************************************************************* **** **** **** Output from PHASE v2.0 **** **** Code by M Stephens, with contributions from N Li **** **** **** ************************************************************* BEGIN COMMAND_LINE /usr/local/genome/lib/phase/PHASE2 -d1 ddb2x.phase.inp ddb2x.phase.out END COMMAND_LINE BEGIN OUTFILE_LIST ddb2x.phase.out_freqs : haplotype frequency estimates ddb2x.phase.out_pairs : most likely haplotype pairs for each individual ddb2x.phase.out_recom : estimates of recombination parameters ddb2x.phase.out_monitor : file for monitoring convergence END OUTFILE_LIST BEGIN INPUT_SUMMARY Number of Individuals: 90 Number of Loci: 31 Positions of loci: 339 343 450 613 1404 1725 3315 9190 9434 9539 16285 16302 17124 17186 17293 17359 18059 18100 19646 20756 21388 22902 23314 23718 24043 24193 24323 24370 24528 25122 25311 END INPUT_SUMMARY List of haplotypes found in best reconstruction, with counts. (See file ddb2x.phase.out_freqs for haplotype population frequency estimates) BEGIN LIST_SUMMARY 1 GGGGCCGCTATTTCTATCCCCCGCGGTACCG 6.000000 2 GGGGCCGCTATTTCGACGTTTTCTAGCGCCG 1.000000 3 GGGGCCGCTAACTCTGTCTCCCGTAGCGTTG 3.000000 4 GGGGCTGCTATTTCTATCCCCCGCGGTACCG 39.000000 5 GGGGCTGCTATTTCTATCCCCCGCGGTACCA 19.000000 6 GGGGCTGCTATTTCTATCCCCCGTGGTACCG 1.000000 7 GGGGCTGCTAACTCTGTCCCCCGTAGCGTTG 1.000000 8 GGGGCTGCTAACTCTGTCTCCCGTAGCGTTG 4.000000 9 GGGGCTGCCTTTTCGACGTTTTCTAGCGCCG 1.000000 10 GGGGCTGTTATTATTATCCCCCGTGCCGCCG 2.000000 11 GGGGCTACTATTTCTATCCCCCGCGGTACCA 1.000000 12 GGCGCTGCCTTTTCGACGTTCCCTAGCGCCG 1.000000 13 GGCGCTACTATTTCTATCCCCCGCGGTACCG 1.000000 14 GGCGCTACCTTTTCGACGTTTTCTAGCGCCG 1.000000 15 GGCGCTATTATTTCTATCCCCCGTGCCGCCG 1.000000 16 GGCGCTATTATTACTATCCCCCGTGCCGCCG 2.000000 17 GGCGCTATTATTATTATCCCCCGTGCCGCCG 11.000000 18 GGCACTGCTATTTCTATCCCCCGCGGTACCG 2.000000 19 GGCACTGCTATTTCTATCCCCCGTGGTACCG 1.000000 20 GGCACTGCCTTTTCGACGTTTTCTAGCGCCG 11.000000 21 AACGCTGCTATTTCTATCCCCCGCGGTACCG 1.000000 22 AACGCTGCTATTTCTATCCCCCGCGGTACCA 6.000000 23 AACGCTGCTATTTCTATCCCCCGTGGTGCCG 3.000000 24 AACGCTGCTATTTCTATCTCCCGTGGCGCCG 1.000000 25 AACGCTGCTATTTCTACGTTCCCTAGCGTCG 2.000000 26 AACGCTGCTAACTCTGTCTCCCGTAGCGTTG 1.000000 27 AACGCTGCCTTTTCGACGCTTTCTAGCGCCG 1.000000 28 AACGCTGCCTTTTCGACGTTCTCTAGCGCCG 1.000000 29 AACGCTGCCTTTTCGACGTTTTCTAGCGCCG 42.000000 30 AACGCTGCCTTTACGACGTTCTCTAGCGCCG 2.000000 31 AACGCTGCCTTTACGACGTTTTCTAGCGCCG 1.000000 32 AACGTTGCTATTTCTATCCCCCGCGGTACCG 1.000000 33 AACGTTGCTATTTCTATCCCCCGCGGTACCA 9.000000 END LIST_SUMMARY Summary of best reconstruction (numbers refer to the list of haplotypes given above) BEGIN BESTPAIRS_SUMMARY P001: (1,4) P002: (29,29) P003: (21,33) P004: (23,23) P005: (5,9) P006: (17,33) P007: (4,29) P008: (4,29) P009: (4,33) P010: (4,33) P011: (29,19) P012: (4,29) P013: (22,29) P014: (8,29) P015: (5,5) P016: (4,29) P017: (4,17) P018: (4,29) P019: (29,29) P020: (2,5) P021: (20,22) P022: (4,4) P023: (1,29) P024: (1,29) P025: (4,26) P026: (4,29) P027: (5,29) P028: (10,17) P029: (8,18) P030: (3,6) P031: (4,31) P032: (20,24) P033: (4,5) P034: (22,29) P035: (4,10) P036: (17,29) P037: (4,29) P038: (25,30) P039: (4,4) P040: (4,5) P041: (4,23) P042: (20,25) P043: (16,29) P044: (3,5) P045: (8,3) P046: (28,29) P047: (17,29) P048: (1,5) P049: (4,29) P050: (17,17) P051: (4,29) P052: (4,5) P053: (4,33) P054: (13,16) P055: (29,29) P056: (17,20) P057: (20,20) P058: (4,8) P059: (20,22) P060: (4,5) P061: (22,29) P062: (4,5) P063: (1,29) P064: (18,20) P065: (7,12) P066: (29,33) P067: (29,29) P068: (4,5) P069: (4,29) P070: (4,29) P071: (14,29) P072: (1,5) P073: (5,11) P074: (5,17) P075: (29,29) P076: (4,29) P077: (4,33) P078: (4,5) P079: (29,29) P080: (15,20) P081: (29,33) P082: (17,27) P083: (4,5) P084: (4,33) P085: (5,29) P086: (4,32) P087: (4,22) P088: (20,30) P089: (17,20) P090: (4,29) END BESTPAIRS_SUMMARY Haplotype estimates for each individual, with uncertain phases enclosed in () and uncertain genotypes enclosed in []: BEGIN BESTPAIRS1 0 P001 G G G G C C G C T A T T T C T A T C C C C C G C G G T A C C G G G G G C T G C T A T T T C T A T C C C C C G C G G T A C C [G] 0 P002 A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P003 A A C G (C) T G C T A T T T C T A T C C C C C G C G G T A C C G A A C G (T) T G C T A T T T C T A T C C C C C G C G G T A C C A 0 P004 A A C G C T G C T A T T T C T A T C C C C C G T G G T G C C G A A C G C T G C T A T T T C T A T C C C C C G T G G T G C C G 0 P005 G G G G C T G C T A T T T C T A T C C C C C G C G G T A C C A G G G G C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P006 G G C G C T A T T A T T A T T A T C C C C C G T G C C G C C G A A C G T T G C T A T T T C T A T C C C C C G C G G T A C C A 0 P007 G G G G C T G C T A T T T C T A T C C C C C G C G G T A C C G A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P008 G G G G C T G C T A T T T C T A T C C C C C G C G G T A C C G A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P009 G G G G C T G C T A T T T C T A T C C C C C G C G G T A C C (G) A A C G T T G C T A T T T C T A T C C C C C G C G G T A C C (A) 0 P010 G G G G C T G C T A T T T C T A T C C C C C G C G G T A C C (G) A A C G T T G C T A T T T C T A T C C C C C G C G G T A C C (A) 0 P011 (A) (A) C (G) C T G C C T T T T C G A C G T T T T C T A G C G C C G (G) (G) C (A) C T G C T A T T T C T A T C C C C C G T G G T A C C G 0 P012 G G G G C [T] G C T A T T T C T A T C C C C C G C G G T A C C [G] A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P013 A A C G C T G C T A T T T C T A T C C C C C G C G G T A C C [A] A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P014 G G G G C [T] G C T A A C T C T G T C [T] C C C G T A G C G T T G A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P015 G G G G C T G C T A T T T C T A T C C C C C G C G G T A C C A G G G G C [T] G C T A T T T C T A T C C C C C G C G G T A C C A 0 P016 G G G G C [T] G C T A T T T C T A T C C C C C G C G G T A C C [G] A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P017 G G G G C T G C T A T T T C T A T C C C C C G C G G T A C C G G G C G C T A T T A T T A T T A T C C C C C G T G C C G C C G 0 P018 G G G G C [T] G C T A T T T C T A T C C C C C G C G G T A C C G A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P019 A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P020 G G G G C (C) G C T A T T T C G A C G T T T T C T A G C G C C G G G G G C (T) G C T A T T T C T A T C C C C C G C G G T A C C A 0 P021 (G) (G) C (A) C T G C C T T T T C G A C G T T T T C T A G C G C C G (A) (A) C (G) C T G C T A T T T C T A T C C C C C G C G G T A C C A 0 P022 G G G G C T G C T A T T T C T A T C C C C C G C G G T A C C G G G G G C T G C T A T T T C T A T C C C C C G C G G T A C C G 0 P023 G G G G C C G C T A T T T C T A T C C C C C G C G G T A C C G A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P024 G G G G C C G C T A T T T C T A T C C C C C G C G G T A C C G A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P025 (G) (G) (G) G C T G C T A T T T C T A T C C C C C G C G G T A C C G (A) (A) (C) G C T G C T A A C T C T G T C T C C C G T A G C G T T G 0 P026 G G G G C T G C T A T T T C T A T C C C C C G C G G T A C C G A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P027 G G G G C T G C T A T T T C T A T C C C C C G C G G T A C C A A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P028 G G G G C T G T T A T T A T T A T C C C C C G T G C C G C C G G G C G C T A T T A T T A T T A T C C C C C G T G C C G C C G 0 P029 G G (G) (G) C [T] G C T A A C T C T G T C [T] C C C G T A G C G T T G G G (C) (A) C T G C T A T T T C T A T C C C C C G C G G T A C C G 0 P030 G G G G C (C) G C T A A C T C T G T C T C C C G T A G C G T T G G G G G C (T) G C T A T T T C T A T C C C C C G T G G T A C C G 0 P031 G G G G C T G C T A T T (T) C T A T C C C C C G C G G T A C C [G] A A C G C T G C C T T T (A) C G A C G T T T T C T A G C G C C G 0 P032 (G) (G) C (A) C T G C C T