************************************************************* **** **** **** Output from PHASE v2.0 **** **** Code by M Stephens, with contributions from N Li **** **** **** ************************************************************* BEGIN COMMAND_LINE /home/qyi/lib/phase/PHASE2 -d1 alo15.phase.inp alo15.phase.out END COMMAND_LINE BEGIN OUTFILE_LIST alo15.phase.out_freqs : haplotype frequency estimates alo15.phase.out_pairs : most likely haplotype pairs for each individual alo15.phase.out_recom : estimates of recombination parameters alo15.phase.out_monitor : file for monitoring convergence END OUTFILE_LIST BEGIN INPUT_SUMMARY Number of Individuals: 47 Number of Loci: 70 Positions of loci: 190 1054 1262 1277 1419 1474 1505 1661 1999 2120 2221 2252 2307 2397 2567 2690 2704 2711 2780 2838 2853 2922 2941 3045 3051 3190 3223 3357 3367 3503 3678 3888 3924 4733 4897 5081 5280 5358 5408 5424 5598 5599 5641 5994 6364 6373 6686 7249 7270 7470 7718 7784 8084 8942 9002 9420 9429 9809 10400 10893 11228 11256 11340 11807 12033 12286 12530 12799 13266 13394 END INPUT_SUMMARY List of haplotypes found in best reconstruction, with counts. (See file alo15.phase.out_freqs for haplotype population frequency estimates) BEGIN LIST_SUMMARY 1 CAGDGGCTCTGITCCAADCGCTGGTCGGACGCCGGCCATGGCGCACTAGCACACCTCCACGCCTCGAACC 1.000000 2 CAGDGGGTCCGICCCGGICGCCGGTAGGATGCCGGCCATGGCGCACTAGCACACCTCCACGCCTCGAACC 3.000000 3 CAGDGGGTCTGICCCAGICGCTGGTCAGGTGGCAACTGCAAAACACCGACAAGAGTCCATGCCTCGAACC 1.000000 4 CAGDGGGTCTGICCCGGICGCCGGTAGGATGCCGGCCATGGCGCACTAGCACACCTCCACGCCTCGATCC 2.000000 5 CAGDGGGTCTGICCTGAICCTCGGTAGGATGCCGACTGTGAAACGCCGGCGCGCGTCTACATCCCGAATC 1.000000 6 CAGDGGGTCTGITCCAADCGCTGGTCGGGCGCCGGCCATGGCGCACTAGCACACCTCCACGCCTCGAACC 10.000000 7 CAGDGGGTCTGITCCAADCGCTGGTCGGGCGCTGGTTGTAAAACGCCGGCACACGTCCACATCCCGAACC 3.000000 8 CAGDGGGTCTGITCCAADCGCTGGTCGGGCGCTGGTTGTAAAACGCCGGCACACGTCCACATCCCGAATC 4.000000 9 CAGDGGGTCTGITCCAADCGCTGATCGGGCGCTGGTTGTAAAACGCCGGCACACGTCCACATCCCGAACC 6.000000 10 CAGDGGGTCTGITCCGGICGCCGGTAGGACGCCGGCCATGGCGCACTAGCACACCTCCACGCCTCGAACC 1.000000 11 CAGDGGGTTCGICCCAAITGCTGGTCGAGCGCCGGTTGTAAAACGCCGGCACACGAGCACGCCTCGAACC 1.000000 12 CAGDGGGTTTGITCCAADCGCTGGTCGGGCGCCGGCCATGGCGCACTAGCACACCTCCACGCCTCGATCC 1.000000 13 CAGDGGGTTTGITCCAADCGCTGGTCGGGCGCTGGTTGTAAAACGCCGGCACACGTCCACATCCCGAATC 2.000000 14 CAGDGGGACTGITCCAADCGCTGGTCGGGCGCTGGTTGTAAAACGCCGGCACACGTCTACGCCTCAATCC 2.000000 15 CAGDGGGACTGITCCAADCGCTGGGCGGGCGCTGGTTGTAAAACGCCGGCACACGTCTACGCCTCGAACC 1.000000 16 CAGDTCCTCCGICCCGGICGCCGGTAGGATGCCGGCCATGGCGCACTAGCACACCTCCACGCCTCGAACC 1.000000 17 CAGDTCCTCCGICCCGAICGCCGGTAGGATGCCGGCCATGGCGCACTAGCACACCTCCACGCCTCGAACC 1.000000 18 CAGDTCCTCTGICCCAGICGCTGGTCAGGTGCCGACTGCAAAACACCGACAAGAGTCCACGCCTCGAACC 1.000000 19 CAGDTCCTCTGICCCGGICGCCGGTAGGATGCCGGCCATGGCGCACTAGCACACCTCCACGCCTCGAACC 3.000000 20 CAGDTCCTCTGICCCGGICGCCGGTAGGATGCCGGCCATGGCGCACTAGCACACCTCCGCGCCTCGAACC 5.000000 21 CAGDTCCTCTGICCCGGICGCCGGTAGGATGCCGGCCATGGCGCACTAGCACACCTCCGCATCCCGAATC 1.000000 22 CAGDTCCTCTGICGCGGICGCCGGTAGGATGCCGGCCATGGCGCACTAGCACACCTCCACGCCTCGAACC 2.000000 23 CAGDTCCTCTGICGCGGICGCCGGTAGGATGCCGGCCATGGCGCAGTAGCACACCTCCGCGCCTCGAACC 2.000000 24 CAGDTCCTCTGITCCAADCGCTGGTCGGGCACCGGCCATGGCGCAGTAGCACACCTCCGCGCCTCGAACC 1.000000 25 CAGDTCGTCTGICCCAGICGCTGGTCAGGTGGCAACTGCAAAACACCGACAAGAGTCCATGCCTCGAACC 1.000000 26 CAGDTCGTCTGICCTGAICCTCGGTAGGATGCCGACTGTGAAACGCCGGCGCGCGTCCACATCCCGAATC 1.000000 27 CAGDTCGTCTGICCTGAICCTCGGTAGGATGCCGACTGTGAAACGCCGGCGCGCGTCTACATCCCGAATC 1.000000 28 CAGDTCGTTTAICCCAGICGCTGGTCAGGTGCCGACTGTAAAACACCGACACGAGTCCACGCCTCAATCC 1.000000 29 CAGDTGCTCTGITCCAADCGCTGGTCGGGCGCCGGCCATGGCGCACTAGCACACCTCCACGCCTCGAACC 1.000000 30 CAADGGGTCTGITCCAAICGCTGGTCAGGTGCCGACCATGAAACGCCGGCACAAGTCCACGCCTCGTACC 1.000000 31 CGGDGGGTCTGICCCAGICGCTGGTCAGGTGGCAACTGCAAAACACCGACAAGAGTCCATGCCTCGAACC 1.000000 32 CGGDGGGTCTGITCCAADCGCTGGTCGGGCGCTGGTTGTAAAACGCCGGCACACGTCCACATCCCGAATC 1.000000 33 CGGDGGGACCGICCTGAICCTCGGTCAGGTGCCGACTGTGAAACGCCAGAGCGCCTCCACGCCTCGTACC 3.000000 34 CGGDGGGACCGITCTGAITGCTGGTCAGGTGCCGACCATGAAACGCCGGCACGCGTCCACATCCCGAATC 1.000000 35 CGGIGGGTCCGICCCAAITGCTGGTCGAACGCCGGTTGTAAAACGCCGGCACACGAGCACGCCTCGATCC 1.000000 36 CGGIGGGTCTGITCTGAITCTTCGGAGGACGCCGGTTGTAAAACGCCGGCACACGTCCACATTTCGAACT 3.000000 37 CGGIGGGTTTGICCCAADCGCTGGTCGGGCGCTGGTTGTAAAACGCCGGCACACGTCCACATCTCGAACC 1.000000 38 CGADGGGTCTGITCCAADCGCTGGTCGGGCGCCGGCCATGGCGCACTAGCACACCTCCACGCCTCGAACC 1.000000 39 CGADGGGTCTGDCCTAGICGCTGGTCAGGTGCCGGCTGTGAAACGCCGGCACACGTCCACGCCTCGAACC 2.000000 40 CGADGGGTCTGDCCTGAICCTCGGTAGGATGCCGACTGTGAAACGCCGGCGCGCGTCTACATCCCGAATC 1.000000 41 CGADGGGTCTAICCCAGICGCTGGTCAGGTGCCGACTGCAAAACACCGACAAGAGTCCACGCCTCGAACC 1.000000 42 CGADGGGTCTADCCTAGICGCTGGTCAGGTGCCGGCTGTGAAACGCCGGCACACGTCCACGCCTCGAACC 1.000000 43 CGADGGGACTGDCCCAGITGCTGGTCGAGCGCCGGTTGTAAAACGCCGGCACACGAGCACGCCTCGATCC 1.000000 44 CGADGGGACTGDTCTGAITCTTCGGAGGACGCCGGTTGTAAAACGCCGGCACACGTCCACATTTCGAACT 1.000000 45 TGGDGGGTCTGICCCAAITGCTGGTCGGATGCCGGCCATGAAATGCCGGCACACGAGCACATCTTGAACC 2.000000 46 TGGDGGGTCTGICCCAAITGCTGGTCGGGTGCCGGCCATGAAATGCCGGCACACGAGCACATCTTGAACC 2.000000 47 TGGDGGGTCTGICCCAAITGCTGGTCGGGTGCCGGCCATGAAATGCCGGCACACGAGCACATCCTGAACC 