************************************************************* **** **** **** Output from PHASE v2.0 **** **** Code by M Stephens, with contributions from N Li **** **** **** ************************************************************* BEGIN COMMAND_LINE /home/qyi/lib/phase/PHASE2 -d1 igf2a.phase.inp igf2a.phase.out END COMMAND_LINE BEGIN OUTFILE_LIST igf2a.phase.out_freqs : haplotype frequency estimates igf2a.phase.out_pairs : most likely haplotype pairs for each individual igf2a.phase.out_recom : estimates of recombination parameters igf2a.phase.out_monitor : file for monitoring convergence END OUTFILE_LIST BEGIN INPUT_SUMMARY Number of Individuals: 47 Number of Loci: 56 Positions of loci: 1145 3140 3219 3620 4277 4460 4906 4918 5984 6358 6474 6503 6582 6590 6792 6831 6906 6929 7138 7273 7667 7738 8306 8402 8727 9047 9066 9156 9164 9176 9200 9435 10065 10752 10946 11214 12123 12740 15398 16145 16159 16662 16722 17623 17801 17875 17909 17910 18288 18497 18606 18645 19159 20065 20089 20138 END INPUT_SUMMARY List of haplotypes found in best reconstruction, with counts. (See file igf2a.phase.out_freqs for haplotype population frequency estimates) BEGIN LIST_SUMMARY 1 ATAGATICGGATGGCTACCG 2 IAGCGGTTACACIITCTAGGTGCGCCGCGCGITAG 1.000000 2 ATAGATICGGATGGCTACCG 2 IAGCCGTTACACIITCTAGGTGCGCCGCGCGITAG 1.000000 3 ATAGATICGGATGGCTACCG 3 IAAGGACTATGCIITCTGCGCATGCCGCTTCDCCG 1.000000 4 ATAGATICGGATGGCTACCG 3 IAAGGACTATGCIICATGCGTGCGCCGCGCGICCG 1.000000 5 ATAGAGICGGACGACTGCCG 2 IAGCCGTTACACIITCTAGACGCGCCACGCCICCG 1.000000 6 ATAGAGICGGACGACTGCCG 2 IAGCCGTTACACIITCTAGATGCGCCGCGCGICCG 1.000000 7 ATAGAGICGGACGACTGCCG 2 IAGCCGTTACACIITCTAGATGCGCCGCGCGITAG 1.000000 8 ATAGAGICGGACGACTGCCG 2 IAGCCGTTACACIITCTGCGCGTGCCGCTCCDCCG 2.000000 9 ATAGAGICGGACGACTGCCG 3 IAAGCACTATGCIITCTGCGCATGCCGCTTCDCCG 1.000000 10 ATAGAGICGGACGACTGCTG 2 DAGCCGTTACACIITCTAGGTGCGCCGCGCGITAA 6.000000 11 ATAGAGICGGACGACTGCTG 2 DAGCCGTTACACIITCTAGATGCGCCGCGCGITAA 1.000000 12 ATAGAGICGGACGACTGCTG 2 DAGCCGTTACACDITATAGGTGCGCCGCGCGITAA 1.000000 13 ATAGAGICGGACGGCTACCA 3 IAACGGTTCTGCIICCGACGTGCGCCGCGCCICCG 1.000000 14 ATAGAGICGGACGGCTACCA 3 IAACGGTTCTGCIICCGACGTGCGCCGCGCGICCG 1.000000 15 ATAGAGICGGGCGGCGGCCG 2 IGGCCGTTACACIITCGGGGCGCGCCGTGCGICCG 1.000000 16 ATTGGTICGGACGACTGCCG 2 IAGCGGTCCTGTIITCTAGGCGTGCCGCTCCDCCG 1.000000 17 ATTGGTICGGACGAATGCCG 2 IAGCCGTTACACIITATAGATGCGCCGCGCGICCG 1.000000 18 ATTGGTICGGACGAATGCCG 2 IAGCCGTTACACIITATACGTGCGTCGCGCGITAG 2.000000 19 ATTGGTICGGACGGCTACCA 3 IAACGGTTCTGCIICCGGCGCGCGCCGTGCGICCG 2.000000 20 ATTGGTICGGACGGCTACCA 3 IAACGGTTCTGCIICCGGCGCATGCCGCTTCDCCG 2.000000 21 ATTGGTICAGACGGCTGCCA 3 IAACGGTTCTGTIDCAGACGCGCGCCACGCGICCG 2.000000 22 ATTGGTIGGAACAGCTACCG 3 IAACGATCCTACIITCTGCGTGCGCCGCGCGICCG 1.000000 23 ATTGGTIGGAACAGCTACCG 3 IAACGATTCTGCIICAGAGGCGCGCCGCGCGICCG 1.000000 24 ATTGGTIGGAACAGCTACCG 3 IAACGATTCTGTIITCGGGGCGCGCCGCGCGICCG 1.000000 25 ATTGGTIGGAACAGCTGCCG 3 IAACCATCCTACIITCTGCGTGCGCCGCGCGICCG 1.000000 26 AGAGATDCGGACGGCGGCCG 3 IGACGACTATGCIITCGGCGCGCACTGCGCGICCG 2.000000 27 AGAGAGICGGACGACTGCCG 2 IAGCCGTTACACIITCGGCGCGTGCCGCTTCDCCG 1.000000 28 AGAGAGICGGACGACTGCCG 2 IAGCCGTTACACIITATAGATGCGCCGCGCGICCG 1.000000 29 GTAGATICGGACGACTACCG 2 IAGCCGTTACACIITCGGGGCGCGCCGCGCGICCG 1.000000 30 GTAGATICGGACGACTACCG 2 IAGCCGTTACACIITCTAGACGCGCCACGCCICCG 1.000000 31 GTAGATICGGACGACTACCG 2 IAGGGGTTACACIITCTAGATGCGCCGCGCGITAG 1.000000 32 GTAGATICGGACGACTGCCG 2 IAGCGGTTACACIITCTAGGCGCGCCGCGCGICCG 2.000000 33 GTAGATICGGACGGCTACCA 3 IAACGGTTACACIITCGGCGCGCACTGCGCGICCG 1.000000 34 GTAGATICGGATGGCTACCG 3 IAAGGACCATGCIICATGCGTGCGCCGCGCGICCG 1.000000 35 GTAGATICGGGCGGCGGCCG 2 IGGCCGTTACACIITCGAGGCGCGCCGCGCGITAG 1.000000 36 GTAGATICGGGCGGCGGCCG 2 IGGCCGTTACACIITCGGGGCGCGCCGCGCGICCG 5.000000 37 GTAGATICGGGCGGCGGCCG 2 IGGCCGTTACACIITCGGGGCGCGCCGTGCGICCG 1.000000 38 GTAAATICGGACGACTGCCG 2 IAGCCGTTACACIITCTGCGCGTGCCGCTCCDCCG 1.000000 39 GTAAATICGGACGGCTACCA 3 IAACGGTTCTGCDITATGCGCGTGCCGCTCCDCCG 6.000000 40 GTAAATICGGACGGCTATCG 4 IGACGACTATGCIITCGGCGCGCACTGCGCGICCG 1.000000 41 GTAAATICGGACGGCTATTG 