T T T C G A C G T T T T C T A G C G C C G (A) (A) C (G) C T G C T A T T T C T A T C T C C C G T G G C G C C G 0 P033 G G G G C [T] G C T A T T T C T A T C C C C C G C G G T A C C G G G G G C [T] G C T A T T T C T A T C C C C C G C G G T A C C [A] 0 P034 A A C G C T G C T A T T T C T A T C C C C C G C G G T A C C [A] A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P035 G G G G C [T] G C T A T T T C T A T C C C C C G C G G T A C C G G G G G C T G T T A T T A T T A T C C C C C G T G C C G C C G 0 P036 G G C G C T A T T A T T A T T A T C C C C C G T G C C G C C G A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P037 G G G G C T G C T A T T T C T A T C C C C C G C G G T A C C G A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P038 A A C G C T G C T A T T T C T A C G T T C C C T A G C G [T] C G A A C G C T G C C T T T A C G A C G T T C T C T A G C G C C G 0 P039 G G G G C T G C T A T T T C T A T C C C C C G C G G T A C C G G G G G C T G C T A T T T C T A T C C C C C G C G G T A C C G 0 P040 G G G G C T G C T A T T T C T A T C C C C C G C G G T A C C G G G G G C T G C T A T T T C T A T C C C C C G C G G T A C C A 0 P041 G G G G C [T] G C T A T T T C T A T C C C C C G C G G T A C C [G] A A C G C T G C T A T T T C T A T C C C C C G T G G T G C C G 0 P042 G G C A C T G C C T T T T C G A C G T T T T C T A G C G C C G A A C G C T G C T A T T T C T A C G T T C C C T A G C G [T] C G 0 P043 G G C G C T A T T A T T A C T A T C C C C C G T G C C G C C G A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P044 G G G G C (C) G C T A A C T C T G T C [T] C C C G T A G C G T T G G G G G C (T) G C T A T T T C T A T C C C C C G C G G T A C C A 0 P045 G G G G C [T] G C T A A C T C T G T C [T] C C C G T A G C G T T G G G G G C [C] G C T A A C T C T G T C [T] C C C G T A G C G T T G 0 P046 A A C G C T G C C T T T T C G A C G T T C T C T A G C G C C G A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P047 G G C G C T A T T A T T A T T A T C C C C C G T G C C G C C G A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P048 G G G G C C G C T A T T T C T A T C C C C C G C G G T A C C G G G G G C T G C T A T T T C T A T C C C C C G C G G T A C C A 0 P049 G G G G C T G C T A T T T C T A T C C C C C G C G G T A C C G A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P050 G G C G C T A T T A T T A T T A T C C C C C G T G C C G C C G G G C G C T A T T A T T A T T A T C C C C C G T G C C G C C G 0 P051 G G G G C [T] G C T A T T T C T A T C C C C C G C G G T A C C G A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P052 G G G G C [T] G C T A T T T C T A T C C C C C G C G G T A C C G G G G G C T G C T A T T T C T A T C C C C C G C G G T A C C A 0 P053 G G G G C T G C T A T T T C T A T C C C C C G C G G T A C C (G) A A C G T T G C T A T T T C T A T C C C C C G C G G T A C C (A) 0 P054 G G C G C T A C T A T T T C T A T C C C C C G C G G T A C C [G] G G C G C T A T T A T T A C T A T C C C C C G T G C C G C C G 0 P055 A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P056 G G C G C T A T T A T T A T T A T C C C C C G T G C C G C C G G G C A C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P057 G G C A C T G C C T T T T C G A C G T T T T C T A G C G C C G G G C A C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P058 G G G G C [T] G C T A T T T C T A T C C C C C G C G G T A C C G G G G G C [T] G C T A A C T C T G T C [T] C C C G T A G C G T T G 0 P059 (G) (G) C (A) C T G C C T T T T C G A C G T T T T C T A G C G C C G (A) (A) C (G) C T G C T A T T T C T A T C C C C C G C G G T A C C A 0 P060 G G G G C [T] G C T A T T T C T A T C C C C C G C G G T A C C G G G G G C T G C T A T T T C T A T C C C C C G C G G T A C C A 0 P061 A A C G C T G C T A T T T C T A T C C C C C G C G G T A C C A A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P062 G G G G C [T] G C T A T T T C T A T C C C C C G C G G T A C C G G G G G C [T] G C T A T T T C T A T C C C C C G C G G T A C C [A] 0 P063 G