2.000000 48 TGGDGGGTCTGITCCAADCGCTGGTCGGGTACCGGCCATGGCGCACTAGCACACCTCCACGCCTCGAACC 1.000000 49 TGGDGGGTCTGITCCAADCGCTGGTCGGGCACCGGCCATGGCGCACTAGCACACCTCCACGCCTCGAACC 2.000000 50 TGGDGGGTCTGITCCGGICGCCGGTAGGATGCCGGCCATGGCGCACTAGCACACCTCCGCGCCTCGAACC 1.000000 51 TGGDGGGTTTGICCCAAITGCTGGTCGGGTGCCGGCCATGAAATGCCGGCACACCTCCACGCCTCGAACC 1.000000 52 TGGDGGGTTTGICCCAAITGCTGGTCGGGTGCCGGCCATGGCGCGCCGGCACACGAGCACATCTTGAACC 1.000000 53 TGGDGGGTTTGICCCAADTGCTGGTCGGGTGCCGGCCATGAAATGCCGGCACACGAGCACATCTTGAACC 1.000000 END LIST_SUMMARY Summary of best reconstruction (numbers refer to the list of haplotypes given above) BEGIN BESTPAIRS_SUMMARY D001: (3,16) D002: (6,19) D003: (6,34) D004: (33,51) D005: (14,26) D006: (4,5) D007: (33,46) D008: (38,42) D009: (1,18) D010: (15,32) D011: (8,25) D012: (11,43) D013: (36,36) D014: (39,45) D015: (36,44) D016: (6,17) D033: (4,30) D034: (6,40) D035: (28,41) D036: (9,35) D037: (8,31) D038: (9,14) D039: (27,37) D040: (2,33) E001: (19,20) E002: (6,49) E003: (9,20) E004: (9,49) E005: (9,53) E006: (6,47) E007: (7,24) E008: (23,52) E009: (7,8) E010: (13,46) E011: (10,47) E012: (20,23) E013: (8,20) E014: (22,50) E015: (7,13) E016: (9,19) E017: (12,29) E018: (6,20) E019: (39,48) E020: (6,6) E021: (2,21) E022: (22,45) E023: (2,6) END BESTPAIRS_SUMMARY Haplotype estimates for each individual, with uncertain phases enclosed in () and uncertain genotypes enclosed in []: BEGIN BESTPAIRS1 0 D001 C A G D (G) (G) (G) T C T G I C C C A G I C G C T G G T C A G G T G G C A A C T G C A A A A C A C C G A C A A G A G T C C A T G C C T C G A A C C C A G D (T) (C) (C) T C C G I C C C G G I C G C C G G T A G G A T G C C G G C C A T G G C G C A C T A G C A C A C C T C C A C G C C T C G A A C C 0 D002 C A G D G G G T C T G I T C C A A D C G C T G G T C G G G C G C C G G C C A T G G C G C A C T A G C A C A C C T C C A C G C C T C G A A C C C A G D T C C T C T G I C C C G G I C G C C G G T A G G A T G C C G G C C A T G G C G C A C T A G C A C A C C T C C A C G C C T C G A A C C 0 D003 C (A) G D G G G (T) C (T) G I T C (C) (A) A (D) (C) G C T G G T C (G) G G (C) G C C G G C C A T G G C G C A C T A G C A C (A) C C T C C A C G C C T C G A A C C C (G) G D G G G (A) C (C) G I T C (T) (G) A (I) (T) G C T G G T C (A) G G (T) G C C G A C C A T G A A A C G C C G G C A C (G) C G T C C A C A T C C C G A A T C 0 D004 C G G D G G G A C C G I C C T G A I C C T C G G T C A G G T G C C G A C T G T G A A A C G C C A G A G C G C C T C C A C G C C T C G T A C C T G G D G G G T T T G I C C C A A I T G C T G G T C G G G T G C C G G C C A T G [A] [A] [A] T G C C G G C A C A C C T C C A C G C C T C G A A C C 0 D005 C A G D (G) (G) G A C T G I T C C A A D C G C T G G T C G G G C G C T G G T T G T A A A A C G C C G G C A C A C G T C (T) A C G C C T C A A T C C C A G D (T) (C) G T C T G I C C T G A I C C T C G G T A G G A T G C C G A C T G T G A A A C G C C G G C G C G C G T C (C) A C A T C C C G A A T C 0 D006 C A G D G G G T C T G I C C C G G I C G C C G G T A G G A T G C C G G C C A T G G C G C A C T A G C A C A C C T C C A C G C C T C G A T C C C A G D G G G T C T G I C C T G A I C C T C G G T A G G A T G C C G A C T G T G A A A C G C C G G C G C G C G T C T A C A T C C C G A A T C 0 D007 C G G D G G G A C C G I C C T G A I C C T C G G T C A G G T G C C G A C T G T G A A A C G C C A G A G C G C C T C C A C G C C T C G T A C C T G G D G G G T C T G I C C C A A I T G C T G G T C G G G T G C C G G C C A T G A A A T G C C G G C A C A C G A G C A C A T C T T G A A C C 0 D008 C [G] A D G G G T C T G I T C C A A D C G C T G G T C G G G C G C C G G C C A T G G C G C A C T A G C A C A C C T C C A C G C C T C G A A C C C G A D G G G T C T A D C C T A G I C G C T G G T C A G G T G C C G G C T G T G A A A C G C C G G C A C A C G T C C A C G C C T C G A A C C 0 D009 C A G D (G) G C T C T G I T C C A A D C G C T G G T C G G (A) C G C C G G C C A T G G C G C A C T A G C A C A C C T C C A C G C C T C G A A C C C A G D (T) C C T C T G I C C C A G I C G C T G G T C A G (G) T G C C G A C T G C A A A A C A C C G A C A A G A G T C C A C G C C T C G A A C C 0 D010 C (A) G D G G G A C T G I T C C A A D C G C T G G (G) C G G G C G C T G G T T G T A A A A C G C C G G C A C A C G T C (T) A C G C C T C G A A C C C (G) G D G G G T C T G I T C C A A D C G C T G G (T) C G G G C G C T G G T T G T A A A A C G C C G G C A C A C G T C (C) A C A T C C C G A A T C 0 D011 C A G D (G) (G) G T C T G I T C C A A D C G C T G G T C G G G C G C T G G T T G T A A A A C G C C G G C A C A C G T C C A C A T C C C G A A T C C A G D (T) (C) G T C T G I C C C A G I C G C T G G T C A G G T G G C A A C T G C A A A A C A C C G A C A A G A G T C C A T G C C T C G A A C C 0 D012 C A G D G G G T (T) C G I C C C A (A) I T G C T G G T C G A G C G C C G G T T G T A A A A C G C C G G C A C A C G A G C A C G C C T C G A (A) C C C G A D G G G A (C) T G D C C C A (G) I T G C T G G T C G A G C G C C G G T T G T A A A A C G C C G G C A C A C G A G C A C G C C T C G A (T) C C 0 D013 C G G I G G G T C T G I T C T G A I T C T T C G G A G G A C G C C G G T T G T A A A A C G C C G G C A C A C G T C C A C A T T T C G A A C T C G G I G G