!QTL analysis via weighted likelihood of three covariance matrices !Using marker1 !Using MZ and DZ twins !Analysis of platelet count !Twelve year olds The following MX script lines were read for group 1 #DEFINE NVAR 3 #DEFINE NSIB 2 ! NUMBER OF SIBLINGS #NGROUPS 3 Note: #NGroup set number of groups to 3 G1: PARAMETER ESTIMATES CALCULATION BEGIN MATRICES; X LOWER NVAR NVAR FREE !GENETIC BACKGROUND W LOWER NVAR NVAR FREE !DOMINANCE Z LOWER NVAR NVAR FREE !UNIQUE ENVIRONMENT L FULL NVAR 1 FREE !QTL EFFECT M FULL NSIB NVAR FREE !MEANS H FULL 1 1 R FULL 1 1 END MATRICES; SPECIFY M 40 41 42 40 41 42 MATRIX H .5 MATRIX R .25 BEGIN ALGEBRA; A= X*X'; !ADDITIVE GENETIC VARIANCE D= W*W'; !DOMINANCE VARIANCE E= Z*Z'; !UNIQUE ENVIRONMENTAL VARIANCE Q= L*L'; !VARIANCE DUE TO QTL V= A+Q+D+E; !TOTAL VARIANCE END ALGEBRA; END The following MX script lines were read for group 2 G2: MONOZYGOTIC TWINS DATA NINPUT=13 RECTANGULAR FILE=MARKER6.DAT NOTE: Rectangular file contained 519 records with data LABELS FAMID INDID1 INDID2 PIBD0 PIBD1 PIBD2 ZYGOSITY PLT11 PLT12 PLT13 PLT21 PLT22 PLT23 SELECT IF ZYGOSITY <3; NOTE: Select if yields 287 data vectors for analysis NOTE: Vectors contain a total of 2962 observations SELECT PLT11 PLT12 PLT13 PLT21 PLT22 PLT23; BEGIN MATRICES = GROUP 1; NOTE: Selection yields 277 data vectors for analysis NOTE: Vectors contain a total of 953 observations MEANS M; COVARIANCE A+D+Q+E | A+D+Q _ A+D+Q | A+D+Q+E; END; The following MX script lines were read for group 3 G3: DIZYGOTIC TWINS DATA NINPUT=13 NMODEL=3 RECTANGULAR FILE=MARKER6.DAT NOTE: Rectangular file contained 519 records with data LABELS FAMID INDID1 INDID2 PIBD0 PIBD1 PIBD2 ZYGOSITY PLT11 PLT12 PLT13 PLT21 PLT22 PLT23 SELECT IF ZYGOSITY >2; NOTE: Select if yields 232 data vectors for analysis NOTE: Vectors contain a total of 2662 observations SELECT PIBD0 PIBD1 PIBD2 PLT11 PLT12 PLT13 PLT21 PLT22 PLT23; DEFINITION PIBD0 PIBD1 PIBD2; NOTE: Selection yields 232 data vectors for analysis NOTE: Vectors contain a total of 1734 observations BEGIN MATRICES = GROUP 1; NOTE: Definition yields 230 data vectors for analysis NOTE: Vectors contain a total of 1038 observations K FULL 3 1 !IBD PROBABILITIES (FROM GENEHUNTER) I UNIT 3 1 !TO CREATE MEANS FOR ALL MODELS & SIBS END MATRICES; SPECIFY K PIBD0 PIBD1 PIBD2 BEGIN ALGEBRA; U= H@A+R@D; !IBD 0 COVARIANCE (=NON-QTL COVARIANCE) O= U+H@Q; !IBD 1 COVARIANCE P= U+Q; !IBD 2 COVARIANCE Y= V|U_ U|V_ !IBD 0 MATRIX V|O_ O|V_ !IBD 1 MATRIX V|P_ P|V; !IBD 2 MATRIX END ALGEBRA; MEANS I@M; COVARIANCE Y; WEIGHTS K; START 1 ALL START 2.8 M 1 1 1 TO M 1 NSIB NVAR OPTION NDECIMALS=3 OPTION ITERATIONS=5000 OPTION MULTIPLE ISSAT END Summary of VL file data for group 2 PLT11 PLT12 PLT13 PLT21 PLT22 PLT23 Code 1.000 2.000 3.000 4.000 5.000 6.000 Number 165.000 145.000 171.000 163.000 140.000 169.000 Mean 2.849 2.696 2.541 2.862 2.711 2.568 Variance 0.293 0.356 0.272 0.302 0.307 0.268 Minimum 1.800 1.150 1.240 1.800 1.220 1.560 Maximum 4.480 4.360 4.050 4.580 4.280 4.070 Summary of VL file data for group 3 PIBD2 PIBD1 PIBD0 PLT11 PLT12 PLT13 PLT21 Code -3.000 -2.000 -1.000 1.000 2.000 3.000 4.000 Number 230.000 230.000 230.000 193.000 205.000 123.000 190.000 Mean 0.241 0.479 0.279 2.866 2.671 2.477 2.796 Variance 0.134 0.138 0.132 0.294 0.297 0.232 0.306 Minimum 0.000 0.000 0.000 1.580 1.310 1.520 1.480 Maximum 1.000 1.000 1.000 4.410 4.350 4.210 4.590 PLT22 PLT23 Code 5.000 6.000 Number 205.000 122.000 Mean 2.634 2.491 Variance 0.357 0.314 Minimum 1.380 1.400 Maximum 4.780 4.110 PARAMETER SPECIFICATIONS GROUP NUMBER: 1 G1: Parameter Estimates MATRIX A This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX D This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX E This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX H This is a FULL matrix of order 1 by 1 It has no free parameters specified MATRIX L This is a FULL matrix of order 3 by 1 1 1 19 2 20 3 21 MATRIX M This is a FULL matrix of order 2 by 3 1 2 3 1 40 41 42 2 40 41 42 MATRIX Q This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX R This is a FULL matrix