G G G C C G C T A T T T C T A T C C C C C G C G G T A C C G A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P064 G G C A C T G C T A T T T C T A T C C C C C G C G G T A C C G G G C A C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P065 G G G G C [T] G C T A A C T C T G T C (C) C C C G T A G C G T T G G G C G C T G C C T T T T C G A C G (T) T C C C T A G C G C C G 0 P066 A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G A A C G T T G C T A T T T C T A T C C C C C G C G G T A C C [A] 0 P067 A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P068 G G G G C [T] G C T A T T T C T A T C C C C C G C G G T A C C G G G G G C [T] G C T A T T T C T A T C C C C C G C G G T A C C [A] 0 P069 G G G G C [T] G C T A T T T C T A T C C C C C G C G G T A C C G A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P070 G G G G C [T] G C T A T T T C T A T C C C C C G C G G T A C C G A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P071 G G C G C T A C C T T T T C G A C G T T T T C T A G C G C C G A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P072 G G G G C (C) G C T A T T T C T A T C C C C C G C G G T A C C G G G G G C (T) G C T A T T T C T A T C C C C C G C G G T A C C A 0 P073 G G G G C T G C T A T T T C T A T C C C C C G C G G T A C C A G G G G C T A C T A T T T C T A T C C C C C G C G G T A C C A 0 P074 G G G G C T G C T A T T T C T A T C C C C C G C G G T A C C A G G C G C T A T T A T T A T T A T C C C C C G T G C C G C C G 0 P075 A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P076 G G G G C T G C T A T T T C T A T C C C C C G C G G T A C C G A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P077 G G G G C [T] G C T A T T T C T A T C C C C C G C G G T A C C (G) A A C G T T G C T A T T T C T A T C C C C C G C G G T A C C (A) 0 P078 G G G G C [T] G C T A T T T C T A T C C C C C G C G G T A C C G G G G G C [T] G C T A T T T C T A T C C C C C G C G G T A C C [A] 0 P079 A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P080 G G C (G) C T (A) [T] T A T T T C T A T C C C C C G T G C C G C C G G G C (A) C T (G) C C T T T T C G A C G T T T T C T A G C G C C G 0 P081 A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G A A C G T T G C T A T T T C T A T C C C C C G C G G T A C C A 0 P082 G G C G C T A T T A T T A T T A T C C C C C G T G C C G C C G A A C G C T G C C T T T T C G A C G C T T T C T A G C G C C G 0 P083 G G G G C T G C T A T T T C T A T C C C C C G C G G T A C C G G G G G C T G C T A T T T C T A T C C C C C G C G G T A C C A 0 P084 G G G G C [T] G C T A T T T C T A T C C C C C G C G G T A C C (G) A A C G T T G C T A T T T C T A T C C C C C G C G G T A C C (A) 0 P085 G G G G C T G C T A T T T C T A T C C C C C G C G G T A C C A A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P086 G G G G C T G C T A T T T C T A T C C C C C G C G G T A C C G A A C G T T G C T A T T T C T A T C C C C C G C G G T A C C G 0 P087 G G G G C [T] G C T A T T T C T A T C C C C C G C G G T A C C (G) A A C G C T G C T A T T T C T A T C C C C C G C G G T A C C (A) 0 P088 G G C A C T G C C T T T T C G A C G T T T T C T A G C G C C G A A C G C T G C C T T T A C G A C G T T C T C T A G C G C C G 0 P089 G G C G C T A T T A T T A T T A T C C C C C G T G C C G C C G G G C A C T G C C T T T T C G A C G T T T T C T A G C G C C G 0 P090 G G G G C [T] G C T A T T T C T A T C C C C C G C G G T A C C G A A C G C T G C C T T T T C G A C G T T T T C T A G C G C C 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 P001 = = = = = C = = = = = = = = = = = = = = = = = = = = = = = ? ? = = = = = T = = = = = = = = = = = = = = = = = = = = = = = ? ? 