************************************************************* **** **** **** Output from PHASE v2.0 **** **** Code by M Stephens, with contributions from N Li **** **** **** ************************************************************* BEGIN COMMAND_LINE /usr/local/genome/lib/phase/PHASE2 -d1 madl2.phase.inp madl2.phase.out END COMMAND_LINE BEGIN OUTFILE_LIST madl2.phase.out_freqs : haplotype frequency estimates madl2.phase.out_pairs : most likely haplotype pairs for each individual madl2.phase.out_recom : estimates of recombination parameters madl2.phase.out_monitor : file for monitoring convergence END OUTFILE_LIST BEGIN INPUT_SUMMARY Number of Individuals: 95 Number of Loci: 31 Positions of loci: 1097 1375 1665 1867 2813 2830 3813 3835 3899 4019 4192 4361 4365 4846 5620 6120 6571 6639 6761 7294 7330 7519 7794 7902 7909 7926 8878 9122 10096 10239 10487 END INPUT_SUMMARY List of haplotypes found in best reconstruction, with counts. (See file madl2.phase.out_freqs for haplotype population frequency estimates) BEGIN LIST_SUMMARY 1 AATTCICCAACCGCGGGTATGCGCGTCGAGA 3.000000 2 AATTCICTAGTTTCGGGCACGTGCGTTGAGG 1.000000 3 AATTCITCAACCGCAGGCATGCGTGTCGGGG 2.000000 4 AATTCITCAACTTCGCGCGTGCCCGTCGGAG 1.000000 5 AATTCITCAACTTCGGGCATGCGCGTCGGGG 7.000000 6 AATTCITCAACTTCGGGCATGCGCGTCGGAG 1.000000 7 AATTCITCGACCGCGGGTATGCGCGTCGAGG 11.000000 8 AATTCITTAGTTTCGGGCACGCGCGTCGGAG 1.000000 9 AATTCITTAGTTTCGGGCACGTGCGTTGAGG 26.000000 10 AATTTICCAACCGCGGGTATGCGCGTCGAGA 7.000000 11 AATTTITCAACCGCAGGCATGCGTGTCGGGG 1.000000 12 AATTTITCAACTTCGGGCATGCGCGTCGGGG 10.000000 13 AATTTITCAACTTCGGGCATTCGCATCCGAG 1.000000 14 AATGCITCGACCGCGGGCGTGCCCGTCGAGG 1.000000 15 AAGTCITCAACTTCGGGCATTCGCATCCGAG 1.000000 16 AAGGCICCAACTTTGCACGTGCCCGTTGAGG 1.000000 17 AAGGCITCAACTTCGGGCATGCCCGTCGGGG 1.000000 18 AAGGCITCAACTTCGGGCATTCGCATCCGAG 28.000000 19 AAGGCITCAACTTCGGGCATTCGCATTGAGG 1.000000 20 AAGGCITCAACTTTGCACGTGCCCGGTGAGG 1.000000 21 AAGGCITCGACCGCGGGCGTGCCCGTCGAGG 3.000000 22 AAGGTITCGACCGCGGGCGTGCCCGTCGAGG 1.000000 23 ATTTCDCCAACTTTGCACGTGCCCGGTGAGG 1.000000 24 ATTTTDCCAACTTCGGGCATTCGCATCCGAG 1.000000 25 ATTTTDCCAACTTTGCACGTGCCCGTCGAGG 1.000000 26 ATTTTDCCAACTTTGCACGTGCCCGTTGAGG 24.000000 27 ATTTTDCCAACTTTGCACGTGCCCGGTGAGG 33.000000 28 ATTTTDCCAACTTTGCACGTGCGCGGTGAGG 2.000000 29 ATTTTDTCAACTTCGGGCATTCGCATCCGAG 2.000000 30 ATTTTDTCGACCGCGGGTATGCGCGTCGAGG 1.000000 31 GATTTICCAACTTTGCGCGTGCCCGTTGAGG 5.000000 32 GATTTICCAACTTTGCGCGTGCCCGGTGAGG 1.000000 33 GATTTITCAACCGCAGGCATGCGTGTCGGGG 8.000000 34 GATTTITCAACTTCGGGCATGCGCGTCGGGG 1.000000 END LIST_SUMMARY Summary of best reconstruction (numbers refer to the list of haplotypes given above) BEGIN BESTPAIRS_SUMMARY D001: (21,26) D002: (12,18) D003: (1,5) D004: (7,33) D005: (12,26) D006: (14,18) D007: (4,31) D008: (5,12) D009: (12,17) D010: (10,22) D011: (5,9) D012: (11,13) D013: (5,33) D014: (10,18) D015: (5,5) DY01: (12,12) DY02: (10,12) DY03: (21,33) DY04: (3,18) DY05: (3,21) DY06: (7,10) DY07: (12,34) DY08: (5,7) DY09: (1,18) DY10: (7,10) DY11: (1,33) DY12: (6,10) E101: (9,26) E102: (9,31) E103: (9,18) E104: (9,18) E105: (26,27) E106: (18,19) E107: (26,33) E108: (26,26) E109: (26,26) E110: (9,31) E111: (9,33) E112: (9,18) E113: (18,27) E114: (26,26) E115: (18,26) E116: (31,33) E117: (26,33) E118: (18,26) E119: (9,31) E120: (18,27) E121: (9,26) E122: (16,26) H101: (7,18) H102: (27,27) H103: (7,18) H104: (7,9) H105: (9,26) H106: (9,27) H107: (9,9) H108: (10,27) H109: (9,26) H110: (26,27) H111: (9,27) H112: (9,26) H113: (9,26) H114: (18,18) H115: (7,12) H116: (9,24) H117: (8,18) H118: (18,18) H119: (18,26) H120: (26,27) H121: (12,28) H122: (27,28) X101: (9,27) X102: (18,27) X103: (27,27) X104: (26,27) X105: (20,27) X106: (9,18) X107: (27,27) X108: (7,15) X109: (27,27) X110: (27,30) X111: (27,27) X112: (18,18) X113: (9,27) X114: (27,32) X115: (9,27) X116: (27,27) X117: (9,27) X118: (7,27) X119: (9,29) X120: (18,29) X121: (27,27) X122: (18,25) X123: (2,18) X124: (7,23) END BESTPAIRS_SUMMARY Haplotype estimates for each individual, with uncertain phases enclosed in () and uncertain genotypes enclosed in []: BEGIN BESTPAIRS1 0 D001 A A [G] G C I T C G A C C G C G G G C G T G C C C G T C G A G G A T T T T D C C A A C T T T G C A C G T G C C C G T T G A G G 0 D002 A A T T T I T C A A C T T C G G G C A T G C G C G T C G G G G A A G G C I T C A A C T T C G G G C A T T C G C A T C C G A G 0 D003 A A T T C I C C A A C C G C G G G T A T G C G C G T C G A G A A A T T C I T C A A C T T C G G G C A T G C G C G T C G G G G 0 D004 A A T T C I T C G A C C G C G G G T A T G C G C G T C G A G G G A T T T I T C A A C C G C A G G C A T G C G T G T C G G G G 0 D005 A A T T T I T C A A C T T C G G G C A T G C G C G T C G G G G A T T T T D C C A A C T T T G C A C G T G C C C G T T G A G G 0 D006 A A (T) G C I T C G A C C G C G G G C G T G C C C G T C G A G G A A (G) G C I T C A A C T T C G G G C A T T C G C A T C C G A G 0 D007 A A T T C I T C A A C T T C G C G C G T G C C C G T (C) G (G) (A) G G A T T T I C C A A C T T T G C G C G T G C C C G T (T) G (A) (G) G 0 D008 A A T T C I T C A A C T T C G G G C A T G C G C G T C G G G G A A T T T I T C A A C T T C G G G C A T G C G C G T C G G G G 0 D009 A A T T T I T C A A C T T C G G G C A T G C (G) C G T C G G G G A A G [G] C I T C A A C T T C G G G C A T G C (C) C G T C G G G G 0 D010 A A T T T I C C A A C C G C G G G T A T G C G C G T C G A G A A A G G T I T C G A C C G C G G G C G T G C C C G T C G A G G 0 D011 A A T T C I T C A A C T T C G G G C A T G C G C G T C G G G G A A T T C I T T A G T T T C G G G C A C G T G C G T T G A G G 0 D012 A A T T T I T C A A C C G C A G G C A T G C G T G T C G G G G A A T T T I T C A A C T T C G G G C A T T C G C A T C C G A G 0 D013 A A T T C I T C A A C T T C G G G C A T G C G C G T C G G G G G A T T T I T C A A C C G C A G G C A T G C G T G T C G G G G 0 D014 A A T T T I C C A A C C G C G G G T A T G C G C G T C G A G A A A G G C I T C A A C T T C G G G C A T T C G C A T C C G A G 0 D015 A A T T C I T C A A C T T C G G G C A T G C G C G T C G G G G A A T T C I T C A A C T T C G G G C A T G C G C G T C G G G G 0 DY01 A A T T T I T C A A C T T C G G G C A T G C G C G T C G G G G A A T T T I T C A A C T T C G G G C A T G C G C G T C G G G G 0 DY02 A A T T T I C C A A C C G C G G G T A T G C G C G T C G A G A A A T T T I T C A A C T T C G G G C A T G C G C G T C G G G G 0 DY03 A A G G C I T C G A C C G C G G G C G T G C C C G T C G A G G G A T T T I T C A A C C G C A G G C A T G C G T G T C G G G G 0 DY04 A A T T C I T C A A C C G C A G G C A T G C G T G T C G G G G A A G G C I T C A A C T T C G G G C A T T C G C A T C C G A G 0 DY05 A A T T C I T C A A C C G C A G G C A T G C G T G T C G G G G A A G G C I T C G A C C G C G G G C G T G C C C G T C G A G G 0 DY06 A A T T C I T C G A C C G C G G G T A T G C G C G T C G A G G A A T T T I C C A A C C G C G G G T A T G C G C G T C G A G A 0 DY07 A A T T T I T C A A C T T C G G G C A T G C G C G T C G G G G G A T T T I T C A A C T T C G G G C A T G C G C G T C G G G G 0 DY08 A A T T C I T C A A C T T C G G G C A T G C G C G T C G G G G A A T T C I T C G A C C G C G G G T A T G C G C G T C G A G G 0 DY09 A A T T C I C C A A C C G C G G G T A T G C G C G T C G A G A A A G G C I T C A A C T T C G G G C A T T C G C A T C C G A G 0 DY10 A A T T C I T C G A C C G C G G G T A T G C G C G T C G A G G A A T T T I C C A A C C G C G G G T A T G C G C G T C G A G A 0 DY11 A A T T C I C C A A C C G C G G G T A T G C G C G T C G A G A G A T T T I T C A A C C G C A G G C A T G C G T G T C G G G G 0 DY12 A A T T (C) I T C A A C T T C G G G C A T G C G C G T C G G A G