2 DAACGGTTCTGCDITATGCGCGTGCCGCTCCDCCG 2.000000 42 GGAGATICGGACGGCTACCG 3 IAAGGACTATGCIITATACGCGCGCCACGCCICCG 1.000000 43 GGAGATICGGACGGCTACCG 3 IAAGGACTATGCIITATGCGCGCGCCACGCCICCG 1.000000 44 GGAGATDCGGACGGCGGCCG 4 IAACGGTTCTGCDITATGCGCGTGCCGCTCCDCCG 1.000000 45 GGAGATDCGGACGGCGGCCG 4 IGACGATTATGCIITCGGCGCGCGCCGCGCGITAA 1.000000 46 GGAGATDCGGACGGCGGCCG 4 IGACGACTATGCIITCGGGGCGCGCCGTGCGICCG 1.000000 47 GGAGATDCGGACGGCGGCCG 4 IGACGACTATGCIITCGGCGCGCACTGCGCGICCG 7.000000 48 GGAGATDCGGACGGCGGCCG 4 IGACGACTATGCIITCTAGGTGCGCCGCGCGITAA 1.000000 49 GGAGATDCGGACGGCGGCCG 4 IGACGACTATGCIICCGACACGCACTGCGCGICCG 2.000000 50 GGAGATDCGGACGGCGGCCG 4 IGACGACTATGCIICCGGGGCGCGCCGCGCGICCG 2.000000 51 GGAGATDCGGACGGCGGCCG 4 IGACGACTATGCIICCGGCGCGCACTGCGCGICCG 13.000000 52 GGAGGGICGGGCGGCTGCCG 3 IAAGGGCTATGCIITCTACGCGTGCCGCTCCDCCG 1.000000 END LIST_SUMMARY Summary of best reconstruction (numbers refer to the list of haplotypes given above) BEGIN BESTPAIRS_SUMMARY D001: (16,33) D002: (25,30) D003: (18,36) D004: (27,28) D005: (19,34) D006: (6,52) D007: (2,9) D008: (36,47) D009: (1,23) D010: (19,29) D011: (7,11) D012: (21,31) D013: (13,42) D014: (39,39) D015: (18,32) D016: (3,4) D033: (24,50) D034: (32,35) D035: (5,49) D036: (22,51) D037: (12,26) D038: (17,49) D039: (14,21) D040: (39,43) E001: (10,36) E002: (10,37) E003: (39,47) E004: (36,51) E005: (51,51) E006: (10,48) E007: (36,47) E008: (46,50) E009: (20,51) E010: (8,38) E011: (20,47) E012: (39,47) E013: (8,51) E014: (15,47) E015: (10,41) E016: (40,44) E017: (10,41) E018: (51,51) E019: (26,51) E020: (47,51) E021: (39,51) E022: (45,51) E023: (10,51) END BESTPAIRS_SUMMARY Haplotype estimates for each individual, with uncertain phases enclosed in () and uncertain genotypes enclosed in []: BEGIN BESTPAIRS1 0 D001 A T T G G T I C G G A C G A C T G C C G 2 I A G C G G T C C T G T I [I] [T] C T A [G] G C G T G C C G C T C C D C C G G T A G A T I C G G A C G G C T A C C A 3 I A A C G G T T A C A C I I T C G G C G C G C A C T G C G C G I C C G 0 D002 A T T G G T I G G A A C A G C T G C C G 3 I A A C C A T C C T A C I I T C T G C G T G C G C C G C G C G I C C G G T A G A T I C G G A C G A C T A C C G 2 I A G C C G T T A C A C I I T C T A G [A] C G C G C C A C G C C I C C G 0 D003 A T T G G T I C G G A C G A A T G C C G 2 I A G C C G T T A C A C I I T A T A C G T G C G T C G C G C G I T A G G T A G A T I C G G G C G G C G G C C G 2 I G G C C G T T A C A C I I T C G G G G C G C G C C G C G C G I C C G 0 D004 A G A G A G I C G G A C G A C T G C C G 2 I A G C C G T T A C A C I I T C G G [C] G C G T G C C G C T T C D C C G A G A G A G I C G G A C G A C T G C C G 2 I A G C C G T T A C A C I I T A T A G [A] T G C G C C G C G C G I C C G 0 D005 A T T G G T I C G G A C G G C T A C C A 3 I A A C G G T T C T G C I I C C G G [C] G C G C G C C G [T] G C G I C C G G T A G A T I C G G A T G G C T A C C G 3 I A A G G A C C A T G C I I C A T G C G T G C G C C G C G C G I C C G 0 D006 A (T) A G A G I C G G A C G A C T G C C G 2 I A G C C G T T A C A C I I T C T A G [A] T G C G C C G C G C G I C C G G (G) A G G G I C G G G C G G C T G C C G 3 I A A G G G C T A T G C I I T C [T] A [C] G C G T G C C G C T C C D C C G 0 D007 A T A G A (T) I C G G A (T) G (G) C T A C C G 2 I A G C C G T T A C A C I I T C T A G [G] T G C G C C G C G C G I [T] [A] [G] A T A G A (G) I C G G A (C) G (A) C T G C C G 3 I A A G C A C T A T G C I I T C T G C G C A T G C C G C T T C D C C G 0 D008 G T A G A T I C G G G C G G C G G C C G 2 I G G C C G T T A C A C I I T C G G G G C G C G C C G C G C G I C C G G G A G A T D C G G A C G G C G G C C G 4 I G A C G A C T A T G C I I T C G G C G C G C A C T G C G C G I C C G 0 D009 A T A G A T I C G G A T G G C T A C C G 2 I A G C G G T T A C A C I I (T) (C) (T) A G G (T) G C G C C G C G C G I (T) (A) G A T T G G T I G [G] A A C A G C T A C C G 3 I A A C G A T T C T G C I I (C) (A) (G) A G G (C) G C G C C G C G C G I (C) (C) G 0 D010 A T T G G T I C G G A C G G C T A C C A 3 I A A C G G T T C T G C I I C C G G (C) G C G C G C C G (T) G C G I C C G G T A G A T I C G G A C G A C T [A] C C G 2 I A G C C G T T A C A C I I T C [G] G (G) G C G C G C C G (C) G C G I C C G 0 D011 A T A G A G I C G G A C G A C T G C C G 2 I A G C C G T T A C A C I I T C T A G A T G C G C C G C G C G I T A G A T A G A G I C G G A C G A C T G C T G 2 D A G C C G T T A C A C I I T C T A G A T G C G C C G C G C G I T A A 0 D012 A T T G G T I C A G A C G G C T (G) C C A 3 I A A (C) G G T T C T G T I D C A G A C G C G C G C C A C G C G I C C G G T A G A T I C G G A C G A C T (A) C C G 2 I A G (G) G G T T A C A C I I T C T A G A T G C G C C G C G C G I T A G 0 D013 A T A G A G I C G G A C G G C T A C C A 3 I A A C G G T T C T G C I I C C G A C G [T] G C G C C [G] C G C C I C C G G [G] A G A T I C G G A C G G C T A C C G 3 I A A G G A C T A T G C I I T A T A C G C G C G C C A C G C C I C C G 0 D014 G T A A A T I C G G A C G G C T A C C A 3 I A A C G G T T C T G C D I T A T G C G C G T G C C G C T C C D C C G G T A A A T I C G G A C G G C T A C C A 3 I A A C G G T T C T G C D I T A T G C G C G T G C C G C T C C D C C G 0 D015 A T T G G T I C G G A C G A A T G C C G 2 I A G C C G T T A C A C I I T A T A C G T G C G T C G C G C G I [T] [A] G G T A G A T I C G G A C G A C T G C C G 2 I A G C G G T T A C A C I I T C T A G G C G C G C C G C G C G I [C] [C] G 0 D016 A T A G A T I C G G A T G G C T A C C G 3 I A A G G A C T A T G C I I T C T G C G C A T G C C G C T T C D C C G A T A G A T I C G G A T G G C T A C C G 3 I A A G G A C T A T G C I I C A T G C G T G C G C C G C G C G I C C G 0 D033 A T T G G T I G [G] A A C A G C T A C C G 3 I A A C G A T T C T G T I I [T] C G G G G C G C G C C G C G C G I C C G G G A G A T D C G G A C G G C G G C C G 4 I G A C G A C T A T G C I I [C] C G G G G C G C G C C G C G C G I C C G 0 D034 G T A G A T I C G G A C G A C T G C C G 2 I A G C G G T T A C A C I I T C T A G G C G C G C C G C G C G I (C) (C) G G T A G A T I C G G G C G G C G G C C G 2 I G G C C G T T A C A C I I T C G A G G C G C G C C G C G C G I (T) (A) G 0 D035 A T A G A G I C G G A C G A C T G C C G 2 I A G C C G T T A C A C I I T C T A G A C G C G C C A C G C C I C C G G G A G A T D C G G A C G G C G G C C G 4 I G A C G A C T A T G C I I C C G A C A C G C A C T G C G C G I C C G 0 D036 A T T G G T I G G A A C A G C T A C C G 3 I A A C G A T C C T A C I I T C T G C G T G C G C C G C G C G I C C G G G A G A T D C G G A C G G C G G C C G 4 I G A C G A C T A T G C I I C C G G C G C G C A C T G C G C G I C C G 0 D037 A T A G A G I C G G A C G A C T G C T G 2 D A G C [C] G T T A C [A] C D I T A T A G G T G C G C C G C G C G I T A A A G A G A T D C G G A C G G C G G C C G [3] I G A C G A C T A T G C I I T C G G C G C G C A C T G C G C G I C C G 0 D038 A T T G G T I C G G A C G A A T G C C G 2 I A G C C G T T A C A C I I T A T A G A T G C G C C G C G C G I C C G G G A G A T D C G G A C G G C G G C C G 4 I G A C G A C T A T G C I I C C G A C A C G C A C T G C G C G I C C G 0 D039 A T A G A G I C G G A C G G C T A C C A 3 I A A C G G T T C T G C I I C C G A C G T G C G C C G C G C G I C C G A T T G G T I C A G A C G G C T G C C A 3 I A A C G G T T C T G T I D C A G A C G C G C G C C A C G C G I C C G 0 D040 G T A A A T I C G G A C G G C T A C C A 3 I A A C G G T T C T G C D I T A T G C G C G T G C C G C T C C D C C G G [G] A G A T I C G G A C G G C T A C C G 3 I A A G G A C T A T G C I I T A T G C G C G C G C C A C G C C I C C G 0 E001 A T A G A G I C G G A C G A C T G C T G 2 D A G C C G T T A C A C I I T C T A G G T G C G C C G C G C G I T A A G T A G A T I C G G G C G G C G G C C G 2 I G G C C G T T A C A C I I T C G G G G C G C G C C G C G C G I C C G 0 E002 (A) T A G A (G) I C G G A C G A C T G C T G 2 D A G C C G T T A C A C I I T C T A G G T G C G C C G C G C G I T A A (G) T A G A (T) I C G G G C G G C G G C C G 2 I G G C C G T T A C A C I I T C G G G G C G C G C C G T G C G I C C G 0 E003 G T A A A T I C G G A C G G C T A C C A 3 I A A C G G T T C T G C D I T A T G C G C G T G C C G C T C C D C C G G G A G A T D C G G A C G