chromosome 2

100800 bytes allocated in orders_morecore

3024000 bytes allocated in morecore

Option chosen: fixed

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 = 2.000
PK_LIKE_TOL = 2.000
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):

 24   D2S38_2              23   D2S38               

Haplotyped system (distances forced to 0.0):

 40   D2S5_2               39   D2S5                

Haplotyped system (distances forced to 0.0):

 42   D2S1_2               41   D2S1                

Haplotyped system (distances forced to 0.0):

 44   TPO                  45   TPO_2               

Haplotyped system (distances forced to 0.0):

 54   APOB_2               53   APOB                

Haplotyped system (distances forced to 0.0):

 64   D2S61_2              63   D2S61               

Haplotyped system (distances forced to 0.0):

 75   TGFA_3               73   TGFA_2               72   TGFA                
 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.



Sex_averaged map (recomb. frac., Kosambi cM):

  0   CRYG1-5                     0.0                    
                    0.00*   0.0
  2   CRYG1-5_2                   0.0                    
                    0.00*   0.0
  4   CRYG1-5_3                   0.0                    
                    0.26   28.3
 21   D2S40                      28.3                    
                    0.20   21.7
 55   D2S51                      50.0                    
                    0.10    9.6
 61   LCT                        59.6                    
                    0.06    6.2
 68   D2S44                      65.8                    
                    0.04    3.8
 77   Prot_C/pcr                 69.6                    
                    0.04    3.7
  1   D2S54                      73.3                    
                    0.00*   0.0
  3   D2S54_2                    73.3                    
                    0.06    5.8
 49   LCO                        79.1                    
                    0.04    4.4
 20   D2S41                      83.4                    
                    0.04    3.8
 69   D2S43                      87.2                    
                    0.12   12.0
 10   D2S25                      99.2                    
                    0.03    2.9
 33   D2S62                     102.1                    
                    0.02    1.9
 24   D2S38_2                   104.0                    
                    0.00*   0.0
 23   D2S38                     104.0                    
                    0.12   12.4
 59   D2S45                     116.4                    
                    0.10    9.8
 26   D2S30                     126.2                    
                    0.08    7.9
 28   D2S31                     134.1                    
                    0.03    3.1
 40   D2S5_2                    137.2                    
                    0.00*   0.0
 39   D2S5                      137.2                    
                    0.06    5.7
 31   D2S28                     142.9                    
                    0.17   17.5
 66   D2S6                      160.4                    
                    0.03    3.0
 17   D2S19                     163.4                    
                    0.10   10.3
 70   D2S46                     173.7                    
                    0.09    9.5
 56   D2S48                     183.2                    
                    0.12   12.2
 54   APOB_2                    195.3                    
                    0.00*   0.0
 53   APOB                      195.3                    
                    0.06    6.2
 50   D2S70                     201.6                    
                    0.35   44.1
 44   TPO                       245.7                    
                    0.00*   0.0
 45   TPO_2                     245.7                    
                    0.03    3.2
 65   D2S47                     248.9                    
                    0.01    1.4
 42   D2S1_2                    250.3                    
                    0.00*   0.0
 41   D2S1                      250.3                    
                    0.04    3.7
  5   ACP1                      254.0                    

* denotes recomb. frac. held fixed in this analysis


log10_like = -1141.012