chromosome 2
50400 bytes allocated in orders_morecore
3024000 bytes allocated in morecore
Option chosen: twopoint
Current values for parameters:
par_file = chr2.par
dat_file = chr2.dat
gen_file = chr2.gen
ord_file = chr2.ord
nb_our_alloc = 3000000 [# bytes reserved for our_alloc]
SEX_EQ = 1 [0 = sex specific analysis, 1 = sex equal]
TOL = 0.010000
PUK_NUM_ORDERS_TOL = 6
PK_NUM_ORDERS_TOL = 8
PUK_LIKE_TOL = 3.000
PK_LIKE_TOL = 3.000
use_ord_file = 0
write_ord_file = 0
use_haps = 1
Haplotyped system (distances forced to 0.0):
0 CRYG1-5 2 CRYG1-5_2 4 CRYG1-5_3
Haplotyped system (distances forced to 0.0):
1 D2S54 3 D2S54_2
Haplotyped system (distances forced to 0.0):
23 D2S38 24 D2S38_2
Haplotyped system (distances forced to 0.0):
39 D2S5 40 D2S5_2
Haplotyped system (distances forced to 0.0):
41 D2S1 42 D2S1_2
Haplotyped system (distances forced to 0.0):
44 TPO 45 TPO_2
Haplotyped system (distances forced to 0.0):
53 APOB 54 APOB_2
Haplotyped system (distances forced to 0.0):
63 D2S61 64 D2S61_2
Haplotyped system (distances forced to 0.0):
72 TGFA 73 TGFA_2 75 TGFA_3
76 TGFA_4
N.B. Only the first locus in each set is retained in the orders
objects, but the remaining loci are used in all likelihood calculations.
D2S54 ACP1 CPSI D2S62 D2S5
D2S1 TPO D2S70 APOB D2S51
D2S48 D2S45 D2S12 POMC D2S61
D2S47 D2S6 D2S49 D2S44 D2S43
D2S46 CD8A TGFA
D2S1 ACP1 rec. fracs.= 0.05, lods = 13.00
7.84 11.54 13.00 12.48 11.39 10.02 8.47 6.80 5.07 3.33 1.62 0.00
TPO ACP1 rec. fracs.= 0.07, lods = 12.48
5.44 10.16 12.39 12.25 11.42 10.25 8.86 7.30 5.58 3.73 1.81 0.00
TPO D2S1 rec. fracs.= 0.04, lods = 26.04
18.76 24.23 26.00 24.66 22.43 19.75 16.76 13.51 10.06 6.50 3.00 0.00
APOB D2S70 rec. fracs.= 0.06, lods = 11.46
6.03 9.78 11.44 11.15 10.29 9.16 7.84 6.38 4.81 3.16 1.51 0.00
D2S48 D2S70 rec. fracs.= 0.16, lods = 4.77
-9.57 -1.74 3.06 4.44 4.77 4.62 4.19 3.55 2.75 1.83 0.88 0.00
D2S48 APOB rec. fracs.= 0.13, lods = 7.94
-14.35 -1.70 5.81 7.70 7.91 7.40 6.50 5.35 4.07 2.74 1.38 0.00
POMC APOB rec. fracs.= 0.09, lods = 4.92
-1.18 2.65 4.68 4.91 4.60 4.06 3.40 2.67 1.92 1.18 0.48 0.00
POMC D2S48 rec. fracs.= 0.00, lods = 3.31
3.31 3.25 3.02 2.72 2.40 2.06 1.72 1.36 1.01 0.65 0.32 0.00
D2S47 ACP1 rec. fracs.= 0.05, lods = 23.14
13.87 20.39 23.12 22.41 20.68 18.44 15.85 12.97 9.82 6.44 2.95 0.00
D2S47 D2S1 rec. fracs.= 0.01, lods = 33.02
31.56 32.98 31.75 28.94 25.75 22.32 18.71 14.95 11.07 7.15 3.32 0.00
D2S47 TPO rec. fracs.= 0.03, lods = 35.74
30.39 34.76 35.41 33.20 30.17 26.67 22.79 18.56 14.00 9.15 4.23 0.00
