************************************************************* **** **** **** Output from PHASE v2.0 **** **** Code by M Stephens, with contributions from N Li **** **** **** ************************************************************* BEGIN COMMAND_LINE /usr/local/genome/lib/phase/PHASE2 -d1 ak094.phase.inp ak094.phase.out END COMMAND_LINE BEGIN OUTFILE_LIST ak094.phase.out_freqs : haplotype frequency estimates ak094.phase.out_pairs : most likely haplotype pairs for each individual ak094.phase.out_recom : estimates of recombination parameters ak094.phase.out_monitor : file for monitoring convergence END OUTFILE_LIST BEGIN INPUT_SUMMARY Number of Individuals: 94 Number of Loci: 26 Positions of loci: 159 908 1343 1598 1636 2087 2128 10279 10950 11160 11336 11360 12115 13301 29861 29878 29889 29893 29908 31437 31928 31930 32256 39764 40815 42870 END INPUT_SUMMARY List of haplotypes found in best reconstruction, with counts. (See file ak094.phase.out_freqs for haplotype population frequency estimates) BEGIN LIST_SUMMARY 1 ITCAGTACGTCAGAICGCACTAAGCD 1.000000 2 ITCTTCGCGTCGGGICGCACTAAGCD 1.000000 3 ITCTTCGCGTTGGGDCGCAGCAAGCD 2.000000 4 ITTAGCGCGCCGGGIGCGACTAAGCD 1.000000 5 ITTAGTACGTCAGAICGCACTAAACD 2.000000 6 ITTAGTACGTCAGAICGCACTAAAGD 2.000000 7 ITTAGTACGTCAGAICGCACTAAAGI 10.000000 8 ITTAGTACGTCAGAICGCACTAAGCD 16.000000 9 ITTAGTACGTCAGAICGCACTAAGGI 3.000000 10 ITTAGTACGTCAGAIGCGACTAAGCD 1.000000 11 ITTAGTACGTCAGAIGCGAGTAAGCD 1.000000 12 ITTAGTACGTCAGADGCGAGCAAGCD 1.000000 13 ITTAGTACGCCGGGIGCGCGTCGACD 48.000000 14 ITTAGTACGCCGGGIGCGCGTCGAGI 1.000000 15 ITTAGTACGCCGGGIGCGCGTCGGCD 7.000000 16 ITTAGTACGCCGGGDGCGAGCAAGCD 2.000000 17 ITTAGTACGCCGGGDGCGAGCAAGCI 1.000000 18 ITTAGTGCGTCAGAICGCACTAAAGI 1.000000 19 DCCTTCGCGTCAGAIGCGAGTAAACD 1.000000 20 DCCTTCGCGTCGGGICGCAGCAAACD 2.000000 21 DCCTTCGCGTCGGGIGCGACCAAACD 1.000000 22 DCCTTCGCGTCGGGIGCGACTAAGCD 3.000000 23 DCCTTCGCGCCGGGIGCGAGTCAGGI 1.000000 24 DCCTTCGCGCCGGGIGCGCGTCGACD 1.000000 25 DCCTTCGCGCCGGGIGCGCGTCGGGI 1.000000 26 DCCTTCGTATTGTGICGCACTAAGCD 1.000000 27 DCCTTCGTATTGTGIGCGCGTCGACD 2.000000 28 DCCTTCGTATTGTGDCCGAGCAAGCD 1.000000 29 DCCTTCGTATTGTGDGCGAGCAAACD 10.000000 30 DCCTTCGTATTGTGDGCGAGCAAAGI 1.000000 31 DCCTTCGTATTGTGDGCGAGCAAGCD 62.000000 END LIST_SUMMARY Summary of best reconstruction (numbers refer to the list of haplotypes given above) BEGIN BESTPAIRS_SUMMARY D001: (5,20) D002: (7,8) D003: (7,12) D004: (9,9) D005: (18,22) D006: (8,22) D007: (8,29) D008: (8,29) D009: (7,7) D010: (11,24) D011: (5,21) D012: (4,8) D013: (1,8) D014: (3,31) D015: (7,9) D016: (7,10) D033: (2,13) D034: (23,31) D035: (8,31) D036: (8,8) D037: (8,8) D038: (7,8) D039: (6,20) D040: (8,22) E001: (15,31) E002: (31,31) E003: (16,31) E004: (31,31) E005: (7,31) E006: (6,31) E007: (7,31) E008: (31,31) E009: (31,31) E010: (31,31) E011: (29,31) E012: (14,31) E013: (31,31) E014: (31,31) E015: (13,31) E016: (31,31) E017: (31,31) E018: (27,31) E019: (13,15) E020: (29,31) E021: (7,13) E022: (8,8) E023: (28,31) E024: (13,25) H101: (29,31) H102: (13,31) H103: (31,31) H104: (13,26) H105: (31,31) H106: (29,29) H107: (13,31) H108: (30,31) H109: (13,13) H110: (19,31) H111: (13,31) H112: (31,31) H113: (13,13) H114: (8,31) H115: (29,31) H116: (13,29) H117: (13,31) H118: (31,31) H119: (3,13) H120: (13,31) H121: (13,29) H122: (13,13) X125: (15,31) X126: (13,31) X127: (13,31) X128: (13,15) X129: (13,13) X130: (31,31) X131: (13,31) X132: (13,13) X133: (13,31) X134: (15,15) X135: (16,17) X136: (13,13) X137: (13,31) X138: (13,13) X139: (13,31) X140: (13,27) X141: (13,13) X142: (13,15) X143: (13,13) X144: (13,31) X145: (13,13) X146: (13,13) X147: (13,31) X148: (13,31) END BESTPAIRS_SUMMARY Haplotype estimates for each individual, with uncertain phases enclosed in () and uncertain genotypes enclosed in []: BEGIN BESTPAIRS1 0 D001 I T T A G T A C G T C (A) G (A) I C G C A (C) (T) A A [A] C D D C C T T C G C G T C (G) G (G) I C G C A (G) (C) A A [A] C D 0 D002 