--------------------------------------------------- STRUCTURE by Pritchard, Stephens and Donnelly (2000) and Falush, Stephens and Pritchard (2003) Code by Pritchard, Falush and Hubisz Version 2.3.4 (Jul 2012) ---------------------------------------------------- Command line arguments: bin\structure -m C:\141\gtra\mainparams -e C:\141\gtra\extraparams Input File: C:\141\project_data Run parameters: 141 individuals 11 loci 2 populations assumed 100000 Burn-in period 100000 Reps LOCPRIOR model used -------------------------------------------- Proportion of membership of each pre-defined population in each of the 2 clusters Given Inferred Clusters Number of Pop 1 2 Individuals 1: 0.708 0.292 24 2: 0.009 0.991 24 3: 0.975 0.025 8 4: 0.974 0.026 40 5: 0.989 0.011 45 -------------------------------------------- Allele-freq. divergence among pops (Net nucleotide distance), computed using point estimates of P. 1 2 1 - 0.0844 2 0.0844 - Average distances (expected heterozygosity) between individuals in same cluster: cluster 1 : 0.6632 cluster 2 : 0.5398 -------------------------------------------- Estimated Ln Prob of Data = -3996.1 Mean value of ln likelihood = -3948.2 Variance of ln likelihood = 95.8 Mean value of alpha = 3.8250 Mean value of alpha_local for each location: location 1: 4.4229 1.8240 location 2: 0.0396 2.1988 location 3: 1.5114 0.0688 location 4: 14.4637 0.4120 location 5: 1.8508 0.0328 Mean value of Fst_1 = 0.0458 Mean value of Fst_2 = 0.2898 Mean value of r = 0.2081 Inferred ancestry of individuals: Label (%Miss) Pop: Inferred clusters 1 1 (0) 1 : 0.597 0.403 2 2 (9) 1 : 0.718 0.282 3 3 (9) 1 : 0.459 0.541 4 4 (0) 1 : 0.762 0.238 5 5 (9) 1 : 0.795 0.205 6 6 (9) 1 : 0.655 0.345 7 7 (0) 1 : 0.596 0.404 8 8 (0) 1 : 0.803 0.197 9 9 (0) 1 : 0.784 0.216 10 10 (0) 1 : 0.760 0.240 11 11 (0) 1 : 0.492 0.508 12 12 (0) 1 : 0.389 0.611 13 13 (0) 1 : 0.836 0.164 14 14 (0) 1 : 0.822 0.178 15 15 (9) 1 : 0.833 0.167 16 16 (0) 1 : 0.660 0.340 17 17 (9) 1 : 0.808 0.192 18 18 (0) 1 : 0.723 0.277 19 19 (0) 1 : 0.784 0.216 20 20 (0) 1 : 0.707 0.293 21 21 (9) 1 : 0.694 0.306 22 22 (0) 1 : 0.854 0.146 23 23 (0) 1 : 0.836 0.164 24 24 (0) 1 : 0.631 0.369 25 1 (0) 2 : 0.004 0.996 26 2 (0) 2 : 0.004 0.996 27 3 (0) 2 : 0.027 0.973 28 4 (18) 2 : 0.006 0.994 29 5 (0) 2 : 0.003 0.997 30 6 (0) 2 : 0.024 0.976 31 7 (9) 2 : 0.004 0.996 32 8 (9) 2 : 0.019 0.981 33 9 (0) 2 : 0.004 0.996 34 10 (0) 2 : 0.030 0.970 35 11 (18) 2 : 0.005 0.995 36 12 (0) 2 : 0.007 0.993 37 13 (0) 2 : 0.004 0.996 38 14 (0) 2 : 0.004 0.996 39 15 (0) 2 : 0.024 0.976 40 16 (0) 2 : 0.004 0.996 41 17 (9) 2 : 0.005 0.995 42 18 (0) 2 : 0.003 0.997 43 19 (9) 2 : 0.004 0.996 44 20 (0) 2 : 0.003 0.997 45 21 (9) 2 : 0.006 0.994 46 22 (9) 2 : 0.005 0.995 47 23 (0) 2 : 0.004 0.996 48 24 (0) 2 : 0.004 0.996 49 1 (0) 3 : 0.936 0.064 50 2 (0) 3 : 0.954 0.046 51 3 (27) 3 : 0.989 0.011 52 4 (0) 3 : 0.994 0.006 53 5 (0) 3 : 0.984 0.016 54 6 (0) 