of order 1 by 1 It has no free parameters specified MATRIX V This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX W This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 7 2 8 9 3 10 11 12 MATRIX X This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 1 2 2 3 3 4 5 6 MATRIX Z This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 13 2 14 15 3 16 17 18 GROUP NUMBER: 2 G2: Monozygotic twins MATRIX A This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX D This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX E This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX H This is a FULL matrix of order 1 by 1 It has no free parameters specified MATRIX L This is a FULL matrix of order 3 by 1 1 1 19 2 20 3 21 MATRIX M This is a FULL matrix of order 2 by 3 1 2 3 1 40 41 42 2 40 41 42 MATRIX Q This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX R This is a FULL matrix of order 1 by 1 It has no free parameters specified MATRIX V This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX W This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 7 2 8 9 3 10 11 12 MATRIX X This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 1 2 2 3 3 4 5 6 MATRIX Z This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 13 2 14 15 3 16 17 18 GROUP NUMBER: 3 G3: Dizygotic twins MATRIX A This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX D This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX E This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX H This is a FULL matrix of order 1 by 1 It has no free parameters specified MATRIX I This is a UNIT matrix of order 3 by 1 MATRIX K This is a FULL matrix of order 3 by 1 1 1 -1 2 -2 3 -3 MATRIX L This is a FULL matrix of order 3 by 1 1 1 19 2 20 3 21 MATRIX M This is a FULL matrix of order 2 by 3 1 2 3 1 40 41 42 2 40 41 42 MATRIX O This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX P This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX Q This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX R This is a FULL matrix of order 1 by 1 It has no free parameters specified MATRIX U This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX V This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX W This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 7 2 8 9 3 10 11 12 MATRIX X This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 1 2 2 3 3 4 5 6 MATRIX Y This is a computed FULL matrix of order 18 by 6 It has no free parameters specified MATRIX Z This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 13 2 14 15 3 16 17 18 MX PARAMETER ESTIMATES GROUP NUMBER: 1 G1: Parameter Estimates MATRIX A This is a computed FULL matrix of order 3 by 3 [=X*X'] 1 2 3 1 0.102 0.125 0.044 2 0.125 0.182 0.076 3 0.044 0.076 0.036 MATRIX D This is a computed FULL matrix of order 3 by 3 [=W*W'] 1 2 3 1 0.031 0.002 0.003 2 0.002 0.000 0.000 3 0.003 0.000 0.000 MATRIX E This is a computed FULL matrix of order 3 by 3 [=Z*Z'] 1 2 3 1 0.044 0.011 0.003 2 0.011 0.062 0.011 3 0.003 0.011 0.058 MATRIX H This is a FULL matrix of order 1 by 1 1 1 0.500 MATRIX L This is a FULL matrix of order 3 by 1 1 1 0.361 2 0.282 3 0.421 MATRIX M This is a FULL matrix of order 2 by 3 1 2 3 1 2.879 2.690 2.506 2 2.879 2.690 2.506 MATRIX Q This is a computed FULL matrix of order 3 by 3 [=L*L'] 1 2 3 1 0.131 0.102 0.152 2 0.102 0.080 0.119 3 0.152 0.119 0.177 MATRIX R This is a FULL matrix of order 1 by 1 1 1 0.250 MATRIX V This is a computed FULL matrix of order 3 by 3 [=A+Q+D+E] 1 2 3 1 0.308 0.240 0.202 2 0.240 0.325 0.207 3 0.202 0.207 0.272 MATRIX W This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 0.177 2 0.014 0.000 3 0.014 0.000 0.000 MATRIX X This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 0.320 2 0.391 0.171 3 0.139 0.130 0.000 MATRIX Z This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 0.210 2 0.052 0.244 3 0.013 0.043 0.237 GROUP NUMBER: 2 G2: Monozygotic twins MATRIX A This is a computed FULL matrix of order 3 by 3 [=X*X'] 1 2 3 1 0.102 0.125 0.044 2 0.125 0.182 0.076 3 0.044 0.076 0.036 MATRIX D This is a computed FULL matrix