I T T A G T A C G T C A G A I C G C A C T A A A G I I T T A G T A C G T C A G A I C G C A C T A A G C D 0 D003 I T T A G T A C G T C A G A I C G C A C T A A (A) G I I T T A G T A C G T C A G A D G C G A G C A A (G) C D 0 D004 I T T A G T A C G T C A G A I C G C A C T A A G G I I T T A G T A C G T C A G A I C G C A C T A A G G I 0 D005 (I) (T) (T) (A) (G) (T) G C G T C A G A I C G C A C T A A A G I (D) (C) (C) (T) (T) (C) G C G T C G G G I G C G A C T A A G C D 0 D006 I T T A G T A C G T C (A) G (A) I (C) (G) (C) A C T A A G C D D C C T T C G C G T C (G) G (G) I (G) (C) (G) A C T A A G C D 0 D007 (I) (T) (T) (A) (G) (T) (A) C G T C A G A I C G C A C T A A (G) C D (D) (C) (C) (T) (T) (C) (G) T A T T G T G D G C G A G C A A (A) C D 0 D008 (I) (T) (T) (A) (G) (T) (A) C G T C A G A I C G C A C T A A (G) C D (D) (C) (C) (T) (T) (C) (G) T A T T G T G D G C G A G C A A (A) C D 0 D009 I T T A G T A C G T C A G A I C G C A C T A A [A] G I I T T A G T A C G T C A G A I C G C A C T A A A G I 0 D010 (I) (T) (T) (A) (G) (T) (A) C G (T) C (A) G (A) I G C G (A) G [T] A A (G) C D (D) (C) (C) (T) (T) (C) (G) C G (C) C (G) G (G) I G C G (C) G T C G (A) C D 0 D011 (I) (T) (T) (A) (G) (T) (A) C G T C A G (A) I (C) (G) (C) A C (T) A A A C D (D) (C) (C) (T) (T) (C) (G) C G T C [G] G (G) I (G) (C) (G) A C (C) A A A C D 0 D012 I T T A G (C) (G) C G C C G G G I G C G A C T A A G C D I T T A G (T) (A) C G T C A G A I C G C A C T A A G C D 0 D013 I T C A G T A C G T C A G A I C G C A C T A A G C D I T T A G T A C G T C A G A I C G C A C T A A G C D 0 D014 (I) (T) C T T C G C G T T G G G D C G C A G C A A G C D (D) (C) C T T C G T A T T G T G D G C G A G C A A G C D 0 D015 I T T A G T A C G T C A G A I C G C A C T A A A G I I T T A G T A C G T C A G A I C G C A C T A A G G I 0 D016 I T T A G T A C G T C A G A I C G C A C T A A A G I I T T A G T A C G T C A G A I G C G A C T A A G C D 0 D033 I T [C] (T) (T) (C) (G) C G T C G G G I C G C A C T A A G C D I T [T] (A) (G) (T) (A) C G C C G G G I G C G C G T C G A C D 0 D034 D C C T T C G C G C C G G G I G C G A G T C A G (G) (I) D C C T T C G T A T T G T G D G C G A G C A A G (C) (D) 0 D035 (I) (T) (T) (A) (G) (T) (A) C G T C A G A I C G C A C T A A G C D (D) (C) (C) (T) (T) (C) (G) T A T T G T G D G C G A G C A A G C D 0 D036 I T T A G T A C G T C A G A I C G C A C T A A G C D I T T A G T A C G T C A G A I C G C A C T A A G C D 0 D037 I T T A G T A C G T C A G A I C G C A C T A A G C D I T T A G T A C G T C A G A I C G C A C T A A G C D 0 D038 I T T A G T A C G T C A G A I C G C A C T A A A G I I T T A G T A C G T C A G A I C G C A C T A A G C D 0 D039 I T T A G T A C G T C (A) G [A] I C G C A (C) (T) A A A (G) D D C C T T C G C G T C (G) G [G] I C G C A (G) (C) A A A (C) D 0 D040 I T T A G T A C G T C (A) G (A) I (C) (G) (C) A C T A A G C D D C C T T C G C G T C (G) G (G) I (G) (C) (G) A C T A A G C D 0 E001 (I) (T) (T) (A) (G) (T) (A) C G C C G G G I G C G C G T C G G C D (D) (C) (C) (T) (T) (C) (G) T A T T G T G D G C G A G C A A G C D 0 E002 D C C T T C G T A T T G T G D G C G A G C A A G C D D C C T T C G T A T T G T G D G C G A G C A A G C D 0 E003 I T T A G T A (C) (G) (C) (C) G (G) G D G C G A G C A A G C D D C C T T C G (T) (A) (T) (T) G (T) G D G C G A G C A A G C D 0 E004 D C C T T C G T A T T G T G D G C G A G C A A G C D D C C T T C G T A T T G T G D G C G A G C A A G C D 0 E005 (I) (T) (T) (A) (G) (T) (A) C G T C A G A I C G C A C T A A (A) G I (D) (C) (C) (T) (T) (C) (G) T A T T G T G D G C G A G C A A (G) C D 0 E006 (I) (T) (T) (A) (G) (T) (A) C G T C A G A I C G C A C T A A A G D (D) (C) (C) (T) (T) (C) (G) T A T T G T G D G C G A G C A A G C D 0 E007 (I) T (T) (A) (G) [T] [A] C G T C A G A I C G C A C T A A A G I (D) [C] (C) (T) (T) [C] [G] T A T T G T G D G C G A G C A A G C D 0 E008 D C C T T C G T A T T G T G D G C G A G C A A G C D D C C T T C G T A T T G T G D G C G A G C A A G C D 0 E009 D C C T T C G T A T T G T G D G C