G T C T G I T C T G A I T C T T C G G A G G A C G C C G G T T G T A A A A C G C C G G C A C A C G T C C A C A T T T C G A A C T 0 D014 C G A D G G G T C T G D C C T A G I C G C T G G T C A G G T G C C G G C T G T G A A A C G C C G G C A C A C G T C C A C G C C T C G A A C C T G G D G G G T C T G I C C C A A I T G C T G G T C G G A T G C C G G C C A T G A A A T G C C G G C A C A C G A G C A C A T C T T G A A C C 0 D015 C G G I G G G T C T G I T C T G A I T C T T C G G A G G A C G C C G G T T G T A A A A C G C C G G C A C A C G T C C A C A T T T C G A A C T C G A D G G G A C T G D [T] C T G A I T C T T C G G A G G A C G C C G G T T G T A A A A C G C C G G C A C A C G T C C A C A T T T C G A A C T 0 D016 C A G D (G) (G) (G) T C T G I T C C A A D C G C T G G T C G G G C G C C G G C C A T G G C G C A C T A G C A C A C C T C C A C G C C T C G A A C C C A G D (T) (C) (C) T C C G I C C C G A I C G C C G G T A G G A T G C C G G C C A T G G C G C A C T A G C A C A C C T C C A C G C C T C G A A C C 0 D033 C A G D G G G T C T G I [C] C C [G] [G] [I] C G C [C] G G T [A] G G [A] [T] G C C G G C C A T G G C G C A C T A G C A C A C C T C C A C G C C T C G A T C C C A A D G G G T C T G I T C [C] [A] A [I] [C] G C T G G T C [A] G G [T] G C C G A C C A T G A A A C G C C G G C A C A A G T C C A C G C C T C G T A C C 0 D034 C (A) (G) D G G G T C T G (I) T C C A A D C G C T G G T C G G G C G C C G G C C A T G G C G C A C T A G C A C A C C T C C A C G C C T C G A A C C C (G) (A) D G G G T C T G (D) C C T G A I C C T C G G T A G G A T G C C G A C T G T G A A A C G C C G G C G C G C G T C T A C A T C C C G A A T C 0 D035 C A G D T C G T (T) T A I C C C A G I C G C T G G T C A G G T G C C G A C T G (T) A A A A C A C C G A C A (C) G A G T C C A C G C C T C (A) A (T) C C C G A D G G G T (C) T A I C C C A G I C G C T G G T C A G G T G C C G A C T G (C) A A A A C A C C G A C A (A) G A G T C C A C G C C T C (G) A (A) C C 0 D036 C (A) G (D) G G G T C T G I T C C A A D C G C T G A T C G G (G) C G C T G G T T G T A A A A C G C C G G C A C A C G T C C A C A T C C C G A A C C C (G) G (I) G G G T C C G I C C C A A I T G C T G G T C G A (A) C G C C G G T T G T A A A A C G C C G G C A C A C G A G C A C G C C T C G A T C C 0 D037 C (A) G D G G G T C T G I T C C A A D C G C T G G T C G G G C G C T G G T T G T A A A A C G C C G G C A C A C G T C C A C A T C C C G A A T C C (G) G D G G G T C T G I C C C A G I C G C T G G T C A G G T G G C A A C T G C A A A A C A C C G A C A A G A G T C C A T G C C T C G A A C C 0 D038 C A G D G G G T C T G I T C C A A D C G C T G A T C G G G C G C T G G T T G T A A A A C G C C G G C A C A C G T C (C) A C A T C C C G A A C C C A G D G G G A C T G I T C C A A D C G C T G G T C G G G C G C T G G T T G T A A A A C G C C G G C A C A C G T C (T) A C G C C T C A A T C C 0 D039 C (A) G (D) (T) (C) G T (C) T G I C C T G A I C C T C G G T A G G A T G C C G A C T G T G A A A C G C C G G C G C G C G T C T A C A T C (C) C G A A (T) C C (G) G (I) (G) (G) G T (T) T G I C C C A A D C G C T G G T C G G G C G C T G G T T G T A A A A C G C C G G C A C A C G T C C A C A T C (T) C G A A (C) C 0 D040 C A G D [G] [G] [G] T C C G I C C C G G I C G C C G G T A G G A T G C C G G C C A T G G C G C A C T A G C A C A C C T C C A C G C C T C G A A C C C G G D G G G A C C G I C C T G A I C C T C G G T C A G G T G C C G A C T G T G A A A C G C C A G A G C G C C T C C A C G C C T C G T A C C 0 E001 C A G D T C C T C T G I C C C G G I C G C C G G T A G G A T G C C G G C C A T G G C G C A C T A G C A C A C C T C C A C G C C T C G A A C C C A G D T C C T C T G I C C C G G I C G C C G G T A G G A T G C C G G C C A T G G C G C A C T A G C A C A C C T C C G C G C C T C G A A C C 0 E002 C A G D G G G T C T G I T C C A A D C G C T G G T C G G G C G C C G G C C A T G G C G C A C T A G C A C A C C T C C A C G C C T C G A A C C T G G D G G G T C T G I T C C A A D C G C T G G T C G G G C A C C G G C C A T G G C G C A C T A G C A C A C C T C C A C G C C T C G A A C C 0 E003 C A G D G G G T C T G I T C C A A D C G C T G A T C G G G C G C T G G T T G T A A A A C G C C G G C A C A C G T C C A C A T C C C G A A C C C A G D T C C T C T G I C C C G G I C G C C G G T A G G A T G C C G G C C A T G G C G C A C T A G C A C A C C T C C G C G C C T C G A A C C 0 E004 C A G D G G G T C T G I T C C A A D C G C T G A T C G G G C G C T G G T T G T A A A A C G C C G G C A C A C G T C C A C A T C C C G A A C C T G G D G G G T C T G I T C C A A D C G C T G G T C G G G C A C C G G C C A T G G C G C A C T A G C A C A C C T C C A C G C C T C G A A C C 0 E005 C A G D G G G T (C) T G I T C C A A D C G C T G A T C G G G C G C T G G T T G T A A A A C G C C G G C A C A C G T C C A C A T C C C G A A C C T G G D G G G T (T) T G I C C C A A D T G C T G G T C G G G T G C C G G C C A T G A A A T G C C G G C A C A C G A G C A C A T C T T G A A C C 0 E006 C A G D G G G T C T G I T C C A A D C G C T G G T C G G G C G C C G G C C A T G G C G C A C T A G C A C A C C T C C A C G C C (T) C G A A C C T G G D G G G T C T G I C C C A A I T G C T G G T C G G G T G C C G G C C A T G A A A T G C C G G C A C A C G A G C A C A T C (C) T G A A C C 0 E007 C A G D (G) (G) (G) T C T G I T C C A A D C G C T G G T C G G G C G C T G G T T G T A A A A C G C C G G C A C A C G T C C A C A T C C C G A A C C C A G D (T) (C) (C) T C T G I T C C A A D C G C T G G T C G G G C A C C G G C C A T G G C G C A G T A G C A C A C C T C C G C G C C T C G A A C C 0 E008 C A G D T C C T C T G I C G C G G I C G C C G G T A G G A T G C C G G C C A T G G C G C A [G] T A G C A C A C C T C C G C G C C T C G A A C C T G G D G G G T T T G I C C C A A I T G C T G G T C G G G T G C C G G C C A T G G C G [C] [G] C C G G C A C A C [G] [A] [G] C A C [A] [T] C T T G A A C C 0 E009 C A G D G G G T C T G I T C C A A D C G C T G G T C G G G C G C T G G T T G T A A A A C G C C G G C A C A C G T C C A C A T C C C G A A C C C A G D G G G T C T G I T C C A A D C G C T G G T C G G G C G C T G G T T G T A A A A C G C C G G C A C A C G T C C A C A T C C C G A A T C 0 E010 C A G D G G G T T T G I T C C A A D C G C T G G T C G G G C G C T G G T T G T A A A A C G C C G G C A C A C G T C C A C A T C C C G A A T C T G G D G G G T C T G I C C C A A I T G C T G G T C G G G T G C C G G C C A T G A A A T G C C G G C A C A C G A G C A C A T C T T G A A C C 0 E011 (C) (A) G D G G G T C T G I T C C G G I C G C C G G T A G G A (C) G C C G G C C A T G G C G C A C T A G C A C A C C T C C A C G C C (T) C G A A C C (T) (G) G D G G G T C T G I C C C A A I T G C T G G T C G G G (T) G C C G G C C A T G A A A T G C C G G C A C A C G A G C A C A T C (C) T G A A C C 0 E012 C A G D T C C T C T G I C (C) C G G I C G C C G G T A G G A T G C C G G C C A T G G C G C A C T A G C A C A C C T C C G C G C C T C G A A C C C A G D T C C T C T G I C (G) C G G I C G C C G G T A G G A T G C C G G C C A T G G C G C A G T A G C A C A C C T C C G C G C C T C G A A C C 0 E013 C A G D G G G T C T G I T C C A A D C G C T G G T C G G G C G C T G G T T G T A A A A C G C C G G C A C A C G T C C A C A T C C C G A A T C C A G D T C C T C T G I C C C G G I C G C C G G T A G G A T G C C G G C C A T G G C G C A C T A G C A C A C C T C C G C G C C T C G A A C C 0 E014 C A G D T C C T C T G I C (G) C G G I C G C C G G T A G G A T G C C G G C C A T G G C G C A C T A G C A C A C C T C C (A) C G C C T C G A A C C T G G D G G G T C T G I T (C) C G G I C G C C G G T A G G A T G C C G G C C A T G G C G C A C T A G C A C A C C T C C (G) C G C C T C G A A C C 0 E015 C A G D G G G T C T G I T C C A A D C G C T G G T C G G G C G C T G G T T G T A A A A C G C C G G C A C A C G T C C A C A T C C C G A A C C C A G D G G G T T T G I T C C A A D C G C T G G T C G G G C G C T G G T T G T A A A A C G C C G G C A C A C G T C C A C A T C C C G A A T C 0 E016 C A G D G G G T C T G I T C C A A D C G C T G A T C G G G C G C T G G T T G T A A A A C G C C G G C A C A C G T C C A C A T C C C G A A C C C A G D [T] [C] [C] T C T G I C C C G G I C G C C G G T A G G A T G C C G G C C A T G G C G C A C T A G C A C A C C T C C A C G C C T C G A [A] C C 0 E017 C A G D (G) G (G) T (T) T G I T C C A A D C G C T G G T C G G G C G C C G G C C A T G G C G C A C T A G C A C A C C T C C A C G C C T C G A (T) C C C A G D (T) G (C) T (C) T G I T C C A A D C G C T G G T C G G G C G C C G G C C A T G G C G C A C T A G C A C A C C T C C A C G C C T C G A (A) C C 0 E018 C A G D G G G T C T G I T C C A A D C G C T G G T C G G G C G C C G G C C A T G G C G C A C T A G C A C A C C T C C A C G C C T C G A A C C C A G D T C C T C T G I C C C G G I C G C C G G T A G G A T G C C G G C C A T G G C G C A C T A G C A C A C C T C C G C G C C T C G A A C C 0 E019 C G A D G G G T C T G D C C T A G I C G C T G G T C A G G T G C C G G C T G T G A A A C G C C G G C A C A C G T C C A C G C C T C G A A C C T G G D G G G T C T G I T C C A A D C G C T G G T C G G G T A C C G G C C A T G G C G C A C T A G C A C A C C T C C A C G C C T C G A A C C 0 E020 C A G D G G G T C T G I T C C A A D C G C T G G T C G G G C G C C G G C C A T G G C G C A C T A G C A C A C C T C C A C G C C T C G A A C C C A G D G G G T C T G I T C C A A D C G C T G G T C G G G C G C C G G C C A T G G C G C A C T A G C A C A C C T C C A C G C C T C G A A C C 0 E021 C A G D [G] [G] [G] T C C G I C C C G G I C G C C G G T A G G A T G C C G G C C A T G G C G C A C T A G C A C A C C T C C A C G C C T C G A A C C C A G D T C C T C T G I C C C G G I C G C C G G T A G G A T G C C G G C C A T G G C G C A C T A G C A C A C C T C C G C A T C C C G A A [T] C 0 E022 C A G D T C C T C T G I C G C G G I C G C C G G T A G G A T G C C G G C C A T G G C G C A C T A G C A C A C C T C C A C G C C T C G A A C C T G G D G G G T C T G I C C C A A I T G C T G G T C G G A T G C C G G C C A T G A A A T G C C G G C A C A C G A G C A C A T C T T G A A C C 0 E023 C A G D [G] [G] [G] T C C G I C C C G G I C G C C G G T A G G A T G C C G G C C A T G G C G C A C T A G C A C A C C T C C A C G C C T C G A A C C C A G D G G [G] T C T G I T C C A A D C G C T G G T C G G G C G C C G G C C A T G G C G C A C T A G C A C A C C T C C A C G C C T C G A A C C END BESTPAIRS1 Haplotype estimates for each individual, with uncertain phases enclosed in () and uncertain genotypes enclosed in [] with