************************************************************* **** **** **** Output from PHASE v2.0 **** **** Code by M Stephens, with contributions from N Li **** **** **** ************************************************************* BEGIN COMMAND_LINE /home/qyi/lib/phase/PHASE2 -d1 tnr1b.phase.inp tnr1b.phase.out END COMMAND_LINE BEGIN OUTFILE_LIST tnr1b.phase.out_freqs : haplotype frequency estimates tnr1b.phase.out_pairs : most likely haplotype pairs for each individual tnr1b.phase.out_recom : estimates of recombination parameters tnr1b.phase.out_monitor : file for monitoring convergence END OUTFILE_LIST BEGIN INPUT_SUMMARY Number of Individuals: 47 Number of Loci: 122 Positions of loci: 146 170 767 1182 1512 2636 2660 2666 3605 3831 4234 5045 5240 5426 7311 7601 7803 7856 8549 9313 9417 9562 9680 9778 11840 12000 12372 13473 13682 13822 13884 14315 14325 14941 15471 15517 15619 15845 16264 16650 16781 16786 16891 17253 17304 17436 17592 17669 17748 18073 18176 18967 19057 19117 19828 20170 20507 20531 20974 21807 21927 22109 22739 23040 23090 23224 23302 23538 23741 23764 23819 23830 24104 24987 25236 25687 25693 25990 26077 26117 26140 26406 26607 27691 27754 28150 29000 30160 32855 32903 32974 33031 33741 34173 35137 35180 36413 36772 37098 37226 37476 37489 37490 37592 38317 38345 38386 38617 38719 42065 42092 42264 42355 42799 43299 43371 43521 44132 44424 44507 44747 45022 END INPUT_SUMMARY List of haplotypes found in best reconstruction, with counts. (See file tnr1b.phase.out_freqs for haplotype population frequency estimates) BEGIN LIST_SUMMARY 1 TGGCGCGGCDGDGCTTCGTTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACACCGTTTTGAITCTTGAGCATGTACTAGCCGAACCGTCACCCCGAGACGAC 1.000000 2 TGGCGCGGCDGDTCTTCGCTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACGCCGTTTTGAITCTTGAGCATGTACTAACCGAACCGTCGTCCCGAGACGAC 1.000000 3 TGGCGCGGCDGDTCTTCGCTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACGCCGTTTTGAITCTTGAGCATGTACTAACCGAACCGTCGTCCTGAGACAGC 1.000000 4 TGGCGCGGCDGDTCTTCGCTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACGCCGTTTTGAITCTTGAGCATGTACTAACCGAACCGTCATACTGAGACAGC 1.000000 5 TGGCGCGGCDGDTCTTCGCTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACGCCGTTTTGAITCTTGAGCATGTACTAGCCGAACCGTCACCCCGAGACGAC 1.000000 6 TGGCGCGGCDGDTCTTCGCTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACGCCGTTTTGAITCTTGAGCGCGTACTAGCCGAACCGTCATCCCGAGGTGGC 1.000000 7 TGGCGCGGCDGDTCTTCGCTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCGCACIGTGAAACGCCGTTTTGAITCTTGAGCATGTACTAGCCGAACCGTCATCCCGAGGTGGC 1.000000 8 TGGCGCGGCDGDTCTTCGCTACTAIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACGCCGTTTCGAITCTTGAGCATGTACTAGCCGAACCGTCGTCCCGAGGTGGC 1.000000 9 TGGCGCGGCDGDTCTTCGCTACTAIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACGCCGTTTCGAITCTTGAGCATGTACTAGCCGAACCGTCACCCCGGAGCGGC 1.000000 10 TGGCGGACCIGIGGTTCGCTACTGDGCDTTATGAGGGCGTCATTCDTGACGAATTITTTCCACIGTGAGGCGCCATTTTGADGCGTGCACGCGTACTGACCAAACTATCGCCCCGAGACGGC 1.000000 11 TGGCGGACCIADGCTTTGCTACTGDGCDTGATGAGTGCGTCATTCDTGACGAATTITTTCCACIGTGAAACGCCATTTTGADGCGTGCACGCGTATTAGCTGAACTATCATCCTAAGACGGC 1.000000 12 TGGCGGACCDGDTCTTCGCTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACGCCGTTTTGAITCTTGAGCATGTACTAACCGAACCGTCGTCCTGAGACAGC 1.000000 13 TGGCGGACGIGIGGTCCGCTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACACCGTTTTGAITCTTGAGCATGTACTAGCCGAACCGTCGTCCCGAGACGAC 2.000000 14 TGGCGGACGIGIGGTCCGCTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACACCGTTTTGAITCTTGAGCATGTACTAGCCGAACCGTCACCCCGAGACGAC 1.000000 15 TGGCGGACGIGIGGTCCGCTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACACCGTTTTGAITCTTGAGCATGTACTAGCCGAACCGTCACCCTGAGACGGC 1.000000 16 TGGCGGACGIGIGGTCCGCTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACACCGTTTTGAITCTTGAGCATGTACTAGCCGAACCGTCATCCCGAGACGAC 1.000000 17 TGGCGGACGIGIGGTCCGCTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACACCGTTTTGAITCTTGAGCATGTACTAGCCGAACCGTCATCCTGAGACGGC 1.000000 18 TGGCGGACGIGIGGTCCGCTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACACCGTTTTGAITCTTGAGCATGTACTAGCCGAACCGTTGCCGCGAGACGAC 1.000000 19 TGGCGGACGIGIGGTCCGCTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACACCGTTTTGAITCTTGAGCATGTACTAGCCGAAACGTCGCCCCGAGACGAC 2.000000 20 TGGCGGACGIGIGGTCCGCTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACACCGTTTTGAITCTTGAGCATGTACTAGTCACGCTGCCGTCCCAAGACGGC 2.000000 21 TGGCGGACGIGIGGTCCGCTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACACCGCTTTGAITCTTGAGCATGTACTAGCCGAACCGTCGTCCCGAGACGAC 1.000000 22 TGGCGGACGIGIGGTCCGCTACTGIGCICGGCGAGTTTATCGCTCDTGACGGATTITTCCCACIGTGAAACACCGTTTTGAITCTTGAGCATGTACTAGCCGAACCGTCGCCCCGAGACGGT 1.000000 23 TGGCGGACGIGIGGTCCGCTACTGIGCICGGCGAGTTTATCGCTCDTGACGGATTITTCCCACIGTGAAACACCGTTTTGAITCTTGAGCATGTACTAGCCGAACCGTCGCCGCGGGACGAC 1.000000 24 TGGCGGACGIGIGGTTCGCTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACGCCGTTTTGAITCTTGAGCATGTACTAGCCGAACCGTCACCCCGAGACGAC 2.000000 25 TGGCGGACGIGIGGTTCGCTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACGCCGTTTTGAITCTTGAGCATGTACTAGCCGAACCGTCACCCTGAGACGGC 1.000000 26 TGGCGGACGIGIGGTTCGCTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACGCCGTTTTGAITCTTGAGCATGTACTAGTCACGCTGCCGTCCCGAGACGAC 1.000000 27 TGGCGGACGIGIGGTTCGCTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACGCCGTTTTGAITCTTGAGCGCGTACTAGCCGAACCGCTGCCCTGAGACGGC 1.000000 28 TGGCGGACGIGIGGTTCGCTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCGCIGTGAAACGCCGTTTTGAIGCTTGAGCATGTACTAGCCGAACCGTTGTCCCGAGACGGC 1.000000 29 TGGCGGACGIGIGGTTCGCTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTTCCACIGTGAAACGCCGTTTTGAITCTTGAGCATGTACTAGCCGAACCGTCATCCCGAGACGGC 1.000000 30 TGGCGGACGIGIGGTTCGCTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTTCCACIGTGAAACGCCGTTTTGAITCTTGAGCGCGTACTAGCCGAACCGTCACCCCGAGACGAC 1.000000 31 TGGCGGACGIGIGGTTCGCTACTGIGCICGGCGAGTTTATCGCCCIGGGTCAGCCDGTCCTGTICAGAGGTGTAATTTTGCIGTGTGCGTGCGTACCGACCAAACTGCTGTCCCGAGACGGC 1.000000 32 TGGCGGACGIGIGGTTCGCTACTGIGCICGGCGAGTTTATCGCCTIGGACCAGCCIGTCCCACICAGAGGTGCCATTTTGCIGTGCGAGCGCGTGTTAGCTGAACTATCGCACTGAGACGGC 1.000000 33 TGGCGGACGIGIGGTTCGCTACTGIGCICGGCGAATGTATCGCCCIGAGCGAGCCDGACGCACDCAAAGGTGCCATTATAAIGTGTACGCGCTTACTGATCACGCTGCCACCCTAAGACGGC 1.000000 34 TGGCGGACGIGIGGTTCGCTACTGIGCICGGCGAATGTATCGCCCIGAGTCAGCCDGACGCACDCAAAAACACCGTTTTGAITCTTGAGCATGTACTAGTCACGCTGCCGTCCCGAGACGAC 1.000000 35 TGGCGGACGIGIGGTTCGCTACTGIGCICGGCGAATGTATCGCCCIGAGTCAGCCDGACGCACDCAAAGGTGCCATTATAAIGTGCACGCGCGTACTAGCCGAACCGCTATCCTGAGACGGC 1.000000 36 TGGCGGACGIGIGGTTCGCTACTGIGCICGGCGAATGTATCGCCCIGAGTCAGCCDGACGCACDCAAAGGTGCCATTATAAIGTGCACGCGCTTACTGATCACGCTGCCGCCCCGAGACGAC 2.000000 37 TGGCGGACGIGIGGTTCGCTACTGIGCICGGCGAATGTATCGCCCIGAGTCAGCCDGACGCACDCAAAGGTGCCATTATAAIGTGCACGCGCTTACTGATCACGCTGCCGTCCTGAGACGGT 2.000000 38 TGGCGGACGIGIGGTTCGCTACTGIGCICGGCGAATGTATCGCCCIGAGTCAGCCDGACGCACDCAAAGGTGCCATTATAAIGTGCACGCGCTTACTGATCACGCTGCCATCCTAAGACGGC 1.000000 39 TGGCGGACGIGIGGTTCGCTACTGIGCICGGCGTGTTTATCGCTCDTGACGAATTITTTCCACIGTGAAACGCCGTTTTGAITCTTGAGCATGTACTAGCCGAACCGTCACCCCGAGACGAC 1.000000 40 TGGCGGACGIGIGGTTCGCTACTGIGCICGGCGTGTTTATCGCTCDTGACGAATTITTTCCACIGTGAAACGCCGTTTTGAIGCTTGAGCATGTACTAGCCGAACCGTCACCCCGAGACGAC 1.000000 41 TGGCGGACGIGIGGTTCGTTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACACCGTTTTGAITCTTGAGCATGTACTAGCCGAACCGTCGCCCCGAGACGAC 1.000000 42 TGGCGGACGIGIGGTTCGTTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACACCGTTTTGAITCTTGAGCATGTACTAGCCGAACCGTCGTCCTGAGACAGC 1.000000 43 TGGCGGACGIGIGGTTCGTTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACACCGTTTTGAITCTTGAGCATGTACTAGCCGAACCGTCACCCCGAGACGAC 1.000000 44 TGGCGGACGIGIGGTTCGTTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACACCGTTTTGAITCTTGAGCATGTACTAGCCGAACCGTCACCCTGAGACGGC 1.000000 45 TGGCGGACGIGIGGTTCGTTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACACCGTTTTGAITCTTGAGCATGTACTAGCCGAACCGTCACCCTAAGACGGC 1.000000 46 TGGCGGACGIGIGGTTCGTTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAGGTGCCATTTTGCIGTGCGAGCGCGCACTAGCCGAACCGTCACCCTGAGACGGT 1.000000 47 TGGCGGACGIGIGGTTCGTTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTTCCACIGTGAAACGCCGTTTTGAITCTTGAGCATGTACTAGCCGAACCGTTACCCTAAGACGGC 1.000000 48 TGGCGGACGIGIGGTTCGTTACTGIGCICGGCGAGTTTATCGCCTIGGATCAGCCIGTCCCACICAGAGGTGCCATTTTGCDGCTTGAACGCGTACTGGCCAAACTATCGCCCTGAGACGGC 1.000000 49 TGGCGGACGIGIGGTTCGTTACTGIGCICGGCGAGTTTAGCGCTCDTGACGAATTITTCCCACIGTGAAACACCGCTTTGAITCTTGAGCATGTACTAGCCGAACCGTCGTCCCGAGACGAC 1.000000 50 