D2S6 APOB rec. fracs.= 0.27, lods = 3.86
-71.14 -34.60 -10.84 -2.41 1.33 3.11 3.80 3.78 3.26 2.35 1.19 0.00
D2S6 D2S48 rec. fracs.= 0.15, lods = 11.97
-30.34 -6.91 7.29 11.19 11.97 11.42 10.09 8.28 6.15 3.88 1.71 0.00
D2S6 POMC rec. fracs.= 0.22, lods = 3.01
-24.26 -10.47 -1.65 1.34 2.53 2.97 2.97 2.68 2.17 1.52 0.78 0.00
D2S49 ACP1 rec. fracs.= 0.07, lods = 9.65
2.43 7.18 9.51 9.52 8.85 7.87 6.71 5.40 3.98 2.49 1.07 0.00
D2S49 D2S1 rec. fracs.= 0.14, lods = 6.06
-9.57 -0.79 4.48 5.86 6.04 5.69 5.01 4.10 3.04 1.90 0.83 0.00
D2S49 TPO rec. fracs.= 0.05, lods = 21.19
13.56 19.09 21.18 20.26 18.46 16.23 13.72 10.98 8.11 5.20 2.43 0.00
D2S49 D2S47 rec. fracs.= 0.01, lods = 30.31
29.76 30.30 28.90 26.46 23.73 20.78 17.61 14.22 10.60 6.82 3.09 0.00
D2S44 D2S54 rec. fracs.= 0.05, lods = 46.01
26.23 40.19 45.98 44.43 40.77 36.11 30.82 25.10 19.06 12.74 6.25 0.00
D2S44 D2S51 rec. fracs.= 0.19, lods = 4.98
-21.56 -7.79 0.94 3.77 4.77 4.97 4.69 4.06 3.17 2.11 0.99 0.00
D2S44 D2S45 rec. fracs.= 0.30, lods = 3.98
-105.18 -53.71 -19.73 -7.15 -1.20 1.96 3.51 3.98 3.67 2.77 1.46 0.00
D2S43 D2S54 rec. fracs.= 0.16, lods = 10.29
-32.33 -8.88 5.38 9.37 10.29 9.92 8.87 7.42 5.72 3.85 1.87 0.00
D2S43 D2S62 rec. fracs.= 0.14, lods = 5.83
-9.87 -1.09 4.20 5.61 5.82 5.50 4.86 3.98 2.94 1.82 0.75 0.00
D2S43 D2S51 rec. fracs.= 0.21, lods = 3.56
-23.36 -9.58 -0.79 2.12 3.23 3.56 3.43 2.99 2.33 1.53 0.71 0.00
D2S43 D2S44 rec. fracs.= 0.18, lods = 18.10
-68.55 -22.46 6.26 15.07 17.80 17.93 16.54 14.15 11.04 7.44 3.61 0.00
D2S46 APOB rec. fracs.= 0.10, lods = 7.19
-3.87 2.87 6.59 7.19 6.86 6.12 5.15 4.03 2.84 1.66 0.64 0.00
D2S46 D2S48 rec. fracs.= 0.15, lods = 6.51
-16.16 -3.49 4.12 6.14 6.50 6.17 5.46 4.51 3.45 2.33 1.19 0.00
D2S46 POMC rec. fracs.= 0.07, lods = 5.28
0.92 3.77 5.19 5.22 4.84 4.27 3.59 2.84 2.04 1.26 0.56 0.00
D2S46 D2S6 rec. fracs.= 0.16, lods = 7.87
-26.04 -7.47 3.86 7.08 7.86 7.62 6.83 5.69 4.34 2.87 1.38 0.00
CD8A D2S62 rec. fracs.= 0.00, lods = 9.03
9.02 8.89 8.30 7.52 6.70 5.83 4.91 3.93 2.91 1.85 0.85 0.00
CD8A D2S45 rec. fracs.= 0.00, lods = 3.31
3.31 3.25 3.00 2.67 2.33 1.96 1.58 1.19 0.80 0.42 0.12 0.00
CD8A D2S43 rec. fracs.= 0.19, lods = 3.42
-17.37 -6.56 0.28 2.48 3.26 3.42 3.22 2.77 2.13 1.37 0.60 0.00
TGFA D2S62 rec. fracs.= 0.14, lods = 4.26
-6.28 -0.42 3.13 4.09 4.26 4.06 3.64 3.05 2.33 1.51 0.69 0.00
TGFA D2S45 rec. fracs.= 0.00, lods = 18.66
18.63 18.32 16.94 15.15 13.31 11.40 9.43 7.41 5.37 3.36 1.52 0.00
TGFA CD8A rec. fracs.= 0.16, lods = 3.37
-7.48 -1.60 2.02 3.08 3.36 3.29 3.02 2.59 2.05 1.41 0.71 0.00