phase known positions indicated by = BEGIN BESTPAIRS2 0 D001 ? = = = (G) (G) (G) = = T = = = = = A = = = = = T = = = C A = G = = G = A A = T G C A A A A = = = C G A = = A G ? ? = = = = T = = = = = = = = = = ? = = = (T) (C) (C) = = C = = = = = G = = = = = C = = = A G = A = = C = G G = C A T G G C G = = = T A G = = C A ? ? = = = = C = = = = = = = = = = 0 D002 = = = = G G G = = = = = T = = A A D = = = T = = = C = = G C = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = T C C = = = = = C = = G G I = = = C = = = A = = A T = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 D003 = (A) = = = = = (T) = (T) = = = = (C) (A) = (D) (C) = = = = = = = (G) = = (C) = = = = G = = = = = G C G = A = T ? ? = = = (A) = C = = = = = G C = T = = = = C = = (G) = = = = = (A) = (C) = = = = (T) (G) = (I) (T) = = = = = = = (A) = = (T) = = = = A = = = = = A A A = G = C ? ? = = = (G) = G = = = = = A T = C = = = = T = 0 D004 C = = = = = = A C C = = = = T G = = C C T C = = = = A = = = = = = = A ? ? ? ? ? ? ? ? C = = = A = A G = G = = = = = = = = = = = = = T = = = T = = = = = = T T T = = = = C A = = T G C T = = = = G = = = = = = = G ? ? ? ? ? ? ? ? T = = = G = C A = A = = = = = = = = = = = = = A = = = 0 D005 = = = = (G) (G) = A = = = = T = C A = D = G C T = = = C = = G C = = T = G T = = = A = = = = = = = = = = A = A = = = = (T) = = G C = T = A = T C = = = = = (T) (C) = T = = = = C = T G = I = C T C = = = A = = A T = = C = A C = = = G = = = = = = = = = = G = G = = = = (C) = = A T = C = G = A T = 0 D006 = = = = = = = = = = = = = = C = G = = G C = = = = = = = = = = = = = G = C A = = G C G = A = T A = = A = A = C = = C = = G C = T = = = T C = = = = = = = = = = = = = = = T = A = = C T = = = = = = = = = = = = = A = T G = = A A A = G = C G = = G = G = G = = T = = A T = C = = = A T = 0 D007 C = = = = = = A = C = = = = T G = = C C T C = = = = A = = = = = = = A = T G = = = = = C = = = A = A G = G = C T C = = = G C = = C = T = = = T = = = = = = T = T = = = = C A = = T G C T = = = = G = = = = = = = G = C A = = = = = T = = = G = C A = A = G A G = = = A T = = T = A = = = 0 D008 ? ? = = = = = = = = G I ? = C = A D = = = = = = = = G = = C = = = = = = C A = = G C G = A = T A = = = = = = C = = = = = = = = = = = = = = = ? ? = = = = = = = = A D ? = T = G I = = = = = = = = A = = T = = = = = = T G = = A A A = G = C G = = = = = = G = = = = = = = = = = = = = = = 0 D009 = = = = (G) G = = = = = = T = = = A D = = = = = = = = G = (A) C = = = = G = C A T G G C G = = = T A G = = C A C C = = = = = = = = = = = = = = = = = = = (T) C = = = = = = C = = = G I = = = = = = = = A = (G) T = = = = A = T G C A A A A = = = C G A = = A G A G = = = = = = = = = = = = = = = 0 D010 = (A) = = = = = A = = = = = = = = = = = = = = = = (G) = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = (T) = = G C = T = = = = C = = (G) = = = = = T = = = = = = = = = = = = = = = = (T) = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = (C) = = A T = C = = = = T = 0 D011 = = = = (G) (G) = = = = = = T = = = A D = = = = = = = = G = = C = C T G G T = = T = = = = = G = = = G = = C A C = = = = = C A T = C = = = = T = = = = = (T) (C) = = = = = = C = = = G I = = = = = = = = A = = T = G C A A C = = C = = = = = A = = = A = = A G A = = = = = T G C = T = = = = C = 0 D012 = A G = = = = T (T) C = I ? = = = (A) = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = (A) = = = G A = = = = A (C) T = D ? = = = (G) = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = (T) = = 0 D013 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 D014 C = A = = = = = = = = D ? = T = G = C = = = = = = = A = G = = = = = = = T G = = = = = C = = = = = = = = = = = T C = = = G C = = C = = = = = T = G = = = = = = = = I ? = C = A = T = = = = = = = G = A = = = = = = = C A = = = = = T = = = = = = = = = = = A G = = = A T = = T = = = = = 0 D015 = = G I = = = T = = = I ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = A D = = = A = = = D ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 D016 = = = = (G) (G) (G) = = T = = T = = A = D = = = T = = = C = = G C = = = = = = = = = = = = = = = = = = = = ? ? ? = = ? ? ? = = = = = = = = ? ? = = = = = = (T) (C) (C) = = C = = C = = G = I = = = C = = = A = = A T = = = = = = = = = = = = = = = = = = = = ? ? ? = = ? ? ? = = = = = = = = ? ? = = 0 D033 = = G = = = = = = ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? = = = G = = = = = G C G = A = T A = = = = = C C = = = = = = = = = = = A T = = = = A = = = = = = ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? = = = A = = = = = A A A = G = C G = = = = = A G = = = = = = = = = = = T A = = 0 D034 = (A) (G) = = = = = = = = (I) T = C A = D = G C T = = = C = = G C = = = = G = C A = = G C G = A = T A = = A = A = C = = C = = G C = T = = = = C = = (G) (A) = = = = = = = = (D) C = T G = I = C T C = = = A = = A T = = = = A = T G = = A A A = G = C G = = G = G = G = = T = = A T = C = = = = T = 0 D035 = A G = T C = = (T) = = = = = = = = = = = = = = = = = = = = = = = = = = = = = (T) = = = = = = = = = = = = (C) = = = = = = = = = = = = = (A) = (T) = = = G A = G G = = (C) = = = = = = = = = = = = = = = = = = = = = = = = = = = = = (C) = = = = = = = = = = = = (A) = = = = = = = = = = = = = (G) = (A) = = 0 D036 = (A) = (D) = = = = = T = = T = = = = D C = = = = A = = = G (G) = = = T = = = = = = = = = = = = = = = = = = = = = = T C = = = A T = C = = = A ? ? = (G) = (I) = = = = = C = = C = = = = I T = = = = G = = = A (A) = = = C = = = = = = = = = = = = = = = = = = = = = = A G = = = G C = T = = = T ? ? 