0 P002 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 P003 ? ? = = (C) = = = = = = = = = = = = = = = = = = = = = = = = = G ? ? = = (T) = = = = = = = = = = = = = = = = = = = = = = = = = A 0 P004 = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = 0 P005 = = ? = = = = = T A = = = = T = T C C C C C G C G = T A = = A = = ? = = = = = C T = = = = G = C G T T T T C T A = C G = = G 0 P006 G G = = C = A T = = = = A T = = = = = = = = = T = C C G = = G A A = = T = G C = = = = T C = = = = = = = = = C = G T A = = A 0 P007 G G G = = = = = T A = = = = T = T C C C C C G C G = T A = = = A A C = = = = = C T = = = = G = C G T T T T C T A = C G = = = 0 P008 G G G = = = = = T A = = = = T = ? ? ? C C C G C G = T ? ? = = A A C = = = = = C T = = = = G = ? ? ? T T T C T A = C ? ? = = 0 P009 ? ? G = C = = = = = = = = = = = ? = ? = = ? ? = = = = = = = (G) ? ? C = T = = = = = = = = = = = ? = ? = = ? ? = = = = = = = (A) 0 P010 G G G = C = = = = = = = = = = = ? = = = = = = = = = = = = = (G) A A C = T = = = = = = = = = = = ? = = = = = = = = = = = = = (A) 0 P011 (A) (A) = (G) = = = = C T ? ? ? = G = ? G ? T T T C = ? = C G = = = (G) (G) = (A) = = = = T A ? ? ? = T = ? C ? C C C G = ? = T A = = = 0 P012 G G G = = ? = = T A = = = = T = ? ? C C C C G C G = T A = ? ? A A C = = ? = = C T = = = = G = ? ? T T T T C T A = C G = ? ? 0 P013 = = = = = = = = T A = = = = T = ? C C C ? C G C G = T A = ? ? = = = = = = = = C T = = = = G = ? G T T ? T C T A = C G = ? ? 0 P014 G G G = = ? = = T A A C = = T G ? ? ? C C C G = ? ? = = T T = A A C = = ? = = C T T T = = G A ? ? ? T T T C = ? ? = = C C = 0 P015 = = = = = ? = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = ? = = = = = = = = = = = = = = 0 P016 G G G = = ? = = T A = = = = T = ? C ? C C C G C G = T ? = ? ? A A C = = ? = = C T = = = = G = ? G ? T T T C T A = C ? = ? ? 0 P017 = = G = = = G C = = = = T C = = = = = = ? = = C = G T A = = = = = C = = = A T = = = = A T = = = = = = ? = = T = C C G = = = 0 P018 G G G = = ? = = T A = = = = T = ? C C C C C G C G = T A = = = A A C = = ? = = C T = = = = G = ? G T T T T C T A = C G = = = 0 P019 = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = 0 P020 = = = = = (C) = = = = = = = = G = C G T T T T C T ? = C G = = G = = = = = (T) = = = = = = = = T = T C C C C C G C ? = T A = = A 0 P021 (G) (G) = (A) = ? = = C T = = = = G = ? G T T ? T C T A = C G = = G (A) (A) = (G) = ? = = T A = = = = T = ? C C C ? C G C G = T A = = A 0 P022 = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? ? = = 0 P023 G G G = = C = = T A = = = = T = ? C C C C C G C G = T A = ? ? A A C = = T = = C T = = = = G = ? G T T T T C T A = C G = ? ? 0 P024 G G G = = C = = T A = = = = T = ? C C C C C G C G = T ? ? = = A A C = = T = = C T = = = = G = ? G T T T T C T A = C ? ? = = 0 P025 (G) (G) (G) = = = = = = = T T = = = A = = C = ? = = C G = T A C C = (A) (A) (C) = = = = = = = A C = = = G = = T = ? = = T A = C G T T = 0 P026 G G G = = = = = T A = = = = T = ? C C C C C G C G = T A = = = A A C = = = = = C T = = = = G = ? G T T T T C T A = C G = = = 0 P027 G G G = = = = = T A = = = = T = T C C C C C G C G = T A = = A A A C = = = = = C T = = = = G = C G T T T T C T A = C G = = G 0 P028 = = G = = = G = = = = = = = = = ? ? = = = = = = = = = ? ? = = = = C = = = A = = = = = = = = = ? ? = = = = = = = = = ? ? = = 0 P029 = = (G) (G) = ? = = = = A C = = = G ? ? ? = = = = T A = C G T T = = = (C) (A) = ? = = = = T T = = = A ? ? ? = = = = C G = T A C C = 0 P030 = = = = = (C) = = = ? A C = = = G ? ? T = = = = = A = C G T T = = = = = = (T) = = = ? T T = = = A ? ? C = = = = = G = T A C C = 0 P031 G G G = = = = = T A = = (T) = T = ? C C C C C G C G = T A = = ? A A C = = = = = C T = = (A) = G = ? G T T T T C T A = C G = = ? 0 P032 (G) (G) = (A) = = = = C T = = = = G = C G = T ? T C = A = = = = = = (A) (A) = (G) = = = = T A = = = = T = T C = C ? C G = G = = = = = = 0 P033 = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = ? ? = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = ? ? 0 P034 = = = = = = = = T A = = = = T = ? C C C C C G C G = T A = ? ? = = = = = = = = C T = = = = G = ? G T T T T C T A = C G = ? ? 