G C G G C C G 4 I G A C G A C T A T G C I I T C G G C G C G C A C T G C G C G I C C G 0 E004 G T A G A T I C G G G C G G C G G C C G 2 I G G C C G T T A C A C I I T C G G G G C G C G C C G C G C G I C C G G G A G A T D C G G A C G G C G G C C G 4 I G A C G A C T A T G C I I C C G G C G C G C A C T G C G C G I C C G 0 E005 G G A G A T D C G G A C G G C G G C C G 4 I G A C G A C T A T G C I I C C G G C G C G C A C T G C G C G I C C G G G A G A T D C G G A C G G C G G C C G 4 I G A C G A C T A T G C I I C C G G C G C G C A C T G C G C G I C C G 0 E006 A T A G A G I C G G A C G A C T G C T G 2 D A G C C G T T A C A C I I T C T A G G T G C G C C G C G C G I T A A G G A G A T D C G G A C G G C G G C C G 4 I G A C G A C T A T G C I I T C [T] A G G T G C G C C G C G C G I T A A 0 E007 G T A G A T I C G G G C G G C G G C C G 2 I G G C C G T T A C A C I I T C G G G G C G C G C C G C G C G I C C G G G A G A T D C G G A C G G C G G C C G 4 I G A C G A C T A T G C I I T C G G C G C G C A C T G C G C G I C C G 0 E008 G G A G A T D C G G A C G G C G G C C G 4 I G A C G A C T A T G C I I (T) C G G G G C G C G C C G T G C G I C C G G G A G A T D C G G A C G G C G G C C G 4 I G A C G A C T A T G C I I (C) C G G G G C G C G C C G C G C G I C C G 0 E009 A T T G G T I C G G A C G G C T A C C A 3 I A A C G G T T C T G C I I [C] C G G C G C A T G C C G C T T C D C C G G G A G A T D C G G A C G G C G G C C G 4 I G A C G A C T A T G C I I [C] C G G C G C G C A C T G C G C G I C C G 0 E010 A T A G A G I C G G A C G A C T G C C G 2 I A G C C G T T A C A C I I T C T G C G C G T G C C G C T C C D C C G G T A A A T I C G G A C G A C T G C C G 2 I A G C C G T T A C A C I I T C T G C G C G T G C C G C T C C D C C G 0 E011 (A) T T G G T I C G G A C G G C T A C C A 3 I A A C G G T T C T G C I I (C) C G G C G C A T G C C G C T T C D C C G (G) G A G A T D C G G A C G G C G G C C G [4] I G A C G A C T A T G C I I (T) C G G C G C G C A C T G C G C G I C C G 0 E012 G T A A A T I C G G A C G G C T A C C A 3 I A A C G G T T C T G C D I T A T G C G C G T G C C G C T C C D C C G G G A G A T D C G G A C G G C G G C C G 4 I G A C G A C T A T G C I I T C G G C G C G C A C T G C G C G I C C G 0 E013 A T A G A G I C G G A C G A C T G C C G 2 I A G C C G T T A C A C I I T C T G C G C G T G C C G C T C C D C C G G G A G A T D C G G A C G G C G G C C G 4 I G A C G A C T A T G C I I C C G G C G C G C A C T G C G C G I C C G 0 E014 A T A G A G I C G G G C G G C G G C C G 2 I G G C C G T T A C A C I I T C G G G G C G C G C C G T G C G I C C G G G A G A T D C G G A C G G C G G C C G 4 I G A C G A C T A T G C I I T C G G C G C G C A C T G C G C G I C C G 0 E015 A T A G A G I C G G A C G A C T G C T G 2 D A G C C G T T A C A C I I T C T A G G T G C G C C G C G C G I T A A G T A A A T I C G G A C G G C T A T T G 2 D A A C G G T T C T G C D I T A T G C G C G T G C C G C T C C D C C G 0 E016 G (T) A (A) A T (I) C G G A C G G C (T) (A) (T) C G 4 I G A C G A C T A T G C I I T C G G C G C G C A C T G C G C G I C C G G (G) A (G) A T (D) C G G A C G G C (G) (G) (C) C G 4 I A A C G G T T C T G C D I T A T G C G C G T G C C G C T C C D C C G 0 E017 A T A G A G I C G G A C G A C T G C T G 2 D A G C C G T T A C A C I I T C T A G G T G C G C C G C G C G I T A A G T A A A T I C G G A C G G C T A T T G 2 D A A C G G T T C T G C D I T A T G C G C G T G C C G C T C C D C C G 0 E018 G G A G A T D C G G A C G G C G G C C G 4 I G A C G A C T A T G C I I C C G G C G C G C A C T G C G C G I C C G G G A G A T D C G G A C G G C G G C C G 4 I G A C G A C T A T G C I I C C G G C G C G C A C T G C G C G I C C G 0 E019 A G A G A T D C G G A C G G C G G C C G (3) I G A C G A C T A T G C I I T C G G C G C G C A C T G C G C G I C C G G G A G A T D C G G A C G G C G G C C G (4) I G A C G A C T A T G C I I C C G G C G C G C A C T G C G C G I C C G 0 E020 G G A G A T D C G G A C G G C G G C C G 4 I G A C G A C T A T G C I I [T] C G G C G C G C A C T G C G C G I C C G G G A G A T D C G G A C G G C G G C C G 4 I G A C G A C T A T G C I I [C] C