0 D037 = (A) = = = = = = = = = = T = = = A D = = = = = = = = G = = C = C T G G T = = T = = = = = G = = = G = = C A C = = = = = C A T = C = = = = T = = (G) = = = = = = = = = = C = = = G I = = = = = = = = A = = T = G C A A C = = C = = = = = A = = = A = = A G A = = = = = T G C = T = = = = C = 0 D038 ? ? = = = = = T = = = = = = = = = = = = = = = A = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = (C) = = A T = C = G = A ? = ? ? = = = = = A = = = = = = = = = = = = = = = G = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = (T) = = G C = T = A = T ? = 0 D039 = (A) = (D) (T) (C) = = (C) = = = = = T G = I = C T C = = = A = = A T = = C = A C = = = G = = = = = = = = = = G = G = = = = T = = = = = (C) = = = = (T) = = (G) = (I) (G) (G) = = (T) = = = = = C A = D = G C T = = = C = = G C = = T = G T = = = A = = = = = = = = = = A = A = = = = C = = = = = (T) = = = = (C) = 0 D040 = A ? ? ? ? ? ? = = = = = = C = G = = G C = = = = A G = A = = = = = G = C A = = G C G ? ? ? T = = C ? ? ? = = ? ? ? = ? ? ? ? ? = = ? ? = = = G ? ? ? ? ? ? = = = = = = T = A = = C T = = = = C A = G = = = = = A = T G = = A A A ? ? ? C = = A ? ? ? = = ? ? ? = ? ? ? ? ? = = ? ? = = 0 E001 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = A = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = G = = = = = = = = = = = 0 E002 ? A = = = = = = = = = = = = = = = = = = = = = = = = = = = = G = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? G = = = = = = = = = = = = = = = = = = = = = = = = = = = = A = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 E003 = ? = = G G G = = = = = T = = A A D = = = T = A = C = = G C = = T = = T T G = A A A A = G = C G = = = = = = G = = = A = A T = C = = = = = = = ? = = T C C = = = = = C = = G G I = = = C = G = A = = A T = = C = = C C A = G G C G = A = T A = = = = = = C = = = G = G C = T = = = = = = 0 E004 C A = = = = = = = = = = = = = = = = = = = = = A = = = = = = G = T ? ? T T G = A A A A = G = C G = = = = = = G = = = = = A T = C = = = = = = T G = = = = = = = = = = = = = = = = = = = = = G = = = = = = A = C ? ? C C A = G G C G = A = T A = = = = = = C = = = = = G C = T = = = = = = 0 E005 C A = = = = = = (C) = = = T = = = = = C = = = = A = = = = = C = = T = = T T G = A = ? ? C = = = = = = = = = = = T C = = = = = = C C = = = = = T G = = = = = = (T) = = = C = = = = = T = = = = G = = = = = T = = C = = C C A = G = ? ? T = = = = = = = = = = = A G = = = = = = T T = = = = = 0 E006 C A = = = = = = = = = = T = = = = D ? = = = = = = = = = = C = = = = = = = = = = G C G C A = T A = = = = = = C T C = = = G C = (T) C = = = = = T G = = = = = = = = = = C = = = = I ? = = = = = = = = = = T = = = = = = = = = = A A A T G = C G = = = = = = G A G = = = A T = (C) T = = = = = 0 E007 = = = = (G) (G) (G) = = = = = = = = = = = = = = = = = = = = = = = G = T = = T T G = A A A A = G C C G = = = = = = G = = = A = A T = ? = = = = = = = = = = (T) (C) (C) = = = = = = = = = = = = = = = = = = = = = = = A = C = = C C A = G G C G = A G T A = = = = = = C = = = G = G C = ? = = = = = = 0 E008 C A ? ? ? ? ? ? C = = = = G = G G = C = = C = = = A = = A = = = = = = = = = = = = = = ? ? ? T A = = ? ? ? ? ? ? ? ? G ? ? ? ? = C = ? ? ? ? T G ? ? ? ? ? ? T = = = = C = A A = T = = T = = = C = = G = = = = = = = = = = = = = = ? ? ? C G = = ? ? ? ? ? ? ? ? A ? ? ? ? = T = ? ? ? ? 0 E009 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = C = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = T = 0 E010 C A = = = = = = T = = = T = = = = D C = = = = = = = = = = C = = T = = T T G = A = = = C = = = = = = = = = = = T C = = = = = = C C = = = T = T G = = = = = = C = = = C = = = = I T = = = = = = = = = = T = = C = = C C A = G = = = T = = = = = = = = = = = A G = = = = = = T T = = = C = 0 E011 (C) (A) = = = = = = = = = = T = = G G = C = = C = = = A = = A (C) = = = = = = = = = = G C G C A = T ? ? = = = = = C T C = = = G C = (T) C = = = = = (T) (G) = = = = = = = = = = C = = A A = T = = T = = = C = = G (T) = = = = = = = = = = A A A T G = C ? ? = = = = = G A G = = = A T = (C) T = = = = = 0 E012 = = = = = = = = = = = = = (C) = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = C = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = (G) = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = G = = = = = = = = = = = = = = = = = = = = = = = = 0 E013 = = = = G G G = = = = = T = = A A D = = = T = = = C = = G C = = T = = T T G = A A A A = G = C G = = = = = = G = = = A = A T = C = = = = T = = = = = T C C = = = = = C = = G G I = = = C = = = A = = A T = = C = = C C A = G G C G = A = T A = = = = = = C = = = G = G C = T = = = = C = 0 E014 C A = = T C C = = = = = C (G) = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = (A) = = = = = = = = = = = T G = = G G G = = = = = T (C) = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = (G) = = = = = = = = = = = 0 E015 = = ? ? ? ? ? ? C = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? ? = = = = ? ? ? = = = = = = = = = = = = = = = C = = = ? ? ? ? ? ? T = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? ? = = = = ? ? ? = = = = = = = = = = = = = = = T = 0 E016 = ? ? ? ? ? ? ? = = = = T = = A A D = = = T = A = C = = G C = = T = = T T G = A A A A ? ? ? C G = = ? ? ? = G ? ? ? = ? ? ? ? C = = ? ? ? ? = ? ? ? ? ? ? ? = = = = C = = G G I = = = C = G = A = = A T = = C = = C C A = G G C G ? ? ? T A = = ? ? ? = C ? ? ? = ? ? ? ? T = = ? ? ? ? 