0 P035 = = = = = ? ? C = = = = T C = = ? = = = = = = C = G T A = = = = = = = = ? ? T = = = = A T = = ? = = = = = = T = C C G = = = 0 P036 G G = = = = A T T A = = A T T = T C C C C C G = G C = = = = = A A = = = = G C C T = = T C G = C G T T T T C = A G = = = = = 0 P037 G G G = = = = = T ? = = = = T = ? C ? C C C G C G = T A = = = A A C = = = = = C ? = = = = G = ? G ? T T T C T A = C G = = = 0 P038 = = = = = ? = = T A = = T = T = ? ? ? = = C = = = = = ? ? = = = = = = = ? = = C T = = A = G = ? ? ? = = T = = = = = ? ? = = 0 P039 = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = 0 P040 = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = G = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = A 0 P041 ? ? ? ? = ? = = = = = = = = = = ? = = = = = = C = = = A = = ? ? ? ? ? = ? = = = = = = = = = = ? = = = = = = T = = = G = = ? 0 P042 G G = A = = = = C T = = = = G = = = = = T T = = = = = = ? = = A A = G = = = = T A = = = = T = = = = = C C = = = = = = ? = = 0 P043 G G = = = ? A ? ? ? = = A = T = ? C C C C C G ? ? C = = = ? ? A A = = = ? G ? ? ? = = T = G = ? G T T T T C ? ? G = = = ? ? 0 P044 = = = = = (C) = = = = A C = = = G = = ? = = = = T A = C G T T G = = = = = (T) = = = = T T = = = A = = ? = = = = C G = T A C C A 0 P045 = = = = = ? = = = = = = = = = = ? = ? = = = = = = = = = = = = = = = = = ? = = = = = = = = = = ? = ? = = = = = = = = = = = = 0 P046 = = = = = ? = = = = = = = = = = ? ? ? = C = = ? = = = = = = ? = = = = = ? = = = = = = = = = = ? ? ? = T = = ? = = = = = = ? 0 P047 G G = = = = A T T A = = A T T = ? ? ? C C C G = G C = = = = = A A = = = = G C C T = = T C G = ? ? ? T T T C = A G = = = = = 0 P048 = = = = = C ? = = = = = = = = = = = = = ? = = = = = = = = = G = = = = = T ? = = = = = = = = = = = = = ? = = = = = = = = = A 0 P049 G G G = = = = = T A = = = = T = T C ? C C C G C G = T A = = = A A C = = = = = C T = = = = G = C G ? T T T C T A = C G = = = 0 P050 = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = 0 P051 G G G = = ? = = T A = = = = T = ? C C C C C G C G = T A = = = A A C = = ? = = C T = = = = G = ? G T T T T C T A = C G = = = 0 P052 = = = = = ? = = = = = = = = = = ? = = ? = = = = = = = = = = G = = = = = ? = = = = = = = = = = ? = = ? = = = = = = = = = = A 0 P053 G G G = C = = = = = = = = = = = = = = = = = = = ? = = = = = (G) A A C = T = = = = = = = = = = = = = = = = = = = ? = = = = = (A) 0 P054 = = = = = ? = C = = = = T = = = ? ? = = = = = C = G T A = = ? = = = = = ? = T = = = = A = = = ? ? = = = = = T = C C G = = ? 0 P055 = = = = = = = = ? ? = = = = = = ? ? ? = = = = = = = = = = = = = = = = = = = = ? ? = = = = = = ? ? ? = = = = = = = = = = = = 0 P056 = = = G = = A T T A = = A T T = T C C C C C G ? ? C = = = = = = = = A = = G C C T = = T C G = C G T T T T C ? ? G = = = = = 0 P057 = = = = ? ? = = ? ? = = = = = = = = = = = = = = = = = = = = = = = = = ? ? = = ? ? = = = = = = = = = = = = = = = = = = = = = 0 P058 = = = = ? ? = = = = T T = = = A ? ? ? = = = = C ? = T A C C = = = = = ? ? = = = = A C = = = G ? ? ? = = = = T ? = C G T T = 0 P059 (G) (G) = (A) = = = = C T = = = = G = C G ? T ? T C T A = C G = = G (A) (A) = (G) = = = = T A = = = = T = T C ? C ? C G C G = T A = = A 0 P060 = = = = = ? = = = = = = = = = = ? ? = = = = = = = = = = = = G = = = = = ? = = = = = = = = = = ? ? = = = = = = = = = = = = A 0 P061 = = = = = = = = T A = = = = T = T C C C ? C G C G = T A = = A = = = = = = = = C T = = = = G = C G T T ? T C T A = C G = = G 0 P062 = = = = = ? = = = = = = = = = = ? ? = = = = = = = = = = = ? ? = = = = = ? = = = = = = = = = = ? ? = = = = = = = = = = = ? ? 0 P063 G G G = = C = = T A = = = = T = T C C C C C G C G = T A = = = A A C = = T = = C T = = = = G = C G T T T T C T A = C G = = = 0 P064 = = = = = ? = = T A = = = = T = ? ? C C C C G C G = T A = = = = = = = = ? = = C T = = = = G = ? ? T T T T C T A = C G = = = 0 P065 = = G = = ? = ? ? ? A C = = T G ? C (C) C = = G = = = = = T ? = = = C = = ? = ? ? ? T T = = G A ? G (T) T = = C = = = = = C ? = 0 P066 ? ? = = C = = = C T = = = = G = ? G T T T T C T A = C G = ? ? ? ? = = T = = = T A = = = = T = ? C C C C C G C G = T A = ? ? 