************************************************************* **** **** **** Output from PHASE v2.0 **** **** Code by M Stephens, with contributions from N Li **** **** **** ************************************************************* BEGIN COMMAND_LINE /usr/local/genome/lib/phase/PHASE2 -d1 ercc1.phase.inp ercc1.phase.out END COMMAND_LINE BEGIN OUTFILE_LIST ercc1.phase.out_freqs : haplotype frequency estimates ercc1.phase.out_pairs : most likely haplotype pairs for each individual ercc1.phase.out_recom : estimates of recombination parameters ercc1.phase.out_monitor : file for monitoring convergence END OUTFILE_LIST BEGIN INPUT_SUMMARY Number of Individuals: 90 Number of Loci: 31 Positions of loci: 263 361 1204 1436 1454 2148 4703 4979 5027 5412 5569 6742 8269 8485 8801 9775 10304 10405 12478 12624 14027 14340 15078 15133 15972 15979 16329 16556 16659 16722 17063 END INPUT_SUMMARY List of haplotypes found in best reconstruction, with counts. (See file ercc1.phase.out_freqs for haplotype population frequency estimates) BEGIN LIST_SUMMARY 1 ATTGTGGCCCACACTTTGAAADGIGGGITCG 1.000000 2 ATTGTGGCCCAAGCCCCAAAAIAIAGGICTT 1.000000 3 ATTGTGGCCCAAGCTTCGAAADAIAGGICTT 1.000000 4 ATTGTGGCCCAAACTTTGAAADGIAGGITCG 1.000000 5 ATTGTGGCCCAAACTTTGAAADGIGGGITCG 2.000000 6 ATTGTGGCTCAAACTTTGAAADGIAGGITCG 1.000000 7 ATTGTGGCTCAAACTTTGAAADGIGGGITCG 7.000000 8 ATTGTGCGCCAAACCTTGAAADGIGGGITCG 2.000000 9 ATTGTGCGCTACGCCCCAAAAIAIAGGICTT 59.000000 10 ATTGTGCGCTACGCCCTAAAAIAIAGGICTT 1.000000 11 ATTGTGCGCTACGCTCCAAAAIAIAGGICTT 1.000000 12 ATTGTGCGCTACGTCCCGGCGDADGGTICTT 1.000000 13 ATTGTGCGCTACACTTTGAAADGIGGGITCG 1.000000 14 ATTGTGCGCTAAGCCCCAAAADGIGGGITCG 1.000000 15 ATTGTGCCCTACGCCTTGAAAIAIAGGICTT 1.000000 16 ATTGTTGCCCACACTTTGAAADGIGGGITCG 1.000000 17 ATTGTTGCCCAAGTCCCGGCGDADGGTICTT 1.000000 18 ATTGTTGCCCAAACTTTGAAADAIGGGITCG 1.000000 19 ATTGTTGCCCAAACTTTGAAADGIGGGICTT 2.000000 20 ATTGTTGCCCAAACTTTGAAADGIGGGITCG 25.000000 21 ATTGTTGCCCGCGCCCCGGCGDAIGCTICTT 1.000000 22 ATTGTTGCCCGCGCCCCGGCGDAIGCTDCTT 3.000000 23 ATTGTTGCTCAAACTTTGAAADGIGGGITCG 2.000000 24 ACTGTGGCCCGCGCCCCGGCGDAIGCTDCTT 1.000000 25 ACTGTGGCCCGCGCCCCGGCGDADGGTICTT 3.000000 26 ACTGTGGCCCGCGTCCCGGCGDADGGTICTT 12.000000 27 ACTGTGGCCCGCGTTCCGGCGDADGGTICTT 1.000000 28 ACTGTGGCCCGCGTTCTGGCGDADGGTICTT 1.000000 29 ACTGCGGCCCGCGCCCCAAAAIAIAGGICTT 1.000000 30 ACTGCGGCCCGCGCCCCGGCGDAIGCTICTT 1.000000 31 ACTGCGGCCCGCGCCCCGGCGDAIGCTDCTG 1.000000 32 ACTGCGGCCCGCGCCCCGGCGDAIGCTDCTT 17.000000 33 ACTGCGGCCCGCGCTCCGGCGDAIGCTDCTT 2.000000 34 ACTGCGGCCCGCGTCCCGGCGDADGGTICTT 7.000000 35 ACTGCGGCCCGCGTTCCGGCGDADGGTICTT 1.000000 36 ACTGCGGCCCGCACTTTGAAADGIGGGITCG 2.000000 37 ACTGCGGCCCGAACTTTGAAADGIGGGITCG 1.000000 38 ACTGCGCGCTACGCCCCAAAAIAIAGGICTT 2.000000 39 GTATTGGCCCACGCCCCAAAAIAIAGGICTT 3.000000 40 GTATTGGCCCACGCTCCAAAAIAIAGGICTT 1.000000 41 GTATTGGCCCACGCTCCAAAADAIAGGICTT 1.000000 42 GTATTGGCCCACGCTCCGAAADADGGGICCG 1.000000 43 GTATTGGCCCACGCTTCGAAADAIGGGITCG 2.000000 44 GTATTGGCCCAAGCTTCGAAADAIAGGICTT 2.000000 END LIST_SUMMARY Summary of best reconstruction (numbers refer to the list of haplotypes given above) BEGIN BESTPAIRS_SUMMARY P001: (8,9) P002: (9,34) P003: (36,44) P004: (1,32) P005: (9,9) P006: (9,20) P007: (9,32) P008: (9,34) P009: (11,20) P010: (8,33) P011: (20,41) P012: (9,13) P013: (7,35) P014: (20,27) P015: (9,16) P016: (9,23) P017: (26,32) P018: (20,28) P019: (7,34) P020: (36,40) P021: (20,33) P022: (7,34) P023: (9,9) P024: (9,18) P025: (17,32) P026: (9,20) P027: (9,26) P028: (4,32) P029: (2,42) P030: (19,31) P031: (7,9) P032: (26,32) P033: (9,9) P034: (9,29) P035: (9,32) P036: (20,23) P037: (9,14) P038: (9,44) P039: (22,26) P040: (9,26) P041: (9,24) P042: (19,39) P043: (9,9) P044: (15,20) P045: (10,20) P046: (5,20) P047: (9,26) P048: (9,20) P049: (12,20) P050: (9,9) P051: (9,9) P052: (7,32) P053: (9,9) P054: (7,9) P055: (9,32) P056: (20,32) P057: (3,9) P058: (9,20) P059: (20,26) P060: (9,22) P061: (20,43) P062: (9,32) P063: (9,9) P064: (39,43) P065: (9,20) P066: (20,26) P067: (7,9) P068: (9,20) P069: (6,26) P070: (9,34) P071: (26,26) P072: (20,32) P073: (9,20) P074: (9,20) P075: (9,20) P076: (9,34) P077: (9,32) P078: (9,32) P079: (5,26) P080: (25,25) P081: (9,22) P082: (9,32) P083: (21,30) P084: (9,32) P085: (9,38) P086: (9,32) P087: (20,25) P088: (9,39) P089: (37,38) P090: (9,34) END BESTPAIRS_SUMMARY Haplotype estimates for each individual, with uncertain phases enclosed in () and uncertain genotypes enclosed in []: BEGIN BESTPAIRS1 0 P001 A T T G T G C G C C A A A C C T T G A A A D G I G G G I T C G A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T 0 P002 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A C T G C G G C C C G C G T C C C G G C G D A D G G T I C T T 0 P003 A C T G C G G C C C G [C] A C T T T G A A A D G I G G G I T C G G T A T T G G C C C A [A] G C T T C G A A A D A I A G G I C T T 0 P004 A T T G T G G C C C A C A C T T T G A A A D G I G G G I T C G A C T G C G G C C C G C G C C C C G G C G D A I G C T D C T T 0 P005 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T 0 P006 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A T T G T T G C C C A A A C T T T G A A A D G I G G G I T C G 0 P007 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A C T G C G G C C C G C G C C C C G G C G D A I G C T D C T T 0 P008 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A C T G C G G C C C G C G T C C C G G C G D A D G G T I C T T 0 P009 A T T G T G C G C T A C G C T C C A A A A I A I A G G I C T T A T T G T T G C C C A A A C T T T G A A A D G I G G G I T C G 0 P010 A T T G T G C G C C A A A C (C) T T G A A A D G I G G G I T C G A C T G C G G C C C G C G C (T) C C G G C G D A I G C T D C T T 0 P011 A T T G T T G C C C A (A) A C T T T G A A A D G I G G G I T C G G T A T T G G C C C A (C) G C T C C [A] A A A D A I A G G I C T T 0 P012 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A T T G T G C G C T A C A C T T T G A A A D G I G G G I T C G 0 P013 A T T G T G G C T C A A A C T T T G A A A D G I G G G I T C G A C T G C G G C C C G C G T T C C G G C G D A D G G T I C T T 0 P014 A T T G T T G C C C A A A C T T T G A A A D G I G G G I T C G A C T G T G G C C C G C G T T C C G G C G D A D G G T I C T T 0 P015 A T T G T (G) C G C T A C G C C C C A A A A I A I A G G I C T T A T T G T (T) G C C C A C A C T T T G A A A D [G] I G G G I T C G 0 P016 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A T T G T T G C T C A A A C T T T G A A A D G I G G G I T C G 0 P017 A C T G T G G C C C G C G T C C C G G C G D A D G G T I C T T A C T G C G G C C C G C G C C C C G G C G D A I G C T D C T T 0 P018 A T T G T T G C C C A A A C T T T G A A A D G I G G G I T C G A C T G T G G C C C G C G T T C T G G C G D A D G G T I C T T 0 P019 A T T G T G G C T C A A A C T T T G A A A D G I G G G I T C G A C T G C G G C C C G C G T C C C G G C G D A D G G T I C T T 0 P020 (A) (C) (T) (G) (C) G G C C C (G) C A C T T T G A A A D G I G G G I T C G (G) (T) (A) (T) (T) G G C C C (A) C G C T C C A A A A I A I A G G I C T T 0 P021 A T T G T T G C C C A A A C T T T G A A A D G I G G G I T C G A C T G C G G C C C G C G C T C C G G C G D A I G C T D C T T 0 P022 A T T G T G G C T C A A A C T T T G A A A D G I G G G I T C G A C T G C G G C C C G C G T C C C G G C G D A D G G T I C T T 0 P023 