G G C G C G C A C T G C G C G I C C G 0 E021 G T A A A T I C G G A C G G C T A C C A 3 I A A C G G T T C T G C D I T A T G C G C G T G C C G C T C C D C C G G G A G A T D C G G A C G G C G G C C G 4 I G A C G A C T A T G C I I C C G G C G C G C A C T G C G C G I C C G 0 E022 G G A G A T D C G G A C G G C G G C C G 4 I G A C G A (T) T A T G C I I (T) C G G C G C G C G C C G C G C G I T A A G G A G A T D C G G A C G G C G G C C G 4 I G A C G A (C) T A T G C I I (C) C G G C G C G C A C T G C G C G I C C G 0 E023 A T A G A G I C G G A C G A C T G C T G 2 D A G C C G T T A C A C I I T C T A G G T G C G C C G C G C G I T A A G G A G A T D C G G A C G G C G G C C G 4 I G A C G A C T A T G C I I C C G G C G C G C A C T G C G C G I 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 D001 A = T = G = = = = = = = = A = = G = = G 2 = = G = = = = C C T G T = ? ? = T A ? ? ? ? T G = C = = ? ? ? ? = = = G = A = A = = = = = = = = G = = A = = A 3 = = A = = = = T A C A C = ? ? = G G ? ? ? ? C A = T = = ? ? ? ? = = = 0 D002 A = T = G = = G ? A = = A G = = G = ? ? 3 = = A = = A = C C T = = = ? ? = = G ? ? T = = = = = G = = = G = = = = G = A = A = = C ? G = = G A = = A = ? ? 2 = = G = = G = T A C = = = ? ? = = A ? ? C = = = = = A = = = C = = = = 0 D003 A = T = G = = = ? = A = = A A T = = = = = = A = = = = = = = = = = = = = A ? A ? ? T = = = T = = = = = = = T A = G = A = A = = = ? = G = = G C G = = = = = = G = = = = = = = = = = = = = C ? G ? ? C = = = C = = = = = = = C C = 0 D004 = = = = = = = = = ? = = = = = = = = = = = = = = ? = = = = = = = = = ? ? C G G ? ? C = T = = = = = T T C D = = = = = = = = = = = = ? = = = = = = = = = = = = = = ? = = = = = = = = = ? ? A T A ? ? T = C = = = = = G C G I = = = 0 D005 A = ? = G = = = = = = C = = = = = = = A ? ? = = C = G T T C = = = = ? = C G = ? ? C = = = ? ? ? ? = = = = = = = G = ? = A = = = = = = T = = = = = = = G ? ? = = G = A C C A = = = = ? = A T = ? ? T = = = ? ? ? ? = = = = = = = 0 D006 A (T) = = A = = = = = A = = A = = = = = = 2 = = G C C = T = = C A = = = = = ? = ? ? T = ? ? ? ? ? = G = G I = = = G (G) = = G = = = = = G = = G = = = = = = 3 = = A G G = C = = T G = = = = = ? = ? ? C = ? ? ? ? ? = T = C D = = = 0 D007 = = = = = (T) = = = = = (T) = (G) = = A = = = 2 = = G C = G T ? = ? A ? = = = = = A ? ? T G C = = = = = G C G I ? ? ? = = = = = (G) = = = = = (C) = (A) = = G = = = 3 = = A G = A C ? = ? G ? = = = = = G ? ? C A T = = = = = T T C D ? ? ? 0 D008 = T = = = = I = = = G = = = = = = = = = 2 = = G = C G T = = C A = = = = = = = ? ? = = = G = C = = = = = = = = = = G = = = = D = = = A = = = = = = = = = 4 = = A = G A C = = T G = = = = = = = ? ? = = = A = T = = = = = = = = = 0 D009 = = A = ? ? ? ? ? G = T G = = = = = = = 2 = = G = = G = = A C A = = = (T) (C) (T) = = = (T) = = = = = = = = = = = (T) (A) = = = T = ? ? ? ? ? A = C A = = = = = = = 3 = = A = = A = = C T G = = = (C) (A) (G) = = = (C) = = = = = = = = = = = (C) (C) = 0 D010 A = T = G ? = = ? ? ? ? ? ? ? ? ? ? = A 3 = = A = G = = = C T G = ? = C = ? = (C) = = = = = = = = (T) = = = = = = = G = A = A ? = = ? ? ? ? ? ? ? ? ? ? = G 2 = = G = C = = = A C A = ? = T = ? = (G) = = = = = = = = (C) = = = = = = = 0 D011 = = = = ? ? ? ? ? = = = = = = = = = C = ? I = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = G = = = = ? ? ? ? ? = = = = = = = = = T = ? D = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = A 0 D012 A = T = G = = = A = = = = G = = (G) = = A 3 = = A (C) = = = = C T G T = D ? A G = C G C = = = = = A = = = = = C C = G = A = A = = = G = = = = A = = (A) = = G 2 = = G (G) = = = = A C A C = I ? C T = G A T = = = = = G = = = = = T A = 0 D013 A ? ? = = G = = = = = = = = = = = = = ? = = = = C = G T = C = = = = = C C G = = = ? ? ? ? ? ? ? ? = = = = = = = G ? ? = = T = = = = = = = = = = = = = ? = = = = G = A C = A = = = = = T A T = = = ? ? ? ? ? ? ? ? = = = = = = = 0 D014 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? = = = = = = = = = = = = = 0 D015 A = T ? G = = = = = = = = = A = = = = = = = = = = C = = = = = = = = = = A = = C = ? ? = = T = = = = = = = ? ? ? G = A ? A = = = = = = = = = C = = = = = = = = = = G = = = = = = = = = = C = = G = ? ? = = C = = = = = = = ? ? ? 