G A G C A A G C D D C C T T C G T A T T G T G D G C G A G C A A G C D 0 E010 D C C T T C G T A T T G T G D G C G A G C A A G C D D C C T T C G T A T T G T G D G C G A G C A A G C D 0 E011 D C C T T C G T A T T G T G D G C G A G C A A A C D D C C T T C G T A T T G T G D G C G A G C A A G C D 0 E012 (I) (T) (T) (A) (G) (T) (A) C G C C G G G I G C G C G T C G (A) (G) (I) (D) (C) (C) (T) (T) (C) (G) T A T T G T G D G C G A G C A A (G) (C) (D) 0 E013 D C C T T C G T A T T G T G D G C G A G C A A G C D D C C T T C G T A T T G T G D G C G A G C A A G C D 0 E014 D C C T T C G T A T T G T G D G C G A G C A A G C D D C C T T C G T A T T G T G D G C G A G C A A G C D 0 E015 (I) (T) (T) (A) (G) (T) (A) C G C C G G G I G C G C G T C G A C D (D) (C) (C) (T) (T) (C) (G) T A T T G T G D G C G A G C A A [G] C D 0 E016 D C C T T C G T A T T G T G D G C G A G C A A G C D D C C T T C G T A T T G T G D G C G A G C A A G C D 0 E017 D C C T T C G T A T T G T G D G C G A G C A A G C D D C C T T C G T A T T G T G D G C G A G C A A G C D 0 E018 D C C T T C G T A T T G T G I G C G C G T C G A C D D C C T T C G T A T T G T G D G C G A G C A A G C D 0 E019 I T T A G T A C G C C G G G I G C G C G T C G A C D I T T A G T A C G C C G G G I G C G C G T C G G C D 0 E020 D C C T T C G T A T T G T G D G C G A G C A A A C D D C C T T C G T A T T G T G D G C G A G C A A G C D 0 E021 I T T A G T A C G T C A G A I C G C A C T A A [A] G I I T T A G T A C G C C G G G I G C G C G T C G A C D 0 E022 I T T A G T A C G T C A G A I C G C A C T A A G C D I T T A G T A C G T C A G A I C G C A C T A A G C D 0 E023 D C C T T C G T A T T G T G D C C G A G C A A G C D D C C T T C G T A T T G T G D G C G A G C A A G C D 0 E024 I T T A G T A C G C C G G G I G C G C G T C G (A) (C) (D) D C C T T C G C G C C G G G I G C G C G T C G (G) (G) (I) 0 H101 D C C T T C G T A T T G T G D G C G A G C A A A C D D C C T T C G T A T T G T G D G C G A G C A A G C D 0 H102 (I) (T) (T) (A) (G) (T) (A) C G C C G G G I G C G C G T C G A C D (D) (C) (C) (T) (T) (C) (G) T A T T G T G D G C G A G C A A G C D 0 H103 D C C T T C G T A T T G T G D G C G A G C A A G C D D C C T T C G T A T T G T G D G C G A G C A A G C D 0 H104 (I) (T) [T] (A) (G) (T) (A) C G C C G G G I G C G C G T C G A C D (D) (C) [C] (T) (T) (C) (G) T A T T G T G I C G C A C T A A G C D 0 H105 D C C T T C G T A T T G T G D G C G A G C A A G C D D C C T T C G T A T T G T G D G C G A G C A A G C D 0 H106 D C C T T C G T A T T G T G D G C G A G C A A A C D D C C T T C G T A T T G T G D G C G A G C A A A C D 0 H107 (I) [T] (T) (A) (G) (T) (A) C G C C G G G I G C G C G T C G A C D (D) [C] (C) (T) (T) (C) (G) T A T T G T G D G C G A G C A A G C D 0 H108 D C C T T C G T A T T G T G D G C G A G C A A (A) G I D C C T T C G T A T T G T G D G C G A G C A A (G) C D 0 H109 I T T A G T A C G C C G G G I G C G C G T C G A C D I T T A G T A C G C C G G G I G C G C G T C G A C D 0 H110 D C C T T C G C G T C A G A I G C G A G [T] A A (A) C D D C C T T C G T A T T G T G D G C G A G C A A (G) C D 0 H111 (I) (T) (T) (A) (G) (T) (A) C G C C G G G I G C G C G T C G A C D (D) (C) (C) (T) (T) (C) (G) T A T T G T G D G C G A G C A A G C D 0 H112 D C C T T C G T A T T G T G D G C G A G C A A G C D D C C T T C G T A T T G T G D G C G A G C A A G C D 0 H113 I T T A G T A C G C C G G G I G C G C G T C G A C D I T T A G T A C G C C G G G I G C G C G T C G A C D 0 H114 (I) (T) [T] (A) (G) (T) (A) C G T C A G A I C G C A C T A A G C D (D) (C) [C] (T) (T) (C) (G) T A T T G T G D G C G A G C A A G C D 0 H115 D C C T T C G T A T T G T G D G C G A G C A A A C D D C C T T C G T A T T G T G D G C G A G C A A G C D 0 H116 (I) (T) (T) (A) (G) (T) (A) C G C C G G G I G C G C G T C G A C D (D) (C) (C) (T) (T) (C) (G) T A T T G T G D G C G A G C A A A C D 0 H117 [I] (T) [T] (A) (G) [T] (A) C G C C G G G I G C G C G T C G A C D [D] (C) [C] (T) (T) [C] (G) T A T T G T G D G C G A G C A A G C D 0 H118 D C C T T C G T