of order 3 by 3 [=W*W'] 1 2 3 1 0.031 0.002 0.003 2 0.002 0.000 0.000 3 0.003 0.000 0.000 MATRIX E This is a computed FULL matrix of order 3 by 3 [=Z*Z'] 1 2 3 1 0.044 0.011 0.003 2 0.011 0.062 0.011 3 0.003 0.011 0.058 MATRIX H This is a FULL matrix of order 1 by 1 1 1 0.500 MATRIX L This is a FULL matrix of order 3 by 1 1 1 0.361 2 0.282 3 0.421 MATRIX M This is a FULL matrix of order 2 by 3 1 2 3 1 2.879 2.690 2.506 2 2.879 2.690 2.506 MATRIX Q This is a computed FULL matrix of order 3 by 3 [=L*L'] 1 2 3 1 0.131 0.102 0.152 2 0.102 0.080 0.119 3 0.152 0.119 0.177 MATRIX R This is a FULL matrix of order 1 by 1 1 1 0.250 MATRIX V This is a computed FULL matrix of order 3 by 3 [=A+Q+D+E] 1 2 3 1 0.308 0.240 0.202 2 0.240 0.325 0.207 3 0.202 0.207 0.272 MATRIX W This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 0.177 2 0.014 0.000 3 0.014 0.000 0.000 MATRIX X This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 0.320 2 0.391 0.171 3 0.139 0.130 0.000 MATRIX Z This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 0.210 2 0.052 0.244 3 0.013 0.043 0.237 GROUP NUMBER: 3 G3: Dizygotic twins MATRIX A This is a computed FULL matrix of order 3 by 3 [=X*X'] 1 2 3 1 0.102 0.125 0.044 2 0.125 0.182 0.076 3 0.044 0.076 0.036 MATRIX D This is a computed FULL matrix of order 3 by 3 [=W*W'] 1 2 3 1 0.031 0.002 0.003 2 0.002 0.000 0.000 3 0.003 0.000 0.000 MATRIX E This is a computed FULL matrix of order 3 by 3 [=Z*Z'] 1 2 3 1 0.044 0.011 0.003 2 0.011 0.062 0.011 3 0.003 0.011 0.058 MATRIX H This is a FULL matrix of order 1 by 1 1 1 0.500 MATRIX I This is a UNIT matrix of order 3 by 1 MATRIX K This is a FULL matrix of order 3 by 1 1 1 0.001 2 0.184 3 0.814 MATRIX L This is a FULL matrix of order 3 by 1 1 1 0.361 2 0.282 3 0.421 MATRIX M This is a FULL matrix of order 2 by 3 1 2 3 1 2.879 2.690 2.506 2 2.879 2.690 2.506 MATRIX O This is a computed FULL matrix of order 3 by 3 [=U+H@Q] 1 2 3 1 0.124 0.114 0.099 2 0.114 0.131 0.098 3 0.099 0.098 0.107 MATRIX P This is a computed FULL matrix of order 3 by 3 [=U+Q] 1 2 3 1 0.190 0.165 0.175 2 0.165 0.171 0.157 3 0.175 0.157 0.195 MATRIX Q This is a computed FULL matrix of order 3 by 3 [=L*L'] 1 2 3 1 0.131 0.102 0.152 2 0.102 0.080 0.119 3 0.152 0.119 0.177 MATRIX R This is a FULL matrix of order 1 by 1 1 1 0.250 MATRIX U This is a computed FULL matrix of order 3 by 3 [=H@A+R@D] 1 2 3 1 0.059 0.063 0.023 2 0.063 0.091 0.038 3 0.023 0.038 0.018 MATRIX V This is a computed FULL matrix of order 3 by 3 [=A+Q+D+E] 1 2 3 1 0.308 0.240 0.202 2 0.240 0.325 0.207 3 0.202 0.207 0.272 MATRIX W This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 0.177 2 0.014 0.000 3 0.014 0.000 0.000 MATRIX X This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 0.320 2 0.391 0.171 3 0.139 0.130 0.000 MATRIX Y This is a computed FULL matrix of order 18 by 6 [=V|U_U|V_V|O_O|V_V|P_P|V] 1 2 3 4 5 6 1 0.308 0.240 0.202 0.059 0.063 0.023 2 0.240 0.325 0.207 0.063 0.091 0.038 3 0.202 0.207 0.272 0.023 0.038 0.018 4 0.059 0.063 0.023 0.308 0.240 0.202 5 0.063 0.091 0.038 0.240 0.325 0.207 6 0.023 0.038 0.018 0.202 0.207 0.272 7 0.308 0.240 0.202 0.124 0.114 0.099 8 0.240 0.325 0.207 0.114 0.131 0.098 9 0.202 0.207 0.272 0.099 0.098 0.107 10 0.124 0.114 0.099 0.308 0.240 0.202 11 0.114 0.131 0.098 0.240 0.325 0.207 12 0.099 0.098 0.107 0.202 0.207 0.272 13 0.308 0.240 0.202 0.190 0.165 0.175 14 0.240 0.325 0.207 0.165 0.171 0.157 15 0.202 0.207 0.272 0.175 0.157 0.195 16 0.190 0.165 0.175 0.308 0.240 0.202 17 0.165 0.171 0.157 0.240 0.325 0.207 18 0.175 0.157 0.195 0.202 0.207 0.272 MATRIX Z This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 0.210 2 0.052 0.244 3 0.013 0.043 0.237 Your model has 24 estimated parameters and 1991 Observed statistics -2 times log-likelihood of data >>> 1978.812 Degrees of freedom >>>>>>>>>>>>>>>> 1967 Model number: 1 Model number: 2 Model number: 3 Model number: 1 Model number: 2 Model number: 3 This problem used 14.8% of my workspace Task Time elapsed (DD:HH:MM:SS) Reading script & data 0: 0: 0: 1.43 Execution 0: 0: 3:30.97 TOTAL 0: 0: 3:32.40 Total number