0 E017 = = = = (G) = (G) = (T) = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = (T) = = = = = = (T) = (C) = (C) = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = (A) = = 0 E018 = = = = G G G = = = = = T = = A A D = = = T = = = C = = G C = = = = = = = = = = = = = = = = = = = = = = = ? ? = = = A = = = = = = = = = = = = = = = T C C = = = = = C = = G G I = = = C = = = A = = A T = = = = = = = = = = = = = = = = = = = = = = = ? ? = = = G = = = = = = = = = = = 0 E019 C = A = = = = = = = = D C = T = G I = = = = = = = = A = = = G = = = = = T G = = A A A = G = C ? ? = = = = = G = = = = = = = = = = = = = ? ? T = G = = = = = = = = I T = C = A D = = = = = = = = G = = = A = = = = = C A = = G C G = A = T ? ? = = = = = C = = = = = = = = = = = = = ? ? 0 E020 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 E021 = = ? ? ? ? ? ? = C = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? ? = = = = = A = G C = T = = = ? ? ? = = ? ? ? ? ? ? = T = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? ? = = = = = G = A T = C = = = ? ? ? 0 E022 C A = = T C C = = = = = = G = G G = C = = C = = = A = = = = = = = = = = = = = = ? ? G C A = T A = = = = = = C T C = = = G C = = C = = = ? ? T G = = G G G = = = = = = C = A A = T = = T = = = C = = = = = = = = = = = = = = ? ? A T G = C G = = = = = = G A G = = = A T = = T = = = ? ? 0 E023 = = ? ? ? ? ? ? = C = = C = = G G I = = = C = = = A = = A ? ? = = = = = = = = = = = = ? ? ? = = = = ? ? ? = = ? ? ? = ? ? ? ? = = = ? ? ? ? = = ? ? ? ? ? ? = T = = T = = A A D = = = T = = = C = = G ? ? = = = = = = = = = = = = ? ? ? = = = = ? ? ? = = ? ? ? = ? ? ? ? = = = ? ? ? ? END BESTPAIRS2 Phase probabilities at each site with phase known positions indicated by = and missing data positions indicated by ? BEGIN PHASEPROBS ? = = = 0.52 0.52 0.63 = = 0.93 = = = = = 1.00 = = = = = 1.00 = = = 1.00 1.00 = 1.00 = = 1.00 = 1.00 1.00 = 1.00 1.00 1.00 1.00 1.00 1.00 1.00 = = = 1.00 1.00 1.00 = = 1.00 1.00 ? ? = = = = 1.00 = = = = = = = = = = = = = = 0.97 0.97 0.97 = = = = = 1.00 = = 1.00 1.00 1.00 = = = 1.00 = = = 1.00 = = 1.00 1.00 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0.82 = = = = = 0.82 = 0.82 = = = = 0.86 0.86 = 0.86 0.86 = = = = = = = 0.86 = = 0.86 = = = = 1.00 = = = = = 1.00 1.00 1.00 = 1.00 = 1.00 ? ? = = = 0.77 = 1.00 = = = = = 1.00 1.00 = 1.00 = = = = 1.00 = 1.00 = = = = = = 1.00 1.00 1.00 = = = = 1.00 1.00 = = 1.00 1.00 1.00 1.00 = = = = 1.00 = = = = = = = 1.00 ? ? ? ? ? ? ? ? 1.00 = = = 1.00 = 1.00 1.00 = 1.00 = = = = = = = = = = = = = 1.00 = = = = = = = 0.78 0.78 = 0.98 = = = = 1.00 = 1.00 1.00 = 1.00 = 1.00 1.00 1.00 = = = 1.00 = = 1.00 1.00 = = 1.00 = 1.00 1.00 = = = 1.00 = = = = = = = = = = 1.00 = 1.00 = = = = 0.52 = = 0.99 0.99 = 0.99 = 0.99 = 0.99 0.99 = = = = = = = = = = = = = = = 1.00 = 1.00 = = 1.00 1.00 = = = = = = = = = = = = = 1.00 = 1.00 1.00 = = 1.00 1.00 1.00 = 1.00 = 1.00 1.00 = = 1.00 = 1.00 = 1.00 = = 1.00 = = 1.00 1.00 = 1.00 = = = 0.96 1.00 = 1.00 = = = = = = 1.00 = 1.00 = = = = 1.00 1.00 = = 1.00 1.00 1.00 1.00 = = = = 1.00 = = = = = = = 1.00 = 1.00 1.00 = = = = = 1.00 = = = 1.00 = 1.00 1.00 = 1.00 = 1.00 1.00 1.00 = = = 1.00 1.00 = = 1.00 = 1.00 = = = ? ? = = = = = = = = 1.00 1.00 ? = 1.00 = 1.00 1.00 = = = = = = = = 1.00 = = 1.00 = = = = = = 1.00 1.00 = = 1.00 1.00 1.00 = 1.00 = 1.00 1.00 = = = = = = 1.00 = = = = = = = = = = = = = = = = = = = 0.88 0.90 = = = = = = 1.00 = = = 1.00 1.00 = = = = = = = = 1.00 = 0.59 1.00 = = = = 1.00 = 1.00 1.00 0.92 1.00 1.00 1.00 1.00 = = = 1.00 1.00 1.00 = = 1.00 1.00 1.00 1.00 = = = = = = = = = = = = = = = = 0.63 = = = = = 0.94 = = = = = = = = = = = = = = = = 0.50 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0.81 = = 1.00 1.00 = 1.00 = = = = 1.00 = = = = = 0.69 0.69 = = = = = = 1.00 = = = 1.00 1.00 = = = = = = = = 1.00 = = 1.00 = 1.00 1.00 1.00 1.00 1.00 = = 1.00 = = = = = 1.00 = = = 1.00 = = 1.00 1.00 1.00 = = = = = 1.00 1.00 1.00 = 1.00 = = = = 1.00 = = 1.00 1.00 = = = = 0.99 0.80 0.99 = 0.99 ? = = = 0.52 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0.51 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0.99 = 1.00 = = = = = = = = 1.00 ? = 1.00 = 1.00 = 1.00 = = = = = = = 1.00 = 1.00 = = = = = = = 1.00 1.00 = = = = = 1.00 = = = = = = = = = = = 1.00 1.00 = = = 1.00 1.00 = = 1.00 = = = = = = = 1.00 1.00 = = = 0.92 = = = 0.99 ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0.68 0.68 0.70 = = 0.97 = = 1.00 = = 1.00 = 1.00 = = = 1.00 = = = 1.00 = = 1.00 1.00 = = = = = = = = = = = = = = = = = = = = ? ? ? = = ? ? ? = = = = = = = = ? ? = = = = 0.90 = = = = = = ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? = = = 