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T 0 P024 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A T T G T [T] G C C C A [A] A C T T T G A A A D A I G G G I T C G 0 P025 A T T G T T G C C C A A G (T) C C C G G C G D A (D) G (G) T (I) C T T A C T G C G G C C C G C G (C) C C C G G C G D A (I) G (C) T (D) C T T 0 P026 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A T T G T T G C C C A A A C T T T G A A A D G I G G G I T C G 0 P027 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A C T G T G G C C C G C G T C C C G G C G D A D G G T I C T T 0 P028 A T T G T G G C C C A A A C T T T G A A A D G I A G G I T C G A C T G C G G C C C G C G C C C C G G C G D A I G C T D C T T 0 P029 (A) T (T) (G) T G G C C C A (A) G C C C C A A A A I A (I) A G G I C T T (G) T (A) (T) T G G C C C A (C) G C T C C G A A A D [A] (D) G G G I C C G 0 P030 A T T G T T G C C C A A A C T T T G A A A D G I G G G I C T T A C T G C G G C C C G C G C C C C G G C G D A I G C [T] [D] [C] [T] G 0 P031 A T T G T G G C [T] C A A A C T T T G A A A D G I G G G I T C G A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T 0 P032 A C T G T G G C C C G C G T C C C G G C G D A D G G T I C T T A C T G C G G C C C G C G C C C C G G C G D A I G C T D C T T 0 P033 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T 0 P034 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A C T G C G G C C C G C G C C C C A A A A I A I A G G I C T T 0 P035 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A C T G C G G C C C G C G C C C C G G C G D A I G C T D C T T 0 P036 A T T G T T G C C C A A A C T T T G A A A D G I G G G I T C G A T T G T T G C T C A A A C T T T G A A A D G I G G G I T C G 0 P037 A T T G T G C G C T A (C) G C C C C A A A A I A I A G G I C T T A T T G T G C G C T A (A) G C C C C A A A A D G I G G G I T C G 0 P038 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T G T A T T G G C C C A A G C T [T] C G A A A D A I A G G I C T T 0 P039 A T T G T T G C C C G C G C C C C G G C G D A I G C T D C T T A C T G T G G C C C G C G T C C C G G C G D A D G G T I C T T 0 P040 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A C T G T G G C C C G C G T C C C G G C G D A D G G T I C T T 0 P041 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A C T G T G G C C C G C G C C C C G G C G D A I G C T D C T T 0 P042 A T T G T T G C C C A A A C T T T G A A A D G I G G G I C T T G T A T T G G C C C A C G C C C C A A A A I A I A G G I C T T 0 P043 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T 0 P044 A T T G T (G) (C) C C (T) A (C) (G) C (C) T T G A A A I A I A G G I C T T A T T G T (T) (G) C C (C) A (A) (A) C (T) T T G A A A D G I G G G I T C G 0 P045 A T T G T G C G C T A C G C C C T A A A A I A I A G G I C T T A T T G T T G C C C A A A C T T T G A A A D G I G G G I T C G 0 P046 A T T G T G G C C C A A A C T T T G A A A D G I G G G I T C G A T T G T T G C C C A A A C T T T G A A A D G I G G G I T C G 0 P047 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A C T G T G G C C C G C G T C C C G G C G D A D G G T I C T T 0 P048 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A T T G T [T] G C C C A A A C T T T G A A A D G I G G G I T C G 0 P049 A T T G T (G) (C) (G) C (T) A (C) G T C C C G G C G D A D G G T I C T T A T T G T (T) (G) (C) C (C) A (A) A C T T T G A A A D G I G G G I T C G 0 P050 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T 0 P051 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T 0 P052 A T T G T G G C T C A A A C T T T G A A A D G I G G G I T C G A C T G C G G C C C G C G C C C C G G C G D A I G C T D C T T 0 P053 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T 