TGGCGGACGIGIGGTTCGTTACTGIGCICGGCGAGTTTAGCGCTCDTGACGAATTITTCCCACIGTGAAACACCGCTTTGAITCTTGAGCATGTACTAGCCGAACCGTCACCCTAAGACGGC 2.000000 51 TGGCGGACGIGIGGTTCGTTACTGIGCICGGCGAGTTTAGCGCTCDTGACGAATTITTCCCACIGTGAAACACCGCTTTGAITCTTGAGCATGTACTAGCCGAACCGTCATCCCGAGACGAC 1.000000 52 TGGCGGACGIGIGGTTCGTTACTGIGCICGGCGAGTTTAGCGCTCDTGACGAATTITTCCCGCIGTGAAACGCCGTTTTGAIGCTTGAGCATGTACTAGCCGAACCGTTATCCTAAGACGGC 1.000000 53 TGGCGGACGIGIGGTTCGTTACTGIGCICGGCGAGTGCAGCACTCDTGACGAATCITTCCCACIGTGTAACACCGTGTTGAITCTTGAGCATGTACTAGCCGAACCGTCGCCCCGAGACGGC 1.000000 54 TGGCGGACGIGIGGTTCGTTACTGIACICGGCGAGTTTATCACTCDTGACGAATTITTCCCGCIGTGAAACGCCGTTTTGAIGCTTGAGCATGTACTAGCCGAACCGTCACCCTAAGACGGC 1.000000 55 TGGCGGACGIGIGGTTCGTTACTGIACICGGCGAGTTTATCACTCDTGACGAATTITTCCCGCIGTGAAACGCCGTTTTGAIGCTTGAGCATGTACTAGCCGAACCGTCACACCGAGACGGT 1.000000 56 TGGCGGACGIGIGGTTCGTTACTGIACICGGCGAGTTTATCACTCDTGACGAATTITTCCCGCIGTGAAACGCCGTTTTGAIGCTTGAGCATGTACTAGCCGAACCGTTGCACCGAGACGAC 1.000000 57 TGGCGGACGIGIGGTTCGTTACTGIACICGGCGAGTTTATCACTCDTGACGAATTITTCCCGCIGTGAAACGCCGTTTTGAIGCTTGAGCATGTACTAGCCGAACCGTTACCCTAAGACGGC 1.000000 58 TGGCGGACGIGIGGTTCGTTACTGDGCICGATGAGTTTGTCATTCDGGGTGAGCCDGTCCTGTICAGAGGTGTAATTTTGCIGTGTGCGTGCGTACCGACCAAACTGCTGTCCCGAGACGGC 1.000000 59 TGGCGGACGIGIGGTTCATTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACACCGTTTTGAITCTTGAGCATGTACTAGCCGAACCGTCGCCCCGAGACGAC 1.000000 60 TGGCGGACGIGIGGTTCATTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACACCGTTTTGAITCTTGAGCATGTACTAGCCGAACCGTCACCCCGAGACGAC 2.000000 61 TGGCGGACGIGIGGTTCATTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACACCGTTTTGAITCTTGAGCATGTACTAGCCGAACCGTCACACTGAGACGGT 1.000000 62 TGGCGGACGIGIGGTTCATTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACACCGTTTTGAITCTTGAGCATGTACTAGCCGAACCGTCATCCCGAGACGAC 1.000000 63 TGGCGGACGIGIGGTTCATTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACACCACTTTGAITCTTGAGCATGTACTAGCCGAACCGTCACACCGGAGCGGC 1.000000 64 TGGCGGACGIGITGTTCGCTACTAIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACGCCGTTTCGAITCTTGAGCATGTACTAGCCGAACCGTCATCCTGAGACGGC 1.000000 65 AGGCGGACCIGDGGTCCGCTACTGIGCICGACAAATTTAGCACCCDGGATCAGCCDGTCCCACICAGAGGTGCCATTTTGCDGCGTGCGCGCGTGTTAGCTGAACTATCACACCGGAGCGGC 1.000000 66 AGGCGGACCIGDGGTCCGCTACTGIGCICGACAAATTTAGCACCCIGGGTCAGCCDGTCCCACICAGAGGTGCCATTTTAAIGTGCAAGCGCGTACTAGCCGAACCGCTGCCCCGAGACGAC 1.000000 67 AGGCAGACGIGIGGTCCGCTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTIGTCGCACIGTGAAACACCGTTTTGAITCTTGAGCATGTACTAGCCGAAACGTCGCCCCGAGACGAC 3.000000 68 AGGCAGACGIGIGGTCCGCTGACGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACGCCATTTTGAITCTTGAGCATGTACTAGCCGAACCGTCACCCCGAAGCGGC 1.000000 69 AGGCAGACGIGIGGTCCGCTGACGIACICGGCGAGTTTATCACTCDTGACGAATTITTCCCACIGTGAAACGCCATTTTGAIGCTTGAGCATGTACTAGCCGAACCGTCACACCGAGACGAC 1.000000 70 AGGCAGACGIGIGGTCCGCTGACGDGCICGATGAGTGCGTCATTCDTGACGAATTITTTCCACIGTGAAACGCCGTTTTGAITCTTGAGCATGTACTAGCCGAACCGTCATCCCGGAGCGGC 1.000000 71 AGGAAGACCIADGCTCCGCTGACGDGCDTGATGAGTGTATTACTCDTGACGAATTIGTCCCACIGTGAGGCGCCATTATGCDGTGTGCGCGCGTACTAGCCGAACCGCTGCACTGAGACGGC 1.000000 72 AGGAAGACCIADGCTCTGCTGACGDGCDTGATGAGTGTATTACTCDTGACGAATTITTCCCACIGTGTAACACCGTGTTGAITCTCGAGCATGTACTAGCCGAACCGTCACCCTGAGACGGC 1.000000 73 AGTCGGACGIGIGGTTCGCTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACGCCGTTTTGAITCTTGAGCATGTACTAGCCGAACCGTCACCCCGAGGTGGC 1.000000 74 AGTCAGACCIGDGGTCCGCTACTGIGTICGACAAGGGTGTCATCCIGAGTCAATTITTCCCACICAGAGGTGCCATTTTGCIGTGCGAGCGCGCACTAGCCGAACCGTCACCCTGAGACGGT 1.000000 75 AGTCAGACCIGDGGTCCGCTACTGIGTICGACAAAGGTATCGCTCDTGACGAATTITTCCCACIGTGAAACGCCGTTTTGAITCTTGAGCATGTACTAGCCGAACCGTTACCGCGAGACGAC 1.000000 76 AGTCAGACCIGDGGACCGCAACTGIGTICTACAAGGGCAGCACTCDTGACGAATCITTCCCACIGTGTAACACCGTGTTGAITCTTGAGCATGTACTAGCCGAACCGTCACCCTGAGACGGC 1.000000 77 AGTCAGACGIGDGGACCGCAACTGIGTICTACAAGGGCAGCACTCDTGACGAATCITTCCCACIGTGTAACACCGTGTTGAITCTTGAGCATGTACTAGCCGAACCGTCACCCCGAAGCGGC 1.000000 78 AGTCAGACGIGDGGACCGCAACTGIGTICTACAAGGGCAGCACTCDTGACGAATCITTCCCACIGTGTAACACCGTGTTGAITCTTGAGCATGTACTAGCCGAACCGTCATACTGAGACGGC 1.000000 79 AAGCGGACGIGIGGTTCGCTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACGCCGTTTTGAITCTTGAGCATGTACTAGCCGAACCGTCACCCTGAGACGGC 2.000000 80 AAGCGGACGIGIGGTTCGCTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGAAACGCCGTTTTGAIGCGTGCGCGCGTGTTAGCTGAACTATCACACCGGAGCGGC 1.000000 81 AAGCGGACGIGIGGTTCGCTACTGIGCICGGCGAGTTTATCGCCCIGGGTCAGCCDGTCCCACICAGAGGCGCCATTTTGAITCTTGAGCATGTACTAACCGAACCGTCATCCCGAGGTGGC 1.000000 82 AAGCGGACGIGIGGTTCGTTACTGIGCICGGCGAGTTTATCGCTCDTGACGAATTITTCCCACIGTGTAACACCGTGTTGAITCTTGAGCATGTACTAGCCGAACCGTCACCCTGAGACGGC 1.000000 83 AAGCAGACCIGDGGACCGCTACTGIGTICGACAAAGGTATCGCTCDTGACGAATTITTCCCACIGTGAAACGCCGTTTTGAITCTTGAGCGCGCACTAGCCGAACCGTCACCCCGAGACGAC 1.000000 END LIST_SUMMARY Summary of best reconstruction (numbers refer to the list of haplotypes given above) BEGIN BESTPAIRS_SUMMARY D001: (2,18) D002: (4,78) D003: (10,77) D004: (9,79) D005: (27,32) D006: (3,25) D007: (38,82) D008: (42,81) D009: (1,64) D010: (22,24) D011: (5,67) D012: (75,74) D013: (48,72) D014: (17,67) D015: (65,76) D016: (6,73) D033: (23,44) D034: (46,80) D035: (7,8) D036: (12,57) D037: (71,83) D038: (11,68) D039: (41,53) D040: (61,79) E001: (43,60) E002: (58,69) E003: (13,49) E004: (37,56) E005: (29,67) E006: (26,52) E007: (13,39) E008: (19,62) E009: (40,51) E010: (28,30) E011: (50,55) E012: (16,63) E013: (35,54) E014: (47,59) E015: (34,36) E016: (31,70) E017: (20,36) E018: (37,45) E019: (19,50) E020: (21,60) E021: (15,20) E022: (14,33) E023: (24,66) END BESTPAIRS_SUMMARY Haplotype estimates for each individual, with uncertain phases enclosed in () and uncertain genotypes enclosed in []: BEGIN BESTPAIRS1 0 D001 T G G C G C G G C D G D T C T T C G C T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C G C C G T T T T G A I T C T T G A G C A T G T A C T A A C C G A A C C G T C G (T) C (C) C G A G A C G A C T G G C G G A C G I G I G G T C C G C T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C A C C G T T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T T G (C) C (G) C G A G A C G A C 0 D002 T G G C G C G G C D G D T C T T C G C T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C G C C G T T T T G A I T C T T G A G C A T G T A C T A A C C G A A C C G T C A T A C T G A G A C A G C A G T C [A] G A C [G] I G D G G A C C G C A A C T G I G T I C T A C A A G G G C A G C A C T C D T G A C G A A T C I T T C C C A C I G T G T A A C A C C G T G T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C A T A C T G A G A C G G C 0 D003 T G G C G G A C C I G I G G T T C G [C] T A C T G D G C D T T A T G A G G G C G T C A T T C D T G A C G A A T T I T T T C C A C I G T G A G G C G C C A T T T T G A D G C G T G C A C G C G T A C T G A C C A A A C T A T C G C C C C G A G A C G G C A G T C [A] G A C G I G D G G A C C G C A A C T G I G T I C T A C A A G G G C A G C A C T C D T G A C G A A T C I T T C C C A C I G T G T A A C A C C G T G T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C A C C C C G A A G C G G C 0 D004 T G G C G C G G C D G D T C T T C G C T A C T A I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C G C C G T T T C G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C A C C C C G G A G C G G C A A G C G G A C G I G I G G T T C G C T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C G C C G T T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C A C C C T G A G A C G G C 0 D005 T G G C G G A C G I G I G G T T C G C T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T [C] C C A C I G T G A A A C G C C G T T T T G A I T C T T G A G C G C G T A C T A G C C G A A C C G C T G C C C T G A G A C G G C T G G C G G A C G I G I G G T T C G C T A C T G I G C I C G G C G A G T T T A T C G C C T I G G A C C A G C C I G T C C C A C I C A G A G G T G C C A T T T T G C I G T G C G A G C G C G T G T T A G C T G A A C T A T C G C A C T G A G A C G G C 0 D006 T G G C G C G G C D G D T C T T C G C T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C G C C G T T T T G A I T C T T G A G C A T G T A C T A (A) C C G A A C C G T C (G) (T) C C T G A G A C (A) G C T G G C G G A C G I G I G G T T C G C T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T [C] C C A C I G T G A A A C G C C G T T T T G A I T C T T G A G C A T G T A C T A (G) C C G A A C C G T C (A) (C) C C T G A G A C (G) G C 0 D007 (T) (G) G C G G A C G I G I G G T T C G C T A C T G I G C I C G G C G A A T G T A T C G C C C I G A G T C A G C C D G A C G C A C D C A A A G G T G C C A T T A T A A I G T G C A C G C G C