of warnings issued: 0 ______________________________________________________________________________ ! Equate loadings on QTL Multiple fit option in effect. The following MX script lines have been read: EQUATE L 1 1 1 L 1 2 1 L 1 3 1 END Summary of VL file data for group 2 PLT11 PLT12 PLT13 PLT21 PLT22 PLT23 Code 1.000 2.000 3.000 4.000 5.000 6.000 Number 165.000 145.000 171.000 163.000 140.000 169.000 Mean 2.849 2.696 2.541 2.862 2.711 2.568 Variance 0.293 0.356 0.272 0.302 0.307 0.268 Minimum 1.800 1.150 1.240 1.800 1.220 1.560 Maximum 4.480 4.360 4.050 4.580 4.280 4.070 Summary of VL file data for group 3 PIBD2 PIBD1 PIBD0 PLT11 PLT12 PLT13 PLT21 Code -3.000 -2.000 -1.000 1.000 2.000 3.000 4.000 Number 230.000 230.000 230.000 193.000 205.000 123.000 190.000 Mean 0.241 0.479 0.279 2.866 2.671 2.477 2.796 Variance 0.134 0.138 0.132 0.294 0.297 0.232 0.306 Minimum 0.000 0.000 0.000 1.580 1.310 1.520 1.480 Maximum 1.000 1.000 1.000 4.410 4.350 4.210 4.590 PLT22 PLT23 Code 5.000 6.000 Number 205.000 122.000 Mean 2.634 2.491 Variance 0.357 0.314 Minimum 1.380 1.400 Maximum 4.780 4.110 PARAMETER SPECIFICATIONS GROUP NUMBER: 1 G1: Parameter Estimates MATRIX A This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX D This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX E This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX H This is a FULL matrix of order 1 by 1 It has no free parameters specified MATRIX L This is a FULL matrix of order 3 by 1 1 1 19 2 19 3 19 MATRIX M This is a FULL matrix of order 2 by 3 1 2 3 1 40 41 42 2 40 41 42 MATRIX Q This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX R This is a FULL matrix of order 1 by 1 It has no free parameters specified MATRIX V This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX W This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 7 2 8 9 3 10 11 12 MATRIX X This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 1 2 2 3 3 4 5 6 MATRIX Z This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 13 2 14 15 3 16 17 18 GROUP NUMBER: 2 G2: Monozygotic twins MATRIX A This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX D This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX E This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX H This is a FULL matrix of order 1 by 1 It has no free parameters specified MATRIX L This is a FULL matrix of order 3 by 1 1 1 19 2 19 3 19 MATRIX M This is a FULL matrix of order 2 by 3 1 2 3 1 40 41 42 2 40 41 42 MATRIX Q This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX R This is a FULL matrix of order 1 by 1 It has no free parameters specified MATRIX V This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX W This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 7 2 8 9 3 10 11 12 MATRIX X This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 1 2 2 3 3 4 5 6 MATRIX Z This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 13 2 14 15 3 16 17 18 GROUP NUMBER: 3 G3: Dizygotic twins MATRIX A This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX D This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX E This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX H This is a FULL matrix of order 1 by 1 It has no free parameters specified MATRIX I This is a UNIT matrix of order 3 by 1 MATRIX K This is a FULL matrix of order 3 by 1 1 1 -1 2 -2 3 -3 MATRIX L This is a FULL matrix of order 3 by 1 1 1 19 2 19 3 19 MATRIX M This is a FULL matrix of order 2 by 3 1 2 3 1 40 41 42 2 40 41 42 MATRIX O This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX P This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX Q This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX R This is a FULL matrix of order 1 by 1 It has no free parameters specified MATRIX U This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX V This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX W This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 7 2 8 9 3 10 11 12 MATRIX X This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 1 2 2 3 3 4 5 6 MATRIX Y This is a computed FULL matrix of