1.00 = = = = = 1.00 1.00 1.00 = 1.00 = 1.00 1.00 = = = = = 1.00 1.00 = = = = = = = = = = = 1.00 0.94 = = = 0.61 0.61 = = = = = = = = 0.64 1.00 = 1.00 1.00 = 1.00 = 1.00 1.00 1.00 = = = 1.00 = = 1.00 1.00 = = = = 1.00 = 1.00 1.00 = = 1.00 1.00 1.00 = 1.00 = 1.00 1.00 = = 1.00 = 1.00 = 1.00 = = 1.00 = = 1.00 1.00 = 1.00 = = = = 1.00 = = 0.95 0.95 = 0.95 0.95 = = 0.73 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0.56 = = = = = = = = = = = = 0.57 = = = = = = = = = = = = = 0.56 = 0.56 = = = 0.61 = 0.61 = = = = = 0.90 = = 1.00 = = = = 1.00 1.00 = = = = 1.00 = = = 1.00 0.54 = = = 1.00 = = = = = = = = = = = = = = = = = = = = = = 1.00 1.00 = = = 1.00 1.00 = 1.00 = = = 1.00 ? ? = 0.55 = = = = = = = = = = 1.00 = = = 1.00 1.00 = = = = = = = = 1.00 = = 1.00 = 1.00 1.00 1.00 1.00 1.00 = = 1.00 = = = = = 1.00 = = = 1.00 = = 1.00 1.00 1.00 = = = = = 1.00 1.00 1.00 = 1.00 = = = = 1.00 = ? ? = = = = = 1.00 = = = = = = = = = = = = = = = 1.00 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0.72 = = 1.00 1.00 = 1.00 = 1.00 = 1.00 ? = = 0.65 = 0.65 0.65 0.65 = = 0.84 = = = = = 1.00 1.00 = 1.00 = 1.00 1.00 1.00 = = = 1.00 = = 1.00 1.00 = = 1.00 = 1.00 1.00 = = = 1.00 = = = = = = = = = = 1.00 = 1.00 = = = = 1.00 = = = = = 0.59 = = = = 0.61 = = 1.00 ? ? ? ? ? ? = = = = = = 1.00 = 1.00 = = 1.00 1.00 = = = = 1.00 1.00 = 1.00 = = = = = 1.00 = 1.00 1.00 = = 1.00 1.00 1.00 ? ? ? 1.00 = = 1.00 ? ? ? = = ? ? ? = ? ? ? ? ? = = ? ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 1.00 = = = = = = = = = = = ? 0.98 = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0.96 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = = 0.99 0.99 0.99 = = = = = 1.00 = = 1.00 1.00 1.00 = = = 1.00 = 1.00 = 1.00 = = 1.00 1.00 = = 1.00 = = 1.00 1.00 1.00 = 1.00 1.00 1.00 1.00 = 1.00 = 1.00 1.00 = = = = = = 1.00 = = = 1.00 = 1.00 1.00 = 1.00 = = = = = = 0.94 0.94 = = = = = = = = = = = = = = = = = = = = = 1.00 = = = = = = 0.99 = 1.00 ? ? 1.00 1.00 1.00 = 1.00 1.00 1.00 1.00 = 1.00 = 1.00 1.00 = = = = = = 1.00 = = = = = 1.00 1.00 = 1.00 = = = = = = 0.98 0.98 = = = = = = 0.72 = = = 1.00 = = = = = 1.00 = = = = 1.00 = = = = = 1.00 = = 1.00 = = 1.00 1.00 1.00 = 1.00 = ? ? 1.00 = = = = = = = = = = = 1.00 1.00 = = = = = = 1.00 1.00 = = = = = 0.94 0.94 = = = = = = = = = = 1.00 = = = = 1.00 ? = = = = = = = = = = 0.95 = = = = = = = = = = 1.00 1.00 1.00 1.00 1.00 = 1.00 1.00 = = = = = = 1.00 1.00 1.00 = = = 1.00 1.00 = 0.64 1.00 = = = = = = = = = 0.82 0.82 0.82 = = = = = = = = = = = = = = = = = = = = = = = 1.00 = 1.00 = = 1.00 1.00 1.00 = 1.00 1.00 1.00 1.00 = 1.00 0.98 1.00 1.00 = = = = = = 1.00 = = = 1.00 = 1.00 1.00 = ? = = = = = = 1.00 1.00 ? ? ? ? ? ? 1.00 = = = = 1.00 = 1.00 1.00 = 1.00 = = 1.00 = = = 1.00 = = 1.00 = = = = = = = = = = = = = = ? ? ? 1.00 1.00 = = ? ? ? ? ? ? ? ? 1.00 ? ? ? ? = 1.00 = ? ? ? ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 1.00 = 1.00 1.00 = = = = = = 0.91 = = = 1.00 = = = = 1.00 1.00 = = = = = = = = = = 1.00 = = 1.00 = = 1.00 1.00 1.00 = 1.00 = = = 1.00 = = = = = = = = = = = 1.00 1.00 = = = = = = 1.00 1.00 = = = 1.00 = 0.74 0.74 = = = = = = = = = = 0.95 = = 1.00 1.00 = 1.00 = = 1.00 = = = 1.00 = = 1.00 0.88 = = = = = = = = = = 1.00 1.00 1.00 1.00 1.00 = 1.00 ? ? = = = = = 1.00 1.00 1.00 = = = 1.00 1.00 = 0.67 1.00 = = = = = = = = = = = = = = = = = = 0.89 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 1.00 = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0.99 0.99 0.99 = = = = = 1.00 = = 1.00 1.00 1.00 = = = 1.00 = = = 1.00 = = 1.00 1.00 = = 1.00 = = 1.00 1.00 1.00 = 1.00 1.00 1.00 1.00 = 1.00 = 1.00 1.00 = = = = = = 1.00 = = = 1.00 = 0.99 0.99 = 0.99 = = = = 0.99 = 1.00 1.00 = = 1.00 1.00 1.00 = = = = = 0.91 0.77 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0.60 = = = = = = = = = = = = = ? ? ? ? ? ? 1.00 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? ? = = = = ? ? ? = = = = = = = = = = = = = = = 1.00 = = ? ? ? ? ? ? ? = = = = 1.00 = = 1.00 1.00 1.00 = = = 1.00 = 1.00 = 1.00 = = 1.00 1.00 = = 1.00 = = 1.00 1.00 1.00 = 1.00 1.00 1.00 1.00 ? ? ? 1.00 1.00 = = ? ? ? = 1.00 ? ? ? = ? ? ? ? 1.00 = = ? ? ? ? = = = = 0.66 = 0.78 = 0.83 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = 0.79 = = = = = = 0.99 0.99 0.99 = = = = = 1.00 = = 1.00 1.00 1.00 = = = 1.00 = = = 1.00 = = 1.00 1.00 = = = = = = = = = = = = = = = = = = = = = = = ? ? = = = 0.99 = = = = = = = = = = = 0.99 = 1.00 = = = = = = = = 1.00 1.00 = 1.00 = 1.00 1.00 = = = = = = = = 1.00 = = = 0.99 = = = = = 1.00 1.00 = = 1.00 1.00 1.00 = 1.00 = 1.00 ? ? = = = = = 1.00 = = = = = = = = = = = = = ? ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? ? ? ? ? = 0.97 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? ? = = = = = 0.99 = 0.99 0.99 = 0.99 = = = ? ? ? 0.98 0.98 = = 0.98 0.98 0.98 = = = = = = 0.96 = 1.00 1.00 = 1.00 = = 1.00 = = = 1.00 = = = = = = = = = = = = = = ? ? 1.00 1.00 1.00 = 1.00 1.00 = = = = = = 1.00 1.00 1.00 = = = 1.00 1.00 = = 1.00 = = = ? ? = = ? ? ? ? ? ? = 1.00 = = 1.00 = = 1.00 1.00 1.00 = = = 1.00 = = = 1.00 = = 1.00 ? ? = = = = = = = = = = = = ? ? ? = = = = ? ? ? = = ? ? ? = ? ? ? ? = = = ? ? ? ? END PHASEPROBS