0 D016 = = = = = = = = = = = = = = = = = = ? ? = = = = = = = = = = = = = = = T C = = = = C A T = = = = = T T C D = = = = = = = = = = = = = = = = = = = = = ? ? = = = = = = = = = = = = = = = C A = = = = T G C = = = = = G C G I = = = 0 D033 A T T = G = I G ? A = = A = = T A = = = 3 = A = = = = T = C = = T = ? ? = = = = = = = = = = = = = = = = = = = = G G A = A = D C ? G = = G = = G G = = = 4 = G = = = = C = A = = C = ? ? = = = = = = = = = = = = = = = = = = = = 0 D034 = = = = = = = = ? = A = = A = T = = = = = = A = = G = = = = = = = = = = = T = = = = = = = = = = = ? = = = (C) (C) = = = = = = = = = ? = G = = G = G = = = = = = G = = C = = = = = = = = = = = G = = = = = = = = = = = ? = = = (T) (A) = 0 D035 A T = = = G I = = = = = = A = T = = = = 2 = A G = C G T = = C A = = = ? = T = G = = = = G = C A = ? ? ? = = = = G G = = = T D = = = = = = G = G = = = = 4 = G A = G A C = = T G = = = ? = G = C = = = = A = T G = ? ? ? = = = = 0 D036 A T T ? G = I G = A = = A = = T A = = = 3 = A = = = = T C C = A = = = T = T = = = T = = G = C = = = = = = = = = G G A ? A = D C = G = = G = = G G = = = 4 = G = = = = C T A = G = = = C = G = = = C = = A = T = = = = = = = = = 0 D037 = T = = = G I = = = = = = A = T = = T = ? D A G = ? ? ? ? ? ? ? = D = = A T A G = T = = ? ? ? ? ? = = = = T A A = G = = = T D = = = = = = G = G = = C = ? I G A = ? ? ? ? ? ? ? = I = = C G G C = C = = ? ? ? ? ? = = = = C C G 0 D038 A T T = G = I = = = = = = A A T = = = = 2 = A G = C G T = = C A = = = T A T = G = T = = G = C = = = = = = = = = G G A = A = D = = = = = = G C G = = = = 4 = G A = G A C = = T G = = = C C G = C = C = = A = T = = = = = = = = = 0 D039 = = A = A G = = G = = = = = = = A = = ? = = = = = = = = = = = = C = I ? C = = = = T = = = = = G = = = = = = = = = = T = G T = = A = = = = = = = G = = ? = = = = = = = = = = = = T = D ? A = = = = C = = = = = A = = = = = = = = 0 D040 = ? ? A ? ? ? ? = = = = = = = = = = = A = = = = C = G T = C = = = D = = = = = ? ? = = T = = = G = T = = D = = = = ? ? G ? ? ? ? = = = = = = = = = = = G = = = = G = A C = A = = = I = = = = = ? ? = = C = = = A = G = = I = = = 0 E001 A ? ? = = G = = ? = A = = A = T = = T = ? D A = = = = = = = = = = = ? ? = T A = = T = = = = = = = = = = = T A A G ? ? = = T = = ? = G = = G = G = = C = ? I G = = = = = = = = = = = ? ? = G G = = C = = = = = = = = = = = C C G 0 E002 (A) = = = = (G) = = ? = A = = A = T = = T = ? D A = = = = = = = = = = = = = = T A = = T = = = = = = C = = = = T A A (G) = = = = (T) = = ? = G = = G = G = = C = ? I G = = = = = = = = = = = = = = G G = = C = = = = = = T = = = = C C G 0 E003 = T = A = = I = = = = = = = = T A = = A 3 = A = = = G T = C = = = D = = A ? = = = = = T G = C = = T = C D = = = = G = G = = D = = = = = = = = G G = = G 4 = G = = = A C = A = = = I = = C ? = = = = = C A = T = = G = G I = = = 0 E004 = T = = = = I = = = G = = = = = = = = = 2 = = G = C G T = = C A = = = T = = = G = = = = G = C = = = = = = = = = = G = = = = D = = = A = = = = = = = = = 4 = = A = G A C = = T G = = = C = = = C = = = = A = T = = = = = = = = = 0 E005 = = = = = = = = = = = = = = = = = = = = ? ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 E006 ? T = = = G I = = = = = = A = T = = T = ? D A G = C G T = = C A = = = = = ? = = = = = = = = = = = = = = = = = = ? G = = = T D = = = = = = G = G = = C = ? I G A = G A C = = T G = = = = = ? = = = = = = = = = = = = = = = = = = 0 E007 ? ? ? = = = I = = = G = = = = = = = = = 2 = = G = ? ? ? ? ? ? A = = = = = = = ? ? = = = G = C = = ? ? ? = = = = ? ? ? = = = D = = = A = = = = = = = = = 4 = = A = ? ? ? ? ? ? G = = = = = = = ? ? = = = A = T = = ? ? ? = = = = 0 E008 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = (T) = = = = = = = = = = = = T = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = (C) = = = = = = = = = = = = C = = = = = = = 0 E009 ? T T = G = I = = = = = = = = T A = = A 3 = A = = = G T = C = = = = ? ? = ? = = = ? ? T G = C = = T T C D = = = ? G A = A = D = = = = = = = = G G = = G 4 = G = = = A C = A = = = = ? ? = ? = = = ? ? C A = T = = G C G I = = = 0 E010 A = = G = G = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = G = = A = T = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = 0 E011 (A) T T = G = I = = = = = = = = T A = ? ? ? ? A = = = G T = C = ? = = = (C) = ? = = = = A T G = C = = T T C D = = = (G) G A = A = D = = = = = = = = G G = ? ? ? ? G = = = A C = A = ? = = = (T) = ? = = = = G C A = T = = G C G I = = = 0 E012 = T = A = = I = = = = = = = = T A = = A 3 = A = = = G T = C = = = D = = A ? = = = = = T G = C = = ? ? ? D = = = = G = G = = D = = = = = = = = G G = = G 4 = G = = = A C = A = = = I = = C ? = = = = = C A = T = = ? ? ? I = = = 0 E013 A T = = = G I = = = = = = A = T = = = = 2 = A G = C G T = = C A = = = T = ? = = = = = T G = C = = T = C D = = = G G = = = T D = = = = = = G = G = = = = 4 = G A = G A C = = T G = = = C = ? = = = = = C A = T = = G = G I = = = 0 E014 A T = = = G I = = = G = = = = = = = = = 2 = = G = C G T = = C A = = = = = ? = G = = = = G = C = T = = = = = = = G G = = = T D = = = A = = = = = = = = = 4 = = A = G A C = = T G = = = = = ? = C = = = = A = T = C = = = = = = = 0 E015 A = = G = G = = = = = = = A = = G C = = = = = G = C = = = A C A = I = = C ? A G = T = C = = = = = G = G I T A A G = = A = T = = = = = = = G = = A T = = = = = A = G = = = C T G = D = = A ? G C = C = T = = = = = T = C D C C G 0 E016 = (T) = (A) = = (I) = = = = = = = = (T) (A) (T) = = = = G = = = A C = A = = = I = = C ? = = = = = C A = T = = G = G I = = = = (G) = (G) = = (D) = = = = = = = = (G) (G) (C) = = = = A = = = G T = C = = = D = = A ? = = = = = T G = C = = T = C D = = = 0 E017 A = = G = G = = = = = = = A = = G C = = = = = G = C = = = A C A = I ? = C = A G = T = ? = = = = = G = ? I T A A G = = A = T = = = = = = = G = = A T = = = = = A = G = = = C T G = D ? = A = G C = C = ? = = = = = T = ? D C C G 0 E018 = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = 0 E019 A = = = = = = = = = = = = = = = = = = = (3) = = = = = = = = = = = = = = T = = = = = = = = = = = = = = = = = = = = G = = = = = = = = = = = = = = = = = = = (4) = = = = = = = = = = = = = = C = = = = = = = = = = = = = = = = = = = = 0 E020 = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? = = = = = ? ? = = = = = = ? ? ? = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? = = = = = ? ? = = = = = = ? ? ? = = = = 0 E021 = T = A = = I = = = = = = = = T A = = A ? ? A = = = G T = C = = = D = T A T = = = = = T G = C = = ? = C D = = = = G = G = = D = = = = = = = = G G = = G ? ? G = = = A C = A = = = I = C C G = = = = = C A = T = = ? = G I = = = 0 E022 = = = = = = = = = = = = = = = = = = = = = = = = = = = (T) = = = = = ? = (T) = = = = = = = = G = C = ? = = = = T A A = = = = = = = = = = = = = = = = = = = = = = = = = = = (C) = = = = = ? = (C) = = = = = = = = A = T = ? = = = = C C G 0 E023 A T = = = G I = = = = = = A = T = = T = ? D A G = C G T = = C A = = = T = T A G = T = = G = C = = = = = = T A A G G = = = T D = = = = = = G = G = = C = ? I G A = G A C = = T G = = = C = G G C = C = = A = T = = = = = = C 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 = 1.00 = 1.00 = = = = = = = = 1.00 = = 1.00 = = 1.00 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 = = = = = = = 0.92 0.92 = = = = = = = = = = ? = = = = = = = = = = = = = = ? = = = = = = = = = ? ? 1.00 1.00 1.00 ? ? 1.00 = 1.00 = = = = = 1.00 1.00 1.00 1.00 = = = 1.00 = ? = 1.00 = = = = = = 1.00 = = = = = = = 1.00 ? ? = = 1.00 = 1.00 1.00 1.00 1.00 = = = = ? = 1.00 1.00 = ? ? 1.00 = = = ? ? ? ? = = = = = = = 1.00 0.86 = = 1.00 = = = = = 1.00 = = 1.00 = = = = = = 1.00 = = 1.00 1.00 1.00 = 1.00 = = 1.00 1.00 = = = = = ? = ? ? 1.00 = ? ? ? ? ? = 1.00 = 1.00 1.00 = = = = = = = = 0.57 = = = = = 0.57 = 0.57 = = 1.00 = = = 1.00 = = 1.00 1.00 = 1.00 1.00 ? = ? 1.00 ? = = = = = 1.00 ? ? 1.00 1.00 1.00 = = = = = 1.00 1.00 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 = = = = = = = = = = = 1.00 = ? ? ? ? ? 