3 : 0.992 0.008 55 7 (0) 3 : 0.960 0.040 56 8 (9) 3 : 0.994 0.006 57 1 (0) 4 : 0.970 0.030 58 2 (0) 4 : 0.962 0.038 59 3 (0) 4 : 0.946 0.054 60 4 (0) 4 : 0.981 0.019 61 5 (0) 4 : 0.981 0.019 62 6 (0) 4 : 0.977 0.023 63 7 (0) 4 : 0.974 0.026 64 8 (0) 4 : 0.980 0.020 65 9 (0) 4 : 0.976 0.024 66 10 (0) 4 : 0.979 0.021 67 11 (0) 4 : 0.983 0.017 68 12 (0) 4 : 0.972 0.028 69 13 (9) 4 : 0.975 0.025 70 14 (0) 4 : 0.978 0.022 71 15 (0) 4 : 0.977 0.023 72 16 (0) 4 : 0.966 0.034 73 17 (0) 4 : 0.960 0.040 74 18 (0) 4 : 0.980 0.020 75 19 (0) 4 : 0.965 0.035 76 20 (0) 4 : 0.959 0.041 77 21 (0) 4 : 0.973 0.027 78 22 (0) 4 : 0.981 0.019 79 23 (0) 4 : 0.980 0.020 80 24 (0) 4 : 0.977 0.023 81 25 (0) 4 : 0.977 0.023 82 26 (0) 4 : 0.983 0.017 83 27 (9) 4 : 0.984 0.016 84 28 (0) 4 : 0.963 0.037 85 29 (0) 4 : 0.981 0.019 86 30 (9) 4 : 0.976 0.024 87 31 (0) 4 : 0.975 0.025 88 32 (0) 4 : 0.975 0.025 89 33 (0) 4 : 0.979 0.021 90 34 (0) 4 : 0.982 0.018 91 35 (9) 4 : 0.975 0.025 92 36 (0) 4 : 0.979 0.021 93 37 (0) 4 : 0.959 0.041 94 38 (0) 4 : 0.972 0.028 95 39 (0) 4 : 0.958 0.042 96 40 (0) 4 : 0.975 0.025 97 1 (0) 5 : 0.994 0.006 98 2 (0) 5 : 0.951 0.049 99 3 (0) 5 : 0.997 0.003 100 4 (18) 5 : 0.996 0.004 101 5 (0) 5 : 0.990 0.010 102 6 (0) 5 : 0.982 0.018 103 7 (0) 5 : 0.986 0.014 104 8 (0) 5 : 0.992 0.008 105 9 (0) 5 : 0.995 0.005 106 10 (0) 5 : 0.990 0.010 107 11 (0) 5 : 0.996 0.004 108 12 (0) 5 : 0.997 0.003 109 13 (0) 5 : 0.936 0.064 110 14 (0) 5 : 0.994 0.006 111 15 (0) 5 : 0.971 0.029 112 16 (0) 5 : 0.997 0.003 113 17 (9) 5 : 0.982 0.018 114 18 (0) 5 : 0.991 0.009 115 19 (0) 5 : 0.987 0.013 116 20 (9) 5 : 0.995 0.005 117 21 (0) 5 : 0.995 0.005 118 22 (0) 5 : 0.994 0.006 119 23 (0) 5 : 0.998 0.002 120 24 (0) 5 : 0.996 0.004 121 25 (0) 5 : 0.981 0.019 122 26 (0) 5 : 0.996 0.004 123 27 (0) 5 : 0.982 0.018 124 28 (0) 5 : 0.990 0.010 125 29 (0) 5 : 0.995 0.005 126 30 (0) 5 : 0.997 0.003 127 31 (0) 5 : 0.994 0.006 128 32 (0) 5 : 0.992 0.008 129 33 (0) 5 : 0.997 0.003 130 34 (0) 5 : 0.997 0.003 131 35 (18) 5 : 0.991 0.009 132 36 (0) 5 : 0.988 0.012 133 37 (0) 5 : 0.994 0.006 134 38 (0) 5 : 0.995 0.005 135 39 (0) 5 : 0.997 0.003 136 40 (0) 5 : 0.995 0.005 137 41 (0) 5 : 0.989 0.011 138 42 (0) 5 : 0.960 0.040 139 43 (0) 5 : 0.988 0.012 140 44 (0) 5 : 0.997 0.003 141 45 (0) 5 : 0.987 0.013 Estimated Allele Frequencies in each cluster First column gives estimated ancestral frequencies Locus 1 : 13 alleles 5.0% missing data 404 (0.142) 0.139 0.331 410 (0.211) 0.275 0.346 418 (0.078) 0.105 0.004 400 (0.039) 0.017 0.016 408 (0.122) 0.157 0.022 416 (0.051) 0.044 0.003 422 (0.031) 0.008 0.015 402 (0.035) 0.010 0.023 406 (0.093) 0.066 0.199 412 (0.042) 0.026 0.003 405 (0.028) 0.003 0.031 414 (0.085) 0.119 0.004 420 (0.045) 0.031 0.002 Locus 2 : 6 alleles 0.0% missing data 218 (0.528) 0.627 0.432 220 (0.037) 0.010 0.006 216 (0.318) 0.330 0.352 214 (0.037) 0.004 0.147 222 (0.032) 0.003 0.061 210 (0.048) 0.025 0.002 