A A T T (T) I C C A A C C G C G G G T A T G C G C G T C G A G A 0 E101 A A T T C I T T A G T T T C G G G C A C G T G C G T T G A G G A T T T T D C C A A C T T T G C A C G T G C C C G T T G A G G 0 E102 A A T T C I T T A G T T T C G G G C A C G T G C G T T G A G G G A T T T I C C A A C T T T G C G C G T G C C C G T T G A G G 0 E103 A A T T C I T T A G T T T C G G G C A C G T G C G T T G A G G A A G G C I T C A A C T T C G G G C A T T C G C A T C C G A G 0 E104 A A T T C I T T A G T T T C G G G C A C G T G C G T T G A G G A A G G C I T C A A C T T C G G G C A T T C G C A T C C G A G 0 E105 A T T T T D C C A A C T T T G C A C G T G C C C G T T G A G G A T T T T D C C A A C T T T G C A C G T G C C C G G T G A G G 0 E106 A A G G C I T C A A C T T C G G G C A T T C G C A T C C G A G A A G G C I T C A A C T T C G G G C A T T C G C A T T G A G G 0 E107 A T T T T D C C A A C T T T G C A C G T G C C C G T T G A G G G A T T T I T C A A C C G C A G G C A T G C G T G T C G G G G 0 E108 A T T T T D C C A A C T T T G C A C G T G C C C G T T G A G G A T T T T D C C A A C T T T G C A C G T G C C C G T T G A G G 0 E109 A T T T T D C C A A C T T T G C A C G T G C C C G T T G A G G A T T T T D C C A A C T T T G C A C G T G C C C G T T G A G G 0 E110 A A T T C I T T A G T T T C G G G C A C G T G C G T T G A G G G A T T T I C C A A C T T T G C G C G T G C C C G T T G A G G 0 E111 A A T T C I T T A G T T T C G G G C A C G T G C G T T G A G G G A T T T I T C A A C C G C A G G C A T G C G T G T C G G G G 0 E112 A A T T C I T T A G T T T C G G G C A C G T G C G T T G A G G A A G G C I T C A A C T T C G G G C A T T C G C A T C C G A G 0 E113 A A G G C I T C A A C T T C G G G C A T T C G C A T C C G A G A T T T T D C C A A C T T T G C A C G T G C C C G G T G A G G 0 E114 A T T T T D C C A A C T T T G C A C G T G C C C G T T G A G G A T T T T D C C A A C T T T G C A C G T G C C C G T T G A G G 0 E115 A A G G C I T C A A C T T C G G G C A T T C G C A T C C G A G A T T T T D C C A A C T T T G C A C G T G C C C G T T G A G G 0 E116 G A T T T I C C A A C T T T G C G C G T G C C C G T T G A G G G A T T T I T C A A C C G C A G G C A T G C G T G T C G G G G 0 E117 A T T T T D C C A A C T T T G C A C G T G C C C G T T G A G G G A T T T I T C A A C C G C A G G C A T G C G T G T C G G G G 0 E118 A A G G C I T C A A C T T C G G G C A T T C G C A T C C G A G A T T T T D C C A A C T T T G C A C G T G C C C G T T G A G G 0 E119 A A T T C I T T A G T T T C G G G C A C G T G C G T T G A G G G A T T T I C C A A C T T T G C G C G T G C C C G T T G A G G 0 E120 A A G G C I T C A A C T T C G G G C A T T C G C A T C C G A G A T T T T D C C A A C T T T G C A C G T G C C C G G T G A G G 0 E121 A A T T C I T T A G T T T C G G G C A C G T G C G T T G A G G A T T T T D C C A A C T T T G C A C G T G C C C G T T G A G G 0 E122 A A G G C I C C A A C T T T G C A C G T G C C C G T T G A G G A T T T T D C C A A C T T T G C A C G T G C C C G T T G A G G 0 H101 A A T T C I T C G A C C G C G G G T A T G C G C G T C G A G G A A G G C I T C A A C T T C G G G C A T T C G C A T C C G A G 0 H102 A T T T T D C C A A C T T T G C A C G T G C C C G G T G A G G A T T T T D C C A A C T T T G C A C G T G C C C G G T G A G G 0 H103 A A T T C I T C G A C C G C G G G T A T G C G C G T C G A G G A A G G C I T C A A C T T C G G G C A T T C G C A T C C G A G 0 H104 A A T T C I T C G A C C G C G G G T A T G C G C G T C G A G G A A T T C I T T A G T T T C G G G C A C G T G C G T T G A G G 0 H105 A A T T C I T T A G T T T C G G G C A C G T G C G T T G A G G A T T T T D C C A A C T T T G C A C G T G C C C G T T G A G G 0 H106 A A T T C I T T A G T T T C G G G C A C G T G C G T T G A G G A T T T T D C C A A C T T T G C A C G T G C C C G G T G A G G 0 H107 A A T T C I T T A G T T T C G G G C A C G T G C G T T G A G