1.00 = 1.00 1.00 = = = = = = = 1.00 = = 1.00 = = 1.00 = = 1.00 1.00 1.00 = = = 0.77 0.54 0.89 = = = 0.51 = = = = = = = = = = = 0.54 0.54 = 1.00 = 1.00 = 1.00 ? = = ? ? ? ? ? ? ? ? ? ? = 1.00 1.00 = = 1.00 = 1.00 = = = 1.00 1.00 1.00 = ? = 1.00 = ? = 0.58 = = = = = = = = 0.75 = = = = = = = = = = = ? ? ? ? ? = = = = = = = = = 1.00 = ? 1.00 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 1.00 1.00 = 1.00 = 1.00 = = = 1.00 = = = = 1.00 = = 0.74 = = 1.00 1.00 = = 1.00 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 1.00 = 1.00 ? ? = = 1.00 = = = = = = = = = = = = = ? = = = = 1.00 = 1.00 1.00 = 1.00 = = = = = 1.00 1.00 1.00 = = = ? ? ? ? ? ? ? ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? = = = = = = = = = = = = = 1.00 = 1.00 ? 1.00 = = = = = = = = = 1.00 = = = = = = = = = = 1.00 = = = = = = = = = = 1.00 = = 1.00 = ? ? = = 1.00 = = = = = = = ? ? ? = = = = = = = = = = = = = = = = = = ? ? = = = = = = = = = = = = = = = 1.00 1.00 = = = = 1.00 1.00 1.00 = = = = = 1.00 1.00 1.00 1.00 = = = 1.00 1.00 1.00 = 1.00 = 1.00 1.00 ? 1.00 = = 1.00 = = 1.00 1.00 = = = 1.00 = 1.00 = = = = 1.00 = 1.00 = = 1.00 = ? ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = 1.00 = = 1.00 = 1.00 = = = = = = 1.00 = = 1.00 = = = = = = = = = = = 1.00 = = = = = = = = = = = ? = = = 0.61 0.61 = 1.00 1.00 = = = 1.00 1.00 = = = = = = 1.00 = 1.00 = = = = 1.00 = 1.00 1.00 = 1.00 1.00 1.00 = = 1.00 1.00 = = = ? = 1.00 = 1.00 = = = = 1.00 = 1.00 1.00 = ? ? ? = = = = 1.00 1.00 1.00 ? 1.00 = 1.00 1.00 = 1.00 = = 1.00 = = 1.00 1.00 = = = 1.00 = 1.00 = = = = 1.00 1.00 1.00 = 1.00 = = = 1.00 = 1.00 = = = 1.00 = = 1.00 = 1.00 = = = = = = = = = = 1.00 = = = 1.00 1.00 = = = = = = 1.00 = 1.00 = = 1.00 = ? 1.00 1.00 1.00 = ? ? ? ? ? ? ? = 1.00 = = 1.00 1.00 1.00 1.00 = 1.00 = = ? ? ? ? ? = = = = 1.00 1.00 1.00 1.00 1.00 1.00 = 1.00 = 1.00 = = = = = = 1.00 1.00 1.00 = = = = 1.00 = 1.00 1.00 = 1.00 1.00 1.00 = = 1.00 1.00 = = = 1.00 1.00 1.00 = 1.00 = 1.00 = = 1.00 = 1.00 = = = = = = = = = = = 1.00 = 1.00 1.00 = = 1.00 = = = = = = = 1.00 = = ? = = = = = = = = = = = = 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 = = 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 0.89 = = = = 0.89 = = ? = 1.00 = = 1.00 = 1.00 = = 1.00 = ? 1.00 1.00 = = = = = = = = = = = = = = 1.00 1.00 = = 1.00 = = = = = = 1.00 = = = = 1.00 1.00 1.00 = 1.00 = 1.00 = = 1.00 = = = = = = = = 1.00 1.00 = = 1.00 1.00 = 1.00 = = = 1.00 1.00 = 1.00 = = = 1.00 = = 1.00 ? = = = = = 1.00 1.00 = 1.00 = = 1.00 = 1.00 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 = = = = = ? = = = = = = = = = = = = = = = = = = ? ? ? = = = 1.00 = = = 1.00 = = = = = = = = = 1.00 = = 1.00 = ? ? ? ? ? ? 1.00 = = = = = = = ? ? = = = 0.98 = 0.98 = = ? ? ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0.63 = = = = = = = = = = = = 1.00 = = = = = = = ? 1.00 1.00 = 1.00 = 1.00 = = = = = = = = 1.00 1.00 = = 1.00 1.00 = 1.00 = = = 1.00 1.00 = 1.00 = = = = ? ? = ? = = = ? ? 1.00 1.00 = 1.00 = = 1.00 1.00 1.00 1.00 = = = 1.00 = = 1.00 = 1.00 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = 0.84 1.00 1.00 = 1.00 = 1.00 = = = = = = = = 1.00 1.00 = ? ? ? ? 1.00 = = = 1.00 1.00 = 1.00 = ? = = = 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 = = = 0.96 0.98 = = = 0.98 0.99 = = = 1.00 = = = = = = = = = 1.00 = = 1.00 = 1.00 1.00 1.00 = = 1.00 1.00 = = = = = ? = 0.96 = = = = 0.96 = 0.96 = 0.96 = = = = = = = 1.00 = = 1.00 = 1.00 = = = = = = = 1.00 = = 1.00 1.00 = = = = = 1.00 = 1.00 = = = 1.00 1.00 1.00 = 1.00 = = 1.00 ? 1.00 1.00 = 1.00 = 1.00 = = = = = 1.00 = 1.00 1.00 1.00 1.00 1.00 = 0.51 = 0.51 = = 0.51 = = = = = = = = 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 = 1.00 1.00 = = = 1.00 = = 1.00 = 1.00 = = = = = = = 1.00 = = 1.00 1.00 = = = = = 1.00 = 1.00 = = = 1.00 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 = = = = = = = = = = = = = = = = = = = 0.80 = = = = = = = = = = = = = = 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 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0.51 = = = = = ? = 0.50 = = = = = = = = 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 END PHASEPROBS