Locus 3 : 8 alleles 0.0% missing data 322 (0.220) 0.219 0.221 320 (0.331) 0.343 0.758 324 (0.153) 0.215 0.008 318 (0.068) 0.056 0.004 314 (0.069) 0.061 0.003 326 (0.065) 0.052 0.003 316 (0.059) 0.043 0.003 328 (0.035) 0.012 0.001 Locus 4 : 9 alleles 0.0% missing data 336 (0.303) 0.386 0.176 330 (0.210) 0.218 0.238 338 (0.039) 0.011 0.018 342 (0.160) 0.243 0.008 334 (0.135) 0.091 0.520 328 (0.046) 0.025 0.003 332 (0.050) 0.012 0.035 340 (0.028) 0.007 0.001 344 (0.029) 0.007 0.001 Locus 5 : 6 alleles 1.4% missing data 412 (0.276) 0.239 0.586 406 (0.295) 0.276 0.398 410 (0.178) 0.241 0.007 408 (0.112) 0.123 0.004 404 (0.103) 0.109 0.004 400 (0.037) 0.012 0.001 Locus 6 : 8 alleles 2.8% missing data 406 (0.215) 0.219 0.442 408 (0.103) 0.066 0.142 402 (0.246) 0.376 0.036 404 (0.112) 0.105 0.030 400 (0.171) 0.163 0.222 410 (0.092) 0.052 0.126 412 (0.033) 0.012 0.001 398 (0.028) 0.007 0.001 Locus 7 : 8 alleles 0.7% missing data 188 (0.125) 0.080 0.335 182 (0.213) 0.327 0.014 186 (0.300) 0.313 0.442 178 (0.090) 0.090 0.007 184 (0.110) 0.082 0.047 190 (0.086) 0.086 0.004 180 (0.044) 0.020 0.003 194 (0.033) 0.003 0.148 Locus 8 : 4 alleles 1.4% missing data 316 (0.886) 0.964 0.995 314 (0.038) 0.012 0.002 310 (0.038) 0.012 0.002 304 (0.038) 0.012 0.001 Locus 9 : 7 alleles 7.8% missing data 302 (0.228) 0.198 0.380 312 (0.238) 0.351 0.014 304 (0.289) 0.271 0.534 300 (0.052) 0.012 0.061 314 (0.037) 0.012 0.003 306 (0.125) 0.148 0.007 322 (0.031) 0.007 0.001 Locus 10 : 9 alleles 2.1% missing data 380 (0.215) 0.293 0.056 382 (0.245) 0.276 0.382 378 (0.127) 0.106 0.124 386 (0.078) 0.084 0.004 376 (0.084) 0.039 0.404 384 (0.123) 0.125 0.026 372 (0.038) 0.016 0.002 368 (0.028) 0.007 0.001 374 (0.061) 0.053 0.002 Locus 11 : 3 alleles 0.7% missing data 192 (0.506) 0.499 0.730 194 (0.451) 0.485 0.267 190 (0.044) 0.016 0.003 Values of parameters used in structure: DATAFILE=C:\141\project_data, OUTFILE=C:\141\gtra\Results\gtra_run_1, NUMINDS=141, NUMLOCI=11, MISSING=-9, LABEL=1, POPDATA=1, POPFLAG=0, PHENOTYPE=0, EXTRACOLS=0, MAXPOPS=2, BURNIN=100000, NUMREPS=100000, USEPOPINFO=0, INFERALPHA=1, INFERLAMBDA=0, POPSPECIFICLAMBDA=0, POPALPHAS=0, COMPUTEPROB=1, NOADMIX=0, ADMBURNIN=2500, UPDATEFREQ=1, PRINTLIKES=0, INTERMEDSAVE=0, PRINTKLD=0, PRINTNET=0, PRINTLAMBDA=0, ANCESTDIST=0, NUMBOXES=1000, ANCESTPINT=0.90000, GENSBACK=2, MIGRPRIOR=0.05000, PRINTQHAT=0, PRINTQSUM=0, ALPHA=1.0000, FREQSCORR=1, FPRIORMEAN=0.0100, FPRIORSD=0.0500, ONEFST=0, LAMBDA=1.0000, UNIFPRIORALPHA=1, ALPHAMAX=10.0000, ALPHAPRIORA=1.0000, ALPHAPRIORB=2.0000, ALPHAPROPSD=0.0250, STARTATPOPINFO=0, RANDOMIZE=1, LINKAGE=0, METROFREQ=10, REPORTHITRATE=0, MARKOVPHASE=-1, PHASED=0, PLOIDY=2, PHASEINFO=0 LOCPRIOR=1, LOCPRIORINIT=1.000000, LOCDATA=0, LOCISPOP=1, LOCPRIORSTEP=0.100000, MAXLOCPRIOR=20.000000, SEED=1430887116, [STRAT parameters]: NUMSIMSTATS=1000, PHENOTYPECOL=-9, POOLFREQ=10, LOCUSxONLY=0, EMERROR=0.00100, MISSINGPHENO=-9,