0 P067 = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = 0 P068 = = = = = ? = = = = = = = = = = ? = = = = = = = = = = = = ? ? = = = = = ? = = = = = = = = = = ? = = = = = = = = = = = = ? ? 0 P069 G G G = = ? = = T A = = = = T = ? C C C C C G C G = T A = = = A A C = = ? = = C T = = = = G = ? G T T T T C T A = C G = = = 0 P070 G G G = = ? = = T A = = = = T = T C C C C C G C ? = T A = = = A A C = = ? = = C T = = = = G = C G T T T T C T ? = C G = = = 0 P071 G G = = = = A = = = = = = = = = = = = = = = = = = = = = = = = A A = = = = G = = = = = = = = = = = = = = = = = = = = = = = = 0 P072 = = = = = (C) = = = = = = = = = = = = = = = = = = = = = = = = G = = = = = (T) = = = = = = = = = = = = = = = = = = = = = = = = A 0 P073 = = = = = ? G ? = ? = = = = = = = = = = = = = = = = = = = = = = = = = = ? A ? = ? = = = = = = = = = = = = = = = = = = = = = 0 P074 = = G = = = G ? = = = = T C = = = = = = = = = C = G T A = = A = = C = = = A ? = = = = A T = = = = = = = = = T = C C G = = G 0 P075 = = = = = ? = = = = = = = = = = ? = = = ? = = = = = = = = = = = = = = = ? = = = = = = = = = = ? = = = ? = = = = = = = = = = 0 P076 G G G = = = = = T A = = = = T = ? C C C C C G C G = T A = = = A A C = = = = = C T = = = = G = ? G T T T T C T A = C G = = = 0 P077 G G G = C ? = = = = = = = = = = ? = = = = = = = = = = = = = (G) A A C = T ? = = = = = = = = = = ? = = = = = = = = = = = = = (A) 0 P078 = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = ? ? = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = ? ? 0 P079 = = = = = = = ? ? ? = = = = = = = = = = = = = = = = = = = ? ? = = = = = = = ? ? ? = = = = = = = = = = = = = = = = = = = ? ? 0 P080 = = = (G) = ? (A) ? ? ? = = = = T = ? ? C C C C G ? G C = = = ? ? = = = (A) = ? (G) ? ? ? = = = = G = ? ? T T T T C ? A G = = = ? ? 0 P081 = = = = C = = ? ? ? = = = = G = C G T T ? T C T A = C G = = G = = = = T = = ? ? ? = = = = T = T C C C ? C G C G = T A = = A 0 P082 G G = = = = A T T A = = A T T = ? ? = C C C G = G C = = = = = A A = = = = G C C T = = T C G = ? ? = T T T C = A G = = = = = 0 P083 = = = = = = = = ? ? = = = = = = = = = = = = = = = = = = = = G = = = = = = = = ? ? = = = = = = = = = = = = = = = = = = = = A 0 P084 G G G = C ? = = = = = = = = = = = = = = = = = = = = = = = = (G) A A C = T ? = = = = = = = = = = = = = = = = = = = = = = = = (A) 0 P085 G G G = = = = = T A = = = = T = T C C C C C G C G = T A = = A A A C = = = = = C T = = = = G = C G T T T T C T A = C G = = G 0 P086 ? ? G = C = = = = = = = = = = = = = = = = = = = = = = = = ? = ? ? C = T = = = = = = = = = = = = = = = = = = = = = = = = ? = 0 P087 G G G = = ? = ? = = = = = = = = ? = = = = = = = = = = = = = (G) A A C = = ? = ? = = = = = = = = ? = = = = = = = = = = = = = (A) 0 P088 G G = A = ? = = ? ? = = T = = = = = = = T = = = = = = = = = ? A A = G = ? = = ? ? = = A = = = = = = = C = = = = = = = = = ? 0 P089 = = = G = ? ? ? ? ? = = A T T = ? C C C C C ? = ? C = = = = = = = = A = ? ? ? ? ? = = T C G = ? G T T T T ? = ? G = = = = = 0 P090 G G G = = ? = = T A = = = = T = T C C C C C G C G = T A = = = A A C = = ? = = C T = = = = G = C G T T T T C T A = C G = = = END BESTPAIRS2 Phase probabilities at each site with phase known positions indicated by = and missing data positions indicated by ? BEGIN PHASEPROBS = = = = = 1.00 = = = = = = = = = = = = = = = = = = = = = = = ? ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? = = 0.58 = = = = = = = = = = = = = = = = = = = = = = = = = 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 = = 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 = = = = = = = = = = = ? = ? = = ? ? = = = = = = = 0.77 1.00 1.00 1.00 = 1.00 = = = = = = = = = = = ? = = = = = = = = = = = = = 0.78 0.51 0.51 = 0.51 = = = = 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 = ? ? 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 ? = ? ? = = 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 = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = 0.79 = = = = = = = = 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 = 0.74 = ? = = 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 = = 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 = = 0.98 = = 1.00 1.00 = = = = 1.00 = ? 