T T A C T G A T C A C G C T G C C A (T) C C T (A) A G A C G G C (A) (A) G C G G A C G I G I G G T T C G T T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G T A A C A C C G T G T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C A (C) C C T (G) A G A C G G C 0 D008 (T) (G) G C G G A C G I G I G G T T C G (T) T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C A C C G T T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C G T C C T G A G A C A G C (A) (A) G C G G A C G I G I G G T T C G (C) T A C T G I G C I C G G C G A G T T T A T C G C C C I G G G T C A G C C D G T C C C A C I C A G A G G C G C C A T T T T G A I T C T T G A G C A T G T A C T A A C C G A A C C G T C [A] T C C C G A G G T G G C 0 D009 T G G C G C G G C D G D G C T T C G T T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C A C C G T T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C A C C C C G A G A C G A C T G G C G G A C G I G I T G T T C G C T A C T A I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C G C C G T T T C G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C A T C C T G A G A C G G C 0 D010 T G G C G G A C G I G I G G T (C) C G C T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G G A T T I T T C C C A C I G T G A A A C A C C G T T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C G C C C C G A G A C G G T T G G C G G A C G I G I G G T (T) C G C T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C [G] C C G T T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C A C C C C G A G A C G A C 0 D011 T G G C G C G G C D G D T C T T C G C T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C G C C G T T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C A C C C C G A G A C G A C A G G C A G A C G I G I G G T C C G C T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I G T C G C A C I G T G A A A C A C C G T T T T G A I T C T T G A G C A T G T A C T A G C C G A A A C G T C G C C C C G A G A C G A C 0 D012 A G T C [A] G A C C I G D G G T C C G C T A C T G I G T I C G A C A A [A] G G T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C G C C G T T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T T A C C G C G A G A C G A C A G T C [A] G A C C I G D G G T C C G C T A C T G I G T I C G A C A A [G] [G] [G] [T] G T C A T [C] C [I] [G] [A] [G] T C A A T T I T T C C C A C I C A G A G G T G C C A T T T T G C I G T G C G A G C G C G C A C T A G C C G A A C C G T C A C C C T G A G A C G G T 0 D013 T G G C G G A C G I G I G G T T C G T T A C T G I G C I C G G C G A G T T T A T C G C C T I G G A T C A G C C I G T C C C A C I C A G A G G T G C C A T T T T G [C] D G C T T G A [A] C G C G T A C T G G C C A A A C T A T C G C C C T G A G A C G G C A G G A A G A C C I A D G C T C T G C T G A C G D G C D T G A T G A G T G T A T T A C T C D T G A C G A A T T I T T C C C A C I G T G T A A C A C C G T G T T G A I T C T C G A G C A T G T A C T A G C C G A A C C G T C A C C C T G A G A C G G C 0 D014 T G G C G G A C G I G I G G T C C G C T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C A C C G T T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C A T C C T G A G A C G G C A G G C A G A C G I G I G G T C C G C T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I G T C G C A C I G T G A A A C A C C G T T T T G A I T C T T G A G C A T G T A C T A G C C G A A A C G T C G C C C C G A G A C G A C 0 D015 A G G C [G] G A C C I G D G G T C C G C T A C T G I G C I C G A C A A [A] T T T A G C A C C C D G G A T C A G C C D G T C C C A C I C A G A G G T G C C A T T T T G C D G C [G] T G C G C G C G T G T T A G C T G A A C T A T C A C A C C G G A G C G G C A G T C [A] G A C C I G D G G A C C G C A A C T G I G T I C T A C A A G G G C A G C A C T C D T G A C G A A T C I T T C C C A C I G T G T A A C A C C G T G T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C A C C C T G A G A C G G C 0 D016 (T) G (G) C G C [G] [G] C D G D T C T T C G C T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C G C C G T T T T G A I T C T T G A G C [G] C G T A C T A G C C G A A C C G T C A T C C C G A G G T G G C (A) G (T) C [G] G A C [G] I G I G G T T C G C T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C G C C G T T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C A C C C C G A G G T G G C 0 D033 T G G C G G A C G I G I G G T (C) C G (C) T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G (G) A T T I T T C C C A C I G T G A A A C A C C G T T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C (G) C C G C G (G) G A C G A C T G G C G G A C G I G I G G T (T) C G (T) T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G (A) A T T I T T C C C A C I G T G A A A C A C C G T T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C (A) C C C T G (A) G A C G G C 0 D034 (T) (G) G C G G A C G I G I G G T T C G (T) T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A G G T G C C A T T T T G C I G T G C G A G C G C G C A C T A G C C G A A C C G T C A C C C T G A G A C G G T (A) (A) G C G G A C G I G I G G T T C G (C) T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C G C C G T T T T G A I G C G T G C G C G C G T G T T A G C T G A A C T A T C A C A C C G G A G C G G C 0 D035 T G G C G C G G C D G D T C T T C G C T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C G C A C I G T G A A A C G C C G T T T T G A I T C T T G A G C A T G T A C T A [G] C C G A A C C G T C A T C C C G A G G T G G C T G G C G C G G C D G D T C T T C G C T A C T A I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C G C C G T T T C G A I T C T T G A G C A T G T A C T A [G] C C G A A C C G T C G T C C C G A G G T G G C 0 D036 T G G C G G A C [C] D G D T C T T C G C T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C G C C G T T T T G A I T C T T G A G C A T G T A C T A A C C G A A C C G T C G T C C T G A G A C A G C T G G C G G A C G I G I G G T T C G T T A C T G I A C I C G G C G A G T T T A T C A C T C D T G A C G A A T T I T T C C C G C I G T G A A A C G C C G T T T T G A I G C T T G A G C A T G T A C T A G C C G A A C C G T T A C C C T A A G A C G G C 0 D037 A (G) G A A G A C C I A D G C (T) C C G C T G A C G D G C D T G A T G A G T G T A T T A C T C D T G A C G A A T T I G T C C C A C I G T G A G G C G C C A T T A T G C D G T G T G C G C G C G T A C T A G C C G A A C C G C T G C A C T G A G A C G G C A (A) G C A G A C C I G D G G (A) C C G C T A C T G I G T I C G A C A A [A] G G T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C G C C G T T T T G A I T C T T G A G C [G] [C] G C A C T A G C C G A A C C G T C A C C C C G A G A C G A C 0 D038 T G G C G G A C C I A D G C T T T G C T A C T G D G C D T G A T G A G T G C G T C A T T C D T G A C G A A T T I T T T C C A C I G T G A A A C G C C A T T T T G A D G C G T G C A C G C G T A T T A G C T G A A C T A T C A T C C T A A G A C G G C A G G C [A] G A C G I G I G G T C C G C T G A C G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C G C C A T T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C A C C C C G A A G C G G C 0 D039 T G G C G G A C G I G I G G T T C G T T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C A C C G T T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C G C C C C G A G A C G (A) C T G G C G G A C G I G I G G T T C G T T A C T G I G C I C G G C G A G T G C A G C A C T C D T G A C G A A T C I T T C C C A C I G T G T A A C A C C G T G T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C G C C C C G A G A C G (G) C 0 D040 T G G C G G A C G I G I G G T T C A T T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C A C C G T T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C A C A C T G A G A C G G T A A G C G G A C G I G I G G T T C G C T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C G C C G T T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C A C C C T G A G A C G G C 0 E001 T G G C G G A C G I G I G G T T C G T T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C A C C G T T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C A C C C C G A G A C G A C T G G C G G A C G I G I G G T T C A T T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C A C C G T T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C A C C C C G A G A C G A C 0 E002 T G G C G G A C G I G I G G T T C G T T A C T G D G C I C G A T G A G T T T G T C A T [T] C [D] [G] G [G] T G A [G] [C] C D G T C C T G T I C A G A G G T G T A A T T T T G C I G T G T G C G T G C G T A C C G A