G A A T T C I T T A G T T T C G G G C A C G T G C G T T G A G G 0 H108 A A T T T I C C A A C C G C G G G T A T G C G C G T C G A G A A T T T T D C C A A C T T T G C A C G T G C C C G G T G A G G 0 H109 A A T T C I T T A G T T T C G G G C A C G T G C G T T G A G G A T T T T D C C A A C T T T G C A C G T G C C C G T T G A G G 0 H110 A T T T T D C C A A C T T T G C A C G T G C C C G T T G A G G A T T T T D C C A A C T T T G C A C G T G C C C G G T G A G G 0 H111 A A T T C I T T A G T T T C G G G C A C G T G C G T T G A G G A T T T T D C C A A C T T T G C A C G T G C C C G G T G A G G 0 H112 A A T T C I T T A G T T T C G G G C A C G T G C G T T G A G G A T T T T D C C A A C T T T G C A C G T G C C C G T T G A G G 0 H113 A A T T C I T T A G T T T C G G G C A C G T G C G T T G A G G A T T T T D C C A A C T T T G C A C G T G C C C G T T G A G G 0 H114 A A G G C I T C A A C T T C G G G C A T T C G C A T C C G A G A A G G C I T C A A C T T C G G G C A T T C G C A T C C G A G 0 H115 A A T T C I T C G A C C G C G G G T A T G C G C G T C G A G G A A T T T I T C A A C T T C G G G C A T G C G C G T C G G G G 0 H116 A A T T C I (T) T A G T T T C G G G C A C G T G C G T T G A G G A T T T T D (C) C A A C T T C G G G C A T T C G C A T C C G A G 0 H117 A A T T C I T T A G T T T C G G G C A C G C G C G T C G G A G A A G G C I T C A A C T T C G G G C A T T C G C A T C C G A G 0 H118 A A G G C I T C A A C T T C G G G C A T T C G C A T C C G A G A A G G C I T C A A C T T C G G G C A T T C G C A T C C G A G 0 H119 A A G G C I T C A A C T T C G G G C A T T C G C A T C C G A G A T T T T D C C A A C T T T G C A C G T G C C C G T T G A G G 0 H120 A T T T T D C C A A C T T T G C A C G T G C C C G T T G A G G A T T T T D C C A A C T T T G C A C G T G C C C G G T G A G G 0 H121 A A T T T I T C A A C T T C G G G C A T G C G C G T C G G G G A T T T T D C C A A C T T T G C A C G T G C G C G G T G A G G 0 H122 A T T T T D C C A A C T T T G C A C G T G C C C G G T G A G G A T T T T D C C A A C T T T G C A C G T G C G C G G T G A G G 0 X101 A A T T C I T T A G T T T C G G G C A C G T G C G T T G A G G A T T T T D C C A A C T T T G C A C G T G C C C G G T G A G G 0 X102 A A G G C I T C A A C T T C G G G C A T T C G C A T C C G A G A T T T T D C C A A C T T T G C A C G T G C C C G G T G A G G 0 X103 A T T T T D C C A A C T T T G C A C G T G C C C G G T G A G G A T T T T D C C A A C T T T G C A C G T G C C C G G T G A G G 0 X104 A T T T T D C C A A C T T T G C A C G T G C C C G T T G A G G A T T T T D C C A A C T T T G C A C G T G C C C G G T G A G G 0 X105 A A G G C I T C A A C T T T G C A C G T G C C C G G T G A G G A T T T T D C C A A C T T T G C A C G T G C C C G G T G A G G 0 X106 A A T T C I T T A G T T T C G G G C A C G T G C G T T G A G G A A G G C I T C A A C T T C G G G C A T T C G C A T C C G A G 0 X107 A T T T T D C C A A C T T T G C A C G T G C C C G G T G A G G A T T T T D C C A A C T T T G C A C G T G C C C G G T G A G G 0 X108 A A T T C I T C G A C C G C G G G T A T G C G C G T C G A G G A A G T C I T C A A C T T C G G G C A T T C G C A T C C G A G 0 X109 A T T T T D C C A A C T T T G C A C G T G C C C G G T G A G G A T T T T D C C A A C T T T G C A C G T G C C C G G T G A G G 0 X110 A T T T T D C C A A C T T T G C A C G T G C C C G G T G A G G A T T T T D T C G A C C G C G G G T A T G C G C G T C G A G G 0 X111 A T T T T D C C A A C T T T G C A C G T G C C C G G T G A G G A T T T T D C C A A C T T T G C A C G T G C C C G G T G A G G 0 X112 A A G G C I T C A A C T T C G G G C A T T C G C A T C C G A G A A G G C I T C A A C T T C G G G C A T T C G C A T C C G A G 0 X113 A A T T C I T T A G T T T C G G G C A C G T G C G T T G A G G A T T T T D C C A A C T T T G C A C G T G C C C G G T G A G G 0 X114 A T T T T D C C A A C T T T G C A C G T G C C C G G T G