1.00 1.00 1.00 1.00 1.00 1.00 1.00 1.00 = 1.00 ? ? = = 0.53 0.53 0.53 = = = = = = = 1.00 1.00 = = = 1.00 = = 1.00 = ? = = 1.00 1.00 = 1.00 1.00 1.00 1.00 = 1.00 1.00 1.00 = = = = = 1.00 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 0.98 = = = = = 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 = = 0.99 = = 1.00 = = = 1.00 = = = = = = = = = ? ? = = = = = = = = = ? ? = = = = 0.87 0.87 = ? = = = = 1.00 1.00 = = = 1.00 ? ? ? = = = = 1.00 1.00 = 1.00 1.00 1.00 1.00 = = = = = = 0.59 = = = ? 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 = = 0.54 = 1.00 = ? 1.00 1.00 1.00 1.00 1.00 1.00 1.00 1.00 = 1.00 1.00 = = ? 0.81 0.81 = 0.81 = = = = 1.00 1.00 = = = = 1.00 = 1.00 1.00 = 1.00 ? 1.00 1.00 = 1.00 = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = ? ? = = = = = = = = 1.00 1.00 = = = = 1.00 = ? 1.00 1.00 1.00 1.00 1.00 1.00 1.00 1.00 = 1.00 1.00 = ? ? = = = = = ? ? 1.00 = = = = 1.00 1.00 = = ? = = = = = = 1.00 = 1.00 1.00 1.00 = = = 1.00 1.00 = = = = 1.00 1.00 1.00 1.00 = = 1.00 1.00 1.00 = 1.00 1.00 1.00 1.00 1.00 1.00 1.00 = 1.00 1.00 = = = = = 1.00 1.00 1.00 = = = = = 1.00 ? = = = = 1.00 = ? 1.00 ? 1.00 1.00 1.00 1.00 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 ? ? ? = = 1.00 = 1.00 = ? 1.00 1.00 1.00 1.00 1.00 1.00 ? ? 1.00 = = = ? ? = = = = = 0.70 = = = = 1.00 1.00 = = = 1.00 = = ? = = = = 1.00 1.00 = 1.00 1.00 1.00 1.00 1.00 = = = = = ? = = = = = = = = = = ? = ? = = = = = = = = = = = = = = = = = ? = = = = = = = = = = ? ? ? = 1.00 = = ? = = = = = = ? 1.00 1.00 = = = = 1.00 1.00 1.00 1.00 = = 1.00 1.00 1.00 = ? ? ? 1.00 1.00 1.00 1.00 = 1.00 1.00 = = = = = = = = = = 1.00 ? = = = = = = = = = = = = = ? = = = = = = = = = 1.00 1.00 1.00 1.00 = = = = = 1.00 1.00 = = = = 1.00 = 1.00 1.00 ? 1.00 1.00 1.00 1.00 1.00 1.00 = 1.00 1.00 = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = 1.00 1.00 1.00 = = ? = = 1.00 1.00 = = = = 1.00 = ? 1.00 1.00 1.00 1.00 1.00 1.00 1.00 1.00 = 1.00 1.00 = = = = = = = = ? = = = = = = = = = = ? = = ? = = = = = = = = = = 1.00 1.00 1.00 1.00 = 1.00 = = = = = = = = = = = = = = = = = = = ? = = = = = 0.77 = = = = = ? = 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 1.00 = = = 1.00 ? ? ? = = = = 1.00 ? = 1.00 1.00 1.00 1.00 = 0.76 0.76 = 0.76 = = = = 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 = = 0.98 = = 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 1.00 = 1.00 1.00 = = = = = 0.99 = = ? = ? ? ? 1.00 1.00 = = 1.00 1.00 ? 1.00 0.65 1.00 = = 1.00 = = = = = 1.00 ? = ? ? = = 1.00 = = = 1.00 1.00 = = = = 1.00 = ? 1.00 1.00 1.00 1.00 1.00 1.00 1.00 1.00 = 1.00 1.00 = ? ? = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = ? = = = = = = = = = = = = ? ? 1.00 1.00 1.00 = = ? = = 1.00 1.00 = = = = 1.00 = ? 1.00 1.00 1.00 1.00 1.00 1.00 1.00 1.00 = 1.00 1.00 = = = 1.00 1.00 1.00 = = ? = = 1.00 1.00 = = = = 1.00 = 1.00 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 = = = = = = = = = = = = = = = = = = = = = = = = 1.00 = = = = = ? 1.00 ? = ? = = = = = = = = = = = = = = = = = = = = = = = 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 ? = = = = = = = = = = ? = = = = = = = = = = = = = 0.80 = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = ? ? = = = = = = = ? ? ? = = = = = = = = = = = = = = = = = = = ? ? = = = 0.89 = ? 0.89 ? ? ? = = = = 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 = = 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 ? = = = = = = = = = = = = = = = = = = = = = = = = 0.80 0.98 0.98 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 = = 0.99 ? ? 1.00 = 0.99 = = = = = = = = = = = = = = = = = = = = = = = = ? = 1.00 1.00 1.00 = = ? = ? = = = = = = = = ? = = = = = = = = = = = = = 0.76 1.00 1.00 = 1.00 = ? = = ? ? = = 0.98 = = = = = = = 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 1.00 1.00 = 1.00 1.00 = = = END PHASEPROBS