C C A A A C T G C T G T C C C G A G A C G G C A G G C [A] G A C G I G I G G T C C G C T G A C G I A C I C G G C G A G T T T A T C A C T C D T G A C G A A T T I T T C C C A C I G T G A A A C G C C A T T T T G A I G C T T G A G C A T G T A C T A G C C G A A C C G T C A C A C C G A G A C G A C 0 E003 T G G C G G A C G I G I G G T C C G C T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C A C C G T T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C G T C C C G A G A C G A C T G G C G G A C G I G I G G T T C G T T A C T G I G C I C G G C G A G T T T A G C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C A C C G C T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C G T C C C G A G A C G A C 0 E004 T G G C G G A C G I G I G G T T C G C T A C T G I G C I C G G C G A A T G T A T C G C C C I G A G T C A G C C D G A C G C A C D C A A A G G T G C C A T T A T A A I G T G C A C G C G C T T A C T G A T C A C G C T G C C G (T) (C) C T G A G A C G G T T G G C G G A C G I G I G G T T C G T T A C T G I A C I C G G C G A G T T T A T C A C T C D T G A C G A A T T I T T C C C G C I G T G A A A C G C C G T T T T G A I G C T T G A G C A T G T A C T A G C C G A A C C G T T G (C) (A) C C G A G A C G A C 0 E005 T G G C G G A C G I G I G G T T C G C T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T T C C A C I G T G A A A C G C C G T T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C (A) T C C C G A G A C G G C A G G C A G A C G I G I G G T C C G C T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I G T C G C A C I G T G A A A C A C C G T T T T G A I T C T T G A G C A T G T A C T A G C C G A A A C G T C (G) C C C C G A G A C G A C 0 E006 T G G C G G A C G I G I G G T T C G C T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T [C] C C A C I G T G A A A C G C C G T T T T G A I T C T T G A G C A T G T A C T A G T C A C G C T G C C G T C C C G A G A C G A C T G G C G G A C G I G I G G T T C G T T A C T G I G C I C G G C G A G T T T A G C G C T C D T G A C G A A T T I T T C C C G C I G T G A A A C G C C G T T T T G A I G C T T G A G C A T G T A C T A G C C G A A C C G T T A T C C T A A G A C G G C 0 E007 T G G C G G A C G I G I G G T C C G C T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C A C C G T T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C (G) (T) C C C G A G A C G A C T G G C G G A C G I G I G G T T C G C T A C T G I G C I C G G C G T G T T T A T C G C T C D T G A C G A A T T I T T T C C A C I G T G A A A C G C C G T T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C (A) (C) C C C G A G A C G A C 0 E008 T G G C G G A C G I G I G G T (C) C (G) (C) T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C A C C G T T T T G A I T C T T G A G C A T G T A C T A G C C G A A (A) C G T C (G) (C) C C C G A G A C G A C T G G C G G A C G I G I G G T (T) C (A) (T) T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C A C C G T T T T G A I T C T T G A G C A T G T A C T A G C C G A A (C) C G T C (A) (T) C C C G A G A C G A C 0 E009 T G G C G G A C G I G I G G T T C G C T A C T G I G C I C G G C G T G T T T A T C G C T C D T G A C G A A T T I T T T C C A C I G T G A A A C G C C G T T T T G A I (G) C T T G A G C A T G T A C T A G C C G A A C C G T C A (C) C C C G A G A C G A C T G G C G G A C G I G I G G T T C G T T A C T G I G C I C G G C G A G T T T A G C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C A C C G C T T T G A I (T) C T T G A G C A T G T A C T A G C C G A A C C G T C A (T) C C C G A G A C G A C 0 E010 T G G C G G A C G I G I G G T T C G C T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T (C) C C G C I G T G A A A C G C C G T T T T G A I G C T T G A G C A T G T A C T A G C C G A A C C G T T (G) (T) C C C G A G A C G (G) C T G G C G G A C G I G I G G T T C G C T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T (T) C C A C I G T G A A A C G C C G T T T T G A I T C T T G A G C G C G T A C T A G C C G A A C C G T C (A) (C) C C C G A G A C G (A) C 0 E011 T G G C G G A C G I G I G G T T C G T T A C T G I G C I C G G C G A G T T T A G C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C A C C G C T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C A C C C T A A G A C G G C T G G C G G A C G I G I G G T T C G T T A C T G I A C I C G G C G A G T T T A T C A C T C D T G A C G A A T T I T T C C C G C I G T G A A A C G C C G T T T T G A I G C T T G A G C A T G T A C T A G C C G A A C C G T C A C A C C G A G A C G G T 0 E012 T G G C G G A C G I G I G G T C C G C T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C A C C G T T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C A T C C C G A G A C G A C T G G C G G A C G I G I G G T T C A T T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C A C C A C T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C A C A C C G G A G C G G C 0 E013 T G G C G G A C G I G I G G T T C G C T A C T G I G C I C G G C G A A T G T A T C G C C C I G A G T C A G C C D G A C G C A C D C A A A G G T G C C A T T A T A A I G T G C A C G C G C G T A C T A G C C G A A C C G C T A (T) C C T (G) A G A C G G C T G G C G G A C G I G I G G T T C G T T A C T G I A C I C G G C G A G T T T A T C A C T C D T G A C G A A T T I T T C C C G C I G T G A A A C G C C G T T T T G A I G C T T G A G C A T G T A C T A G C C G A A C C G T C A (C) C C T (A) A G A C G G C 0 E014 T G G C G G A C G I G I G G T T C (G) T T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T (T) C C A C I G T G A A A C (G) C C G T T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T (T) (A) C C C T A A G A C G G C T G G C G G A C G I G I G G T T C (A) T T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T (C) C C A C I G T G A A A C (A) C C G T T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T (C) (G) C C C C G A G A C G A C 0 E015 T G G C G G A C G I G I G G T T C G C T A C T G I G C I C G G C G A A T G T A T C G C C C I G A G T C A G C C D G A C G C A C D C A A A A A C A C C G T T T T G A I T C T T G A G C A T G T A C T A G T C A C G C T G C C G (T) C C C G A G A C G A C T G G C G G A C G I G I G G T T C G C T A C T G I G C I C G G C G A A T G T A T C G C C C I G A G T C A G C C D G A C G C A C D C A A A G G T G C C A T T A T A A I G T G C A C G C G C T T A C T G A T C A C G C T G C C G (C) C C C G A G A C G A C 0 E016 T G G C G G A C G I G I G G T T C G C T A C T G I G C I C G G C G A G T T T A T C G C C C I G G [G] T C A G C C D G T C C T G T I C A G A G G T G T A A T T T T G C I G T G T G C G T G C G T A C C G A C C A A A C T G C T G T C C C G A G A C G G C A G G C [A] G A C G I G I G G T C C G C T G A C G D G C I C G A T G A G T G C G T C A T T C D T G A C G A A T T I T T T C C A C I G T G A A A C G C C G T T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C A T C C C G G A G C G G C 0 E017 T G G C G G A C G I G I G G T C C G C T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C A C C G T T T T G A I T C T T G A G C A T G T A C T A G T C A C G C T G C C G T C C C A A G A C G G C T G G C G G A C G I G I G G T T C G C T A C T G I G C I C G G C G A A T G T A T C G C C C I G A G T C A G C C D G A C G C A C D C A A A G G T G C C A T T A T A A I G T G C A C G C G C T T A C T G A T C A C G C T G C C G C C C C G A G A C G A C 0 E018 T G G C G G A C G I G I G G T T C G C T A C T G I G C I C G G C G A A T G T A T C G C C C I G A G T C A G C C D G A C G C A C D C A A A G G T G C C A T T A T A A I G T G C A C G C G C T T A C T G A T C A C G C T G C C G (T) C C T (G) A G A C G G (T) T G G C G G A C G I G I G G T T C G T T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C A C C G T T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C A (C) C C T (A) A G A C G G (C) 0 E019 T G G C G G A C G I G I G G T C C G C T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C A C C G T T T T G A I T C T T G A G C A T G T A C T A G C C G A A A C G T C G C C C C G A G A C G A C T G G C G G A C G I G I G G T T C G T T A C T G I G C I C G G C G A G T T T A G C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C A C C G C T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C A C C C T A A G A C G G C 0 E020 T G G C G G A C G I G I G G T (C) C (G) (C) T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C A C C G (C) T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C (G) (T) C C C G A G A C G A C T G G C G G A C G I G I G G T (T) C (A) (T) T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C A C C G (T) T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C (A) (C) C C C G A G A C G A C 0 E021 T G G C G G A C G I G I G G T C C G C T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C A C C G T T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C A C C C T G A G A C G G C T G G C G G A C G I G I G G T C C G C T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T C C C A C I G T G A A A C A C C G T T T T G A I T C T T G A G C A T G T A C T A G T C A C G C T G C C G T C C C A A G A C G G C 0 E022 T G G C G G A C G I G I G G T (C) C G C T A C T G I G C I C G G C G A (G) T (T) T A T C G C (T) C (D) (T) (G) (A) C G A A T T I T T C C C A C I G T G A A A C A C C G T T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C A C C C (C) (G) A G A C G (A) C T G G C G G A C G I G I G G T (T) C G C T A C T G I G C I C G G C G A (A) T (G) T A T C G C (C) C (I) (G) (A) (G) C G A G C C D G A C G C A C D C A A A G G T G C C A T T A T A A I G T G T A C G C G C T T A C T G A T C A C G C T G C C A C C C (T) (A) A G A C G (G) C 0 E023 T G G C G G A C G I G I G G T T C G C T A C T G I G C I C G G C G A G T T T A T C G C T C D T G A C G A A T T I T T [C] C C A C I G T G A A A C G C C G T T T T G A I T C T T G A G C A T G T A C T A G C C G A A C C G T C A C C C C G A G A C G A C A G G C [G] G A C C I G D G G T C C G C T A C T G I G C I C G A C A A [A] T T T A G C A C C C I G G G T C A G C C D G T C C C A C I C A G A G G T G C C A T T T T A A I G T G C A A G C G C G T A C T A G C C G A A C C G C T G C C C C G A G A C G A C END BESTPAIRS1 Haplotype estimates for each individual, with uncertain phases enclosed in () and uncertain genotypes enclosed in [] with phase known positions indicated by = BEGIN BESTPAIRS2 0 D001 = = = = ? C G G ? D = D T C = T = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = G ? = = = = = = = = = ? = = ? ? = = = = = = = = = = = A = = = = = = = = = C = (T) = (C) = = = = = = = = ? = = = = ? G A C ? I = I G G = C = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = A ? = = = = = = = = = ? = = ? ? = = = = = = = = = = = G = = = = = = = = = T = (C) = (G) = = = = = = = = ? 0 D002 T = G ? ? C G G ? D = = T C T T ? = = T = = = = = = C = = G G = G = = T T T = T = G = = = = = = = ? ? = = = T = = = = = = = = = = = = A = = = G ? = = = T = = = = = = = = = = = = = = = = = = = = = A = = = = = = = = = = = = = = = = = = = = A = = A = T ? ? G A C ? I = = G G A C ? = = A = = = = = = T = = T A = A = = G G C = G = A = = = = = = = ? ? = = = C = = = = = = = = = = = = T = = = A ? = = = G = = = = = = = = = = = = = = = = = = = = = G = = = = = = = = = = = = = = = = = = = = G = = 0 D003 T = G ? ? = = = C = = I = = T T = = ? T = = = = D = C D T = = T G = = = = = G T = = T ? ? ? ? ? ? = = = = = T = = = ? ? ? ? ? ? ? = = A G G = G ? = A = T = = = = D G ? ? = = C A = G C = = = = ? G A = = A = = = T A = = G = = = = = = G A = = = = A = T ? ? = = = G = = D = = A C = = ? A = = = = I = T I C = = C A = = = = = A G = = C ? ? ? ? ? ? = = = = = C = = = ? ? ? ? ? ? ? = = T A A = A ? = G = G = = = = I T ? ? = = A G = A T = = = = ? A G = = G = = = C G = = A = = = = = = A G = = = = 0 D004 T G = = ? C G G ? D = D T C = = = = = = = = = A = = = = = = = = = = = ? = = = ? ? ? ? = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = C = = = = = = = ? = = = = = = = = = = = = ? = = = = = = = = = = = = = C = G A G = = = ? A A = = ? G A C ? I = I G G = = = = = = = = = G = = = = = = = = = = = ? = = = ? ? ? ? = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = T = = = = = = = ? = = = = = = = = = = = = ? = = = = = = = = = = = = = T = A G A = = = ? 0 D005 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = T C D T = ? = G = A T T = T = ? ? ? ? = = G T = = A A C = = ? ? = = = = = A = T C T T = = = = = = = = A C = = = = C = = = = C G C T = = C = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = C T I G = ? = C = G C C = G = ? ? ? ? = = C A = = G G T = = ? ? = = = = = C = G T G C = = = = = = = = G T = = = = T = = = = T A T C = = A = = = = = = = = = = 0 D006 = = = = ? C G G ? D = D T C = = = = = = = = = = = = = = = = = = = ? = = = = = ? ? ? ? = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = (A) = = = = = = = = = = (G) (T) = = = = = = ? = (A) = ? = = = = ? G A C ? I = I G G = = = = = = = = = = = = = = = = = = = ? = = = = = ? ? ? ? = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = (G) = = = = = = = = = = (A) (C) = = = = = = ? = (G) = ? 0 D007 (T) (G) = = ? = = = = = = = = = = = = = C = = = = = = = = = = = = = = ? A = G = = = = = = C = I G A G T C = G C C D G A ? G = = ? D C A A A G G T G ? = A = T A = A = = G T G C ? C = = G C T = = = = G A T = A C G = T = C = = (T) = = = (A) = = = = = = ? (A) (A) = = ? = = = = = = = = = = = = = T = = = = = = = = = = = = = = ? G = T = = = = = = T = D T G A C G = A T T I T T ? C = = ? I G T G T A A C A ? = G = G T = G = = T C T T ? A = = A T G = = = = A G C = G A A = C = T = = (C) = = = (G) = = = = = = ? 0 D008 (T) (G) = = = = = = = = = = = = = = = = (T) = = = = = = = = = = = = = = = = = = = = = = = = T = D T = A C G = A T T I T = = = = ? ? = G T = = A A = A ? = G = = = ? = = = ? ? ? ? ? = ? ? ? = = = = = = = G = ? = = = = = = = = ? = = = T = = = A C A = = (A) (A) = = = = = = = = = = = = = = = = (C) = = = = = = = = = = = = = = = = = = = = = = = = C = I G = G T C = G C C D G = = = = ? ? = C A = = G G = G ? = A = = = ? = = = ? ? ? ? ? = ? ? ? = = = = = = = A = ? = = = = = = = = ? = = = C = = = G T G = = 0 D009 = = = = ? C G G ? D = D G C = = = = T = = = = G = = ? = = = = = = = = = = = = ? ? ? ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = A ? = = = = = T = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = C = = C = = = = = = A = = = = = ? G A C ? I = I T G = = = = C = = = = A = = ? = = = = = = = = = = = = ? ? ? ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = G ? = = = = = C = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = T = = T = = = = = = G = 0 D010 ? = = = = ? ? ? = = = = = = = (C) = = = = = = = = = = = = = = = = = = = = = = = ? ? ? ? = = = = = = = = G = = = = = = = = = = ? ? ? ? ? ? ? ? ? ? ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? G = = = = = = = = = = G T ? = = = = ? ? ? = = = = = = = (T) = = = = = = = = = = = = = = = = = = = = = = = ? ? ? ? = = = = = = = = A = = = = = = = = = = ? ? ? ? ? ? ? ? ? ? ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? A = = = = = = = = = = A C 0 D011 T = = = G C G G ? D = D T C = T = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = T = ? ? ? ? ? ? ? = = = = = = G ? = = = = = = = = = = = = ? = = = = = = ? = = = ? = = = = = = = C = = = = A = = = = = = = = = = = = A = = = A G A C ? I = I G G = C = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = G = ? ? ? ? ? ? ? = = = = = = A ? = = = = = = = = = = = = ? = = = = = = ? = = = ? = = = = = = = A = = = = G = = = = = = = = = = = = 0 D012 = = = ? ? = = = = = = = = = = = ? ? = = = = = = = = = = = = = = = = ? ? ? ? A = = G C ? ? ? ? ? ? C G ? = = = = = = = = = = = = G T = = A A C = ? = G = = = = = A = T C T ? = = = = A T = T = = ? = = = = = = = = = = = T = = = G C = = = = = = A C = = = ? ? = = = = = = = = = = = ? ? = = = = = = = = = = = = = = = = ? ? ? ? G = = A T ? ? ? ? ? ? T C ? = = = = = = = = = = = = C A = = G G T = ? = A = = = = = C = G T G ? = = = = G C = C = = ? = = = = = = = = = = = C = = = C T = = = = = = G T 0 D013 T = = C ? ? ? ? G = G I = G = T C = T = A C T = I ? = ? C = G C = = ? = T = = = C G = C T I G = = T C = G C C = G = = = = = = = C A = A G G T G ? = A ? ? ? ? ? ? D G = = T = = ? ? ? C = = = = = G = ? = A = = = T A = = G = = = = = = = = = = = = A = = A ? ? ? ? C = A D = C = C T = C = G A C = D ? = ? T = A T = = ? = G = = = T A = T C D T = = C G = A T T = T = = = = = = = G T = T A A C A ? = G ? ? ? ? ? ? I T = = C = = ? ? ? T = = = = = A = ? = G = = = C G = = A = = = = = = = = = = = = 0 D014 T = = = ? ? ? ? = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = ? ? ? ? = = = = = = = = ? ? ? = = T = = ? = ? = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = ? ? ? ? = = = = C = = = = A T = = T = = = = = = G = A = = = ? ? ? ? = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = ? ? ? ? = = = = = = = = ? ? ? = = G = = ? = ? = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = ? ? ? ? = = = = A = = = = G C = = C = = = = = = A = 0 D015 = = G ? ? ? ? ? = = = = = = ? ? ? ? = T ? ? ? ? = = C = = G = = = = ? ? ? ? = = = = = C = = G = = T C ? ? ? = D G = = ? ? ? = = C A = A G G T G ? = A = T = = = C D