order 18 by 6 It has no free parameters specified MATRIX Z This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 13 2 14 15 3 16 17 18 MX PARAMETER ESTIMATES GROUP NUMBER: 1 G1: Parameter Estimates MATRIX A This is a computed FULL matrix of order 3 by 3 [=X*X'] 1 2 3 1 0.078 0.086 0.041 2 0.086 0.124 0.054 3 0.041 0.054 0.065 MATRIX D This is a computed FULL matrix of order 3 by 3 [=W*W'] 1 2 3 1 0.046 0.004 0.017 2 0.004 0.000 0.002 3 0.017 0.002 0.006 MATRIX E This is a computed FULL matrix of order 3 by 3 [=Z*Z'] 1 2 3 1 0.044 0.011 0.002 2 0.011 0.063 0.011 3 0.002 0.011 0.058 MATRIX H This is a FULL matrix of order 1 by 1 1 1 0.500 MATRIX L This is a FULL matrix of order 3 by 1 1 1 0.374 2 0.374 3 0.374 MATRIX M This is a FULL matrix of order 2 by 3 1 2 3 1 2.880 2.691 2.508 2 2.880 2.691 2.508 MATRIX Q This is a computed FULL matrix of order 3 by 3 [=L*L'] 1 2 3 1 0.140 0.140 0.140 2 0.140 0.140 0.140 3 0.140 0.140 0.140 MATRIX R This is a FULL matrix of order 1 by 1 1 1 0.250 MATRIX V This is a computed FULL matrix of order 3 by 3 [=A+Q+D+E] 1 2 3 1 0.308 0.241 0.200 2 0.241 0.327 0.206 3 0.200 0.206 0.269 MATRIX W This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 0.215 2 0.021 0.000 3 0.079 0.000 0.000 MATRIX X This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 0.279 2 0.310 0.169 3 0.146 0.054 0.203 MATRIX Z This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 0.210 2 0.053 0.245 3 0.012 0.042 0.237 GROUP NUMBER: 2 G2: Monozygotic twins MATRIX A This is a computed FULL matrix of order 3 by 3 [=X*X'] 1 2 3 1 0.078 0.086 0.041 2 0.086 0.124 0.054 3 0.041 0.054 0.065 MATRIX D This is a computed FULL matrix of order 3 by 3 [=W*W'] 1 2 3 1 0.046 0.004 0.017 2 0.004 0.000 0.002 3 0.017 0.002 0.006 MATRIX E This is a computed FULL matrix of order 3 by 3 [=Z*Z'] 1 2 3 1 0.044 0.011 0.002 2 0.011 0.063 0.011 3 0.002 0.011 0.058 MATRIX H This is a FULL matrix of order 1 by 1 1 1 0.500 MATRIX L This is a FULL matrix of order 3 by 1 1 1 0.374 2 0.374 3 0.374 MATRIX M This is a FULL matrix of order 2 by 3 1 2 3 1 2.880 2.691 2.508 2 2.880 2.691 2.508 MATRIX Q This is a computed FULL matrix of order 3 by 3 [=L*L'] 1 2 3 1 0.140 0.140 0.140 2 0.140 0.140 0.140 3 0.140 0.140 0.140 MATRIX R This is a FULL matrix of order 1 by 1 1 1 0.250 MATRIX V This is a computed FULL matrix of order 3 by 3 [=A+Q+D+E] 1 2 3 1 0.308 0.241 0.200 2 0.241 0.327 0.206 3 0.200 0.206 0.269 MATRIX W This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 0.215 2 0.021 0.000 3 0.079 0.000 0.000 MATRIX X This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 0.279 2 0.310 0.169 3 0.146 0.054 0.203 MATRIX Z This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 0.210 2 0.053 0.245 3 0.012 0.042 0.237 GROUP NUMBER: 3 G3: Dizygotic twins MATRIX A This is a computed FULL matrix of order 3 by 3 [=X*X'] 1 2 3 1 0.078 0.086 0.041 2 0.086 0.124 0.054 3 0.041 0.054 0.065 MATRIX D This is a computed FULL matrix of order 3 by 3 [=W*W'] 1 2 3 1 0.046 0.004 0.017 2 0.004 0.000 0.002 3 0.017 0.002 0.006 MATRIX E This is a computed FULL matrix of order 3 by 3 [=Z*Z'] 1 2 3 1 0.044 0.011 0.002 2 0.011 0.063 0.011 3 0.002 0.011 0.058 MATRIX H This is a FULL matrix of order 1 by 1 1 1 0.500 MATRIX I This is a UNIT matrix of order 3 by 1 MATRIX K This is a FULL matrix of order 3 by 1 1 1 0.001 2 0.184 3 0.814 MATRIX L This is a FULL matrix of order 3 by 1 1 1 0.374 2 0.374 3 0.374 MATRIX M This is a FULL matrix of order 2 by 3 1 2 3 1 2.880 2.691 2.508 2 2.880 2.691 2.508 MATRIX O This is a computed FULL matrix of order 3 by 3 [=U+H@Q] 1 2 3 1 0.120 0.114 0.094 2 0.114 0.132 0.097 3 0.094 0.097 0.104 MATRIX P This is a computed FULL matrix of order 3 by 3 [=U+Q] 1 2 3 1 0.190 0.184 0.164 2 0.184 0.202 0.167 3 0.164 0.167 0.174 MATRIX Q This is a computed FULL matrix of order 3 by 3 [=L*L'] 1 2 3 1 0.140 0.140 0.140 2 0.140 0.140 0.140 3 0.140 0.140 0.140 MATRIX R This is a FULL matrix of order 1 by 1 1 1 0.250 MATRIX U This is a computed FULL matrix of order 3 by 3 [=H@A+R@D] 1 2 3 1 0.050 0.044 0.025 2 0.044 0.062 0.028 3 0.025 0.028 