chromosome 2 50400 bytes allocated in orders_morecore 3024000 bytes allocated in morecore Option chosen: flips4 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): 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): 63 D2S61 64 D2S61_2 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. 55 D2S51 68 D2S44 1 D2S54 69 D2S43 33 D2S62 59 D2S45 40 D2S5_2 66 D2S6 56 D2S48 54 APOB_2 50 D2S70 65 D2S47 number of loci to flip = 4 Original order, & its log10_likelihood, followed by flipped orders, with their relative log10_likelihoods (= log10_like[orig] - log10_like[curr]) 55 68 1 69 33 59 40 66 56 54 50 65 -578.59 - - - - - - - - - 50 54 - 1.46