G ? ? = = C = = G C = = G T = = = = T = = = = T A = = = = A = C = G A G = = = = = = T ? ? ? ? ? = = = = = = ? ? ? ? = A ? ? ? ? = = T = = T = = = = ? ? ? ? = = = = = T = = T = = C G ? ? ? = I T = = ? ? ? = = G T = T A A C A ? = G = G = = = A I T ? ? = = A = = A T = = A C = = = = C = = = = C G = = = = C = T = A G A = = = = 0 D016 (T) = (G) ? ? ? ? ? ? D = D T C = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? ? C = = = = = = = = = = = = = = = = = = T = = = = = = = = = = = (A) = (T) ? ? ? ? ? ? I = I G G = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? ? T = = = = = = = = = = = = = = = = = = C = = = = = = = = = = = 0 D033 = = = = = ? ? ? = = = = = = = (C) ? ? (C) = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = (G) = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = (G) = = G C = (G) = = = = A = = = = = = ? ? ? = = = = = = = (T) ? ? (T) = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = (A) = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = (A) = = C T = (A) = = = = G = 0 D034 (T) (G) = = = = = = = = = = = = = = = = (T) = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = G G T = ? = A = = = = = C = = T = C = A = = = = = C A C = = ? = C = = = = C G = = = = C = T = A G A = = = T (A) (A) = = = = = = = = = = = = = = = = (C) = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = A A C = ? = G = = = = = A = = C = T = C = = = = = T G T = = ? = T = = = = T A = = = = A = C = G A G = = = C 0 D035 = = = = = = = = = = = = = = = = = ? = = = = = G = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? ? G = ? ? ? ? = = = = = = = = = = = = = T = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = A = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = A = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? ? C = ? ? ? ? = = = = = = = = = = = = = C = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = G = = = ? = = = = = = = = 0 D036 = = = = = = = = ? D = D T C = = = = C = = = = = = G = = = = = = = = = = = = = = = G = ? ? = = = = = = = = = = = = = = = = A = = = = = = = = = = ? = = = = = = = = = T = = = ? = = = = = = = = = = = ? = = = = = = = = = C G T = = = G = = = = A = = = = = = = = = = ? I = I G G = = = = T = = = = = = A = = = = = = = = = = = = = = = A = ? ? = = = = = = = = = = = = = = = = G = = = = = = = = = = ? = = = = = = = = = G = = = ? = = = = = = = = = = = ? = = = = = = = = = T A C = = = A = = = = G = = 0 D037 = (G) = A = = = = = = A = = C (T) = = = = = G A C = D = C D T = = T G = ? T = = = = T A = = = = = = = = = ? = = = = G = = = = = = = = = = = G G = = = = A = = A = = C D G T G = = C ? ? ? ? = T = = = = = = = = = = = = = C T G = A = T = = = = = = G = = (A) = C = = = = = = G = = G (A) = = = = = A C T = I = T I C = = C A = ? G = = = = C G = = = = = = = = = ? = = = = T = = = = = = = = = = = A A = = = = G = = T = = A I T C T = = A ? ? ? ? = C = = = = = = = = = = = = = T C A = C = C = = = = = = A = 0 D038 T = = = ? = = = C = A D = C = T T = = = A C T = D = = D T = A T = = = = G C G = = A T ? ? ? ? ? ? = = = = = = = = = T = = = = = = = = = = = = = = = = = = = = = = D G = G = = C A = G C = = = T = = = = ? ? ? ? = T A = = = T = = T A = G A = = = = A = = = ? = = = G = G I = G = C C = = = G A C = I = = I C = G C = = = = T T A = = G C ? ? ? ? ? ? = = = = = = = = = C = = = = = = = = = = = = = = = = = = = = = = I T = T = = A G = A T = = = C = = = = ? ? ? ? = C G = = = C = = C G = A G = = = = 0 D039 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = T T = T = G = = = = = = = = = = = = T = = = = ? ? = = = = = = A = = = = = = = = T = = = = = = ? ? = = = ? ? ? ? = = = = = = ? = = = = = = = = = = = = = = = = = = = = = (A) = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = G C = G = A = = = = = = = = = = = = C = = = = ? ? = = = = = = T = = = = = = = = G = = = = = = ? ? = = = ? ? ? ? = = = = = = ? = = = = = = = = = = = = = = = = = = = = = (G) = 0 D040 T G = = = ? ? ? = = = = = = = = = A T = = = = = ? ? = = = = = = = = = = = = = = = = = ? ? ? ? ? ? = = = = = = = = = = = = ? = = = = = = = = = A = = = = = = = = = = = ? ? = ? = ? ? ? ? = = = = ? = = = = = = = = = = = = = = A = = = = = = = = = T A A = = = ? ? ? = = = = = = = = = G C = = = = = ? ? = = = = = = = = = = = = = = = = = ? ? ? ? ? ? = = = = = = = = = = = = ? = = = = = = = = = G = = = = = = = = = = = ? ? = ? = ? ? ? ? = = = = ? = = = = = = = = = = = = = = C = = = = = = = = = C 0 E001 = = = = = = = = = = = = = = = = = G = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? ? = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = A = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? ? = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = = 0 E002 T = = = ? = = = = = = = = = = T = = T = ? C T = D G = = = = A T = = = = = = G = = = T ? ? ? ? ? ? T = = ? ? C D G = = = T G T = C A = = G G T = T A = = = = = = C = = T G = = C = T G C = = = = C G A = = A = = = T = ? ? G T C = = = = = = = = G = A = = = ? = = = = = = = = = = C = = C = ? A C = I A = = = = G C = = = = = = A = = = C ? ? ? ? ? ? C = = ? ? T I T = = = C A C = G T = = A A C = C C = = = = = = A = = C T = = A = C A T = = = = T A G = = G = = = C = ? ? A C A = = = = = = = = A = 0 E003 = = = = = = = = = = = = = = = C = = C = ? = = = = = = = = = = = = = = = = = = T = = = = = = = = = = = = = = = = = = ? ? ? ? ? ? ? = = = = = = = ? = = T = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = T = = T = ? = = = = = = = = = = = = = = = = = = G = = = = = = = = = = = = = = = = = = ? ? ? ? ? ? ? = = = = = = = ? = = C = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 E004 = = = = ? = = = = = = = = = = = = = C = = = = = = G = = = = = = = = A = G = = = = G = C = I G A G T C = G C C D G A = G = A = D C A A = G G T = = = A = = A = A = = = T G C A C = = G C T = = = = G A T = A C G = T = C C = (T) (C) = T = = = = = = G T = = = = ? = = = = = = = = = = = = = T = = = = = = A = = = = = = = = G = T = = = = A = T = D T G A C G = A T T I T T = C = G = I G T G = A A C = = = G = = T = G = = = C T T G A = = A T G = = = = A G C = G A A = C = T T = (C) (A) = C = = = = = = A C 0 E005 T = = = ? = = = = = = = = = = T = = = = = = = = ? ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = T = T C ? ? = = = = = = = = = G ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = C = = = = (A) T = = = = = = = = = G = A = = = ? = = = = = = = = = = C = = = = = = = = ? ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = G = C G ? ? = = = = = = = = = A ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = A = = = = (G) C = = = = = = = = = A = 0 E006 = = = = = = = = = = = = = = = = = = C = = = = = = = = = = = = = = = ? = = = = T = = = ? ? ? ? ? ? = = = = = = = = = ? = = A = = = = = = = = = = ? = = = = = = = = = T = = = = ? = = = = = = = = = = = T = A C G = T = C C G = = = C G = = = = = A = = = = = = = = = = = = = = = = = = = T = = = = = = = = = = = = = = = ? = = = = G = = = ? ? ? ? ? ? = = = = = = = = = ? = = G = = = = = = = = = = ? = = = = = = = = = G = = = = ? = = = = = = = = = = = C = G A A = C = T T A = = = T A = = = = = G = 0 E007 = = = = = ? ? ? = = = = = = = C = = = = = = = = = = = ? ? = = = = A = = = = = = = = = = = = = = = = = ? ? ? = = = = C = = = = = = = = = = = = A ? = = = = = = = = = = = = = = ? = = = = = = = = ? = = = = = = = = = = = = (G) (T) = = = = = = = = = = = = = = = = ? ? ? = = = = = = = T = = = = = = = = = = = ? ? = = = = T = = = = = = = = = = = = = = = = = ? ? ? = = = = T = = = = = = = = = = = = G ? = = = = = = = = = = = = = = ? = = = = = = = = ? = = = = = = = = = = = = (A) (C) = = = = = = = = = = = 0 E008 = = = = = = = = = = = = = = = (C) = (G) (C) = = = = = ? ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? ? = = = ? = = = = = = = = = = ? ? ? = = = = = = = = = = = = ? ? ? ? = = = = = = = = = = = = = (A) = = = = (G) (C) = = = = = = = = = = = = = = = = = = = = = = = = = = (T) = (A) (T) = = = = = ? ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? ? = = = ? = = = = = = = = = = ? ? ? = = = = = = = = = = = = ? ? ? ? = = = = = = = = = = = = = (C) = = = = (A) (T) = = = = = = = = = = = 0 E009 = = = = = ? ? ? = = = = = = = = = = C = = = = = = = = = = = = = = T ? ? ? ? = T = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = G ? = = T = = = = = = (G) = = = = = = = = = = = = = ? = = = = = = = = = = = = = (C) = = = = = = = = = = = = = = = = ? ? ? = = = = = = = = = = T = = = = = = = = = = = = = = A ? ? ? ? = G = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = A ? = = C = = = = = = (T) = = = = = = = = = = = = = ? = = = = = = = = = = = = = (T) = = = = = = = = = = = 0 E010 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? ? ? = = = = = = = = = = = = = = = = = = = = (C) = = G = = = = = = = = = = = = = = = = = = = = G = = = = = = = A T = = = = = = = = = = = = = = = = T (G) (T) = = = = = = = = = (G) = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? ? ? = = = = = = = = = = = = = = = = = = = = (T) = = A = = = = = = = = = = = = = = = = = = = = T = = = = = = = G C = = = = = = = = = = = = = = = = C (A) (C) = = = = = = = = = (A) = 0 E011 = = = = = = = = = = = = = = = = = = = = ? = = = = G = = = = ? = = = ? = = = = G = G = = = = = = = = = = = = = = = = ? ? ? ? ? ? ? = = = = = = A ? = = C = = = = = = T = = = = = = = = = = = = = ? = = = = = = = = = = = = = = C = T A = = = = = = C = = = = = = = = = = = = = = = = = = = = ? = = = = A = = = = ? = = = ? = = = = T = A = = = = = = = = = = = = = = = = ? ? ? ? ? ? ? = = = = = = G ? = = T = = = = = = G = = = = = = = = = = = = = ? = = = = = = = = = = = = = = A = C G = = = = = = T 0 E012 = = = ? ? = = = = ? = = = = = C = G C = ? = = = = = = = = = = = = = ? ? ? ? = = = = = = = = = = = ? ? = = = = = = = = = = = ? ? ? = = = = = = = ? = G T = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = T C = ? = A G A = = A = = = = ? ? = = = = ? = = = = = T = A T = ? = = = = = = = = = = = = = ? ? ? ? = = = = = = = = = = = ? ? = = = = = = = = = = = ? ? ? = = = = = = = ? = A C = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = C A = ? = G A G = = G = 0 E013 = = = = = = = = = ? = = = = = = = = C = = = = = = G ? = = = = = = = A = G = = = = G = C = I G A G ? ? = G C C D G A = G = A = D C A A = G G T = = = A = = A = A = = = T G C A C ? ? ? ? = = = = = = = = = = = = = = = C T = (T) = = = (G) = = = = = = = = = = = = = = = = ? = = = = = = = = T = = = = = = A ? = = = = = = = G = T = = = = A = T = D T G A ? ? = A T T I T T = C = G = I G T G = A A C = = = G = = T = G = = = C T T G A ? ? ? ? = = = = = = = = = = = = = = = T C = (C) = = = (A) = = = = = = = 0 E014 = = = = = = = = = = = = = = = = = (G) = = = = = = = = = = = = = = = = ? = = ? = = = = = = = = = = = = = = = = = = = = (T) = = = = = = = = = = = = (G) ? = = = = = = = = = = ? ? = ? = = = = = = = = = = = = = = = = = = = = = (T) (A) = = = T A = = = = = G = = = = = = = = = = = = = = = = = = (A) = = = = = = = = = = = = = = = = ? = = ? = = = = = = = = = = = = = = = = = = = = (C) = = = = = = = = = = = = (A) ? = = = = = = = = = = ? ? = ? = = = = = = = = = = = = = = = = = = = = = (C) (G) = = = C G = = = = = A = 0 E015 = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? = = = = = = = = = = = = = = = = = = = = = = ? ? ? = = = = = = = = = = = = = = A A C A ? = G = = T = G = = T C T T ? A = = A T G = = = = A G = = = = = = = = ? ? = (T) = = = ? ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? = = = = = = = = = = = = = = = = = = = = = = ? ? ? = = = = = = = = = = = = = = G G T G ? = A = = A = A = = G T G C ? C = = G C T = = = = G A = = = = = = = = ? ? = (C) = = = ? ? = = = = = = 0 E016 T = = = ? = = = = = = = = = = T = = = = A C T = I = = = = = G C = = = = T T A = = G C ? ? ? ? ? ? T C = ? ? C D G = C = T ? T = C A = = G G T = T A A = = = = = C = G T G = = C = T G C = = = = C G A = = A = = = T = C T G = = = ? = A G A = = = = A = = = ? = = = = = = = = = = C = = = = G A C = D = = = = = A T = = = = G C G = = A T ? ? ? ? ? ? C G = ? ? T I T = T = C ? C = G T = = A A C = C C G = = = = = A = T C T = = A = C A T = = = = T A G = = G = = = C = T C A = = = ? = G A G = = = = 0 E017 = = = = = ? ? ? = ? = = = = = C = = = ? ? = = = = = = = = = = = = ? G = T = = = = = = T = D T G A C G = A T T I ? ? = C = = = I G T G = A A C A ? = G = = T = G = = T C T T G A = = A T G = = = ? A ? ? = = = = = = = = = = T = = = A = = = = = G = = = = = = ? ? ? = ? = = = = = T = = = ? ? = = = = = = = = = = = = ? A = G = = = = = = C = I G A G T C = G C C D ? ? = G = = = D C A A = G G T G ? = A = = A = A = = G T G C A C = = G C T = = = ? G ? ? = = = = = = = = = = C = = = G = = = = = A = 0 E018 = = = = ? = = = = = = = = = = = = = C = = ? ? ? = = = = = = = = = ? A = G = = = = = = C = I G A G ? ? = G C C D G A = G = = = D C A A = G G T G ? ? ? = = A = A = = G T G C A C = = ? C T = = = = G A T = A C G = T = C = G (T) = = = (G) = = = = = = (T) = = = = ? = = = = = = = = = = = = = T = = ? ? ? = = = = = = = = = ? G = T = = = = = = T = D T G A ? ? = A T T I T T = C = = = I G T G = A A C A ? ? ? = = T = G = = T C T T G A = = ? T G = = = = A G C = G A A = C = T = A (C) = = = (A) = = = = = = (C) 0 E019 = = = = = ? ? ? ? = = = = = = C = = C = = = = = = = = = = = ? = = ? = = = = = T = = = = = = = = = = = = = = = = = = ? ? ? ? ? ? ? = = = = = = = ? = = T = = = = = = = = = = = = = = = = = = = = ? = = = = = = = A = = = = G = = = C G = = = = = A = = = = = = ? ? ? ? = = = = = = T = = T = = = = = = = = = = = ? = = ? = = = = = G = = = = = = = = = = = = = = = = = = ? ? ? ? ? ? ? = = = = = = = ? = = C = = = = = = = = = = = = = = = = = = = = ? = = = = = = = C = = = = A = = = T A = = = = = G = 0 E020 = = = = ? = = = = = = = = = = (C) = (G) (C) = = = = = = = = = = = = = = = ? ? ? = = = = = = = = = = = = ? ? = = = = = = = = = = = = = = = = = = = = = ? = = (C) = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = (G) (T) = = = = = = = = = = = = = = = ? = = = = = = = = = = (T) = (A) (T) = = = = = = = = = = = = = = = ? ? ? = = = = = = = = = = = = ? ? = = = = = = = = = = = = = = = = = = = = = ? = = (T) = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = (A) (C) = = = = = = = = = = = 0 E021 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? ? ? ? ? ? = = = = = = = = = = = = = = = = = = = = = = = ? = = C = G A A = C = T = A C = = T G = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? ? ? ? ? ? = = = = = = = = = = = = = = = = = = = = = = = ? = = T = A C G = T = C = G T = = C A = = = = = = = 0 E022 = = = = ? = = = = = = = = = = (C) = = = = = = = = = = = = = = = = = ? (G) = (T) = = = = = = (T) = (D) (T) (G) (A) = = = A T T I T T = C = = = I G T G = A A C A ? ? ? = = T = G = = T C T = G A ? ? ? ? G = = = = A G C = G A A = C = T = = = = = (C) (G) = = = = = (A) = = = = = ? = = = = = = = = = = (T) = = = = = = = = = = = = = = = = = ? (A) = (G) = = = = = = (C) = (I) (G) (A) (G) = = = G C C D G A = G = = = D C A A = G G T G ? ? ? = = A = A = = G T G = A C ? ? ? ? T = = = = G A T = A C G = T = C = = = = = (T) (A) = = = = = (G) = 0 E023 T = = = ? = = = G = = I = = = T = = = = = = = = = = = = = = G = G = ? ? ? ? = T = G = T = D T = A C G = A T T I T = ? = = = ? ? ? T = = A A C = = = G = = = = G = = T C T T G = = = ? T = = = = = = = = = = = = = = = T C A = = = = = = = = = = = = A = = = ? = = = C = = D = = = C = = = = = = = = = = = = = = A = A = ? ? ? ? = G = A = C = I G = G T C = G C C D G = ? = = = ? ? ? A = = G G T = = = A = = = = A = = G T G C A = = = ? C = = = = = = = = = = = = = = = C T 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 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0.99 ? = = = = = = = = = ? = = ? ? = = = = = = = = = = = 0.99 = = = = = = = = = 0.99 = 0.60 = 0.60 = = = = = = = = ? 1.00 = 1.00 ? ? 1.00 1.00 1.00 ? 1.00 = = 1.00 1.00 1.00 1.00 ? = = 1.00 = = = = = = 1.00 = = 1.00 1.00 = 1.00 = = 1.00 1.00 1.00 = 1.00 = 1.00 = = = = = = = ? ? = = = 1.00 = = = = = = = = = = = = 1.00 = = = 1.00 ? = = = 1.00 = = = = = = = = = = = = = = = = = = = = = 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 = = = ? ? ? ? ? ? ? = = 1.00 1.00 1.00 = 1.00 ? = 1.00 = 1.00 = = = = 1.00 1.00 ? ? = = 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 1.00 = = 1.00 1.00 1.00 = = ? ? = = = = = 1.00 = 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 = = = = = = = = = = = = = = = = = = = ? = = = = = ? ? ? ? = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0.81 = = = = = = = = = = 0.81 0.81 = = = = = = ? = 0.81 = ? 0.58 0.58 = = ? = = = = = = = = = = = = = 1.00 = = = = = = = = = = = = = = ? 1.00 = 1.00 = = = = = = 1.00 = 1.00 1.00 1.00 1.00 1.00 1.00 = 1.00 1.00 1.00 1.00 1.00 1.00 ? 1.00 = = ? 1.00 1.00 1.00 1.00 1.00 1.00 1.00 1.00 1.00 ? = 1.00 = 1.00 1.00 = 1.00 = = 1.00 1.00 1.00 1.00 ? 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 = = = = = = ? 0.83 0.83 = = = = = = = = = = = = = = = = 0.84 = = = = = = = = = = = = = = = = = = = = = = = = 1.00 = 1.00 1.00 = 1.00 1.00 1.00 = 1.00 1.00 1.00 1.00 1.00 = = = = ? ? = 1.00 1.00 = = 1.00 1.00 = 1.00 ? = 1.00 = = = ? = = = ? ? ? ? ? = ? ? ? = = = = = = = 1.00 = ? = = = = = = = = ? = = = 1.00 = = = 1.00 1.00 1.00 = = = = = = ? 