0.034 MATRIX V This is a computed FULL matrix of order 3 by 3 [=A+Q+D+E] 1 2 3 1 0.308 0.241 0.200 2 0.241 0.327 0.206 3 0.200 0.206 0.269 MATRIX W This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 0.215 2 0.021 0.000 3 0.079 0.000 0.000 MATRIX X This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 0.279 2 0.310 0.169 3 0.146 0.054 0.203 MATRIX Y This is a computed FULL matrix of order 18 by 6 [=V|U_U|V_V|O_O|V_V|P_P|V] 1 2 3 4 5 6 1 0.308 0.241 0.200 0.050 0.044 0.025 2 0.241 0.327 0.206 0.044 0.062 0.028 3 0.200 0.206 0.269 0.025 0.028 0.034 4 0.050 0.044 0.025 0.308 0.241 0.200 5 0.044 0.062 0.028 0.241 0.327 0.206 6 0.025 0.028 0.034 0.200 0.206 0.269 7 0.308 0.241 0.200 0.120 0.114 0.094 8 0.241 0.327 0.206 0.114 0.132 0.097 9 0.200 0.206 0.269 0.094 0.097 0.104 10 0.120 0.114 0.094 0.308 0.241 0.200 11 0.114 0.132 0.097 0.241 0.327 0.206 12 0.094 0.097 0.104 0.200 0.206 0.269 13 0.308 0.241 0.200 0.190 0.184 0.164 14 0.241 0.327 0.206 0.184 0.202 0.167 15 0.200 0.206 0.269 0.164 0.167 0.174 16 0.190 0.184 0.164 0.308 0.241 0.200 17 0.184 0.202 0.167 0.241 0.327 0.206 18 0.164 0.167 0.174 0.200 0.206 0.269 MATRIX Z This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 0.210 2 0.053 0.245 3 0.012 0.042 0.237 Your model has 22 estimated parameters and 1991 Observed statistics -2 times log-likelihood of data >>> 1982.320 Degrees of freedom >>>>>>>>>>>>>>>> 1969 Saturated model fit* >>>>>>>>>>> 1978.812 Saturated model df* >>>>>>>>>>> 1967 Difference Chi-squared >>>>>>>> 3.508 Difference d.f. >>>>>>>>>>>>>>> 2 Probability >>>>>>>>>>>>>>>>>>>> 0.173 Akaike's Information Criterion > -0.492 * Saturated model statistic computed earlier in this job Model number: 1 Model number: 2 Model number: 3 Model number: 1 Model number: 2 Model number: 3 This problem used 14.8% of my workspace Task Time elapsed (DD:HH:MM:SS) Reading script & data 0: 0: 0: 0.05 Execution 0: 0: 3:11.47 TOTAL 0: 0: 3:11.52 Total number of warnings issued: 0 ______________________________________________________________________________ ! Test significance of QTL effect Multiple fit option in effect. The following MX script lines have been read: DROP L 1 1 1 TO L 1 3 1 END Summary of VL file data for group 2 PLT11 PLT12 PLT13 PLT21 PLT22 PLT23 Code 1.000 2.000 3.000 4.000 5.000 6.000 Number 165.000 145.000 171.000 163.000 140.000 169.000 Mean 2.849 2.696 2.541 2.862 2.711 2.568 Variance 0.293 0.356 0.272 0.302 0.307 0.268 Minimum 1.800 1.150 1.240 1.800 1.220 1.560 Maximum 4.480 4.360 4.050 4.580 4.280 4.070 Summary of VL file data for group 3 PIBD2 PIBD1 PIBD0 PLT11 PLT12 PLT13 PLT21 Code -3.000 -2.000 -1.000 1.000 2.000 3.000 4.000 Number 230.000 230.000 230.000 193.000 205.000 123.000 190.000 Mean 0.241 0.479 0.279 2.866 2.671 2.477 2.796 Variance 0.134 0.138 0.132 0.294 0.297 0.232 0.306 Minimum 0.000 0.000 0.000 1.580 1.310 1.520 1.480 Maximum 1.000 1.000 1.000 4.410 4.350 4.210 4.590 PLT22 PLT23 Code 5.000 6.000 Number 205.000 122.000 Mean 2.634 2.491 Variance 0.357 0.314 Minimum 1.380 1.400 Maximum 4.780 4.110 PARAMETER SPECIFICATIONS GROUP NUMBER: 1 G1: Parameter Estimates MATRIX A This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX D This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX E This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX H This is a FULL matrix of order 1 by 1 It has no free parameters specified MATRIX L This is a FULL matrix of order 3 by 1 It has no free parameters specified MATRIX M This is a FULL matrix of order 2 by 3 1 2 3 1 40 41 42 2 40 41 42 MATRIX Q This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX R This is a FULL matrix of order 1 by 1 It has no free parameters specified MATRIX V This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX W This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 7 2 8 9 3 10 11 12 MATRIX X This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 1 2 2 3 3 4 5 6 MATRIX Z This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 13 2 14 15 3 16 17 18 GROUP NUMBER: 2 G2: Monozygotic twins MATRIX A This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX D This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX E This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX H This is a FULL matrix of order 1 by 1 It has no free parameters specified MATRIX L This is a FULL matrix of order 3 by 1 It has no free parameters specified MATRIX M This is a FULL matrix of order 2 by 3 1 2 3 1 40 41 42 2 40 41 42 MATRIX Q This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX R This is a FULL matrix of order 1 by 1 It has no free parameters specified MATRIX V This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX W This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 7 2 8 9 3 10 11 12 MATRIX X This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 1 2 2 3 3 4 5 6 MATRIX Z This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 13 2 14 15 3 16 17 18 GROUP NUMBER: 3 G3: Dizygotic twins MATRIX A This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX D This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX E This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX H This is a FULL matrix of order 1 by 1 It has no free parameters specified MATRIX I This is a UNIT matrix of order 3 by 1 MATRIX K This is a FULL matrix of order 3 by 1 1 1 -1 2 -2 3 -3 MATRIX L This is a FULL matrix of order 3 by 1 It has no free parameters specified MATRIX M This is a FULL matrix of order 2 by 3 1 2 3 1 40 41 42 2 40 41 42 MATRIX O This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX P This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX Q This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX R This is a FULL matrix of order 1 by 1 It has no free parameters specified MATRIX U This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX V This is a computed FULL matrix of order 3 by 3 It has no free parameters specified MATRIX W This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 7 2 8 9 3 10 11 12 MATRIX X This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 1 2 2 3 3 4 5 6 MATRIX Y This is a computed FULL matrix of order 18 by 6 It has no free parameters specified MATRIX Z This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 13 2 14 15 3 16 17 18 MX PARAMETER ESTIMATES GROUP NUMBER: 1 G1: Parameter Estimates MATRIX A This is a computed FULL matrix of order 3 by 3 [=X*X'] 1 2 3 1 0.219 0.226 0.182 2 0.226 0.262 0.194 3 0.182 0.194 0.208 MATRIX D This is a computed FULL matrix of order 3 by 3 [=W*W'] 1 2 3 1 0.044 0.002 0.016 2 0.002 0.000 0.001 3 0.016 0.001 0.006 MATRIX E This is a computed FULL matrix of order 3 by 3 [=Z*Z'] 1 2 3 1 0.044 0.011 0.002 2 0.011 0.062 0.011 3 0.002 0.011 0.058 MATRIX H This is a FULL matrix of order 1 by 1 1 1 0.500 MATRIX L This is a FULL matrix of order 3 by 1 1 1 0.000 2 0.000 3 0.000 MATRIX M This is a FULL matrix of order 2 by 3 1 2 3 1 2.879 2.689 2.506 2 2.879 2.689 2.506 MATRIX Q This is a computed FULL matrix of order 3 by 3 [=L*L'] 1 2 3 1 0.000 0.000 0.000 2 0.000 0.000 0.000 3 0.000 0.000 0.000 MATRIX R This is a FULL matrix of order 1 by 1 1 1 0.250 MATRIX V This is a computed FULL matrix of order 3 by 3 [=A+Q+D+E] 1 2 3 1 0.307 0.240 0.201 2 0.240 0.324 0.206 3 0.201 0.206 0.271 MATRIX W This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 0.210 2 0.012 0.000 3 0.076 0.000 0.000 MATRIX X This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 0.468 2 0.483 0.167 3 0.390 0.036 0.233 MATRIX Z This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 0.210 2 0.053 0.244 3 0.011 0.041 0.237 GROUP NUMBER: 2 G2: Monozygotic twins MATRIX A This is a computed FULL matrix of order 3 by 3 [=X*X'] 1 2 3 1 0.219 0.226 0.182 2 0.226 0.262 0.194 3 0.182 0.194 0.208 MATRIX D This is a computed FULL matrix of order 3 by 3 [=W*W'] 1 2 3 1 0.044 0.002 0.016 2 0.002 0.000 0.001 3 0.016 0.001 0.006 MATRIX E This is a computed FULL matrix of order 3 by 3 [=Z*Z'] 1 2 3 1 0.044 0.011 0.002 2 0.011 0.062 0.011 3 0.002 0.011 0.058 MATRIX H This is a FULL matrix of order 1 by 1 1 1 0.500 MATRIX L This is a FULL matrix of order 3 by 1 1 1 0.000 2 0.000 3 0.000 MATRIX M This is a FULL matrix of