A T T G T G D G C G A G C A A G C D D C C T T C G T A T T G T G D G C G A G C A A G C D 0 H119 I T C T T C G C G T T G G G D C G C A G C A A G C D I T T A G T A C G C C G G G I G C G C G T C G A C D 0 H120 (I) (T) [T] (A) (G) (T) (A) C G C C G G G I G C G C G T C G A C D (D) (C) [C] (T) (T) (C) (G) T A T T G T G D G C G A G C A A G C D 0 H121 (I) (T) (T) (A) (G) (T) (A) C G C C G G G I G C G C G T C G A C D (D) (C) (C) (T) (T) (C) (G) T A T T G T G D G C G A G C A A A C D 0 H122 I T T A G T A C G C C G G G I G C G C G T C G A C D I T T A G T A C G C C G G G I G C G C G T C G A C D 0 X125 (I) (T) (T) (A) (G) (T) (A) C G C C G G G I G C G C G T C G G C D (D) (C) (C) (T) (T) (C) (G) T A T T G T G D G C G A G C A A G C D 0 X126 (I) (T) (T) (A) (G) (T) (A) C G C C G G G I G C G C G T C G A C D (D) (C) (C) (T) (T) (C) (G) T A T T G T G D G C G A G C A A G C D 0 X127 (I) (T) (T) (A) (G) (T) (A) C G C C G G G I G C G C G T C G A C D (D) (C) (C) (T) (T) (C) (G) T A T T G T G D G C G A G C A A G C D 0 X128 I T T A G T A C G C C G G G I G C G C G T C G A C D I T T A G T A C G C C G G G I G C G C G T C G G C D 0 X129 I T T A G T A C G C C G G G I G C G C G T C G A C D I T T A G T A C G C C G G G I G C G C G T C G A C D 0 X130 D C C T T C G T A T T G T G D G C G A G C A A G C D D C C T T C G T A T T G T G D G C G A G C A A G C D 0 X131 (I) (T) (T) (A) (G) [T] [A] C G C C G G G I G C G C G T C G A C D (D) (C) (C) (T) (T) [C] [G] T A T T G T G D G C G A G C A A [G] C D 0 X132 I T T A G T A C G C C G G G I G C G C G T C G A C D I T T A G T A C G C C G G G I G C G C G T C G A C D 0 X133 (I) (T) (T) (A) (G) (T) (A) C G C C G G G I G C G C G T C G A C D (D) (C) (C) (T) (T) (C) (G) T A T T G T G D G C G A G C A A G C D 0 X134 I T T A G T A C G C C G G G I G C G C G T C G G C D I T T A G T A C G C C G G G I G C G C G T C G G C D 0 X135 I T T A G T A C G C C G G G D G C G A G C A A G C D I T T A G T A C G C C G G G D G C G A G C A A G C I 0 X136 I T T A G T A C G C C G G G I G C G C G T C G A C D I T T A G T A C G C C G G G I G C G C G T C G A C D 0 X137 (I) (T) (T) (A) (G) (T) (A) C G C C G G G I G C G C G T C G A C D (D) (C) (C) (T) (T) (C) (G) T A T T G T G D G C G A G C A A G C D 0 X138 I T T A G T A C G C C G G G I G C G C G T C G A C D I T T A G T A C G C C G G G I G C G C G T C G A C D 0 X139 (I) (T) (T) (A) (G) (T) [A] C G C C G G G I G C G C G T C G A C D (D) (C) (C) (T) (T) (C) [G] T A T T G T G D G C G A G C A A G C D 0 X140 I T T A G T A (C) (G) (C) (C) G (G) G I G C G C G T C G A C D D C C T T C G (T) (A) (T) (T) G (T) G I G C G C G T C G A C D 0 X141 I T T A G T A C G C C G G G I G C G C G T C G A C D I T T A G T A C G C C G G G I G C G C G T C G A C D 0 X142 I T T A G T A C G C C G G G I G C G C G T C G A C D I T T A G T A C G C C G G G I G C G C G T C G G C D 0 X143 I T T A G T A C G C C G G G I G C G C G T C G A C D I T T A G T A C G C C G G G I G C G C G T C G A C D 0 X144 (I) (T) (T) (A) (G) (T) (A) C G C C G G G I G C G C G T C G A C D (D) (C) (C) (T) (T) (C) (G) T A T T G T G D G C G A G C A A G C D 0 X145 I T T A G T A C G C C G G G I G C G C G T C G A C D I T T A G T A C G C C G G G I G C G C G T C G A C D 0 X146 I T T A G T A C G C C G G G I G C G C G T C G A C D I T T A G T A C G C C G G G I G C G C G T C G A C D 0 X147 (I) (T) (T) (A) (G) (T) (A) C G C C G G G I G C G C G T C G A C D (D) (C) (C) (T) (T) (C) (G) T A T T G T G D G C G A G C A A G C D 0 X148 (I) (T) [T] (A) (G) (T) (A) C G C C G G G I G C G C G T C G A C D (D) (C) [C] (T) (T) (C) (G) T A T T G T G D G C G A G C A A G C D 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 I ? T A G T ? = = = = (A) = (A) = = = = = (C) (T) = = ? ? = D ? C T T C ? = = = = (G) = (G) = = = = = (G) (C) = = ? ? = 0 D002 = = = = = = = = = = = = = = = = = = = = = = = A G I = = = = = = = = = = = = = = = = = = = = = = = G C D 0 D003 = = = = = = = = = = = = = = I C G C = C T = = (A) G I = = = = = = = = = = = = = = D G C G = G C = = (G) C D 0 D004 = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = 0 D005 (I) (T) (T) (A) (G) (T) = = = = = A = A = C G C = = = = = A ? I (D) (C) (C) (T) (T) (C) = = = = = G = G = G C G = = = = = G ? D 0 D006 I T T A G T A = = = = (A) = (A) = (C) (G) (C) = = = = ? = = = D C C T T C G = = = = (G) = (G) = (G) (C) (G) = = = = ? = = = 0 D007 (I) (T) (T) (A) (G) (T) (A) C G = C A G A I C G C = C T = = (G) = = (D) (C) (C) (T) (T) (C) (G) T A = T G T G D G C G = G C = = (A) = = 0 D008 (I) (T) (T) (A) (G) (T) (A) ? ? = C A G A I C G C = C T = = (G) = = (D) (C) (C) (T) (T) (C) (G) ? ? = T G T G D G C G = G C = = (A) = = 0 D009 = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = ? = = 0 D010 (I) (T) (T) (A) (G) (T) (A) = = (T) = (A) = (A) = = = = (A) = ? ? ? (G) = = (D) (C) (C) (T) (T) (C) (G) = = (C) = (G) = (G) = = = = (C) = ? ? ? (A) = = 0 D011 (I) (T) (T) (A) (G) (T) (A) = = ? ? ? = (A) = (C) (G) (C) = = (T) = = = = = (D) (C) (C) (T) (T) (C) (G) = = ? ? ? = (G) = (G) (C) (G) = = (C) = = = = = 0 D012 = = = = = (C) (G) = = C = G = G = G C G = = = = = = ? = = = = = = (T) (A) = = T = A = A = C G C = = = = = = ? = 0 D013 = = C = = = = = = = = = = = = = = = = = = = = = = = = = T = = = = = = = = = = = = = = = = = = = = = = = 0 D014 (I) (T) = = = = = C G = ? = G = = C G C = = = = = = = = (D) (C) = = = = = T A = ? = T = = G C G = = = = = = = = 0 D015 = = = = = = = = = = = = = = = = = = = = = = = A = = = = = = = = = = = = = = = = = = = = = = = = = G = = 0 D016 = = = = = = = ? = = = = = = = C G C = = = = = A G I = = = = = = = ? = = = = = = = G C G = = = = = G C D 0 D033 = = ? (T) (T) (C) (G) = = T = = = = = C G C A C = A A G = = = = ? (A) (G) (T) (A) = = C = = = = = G C G C G = C G A = = 0 D034 = = = = = = = C G C C = G = I = = = = = T C = = (G) (I) = = = = = = = T A T T = T = D = = = = = C A = = (C) (D) 0 D035 (I) (T) (T) (A) (G) (T) (A) C G = C A G A I C G C = C T = = = ? = (D) (C) (C) (T) (T) (C) (G) T A = T G T G D G C G = G C = = = ? = 0 D036 = = ? = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = 0 D037 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 D038 = = = = = = = = = = = = = = = = = = = = = = = A G I = = = = = = = = = = = = = = = = = = = = = = = G C D 0 D039 I T T A G T A = = = = (A) = ? = = = = = (C) (T) = = = (G) = D C C T T C G = = = = (G) = ? = = = = = (G) (C) = = = (C) = 0 D040 I T T A G T A = = = = (A) = (A) = (C) (G) (C) = = = = = = = = D C C T T C G = = = = (G) = (G) = (G) (C) (G) = = = = = = = = 0 E001 (I) (T) (T) (A) (G) (T) (A) C G C C = G = I = = = C = T C ? = = = (D) (C) (C) (T) (T) (C) (G) T A T T = T = D = = = A = C A ? = = = 0 E002 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 E003 I T T A G T A (C) (G) (C) (C) = (G) = = = = = = = = = = = = = D C C T T C G (T) (A) (T) (T) = (T) = = = = = = = = = = = = = 0 E004 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 E005 (I) (T) (T) (A) (G) (T) (A) C G = C A G A I C G C = C T = = (A) G I (D) (C) (C) (T) (T) (C) (G) T A = T G T G D G C G = G C = = (G) C D 0 E006 (I) (T) (T) (A) (G) (T) (A) C G = C A G A I C G C = C T = = A G = (D) (C) (C) (T) (T) (C) (G) T A = T G T G D G C G = G C = = G C = 0 E007 (I) ? (T) (A) (G) ? ? C G = C A G A I C G C = C T = = A G I (D) ? (C) (T) (T) ? ? T A = T G T G D G C G = G C = = G C D 0 E008 = = ? ? ? = = = = = = = = = = = = = = = = = = = = = = = ? ? ? = = = = = = = = = = = = = = = = = = = = = 0 E009 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 E010 = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = 0 E011 = = = = = = = = = = = = = = = = = = = = = = = A = = = = = = = = = = = = = = = = = = = = = = = = = G = = 0 E012 (I) (T) (T) (A) (G) (T) (A) C G C C = G = I = = = C = T C G (A) (G) (I) (D) (C) (C) (T) (T) (C) (G) T A T T = T = D = = = A = C A A (G) (C) (D) 0 E013 = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = 0 E014 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 E015 (I) (T) (T) (A) (G) (T) (A) C G C C = G = I = = = C = T C G ? = = (D) (C) (C) (T) (T) (C) (G) T A T T = T = D = = = A = C A A ? = = 0 E016 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 E017 ? = = = = = = = = = = = = = ? = = ? ? = = = = = = = ? = = = = = = = = = = = = = ? = = ? ? = = = = = = = 0 E018 = = = = = = = = = = = = = = ? = = = C = ? ? G A = = = = = = = = = = = = = = = = ? = = = A = ? ? A G = = 0 E019 = = = = = = = = = = = = = = = = = = = = = = = A = = = = = = = = = = = = = = = = = = = = = = = = = G = = 0 E020 = = = = = = = = = = = = = = = = = = = = = = = A = = = = = = = = = = = = = = = = = = = = = = = = = G = = 0 E021 = = = = = = = = = T = A = A = C G C A C = A ? ? ? I = = = = = = = = = C = G = G = G C G C G = C ? ? ? D 0 E022 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 E023 = = = = = = = = = = = = = = = C = = = = = = = = = = = = = = = = = = = = = = = = = G = = = = = = = = = = 0 E024 I T ? A ? T A = = = = = = = = = = = = = = = = (A) (C) (D) D C ? T ? C G = = = = = = = = = = = = = = = = (G) (G) (I) 0 H101 = = = = = = = = = = = = = = = = = = = = = = = A = = = = = = = = = = = = = = = = = = = = = = = = = G = = 0 H102 (I) (T) (T) (A) (G) (T) (A) C G C C = G = I = = = C = T C G A = = (D) (C) (C) (T) (T) (C) (G) T A T T = T = D = = = A = C A A G = = 0 H103 = = = = = = = = = = = = = = = = = = = = ? ? = = = = = = = = = = = = = = = = = = = = = = = = ? ? = = = = 0 H104 (I) (T) ? (A) (G) (T) (A) C G C C = G = = G C G C G = C G A = = (D) (C) ? (T) (T) (C) (G) T A T T = T = = C G C A C = A A G = = 0 H105 = = = = = = = = = = = = = = = = = = = = ? ? = = = = = = = = = = = = = = = = = = = = = = = = ? ? = = = = 0 H106 = = ? = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = 0 H107 (I) ? (T) (A) (G) (T) (A) C G C C = G = I = = = C = T C G A = = (D) ? (C) (T) (T) (C) (G) T A T T = T = D = = = A = C A A G = = 0 H108 = = ? = = = = = = = = = = = = = = = = = = = = (A) G I = = ? = = = = = = = = = = = = = = = = = = = = (G) C D 0 H109 = = ? = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = 0 H110 = = = = = = = C G = C A G A I = = = = = ? ? ? (A) = = = = = = = = = T A = T G T G D = = = = = ? ? ? (G) = = 0 H111 (I) (T) (T) (A) (G) (T) (A) C G C C = G = I = = = C = T C ? A = = (D) (C) (C) (T) (T) (C) (G) T A T T = T = D = = = A = C A ? G = = 0 H112 = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = 0 H113 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 H114 (I) (T) ? (A) (G) (T) (A) C G = C A G A ? C G C = C T = = = = = (D) (C) ? (T) (T) (C) (G) T A = T G T G ? G C G = G C = = = = = 0 H115 = = = = = = = = = = = = = = = = = = = = = = = A = = = = = = = = = = = = = = = = = = = = = = = = = G = = 0 H116 (I) (T) (T) (A) (G) (T) (A) C G C C = G = ? = = ? ? = T C G = = = (D) (C) (C) (T) (T) (C) (G) T A T T = T = ? = = ? ? = C A A = = = 0 H117 ? (T) ? (A) (G) ? (A) C G C C = ? ? ? ? ? ? ? = T C G A = ? ? (C) ? (T) (T) ? (G) T A T T = ? ? ? ? ? ? ? = C A A G = ? 0 H118 = = = = = ? ? = = = = = = = = = = = = = = = = = = = = = = = = ? ? = = = = = = = = = = = = = = = = = = = 0 H119 = = C T T C G = = T T = = = ? C G C A = C A A G = = = = T A G T A = = C C = = = ? G C G C = T C G A = = 0 H120 (I) (T) ? (A) (G) (T) (A) C G C C = G = I = = = C = T C G A = = (D) (C) ? (T) (T) (C) (G) T A T T = T = D = = = A = C A A G = = 0 H121 (I) (T) (T) (A) (G) (T) (A) C G C C = G = I = = = C = T C ? = = = (D) (C) (C) (T) (T) (C) (G) T A T T = T = D = = = A = C A ? = = = 0 H122 = = ? = = ? ? = = = = = = ? ? = = = = = = = = = = = = = ? = = ? ? = = = = = = ? ? = = = = = = = = = = = 0 X125 (I) (T) (T) (A) (G) (T) (A) C G C C = G = I = = = C = T C G = = = (D) (C) (C) (T) (T) (C) (G) T A T T = T = D = = = A = C A A = = = 0 X126 (I) (T) (T) (A) (G) (T) (A) C G C C = G = ? = = = C = T C G A = = (D) (C) (C) (T) (T) (C) (G) T A T T = T = ? = = = A = C A A G = = 0 X127 (I) (T) (T) (A) (G) (T) (A) C G C C = G = I = = = C = T C G A = = (D) (C) (C) (T) (T) (C) (G) T A T T = T = D = = = A = C A A G = = 0 X128 = = = = = = = = = = = = = = = = = = = = = = = A = = = = = = = = = = = = = = = = = = = = = = = = = G = = 0 X129 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 X130 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 X131 (I) (T) (T) (A) (G) ? ? C G C C = G = I = = = ? = ? ? G ? = = (D) (C) (C) (T) (T) ? ? T A T T = T = D = = = ? = ? ? A ? = = 0 X132 = = ? = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = 0 X133 (I) (T) (T) (A) (G) (T) (A) C G C C = G = I = = = C = T C G A = = (D) (C) (C) (T) (T) (C) (G) T A T T = T = D = = = A = C A A G = = 0 X134 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 X135 = = ? = = = = = = = = = = = = = = = = ? ? ? = = = D = = ? = = = = = = = = = = = = = = = = ? ? ? = = = I 0 X136 = = = = = = = = = = = = = = ? = = = = ? = = = = = = = = = = = = = = = = = = = = ? = = = = ? = = = = = = 0 X137 (I) (T) (T) (A) (G) (T) (A) C G C C = G = I = = = C = ? ? ? A = = (D) (C) (C) (T) (T) (C) (G) T A T T = T = D = = = A = ? ? ? G = = 0 X138 = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = 0 X139 (I) (T) (T) (A) (G) (T) ? C G C C = G = I = = = C = ? ? G A = = (D) (C) (C) (T) (T) (C) ? T A T T = T = D = = = A = ? ? A G = = 0 X140 I ? T A G T A (C) (G) (C) (C) = (G) = = = = = = = = = = = = = D ? C T T C G (T) (A) (T) (T) = (T) = = = = = = = = = = = = = 0 X141 ? = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = 0 X142 = = = = = = = = = = = = = = = = = = = = = = = A = = = = = = = = = = = = = = = = = = = = = = = = = G = = 0 X143 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 X144 (I) (T) (T) (A) (G) (T) (A) C G C C = G = I = = = C = T C G A = = (D) (C) (C) (T) (T) (C) (G) T A T T = T = D = = = A = C A A G = = 0 X145 = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = 0 X146 = = = = = = = = = = = = = = = = = = = ? ? ? ? = = = = = = = = = = = = = = = = = = = = = = ? ? ? ? = = = 0 X147 (I) (T) (T) (A) (G) (T) (A) C G C C = G = I = = = C = T C G A = = (D) (C) (C) (T) (T) (C) (G) T A T T = T = D = = = A = C A A G = = 0 X148 (I) (T) ? (A) (G) (T) (A) C G C C = G = I = = = C = T C G A = = (D) (C) ? (T) (T) (C) (G) T A T T = T = D = = = A = C A A G = = 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 ? = = = = 0.59 = 0.59 = = = = = 0.59 0.59 = = ? ? = = = = = = = = = = = = = = = = = = = = = = = = 0.95 1.00 1.00 = = = = = = = = = = = = = = 1.00 1.00 1.00 1.00 = 1.00 1.00 = = 0.88 0.97 0.97 = = = = = = = ? = = = = = = = = = = = = = = = = = = 0.56 0.56 0.56 0.56 0.56 0.56 = = = = = 1.00 = 1.00 = 1.00 1.00 1.00 = = = = = 0.95 ? 1.00 1.00 1.00 1.00 1.00 1.00 1.00 1.00 = = = = 0.64 = 0.64 = 0.64 0.64 0.64 = = = = ? = = = 0.67 0.67 0.67 0.67 0.67 0.67 0.67 1.00 1.00 = 1.00 1.00 1.00 1.00 1.00 1.00 1.00 1.00 = 1.00 1.00 = = 0.73 = = 0.67 0.67 0.67 0.67 0.67 0.67 0.67 ? ? = 1.00 1.00 1.00 1.00 1.00 1.00 1.00 1.00 = 1.00 1.00 = = 0.74 = = = = = = = = = = = = = = = = = = = = = = = = = ? = = 0.61 0.61 0.61 0.61 0.61 0.61 0.61 = = 0.88 = 0.88 = 0.88 = = = = 0.88 = ? ? ? 0.61 = = 0.77 0.77 0.77 0.77 0.77 0.77 0.77 = = ? ? ? = 0.76 = 0.82 0.82 0.82 = = 0.79 = = = = = = = = = = 0.62 0.62 = = 0.93 = 0.93 = 0.93 = 0.91 0.91 0.91 = = = = = = ? = = = 1.00 = = = = = = = = = = = = = = = = = = = = = = = 0.90 0.90 = = = = = 1.00 1.00 = ? = 1.00 = = 1.00 1.00 1.00 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 1.00 = = = = = = = = = ? = = = = = = = 0.98 0.98 0.98 = = = = = 0.95 1.00 1.00 = = ? 0.58 0.58 0.58 0.58 = = 0.99 = = = = = 1.00 1.00 1.00 1.00 1.00 = 1.00 1.00 0.93 = = = = = = = = = 1.00 1.00 1.00 1.00 = 1.00 = 1.00 = = = = = 1.00 1.00 = = 0.79 0.79 0.68 0.68 0.68 0.68 0.68 0.68 0.68 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 1.00 1.00 1.00 1.00 1.00 1.00 1.00 1.00 1.00 = = = = 0.56 = ? = = = = = 0.56 0.56 = = = 0.56 = 1.00 1.00 1.00 1.00 1.00 1.00 1.00 = = = = 0.64 = 0.64 = 0.64 0.64 0.64 = = = = = = = = 0.68 0.69 0.69 0.69 0.69 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 0.71 0.71 0.71 0.71 = 0.71 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0.69 0.69 0.69 0.69 0.69 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 = = 0.88 0.97 0.97 0.62 0.62 0.62 0.62 0.62 0.62 0.62 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 0.99 = 0.72 ? 