
  257. gendstat: Serbia_IronGates_Mesolithic Iran_GanjDareh_N -0.275
  258. gendstat: Serbia_IronGates_Mesolithic Israel_C -0.252
  259. gendstat: Serbia_IronGates_Mesolithic Iran_C_SehGabi 0.603
  260. gendstat: Iran_GanjDareh_N Israel_C 0.074
  261. gendstat: Iran_GanjDareh_N Iran_C_SehGabi 0.921
  262. gendstat: Israel_C Iran_C_SehGabi 0.947
  263.  
  264. removing /tmp/fsx.16887
  265. ##end of qpAdm: 24.181 seconds cpu 0.582 Mbytes in use
  266.  
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