A G G G A T T T I C C A A C T T T G C G C G T G C C C G G T G A G G 0 X115 A A T T C I T T A G T T T C G G G C A C G T G C G T T G A G G A T T T T D C C A A C T T T G C A C G T G C C C G G T G A G G 0 X116 A T T T T D C C A A C T T T G C A C G T G C C C G G T G A G G A T T T T D C C A A C T T T G C A C G T G C C C G G T G A G G 0 X117 A A T T C I T T A G T T T C G G G C A C G T G C G T T G A G G A T T T T D C C A A C T T T G C A C G T G C C C G G T G A G G 0 X118 A A T T C I T C G A C C G C G G G T A T G C G C G T C G A G G A T T T T D C C A A C T T T G C A C G T G C C C G G T G A G G 0 X119 A A T T C I T T A G T T T C G G G C A C G T G C G T T G A G G A T T T T D T C A A C T T C G G G C A T T C G C A T C C G A G 0 X120 A A G G C I T C A A C T T C G G G C A T T C G C A T C C G A G A T T T T D T C A A C T T C G G G C A T T C G C A T C C G A G 0 X121 A T T T T D C C A A C T T T G C A C G T G C C C G G T G A G G A T T T T D C C A A C T T T G C A C G T G C C C G G T G A G G 0 X122 A A G G C I T C A A C T T C G G G C A T T C G C A T C C G A G A T T T T D C C A A C T T T G C A C G T G C C C G T C G A G G 0 X123 A A T T C I (C) T A G T T T C G G G C A C G T G C G T T G A G G A A G G C I (T) C A A C T T C G G G C A T T C G C A T C C G A G 0 X124 A A T T C I T C G A C C G C G G G T A T G C G C G T C G A G G A T T T C D C C A A C T T T G C A C G T G C C C G G T G A G G 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 = ? ? ? C ? T = G = = C G ? = G G = = = = = = = = = C = = = = = ? ? ? T ? C = A = = T T ? = C A = = = = = = = = = T = = = = 0 D002 = = ? ? T = = = = = = = = = = = = = = = G = ? ? ? ? = G = G = = = ? ? C = = = = = = = = = = = = = = = T = ? ? ? ? = C = A = 0 D003 = = = = = = C = = = = C G = = = = T = = = = = = = = = = A = A = = = = = = T = = = = T T = = = = C = = = = = = = = = = G = G 0 D004 A = = = C = = = G = = = = = G = = T = = = = = C = = = = A = = G = = = T = = = A = = = = = A = = C = = = = = T = = = = G = = 0 D005 = A = ? = I T = = = = = = C = G G = A = = = G = = = C = G = = = T = ? = D C = = = = = = T = C A = G = = = C = = = T = A = = 0 D006 = = (T) = = = = = G = = C G = = = = = G = G = C = G = = G A G = = = (G) = = = = = A = = T T = = = = = A = T = G = A = = C G A = 0 D007 A = = = C = T = = = = = = C = = = = = = = = = = = = (C) = (G) (A) = G = = = T = C = = = = = = T = = = = = = = = = = = = (T) = (A) (G) = 0 D008 = = = = C = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = T = = = = = = = = = = = = = = = = = = = = = = = = = = 0 D009 = = T ? T = = = = = = = = = = = = = = = = = (G) = = = = = = = = = = G ? C = = = = = = = = = = = = = = = = = (C) = = = = = = = = 0 D010 = = T T = = ? = A = = = = = = = = T A = = = G = = = = = = = A = = G G = = ? = G = = = = = = = = C G = = = C = = = = = = = G 0 D011 = = = = = = = C = A C = = = = = = = = T = C = = = = C = G = = = = = = = = = T = G T = = = = = = = = C = T = = = = T = A = = 0 D012 = = = = = = = = = = = C G = A = = = = = G = = T G = ? G = G = = = = = = = = = = = = T T = G = = = = = T = = C A = ? C = A = 0 D013 A = = = C = = = = = = T T ? G = = = = = = = = C = = ? = = = = G = = = T = = = = = = C G ? A = = = = = = = = T = = ? = = = = 0 D014 = = T T T = ? = = = = C G = = = = T = = G = = = G = = G A G A = = G G C = ? = = = = T T = = = = C = = T = = = A = = C G A G 0 D015 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 DY01 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 DY02 = = = ? = = ? = = = = C G = = = = T = = = = = = = = = = A = A = = = ? = = ? = = = = T T = = = = C = = = = = = = = = = G = G 0 DY03 A = G ? C = = = G = = = = = G = = = G = = = ? ? = ? = = A = = G = T ? T = = = A = = = = = A = = = A = = = ? ? = ? = = G = = 0 DY04 = = T T = = = = = = = C G = A = = = = = G = = T G = = G = G = = = G G = = = = = = = T T = G = = = = = T = = C A = = C = A = 0 DY05 = = T ? = = = = A = = = = = A = = = A = = = G T = = = = G = = = = G ? = = = = G = = = = = G = = = G = = = C C = = = = A = = 0 DY06 = = = = C = ? = G = = = = = = = = = = = = = = = = = ? = = = G = = = = T = ? = A = = = = = = = = = = = = = = = = = ? = = = A 0 DY07 A = = = = = ? = = = = ? ? = = = = = = = = = = = = = = = = = = G = = = = = ? = = = = ? ? = = = = = = = = = = = = = = = = = = 0 DY08 = = = = = = = = A = = T T = = = = C = = = = = = = = = = G = = = = = = = = = = G = = C G = = = = T = = = = = = = = = = A = = 0 DY09 = ? ? T = = C = = = = C G = = = = T = = G = = = G = = G A G A = ? ? G = = T = = = = T T = = = = C = = T = = = A = = C G A G 0 DY10 = = = = C = T = G = = = = = = = = = = = = = = = = = = = = = G = = = = T = C = A = = = = = = = = = = = = = = = = = = = = = A 0 DY11 A = = = C = C = = = = = = = G = = T = = = = = C = = = = A = A G = = = T = T = = = = = = = A = = C = = = = = T = = = = G = G 0 DY12 = = = = (C) = T = = = = T T = = = = C = = = = = = = = = = G A G = = = = (T) = C = = = = C G = = = = T = = = = = = = = = = A G A 0 E101 = A = ? C I T T = G T = = C = G G = A C = T G = = = = = = = = = T = ? T D C C = A C = = T = C A = G T = C C = = = = = = = = 0 E102 A = = = C = T T = G T = = C = G = = A C = T G = = = = = = = = G = = = T = C C = A C = = T = C = = G T = C C = = = = = = = = 0 E103 = = T T = = = T = G T = = = = = = = = C G T = = G = T G A G = = = G G = = = C = A C = = = = = = = = T T C = = A = C C G A = 0 E104 = = T T = = ? ? = G T = = = = = = = = C G T = = G = T G A G = = = G G = = ? ? = A C = = = = = = = = T T C = = A = C C G A = 0 E105 = = = = = = = = = = = = = = = = = = = = = = = = = T = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = G = = = = = 0 E106 ? = = = = = = = = = = = = = = = = = = = = = = = = = C C G A = ? = = = = = = = = = = = = = = = = = = = = = = = = = T G A G = 0 E107 A T = = = ? C = = = = T T T G C A = G = = = C C = = T = A = = G A = = = ? T = = = = C G C A G G = A = = = G T = = C = G = = 0 E108 = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 E109 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 E110 A = = ? C = ? T = G T = = C = G = = A C = T G = = = = = = = = G = = ? T = ? C = A C = = T = C = = G T = C C = = = = = = = = 0 E111 A = = ? C = = T = G T T T = G = = = = C = T = C = = T = A = ? G = = ? T = = C = A C C G = A = = = = T = C = T = = C = G = ? 0 E112 = = T T = = ? T = G T = = ? = = = = = C G T = = G = T G A G = = = G G = = ? C = A C = = ? = = = = = T T C = = A = C C G A = 0 E113 = A ? G C I T = = = = = = C = G G = A = T = G = A T C C G A = = T ? T T D C = = = = = = T = C A = G = G = C = G G T G A G = 0 E114 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 E115 = A G ? C I T = = = = = = C = G G = A ? ? ? G = A = C C G A = = T T ? T D C = = = = = = T = C A = G ? ? ? C = G = T G A G = 0 E116 = = = = = = C = = = = T T T G C = = G = = = C C = = T = A = = = = = = = = T = = = = C G C A G = = A = = = G T = = C = G = = 0 E117 A T = = = D C = = = = T T T G C A = G = = = C C = = T = A = = G A = = = I T = = = = C G C A G G = A = = = G T = = C = G = = 0 E118 = A G G ? ? T = = = = = = C = G G = A = T = G = A = C C G A = = T T T ? ? C = = = = = = T = C A = G = G = C = G = T G A G = 0 E119 A = = = C = ? T = G T = = C = G = = A C = T G = = = = = = = = G = = = T = ? C = A C = = T = C = = G T = C C = = = = = = = = 0 E120 = A G G C I T = = = = = = C = G G = A = T = G = A T C C G A = = T T T T D C = = = = = = T = C A = G = G = C = G G T G A G = 0 E121 = A = = C I T T = G T = = C = G G = A C = T G = = = = = = = = = T = = T D C C = A C = = T = C A = G T = C C = = = = = = = = 0 E122 = A G G C I = = = = = = = = = = = = = = = = = = = = = = = = = = T T T T D = = = = = = = = = = = = = = = = = = = = = = = = = 0 H101 = = T T = = = = G = = C G = = = = T = = G = = = G = ? G A G = = = G G = = = = A = = T T = = = = C = = T = = = A = ? C G A = 0 H102 = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 H103 = = T ? = = = = G = = C G = = = = T = = G = = = G = = G A G = = = G ? = = = = A = = T T = = = = C = = T = = = A = = C G A = 0 H104 = = = = = = = C G A C C G = = = = T = T = C = = = = C = = = = = = = = = = = T A G T T T = = = = C = C = T = = = = T = = = = 0 H105 = A = = C ? T T = G T = = C = G G = A C = T G = = = = = = = = = T = = T ? C C = A C = = T = C A = G T = C C = = = = = = = = 0 H106 = A = = C I T T = G T = = C = G G = A C = T G = = T = = = = = = T = = T D C C = A C = = T = C A = G T = C C = = G = = = = = 0 H107 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 H108 = A ? = = I = = = = = C G C = G G T A = = = G = = T C = = = A = T ? = = D = = = = = T T T = C A C G = = = C = = G T = = = G 0 H109 = A = = C I T T = G T = = C = G G = A C = T G = = = = = = = = = T = = T D C C = A C = = T = C A = G T = C C = = = = = = = = 0 H110 = = = = = = = = = = = = = = = = = = = = = = = = = T = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = G = = = = = 0 H111 = A = = C I T T = G T = = C = G G = A C = T G = = T = = = = = = T = = T D C C = A C = = T = C A = G T = C C = = G = = = = = 0 H112 = A = = C I T T = G T = = C = G G = A C = T G = = = = = = = = = T = = T D C C = A C = = T = C A = G T = C C = = = = = = = = 0 H113 = A = = C I T T = G T = = C = G G = A C = T G = = = = = = = = = T = = T D C C = A C = = T = C A = G T = C C = = = = = = = = 0 H114 = = ? ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 H115 = = = = C = = = G = = C G = = = = T = = = = = = = = = = A = = = = = = T = = = A = = T T = = = = C = = = = = = = = = = G = = 0 H116 = A = = C I (T) T = G T = = = = = = = = C G T = = G = T G A G = = T = = T D (C) C = A C = = = = = = = = T T C = = A = C C G A = 0 H117 = = T T = = = T = G T = = = = = = = = C G = = = G = = G = = = = = G G = = = C = A C = = = = = = = = T T = = = A = = C = = = 0 H118 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 H119 = A G G C I T = = = = = = C = G G = A = T = G = A = C C G A = = T T T T D C = = = = = = T = C A = G = G = C = G = T G A G = 0 H120 = = = = = = = = = = = = = = = = = = = = = = = = = T = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = G = = = = = 0 H121 = A = = = I T = = = = = = C = G G = A = = = = = = T C = G = = = T = = = D C = = = = = = T = C A = G = = = = = = G T = A = = 0 H122 = = = ? = = = = = = = = = = = = = = = = = = C = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = G = = = = = = = = 0 X101 = A = = C I T T = G T = = C = G G = A C = T G = = T = = = = = = T = = T D C C = A C = = T = C A = G T = C C = = G = = = = = 0 X102 = A G ? C I T = = = = = = C = G G = A = T = G = A T C C G A = = T T ? T D C = = = = = = T = C A = G = G = C = G G T G A G = 0 X103 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 X104 = = = = = = = = = = = = = = = = = = = = = = = = = T = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = G = = = = = 0 X105 = A G G C I T = = = = = = = = = = = = = = = = = = = ? ? = = = = T T T T D C = = = = = = = = = = = = = = = = = = = ? ? = = = 0 X106 = = T T = = = T = G T = = = = = = = = C G T = = G = T G A G = = = G G = = = C = A C = = = = = = = = T T C = = A = C C G A = 0 X107 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 X108 = = T = = ? ? ? G = = ? ? = = = = T = = G = = = G = = G A G = = = G = = ? ? ? A = = ? ? = = = = C = = T = = = A = = C G A = 0 X109 = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 X110 = = = = = = C = A = = T T T = C A C G = = = C = = G T = = = = = = = = = = T = G = = C G C = G G T A = = = G = = T C = = = = 0 X111 = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = 0 X112 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 X113 = A = = C I T T = G T = = C = G G = A C = T G = = T = = = = = = T = = T D C C = A