order 2 by 3 1 2 3 1 2.879 2.689 2.506 2 2.879 2.689 2.506 MATRIX Q This is a computed FULL matrix of order 3 by 3 [=L*L'] 1 2 3 1 0.000 0.000 0.000 2 0.000 0.000 0.000 3 0.000 0.000 0.000 MATRIX R This is a FULL matrix of order 1 by 1 1 1 0.250 MATRIX V This is a computed FULL matrix of order 3 by 3 [=A+Q+D+E] 1 2 3 1 0.307 0.240 0.201 2 0.240 0.324 0.206 3 0.201 0.206 0.271 MATRIX W This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 0.210 2 0.012 0.000 3 0.076 0.000 0.000 MATRIX X This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 0.468 2 0.483 0.167 3 0.390 0.036 0.233 MATRIX Z This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 0.210 2 0.053 0.244 3 0.011 0.041 0.237 GROUP NUMBER: 3 G3: Dizygotic twins MATRIX A This is a computed FULL matrix of order 3 by 3 [=X*X'] 1 2 3 1 0.219 0.226 0.182 2 0.226 0.262 0.194 3 0.182 0.194 0.208 MATRIX D This is a computed FULL matrix of order 3 by 3 [=W*W'] 1 2 3 1 0.044 0.002 0.016 2 0.002 0.000 0.001 3 0.016 0.001 0.006 MATRIX E This is a computed FULL matrix of order 3 by 3 [=Z*Z'] 1 2 3 1 0.044 0.011 0.002 2 0.011 0.062 0.011 3 0.002 0.011 0.058 MATRIX H This is a FULL matrix of order 1 by 1 1 1 0.500 MATRIX I This is a UNIT matrix of order 3 by 1 MATRIX K This is a FULL matrix of order 3 by 1 1 1 0.001 2 0.184 3 0.814 MATRIX L This is a FULL matrix of order 3 by 1 1 1 0.000 2 0.000 3 0.000 MATRIX M This is a FULL matrix of order 2 by 3 1 2 3 1 2.879 2.689 2.506 2 2.879 2.689 2.506 MATRIX O This is a computed FULL matrix of order 3 by 3 [=U+H@Q] 1 2 3 1 0.121 0.114 0.095 2 0.114 0.131 0.097 3 0.095 0.097 0.105 MATRIX P This is a computed FULL matrix of order 3 by 3 [=U+Q] 1 2 3 1 0.121 0.114 0.095 2 0.114 0.131 0.097 3 0.095 0.097 0.105 MATRIX Q This is a computed FULL matrix of order 3 by 3 [=L*L'] 1 2 3 1 0.000 0.000 0.000 2 0.000 0.000 0.000 3 0.000 0.000 0.000 MATRIX R This is a FULL matrix of order 1 by 1 1 1 0.250 MATRIX U This is a computed FULL matrix of order 3 by 3 [=H@A+R@D] 1 2 3 1 0.121 0.114 0.095 2 0.114 0.131 0.097 3 0.095 0.097 0.105 MATRIX V This is a computed FULL matrix of order 3 by 3 [=A+Q+D+E] 1 2 3 1 0.307 0.240 0.201 2 0.240 0.324 0.206 3 0.201 0.206 0.271 MATRIX W This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 0.210 2 0.012 0.000 3 0.076 0.000 0.000 MATRIX X This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 0.468 2 0.483 0.167 3 0.390 0.036 0.233 MATRIX Y This is a computed FULL matrix of order 18 by 6 [=V|U_U|V_V|O_O|V_V|P_P|V] 1 2 3 4 5 6 1 0.307 0.240 0.201 0.121 0.114 0.095 2 0.240 0.324 0.206 0.114 0.131 0.097 3 0.201 0.206 0.271 0.095 0.097 0.105 4 0.121 0.114 0.095 0.307 0.240 0.201 5 0.114 0.131 0.097 0.240 0.324 0.206 6 0.095 0.097 0.105 0.201 0.206 0.271 7 0.307 0.240 0.201 0.121 0.114 0.095 8 0.240 0.324 0.206 0.114 0.131 0.097 9 0.201 0.206 0.271 0.095 0.097 0.105 10 0.121 0.114 0.095 0.307 0.240 0.201 11 0.114 0.131 0.097 0.240 0.324 0.206 12 0.095 0.097 0.105 0.201 0.206 0.271 13 0.307 0.240 0.201 0.121 0.114 0.095 14 0.240 0.324 0.206 0.114 0.131 0.097 15 0.201 0.206 0.271 0.095 0.097 0.105 16 0.121 0.114 0.095 0.307 0.240 0.201 17 0.114 0.131 0.097 0.240 0.324 0.206 18 0.095 0.097 0.105 0.201 0.206 0.271 MATRIX Z This is a LOWER TRIANGULAR matrix of order 3 by 3 1 2 3 1 0.210 2 0.053 0.244 3 0.011 0.041 0.237 Your model has 21 estimated parameters and 1991 Observed statistics -2 times log-likelihood of data >>> 1994.351 Degrees of freedom >>>>>>>>>>>>>>>> 1970 Saturated model fit* >>>>>>>>>>> 1978.812 Saturated model df* >>>>>>>>>>> 1967 Difference Chi-squared >>>>>>>> 15.539 Difference d.f. >>>>>>>>>>>>>>> 3 Probability >>>>>>>>>>>>>>>>>>>> 0.001 Akaike's Information Criterion > 9.539 * Saturated model statistic computed earlier in this job Model number: 1 Model number: 2 Model number: 3 Model number: 1 Model number: 2 Model number: 3 This problem used 14.8% of my workspace Task Time elapsed (DD:HH:MM:SS) Reading script & data 0: 0: 0: 0.00 Execution 0: 0: 1:18.44 TOTAL 0: 0: 1:18.44 Total number of warnings issued: 0 ______________________________________________________________________________