1.00 1.00 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 = = = = = = = = = = = = = = = = = = = = = = = ? ? ? ? = = = = = = = = 1.00 = = = = = = = = = = ? ? ? ? ? ? ? ? ? ? ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? 1.00 = = = = = = = = = = 1.00 1.00 1.00 = = = 0.99 1.00 1.00 1.00 ? 1.00 = 1.00 1.00 1.00 = 1.00 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 1.00 = ? ? ? ? ? ? ? = = = = = = 1.00 ? = = = = = = = = = = = = ? = = = = = = ? = = = ? = = = = = = = 1.00 = = = = 1.00 = = = = = = = = = = = = = = = ? ? = = = = = = = = = = = ? ? = = = = = = = = = = = = = = = = ? ? ? ? 1.00 = = 1.00 1.00 ? ? ? ? ? ? 1.00 1.00 ? = = = = = = = = = = = = 1.00 1.00 = = 1.00 1.00 1.00 = ? = 1.00 = = = = = 1.00 = 1.00 1.00 1.00 ? = = = = 1.00 1.00 = 1.00 = = ? = = = = = = = = = = = 1.00 = = = 1.00 1.00 = = = = = = 1.00 1.00 1.00 = = 1.00 ? ? ? ? 1.00 = 1.00 1.00 = 1.00 = 1.00 1.00 = 1.00 = 1.00 1.00 1.00 = 1.00 ? = ? 1.00 = 1.00 1.00 = = ? = 1.00 = = = 1.00 1.00 = 1.00 1.00 1.00 1.00 = = 1.00 1.00 = 1.00 1.00 1.00 = 1.00 = = = = = = = 1.00 1.00 = 1.00 1.00 1.00 1.00 1.00 ? = 1.00 ? ? ? ? ? ? 1.00 1.00 = = 1.00 = = ? ? ? 1.00 = = = = = 1.00 = ? = 1.00 = = = 1.00 1.00 = = 1.00 = = = = = = = = = = = = 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 = = = = 0.63 = 0.63 ? ? ? ? ? ? 1.00 = 1.00 1.00 1.00 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? ? 1.00 = = = = = = = = = = = = = = = = = = 1.00 = = = = = = = = = = = = = = = = ? ? ? = = = = = = = 0.51 ? ? 0.51 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0.51 = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0.82 = = 1.00 1.00 = 0.55 = = = = 1.00 = 0.73 0.73 = = = = = = = = = = = = = = = = 0.83 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 1.00 1.00 1.00 = ? = 1.00 = = = = = 1.00 = = 1.00 = 1.00 = 1.00 = = = = = 1.00 1.00 1.00 = = ? = 1.00 = = = = 1.00 1.00 = = = = 1.00 = 1.00 = 1.00 1.00 1.00 = = = 1.00 = = = = = = = = = = = = = = = = = ? = = = = = 1.00 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? ? 1.00 = ? ? ? ? = = = = = = = = = = = = = 1.00 = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = 1.00 = = = ? = = = = = = = = = = = = = = = = ? 1.00 = 1.00 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 = = 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 = 0.96 = = = ? = = = 1.00 = 1.00 1.00 = 1.00 = 1.00 1.00 = = = 1.00 1.00 1.00 = 1.00 = = 1.00 1.00 = 1.00 1.00 = = = = 1.00 1.00 1.00 = = 1.00 1.00 ? ? ? ? ? ? = = = = = = = = = 1.00 = = = = = = = = = = = = = = = = = = = = = = 1.00 1.00 = 1.00 = = 1.00 1.00 = 1.00 1.00 = = = 1.00 = = = = ? ? ? ? = 1.00 1.00 = = = 1.00 = = 1.00 1.00 = 1.00 1.00 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 1.00 1.00 = 1.00 = 1.00 = = = = = = = = = = = = 1.00 = = = = ? ? = = = = = = 1.00 = = = = = = = = 1.00 = = = = = = ? ? = = = ? ? ? ? = = = = = = ? = = = = = = = = = = = = = = = = = = = = = 0.53 = 0.99 0.99 = = = ? ? ? = = = = = = = = = 1.00 1.00 = = = = = ? ? = = = = = = = = = = = = = = = = = ? ? ? ? ? ? = = = = = = = = = = = = ? = = = = = = = = = 0.99 = = = = = = = = = = = ? ? = ? = ? ? ? ? = = = = ? = = = = = = = = = = = = = = 0.99 = = = = = = = = = 0.99 = = = = = = = = = = = = = = = = = 1.00 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? ? = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = = 1.00 = = = ? = = = = = = = = = = 1.00 = = 1.00 = ? 1.00 1.00 = 1.00 1.00 = = = = 1.00 1.00 = = = = = = 1.00 = = = 1.00 ? ? ? ? ? ? 1.00 = = ? ? 1.00 1.00 1.00 = = = 1.00 1.00 1.00 = 1.00 1.00 = = 1.00 1.00 1.00 = 1.00 1.00 = = = = = = 1.00 = = 1.00 1.00 = = 1.00 = 1.00 1.00 1.00 = = = = 1.00 1.00 1.00 = = 1.00 = = = 1.00 = ? ? 1.00 1.00 1.00 = = = = = = = = 1.00 = = = = = = = = = = = = = = = = 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 1.00 1.00 = = = 1.00 = = 1.00 = 1.00 = = = 1.00 1.00 1.00 1.00 1.00 = = 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 = 1.00 = = = = = = 1.00 1.00 0.99 = = = ? = = = = = = = = = = 1.00 = = = = = = = = ? ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 1.00 = 1.00 1.00 ? ? = = = = = = = = = 1.00 ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 1.00 = = = = 0.60 1.00 = = = = = = = = = 1.00 = = = = = = = = = = = = = = = = = = = 1.00 = = = = = = = = = = = = = = = ? = = = = 1.00 = = = ? ? ? ? ? ? = = = = = = = = = ? = = 1.00 = = = = = = = = = = ? = = = = = = = = = 1.00 = = = = ? = = = = = = = = = = = 1.00 = 1.00 1.00 1.00 = 1.00 = 1.00 1.00 1.00 = = = 1.00 1.00 = = = = = 1.00 = = = = = = ? ? ? = = = = = = = 1.00 = = = = = = = = = = = ? ? = = = = 1.00 = = = = = = = = = = = = = = = = = ? ? ? = = = = 1.00 = = = = = = = = = = = = 1.00 ? = = = = = = = = = = = = = = ? = = = = = = = = ? = = = = = = = = = = = = 0.73 0.62 = = = = = = = = = = = = = = = = = = = = = = = = = = 0.77 = 0.77 0.77 = = = = = ? ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? ? = = = ? = = = = = = = = = = ? ? ? = = = = = = = = = = = = ? ? ? ? = = = = = = = = = = = = = 0.88 = = = = 0.79 0.88 = = = = = = = = = = = = = = = = ? ? ? = = = = = = = = = = 1.00 = = = = = = = = = = = = = = 1.00 ? ? ? ? = 1.00 = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = 1.00 ? = = 1.00 = = = = = = 0.71 = = = = = = = = = = = = = ? = = = = = = = = = = = = = 0.59 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? ? ? = = = = = = = = = = = = = = = = = = = = 0.82 = = 1.00 = = = = = = = = = = = = = = = = = = = = 1.00 = = = = = = = 1.00 1.00 = = = = = = = = = = = = = = = = 1.00 0.76 0.54 = = = = = = = = = 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 = 1.00 = 1.00 1.00 1.00 1.00 ? ? = 1.00 1.00 1.00 1.00 1.00 1.00 = 1.00 = 1.00 = 1.00 1.00 1.00 1.00 = 1.00 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 = = = 0.56 = = = = = = = = = = = = = = = = = = = = = = = = 0.50 = = = = = = = = = = = = = = = = ? = = ? = = = = = = = = = = = = = = = = = = = = 0.52 = = = = = = = = = = = = 0.52 ? = = = = = = = = = = ? ? = ? = = = = = = = = = = = = = = = = = = = = = 0.64 0.88 = = = 1.00 1.00 = = = = = 1.00 = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? = = = = = = = = = = = = = = = = = = = = = = ? ? ? = = = = = = = = = = = = = = 1.00 1.00 1.00 1.00 ? = 1.00 = = 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 1.00 = = 1.00 1.00 ? ? ? ? ? ? 1.00 1.00 = ? ? 1.00 1.00 1.00 = 1.00 = 1.00 ? 1.00 = 1.00 1.00 = = 1.00 1.00 1.00 = 1.00 1.00 1.00 = = = = = 1.00 = 1.00 1.00 1.00 = = 1.00 = 1.00 1.00 1.00 = = = = 1.00 1.00 1.00 = = 1.00 = = = 1.00 = 1.00 1.00 1.00 = = = ? = 1.00 1.00 1.00 = = = = = = = = = ? ? ? = ? = = = = = 1.00 = = = ? ? = = = = = = = = = = = = ? 1.00 = 1.00 = = = = = = 1.00 = 1.00 1.00 1.00 1.00 1.00 1.00 = 1.00 1.00 1.00 1.00 ? ? = 1.00 = = = 1.00 1.00 1.00 1.00 = 1.00 1.00 1.00 1.00 ? = 1.00 = = 1.00 = 1.00 = = 1.00 1.00 1.00 1.00 1.00 1.00 = = 1.00 1.00 1.00 = = = ? 1.00 ? ? = = = = = = = = = = 1.00 = = = 1.00 = = = = = 1.00 = = = = = ? = = = = = = = = = = = = = 1.00 = = ? ? ? = = = = = = = = = ? 1.00 = 1.00 = = = = = = 1.00 = 1.00 1.00 1.00 1.00 ? ? = 1.00 1.00 1.00 1.00 1.00 1.00 = 1.00 = = = 1.00 1.00 1.00 1.00 = 1.00 1.00 1.00 1.00 ? ? ? = = 1.00 = 1.00 = = 1.00 1.00 1.00 1.00 1.00 1.00 = = ? 1.00 1.00 = = = = 1.00 1.00 1.00 = 1.00 1.00 1.00 = 1.00 = 1.00 = 0.91 0.84 = = = 0.83 = = = = = = 0.83 = = = = = ? ? ? ? = = = = = = 1.00 = = 1.00 = = = = = = = = = = = ? = = ? = = = = = 1.00 = = = = = = = = = = = = = = = = = = ? ? ? ? ? ? ? = = = = = = = ? = = 1.00 = = = = = = = = = = = = = = = = = = = = ? = = = = = = = 1.00 = = = = 1.00 = = = 1.00 1.00 = = = = = 1.00 = = = = = ? = = = = = = = = = = 0.81 = 0.81 0.81 = = = = = = = = = = = = = = = ? ? ? = = = = = = = = = = = = ? ? = = = = = = = = = = = = = = = = = = = = = ? = = 0.71 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0.77 0.78 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? ? ? ? ? ? ? = = = = = = = = = = = = = = = = = = = = = = = ? = = 1.00 = 1.00 1.00 1.00 = 1.00 = 1.00 = 1.00 1.00 = = 1.00 1.00 = = = = = = = = = = = ? = = = = = = = = = = 0.89 = = = = = = = = = = = = = = = = = ? 0.89 = 0.89 = = = = = = 0.89 = 0.89 0.89 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 = = = = = 0.56 0.56 = = = = = 0.56 = 1.00 = = = ? = = = 1.00 = = 1.00 = = = 1.00 = = = = = = = = = = = = = = 1.00 = 1.00 = ? ? ? ? = 1.00 = 1.00 = 1.00 = 1.00 1.00 = 1.00 1.00 1.00 = 1.00 1.00 1.00 1.00 1.00 = ? = = = ? ? ? 1.00 = = 1.00 1.00 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