0.72 0.72 0.72 ? ? 0.99 0.99 = 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 = 0.99 0.99 = = 0.93 1.00 1.00 = = ? ? ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 1.00 = = 0.64 0.64 0.64 0.64 0.64 0.64 0.64 1.00 1.00 1.00 1.00 = 1.00 = 1.00 = = = 1.00 = 1.00 1.00 1.00 0.75 0.59 0.59 = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0.69 0.69 0.69 0.69 0.69 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 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 = = = = = = = = = = = = = = = = 0.63 0.71 0.71 = = = = = = = = = = = = = = = = = = = = = = = 1.00 = = 0.69 0.69 0.69 0.69 0.69 0.69 0.69 1.00 1.00 1.00 1.00 = 1.00 = 1.00 = = = 1.00 = 1.00 1.00 1.00 0.96 = = = = = = = = = = = = = = = = = = = = = = ? ? = = = = 0.68 0.68 ? 0.68 0.68 0.68 0.68 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 = = = = = = = = = = = = = = = = = = = = = = ? ? = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = 0.69 ? 0.69 0.69 0.69 0.69 0.69 1.00 1.00 1.00 1.00 = 1.00 = 1.00 = = = 1.00 = 1.00 1.00 1.00 0.96 = = = = ? = = = = = = = = = = = = = = = = = = = = 0.67 1.00 1.00 = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 1.00 1.00 = 1.00 1.00 1.00 1.00 1.00 = = = = = ? ? ? 0.51 = = 0.69 0.69 0.69 0.69 0.69 0.69 0.69 1.00 1.00 1.00 1.00 = 1.00 = 1.00 = = = 1.00 = 1.00 1.00 ? 0.96 = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0.68 0.68 ? 0.68 0.68 0.68 0.68 1.00 1.00 = 1.00 1.00 1.00 1.00 ? 1.00 1.00 1.00 = 1.00 1.00 = = = = = = = = = = = = = = = = = = = = = = = = = = = = 1.00 = = 0.69 0.69 0.69 0.69 0.69 0.69 0.69 1.00 1.00 1.00 1.00 = 1.00 = ? = = ? ? = 1.00 1.00 1.00 = = = ? 0.70 ? 0.70 0.70 ? 0.70 1.00 1.00 1.00 1.00 = ? ? ? ? ? ? ? = 1.00 1.00 1.00 0.97 = ? = = = = = ? ? = = = = = = = = = = = = = = = = = = = = = 0.92 0.92 0.92 0.92 0.92 = = 1.00 1.00 = = = ? 1.00 1.00 1.00 1.00 = 1.00 1.00 1.00 1.00 = = 0.69 0.69 ? 0.69 0.69 0.69 0.69 1.00 1.00 1.00 1.00 = 1.00 = 1.00 = = = 1.00 = 1.00 1.00 1.00 0.96 = = 0.69 0.69 0.69 0.69 0.69 0.69 0.69 1.00 1.00 1.00 1.00 = 1.00 = 1.00 = = = 1.00 = 1.00 1.00 ? = = = = = ? = = ? ? = = = = = = ? ? = = = = = = = = = = = 0.69 0.69 0.69 0.69 0.69 0.69 0.69 1.00 1.00 1.00 1.00 = 1.00 = 1.00 = = = 1.00 = 1.00 1.00 1.00 = = = 0.69 0.69 0.69 0.69 0.69 0.69 0.69 1.00 1.00 1.00 1.00 = 1.00 = ? = = = 1.00 = 1.00 1.00 1.00 0.96 = = 0.69 0.69 0.69 0.69 0.69 0.69 0.69 1.00 1.00 1.00 1.00 = 1.00 = 1.00 = = = 1.00 = 1.00 1.00 1.00 0.96 = = = = = = = = = = = = = = = = = = = = = = = = = 1.00 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0.68 0.68 0.68 0.68 0.68 ? ? 1.00 1.00 1.00 1.00 = 1.00 = 1.00 = = = ? = ? ? 1.00 ? = = = = ? = = = = = = = = = = = = = = = = = = = = = = = 0.69 0.69 0.69 0.69 0.69 0.69 0.69 1.00 1.00 1.00 1.00 = 1.00 = 1.00 = = = 1.00 = 1.00 1.00 1.00 0.96 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = ? ? ? = = = 1.00 = = = = = = = = = = = = = = ? = = = = ? = = = = = = 0.69 0.69 0.69 0.69 0.69 0.69 0.69 1.00 1.00 1.00 1.00 = 1.00 = 1.00 = = = 1.00 = ? ? ? 0.96 = = = = = = = = = = = = = = = = = = = = = = = = ? = = = 0.69 0.69 0.69 0.69 0.69 0.69 ? 1.00 1.00 1.00 1.00 = 1.00 = 1.00 = = = 1.00 = ? ? 1.00 0.96 = = 0.99 ? 1.00 1.00 1.00 1.00 1.00 0.71 0.71 0.71 0.71 = 0.71 = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 1.00 = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0.69 0.69 0.69 0.69 0.69 0.69 0.69 1.00 1.00 1.00 1.00 = 1.00 = 1.00 = = = 1.00 = 1.00 1.00 1.00 0.96 = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = ? ? ? ? = = = 0.69 0.69 0.69 0.69 0.69 0.69 0.69 1.00 1.00 1.00 1.00 = 1.00 = 1.00 = = = 1.00 = 1.00 1.00 1.00 0.96 = = 0.69 0.69 ? 0.69 0.69 0.69 0.69 1.00 1.00 1.00 1.00 = 1.00 = 1.00 = = = 1.00 = 1.00 1.00 1.00 0.96 = = END PHASEPROBS