C = = T = C A = G T = C C = = G = = = = = 0 X114 A T = = = D ? ? = = = = = = = = A = = = = = = = = = = = = = = G A = = = I ? ? = = = = = = = = G = = = = = = = = = = = = = = 0 X115 = A = = C ? T T = G T = = C = G G = A C = T G = = T = = = = = = T = = T ? C C = A C = = T = C A = G T = C C = = G = = = = = 0 X116 = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = 0 X117 = A = = C I T T = G T = = C = G G = A C = T G = = T = = = = = = T = = T D C C = A C = = T = C A = G T = C C = = G = = = = = 0 X118 = ? ? = ? I T = G = = C G C = G G T A = = = G = = T C = = = = = ? ? = ? D C = A = = T T T = C A C G = = = C = = G T = = = = 0 X119 = A = = C I = T = G T = = = = = = = = C G T = = G = T G A G = = T = = T D = C = A C = = = = = = = = T T C = = A = C C G A = 0 X120 = A G G C I = = = = = = = = = = = = = = = = = = = = = = = = = = T T T T D = = = = = = = = = = = = = = = = = = = = = = = = = 0 X121 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 X122 = A G ? C I T = = = = = = C = G G = A = T = G = A = = C G A = = T T ? T D C = = = = = = T = C A = G = G = C = G = = G A G = 0 X123 = = T T = = (C) T = G T = = ? = = = = = C G T = = G = T G ? G ? = = G G = = (T) C = A C = = ? = = = = = T T C = = A = C C ? A ? 0 X124 = A = = = I ? = G = = C G C = G G T A = = = G = = T C = = = = = T = = = D ? = A = = T T T = C A C G = = = C = = G T = = = = END BESTPAIRS2 Phase probabilities at each site with phase known positions indicated by = and missing data positions indicated by ? BEGIN PHASEPROBS = ? ? ? 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 = = = = 0.54 = = = = = 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 = = = = = = = = = = = = 0.54 = 0.54 0.54 = = = = = 1.00 = = = = = = = = = = = = = = = = = = = = = = = = = = = = 1.00 ? 0.91 = = = = = = = = = = = = = = = = = 0.59 = = = = = = = = = = 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 = 0.96 = = = 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 = = 1.00 1.00 1.00 1.00 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = = ? = = = = 1.00 1.00 = = = = 1.00 = = = = = = = = = = 1.00 = 1.00 1.00 = 1.00 ? 0.99 = = = 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 = 1.00 = = = 0.97 ? = = = = 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 = = = 0.98 = 1.00 = = = = = = = 1.00 = = 1.00 = = = = = 1.00 = = = = 1.00 = 1.00 = = = = 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 = 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 = = = ? 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 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 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 0.99 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 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 = = = 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 = 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 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 = = = = = = = = = = ? ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0.99 = = = 1.00 = = 1.00 1.00 = = = = 1.00 = = = = = = = = = = 1.00 = = = 1.00 = = 1.00 1.00 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 = = = = = = = = 0.99 1.00 = = = 1.00 = = 1.00 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 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 = = = = = = 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 0.99 = = = = = = = = = = = = = = = = = = = ? ? = = = = = 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 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 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 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 = = = = = = ? ? = ? 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 = 1.00 = 1.00 = = 1.00 1.00 1.00 = = = 1.00 1.00 = = 0.66 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