0 P054 A T T G T G G C T C A A A C T T T G A A A D G I G G G I T C G A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T 0 P055 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A C T G C G G C C C G C G C C C C G G C G D A I G C T D C T T 0 P056 A T T G T T G C C C A A A C T T T G A A A D G I G G G I T C G A C T G C G G C C C G C G C C C C G G C G D A I G C T D C T T 0 P057 A T T G T G G C C C A [A] G C T T C G A A A D A I A G G I C T T A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T 0 P058 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A T T G T T G C C C A A A C T T T G A A A D G I G G G I T C G 0 P059 A T T G T T G C C C A A A C T T T G A A A D G I G G G I T C G A C T G T G G C C C G C G T C C C G G C G D A D G G T I C T T 0 P060 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A T T G T T G C C C G C G C C C C G G C G D A I G C T [D] C T T 0 P061 A T T G T T G C C C A A A C T T T G A A A D G I G G G I T C G G T A T T G G C C C A C G C T T C G A A A D A I G G G I T C G 0 P062 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A C T G C G G C C C G C G C C C C G G C G D A I G C T D C T T 0 P063 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T 0 P064 G T A T T G G C C C A C G C C C C A A A A I A I A G G I C T T G T A T T G G C C C A C G C T T C G A A A D A I G G G I T C G 0 P065 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A T T G T T G C C C A A A C T T T G A A A D G I G G G I T C G 0 P066 A T T G T T G C C C A A A C T T T G A A A D G I G G G I T C G A C T G T G G C C C G C G T C C C G G C G D A D G G T I C T T 0 P067 A T T G T G G C T C A A A C T T T G A A A D G I G G G I T C G A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T 0 P068 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A T T G T T G C C C A A A C T T T G A A A D G I G G G I T C G 0 P069 A T T G T G G C T C A A A C T T T G A A A D G I A G G I T C G A C T G T G G C C C G C G T C C C G G C G D A D G G T I C T T 0 P070 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A C T G C G G C C C G C G T C C C G G C G D A D G G T I C T T 0 P071 A C T G T G G C C C G C G T C C C G G C G D A D G G T I C T T A C T G T G G C C C G C G T C C C G G C G D A D G G T I C T T 0 P072 A T T G T [T] G C C C A A A C T T T G A A A D G I G G G I T C G A C T G C G G C C C G C G C C C C G G C G D A I G C T D C T T 0 P073 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A T T G T T G C C C A A A C T T T G A A A D G I G G G I T C G 0 P074 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A T T G T T G C C C A A A C T T T G A A A D G I G G G I T C G 0 P075 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A T T G T T G C C C A A A C T T T G A A A D G I G G G I T C G 0 P076 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A C T G C G G C C C G C G T C C C G G C G D A D G G T I C T T 0 P077 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A C T G C G G C C C G C G C C C C G G C G D A I G C T D C T T 0 P078 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A C T G C G G C C C G C G C C C C G G C G D A I G C T D C T T 0 P079 A T T G T G G C C C A A A C T T T G A A A D G I G G G I T C G A C T G T G G C C C G C G T C C C G G C G D A D G G T I C T T 0 P080 A C T G T G G C C C G C G C C C C G G C G D A D G G T I C T T A C T G T G G C C C G C G C C C C G G C G D A D G G T I C T T 0 P081 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A T T G T T G C C C G C G C C C C G G C G D A I G C T D C T T 0 P082 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A C T G C G G C C C G C G C C C C G G C G D A I G C T D C T T 0 P083 A T T G T T G C C C G C G C C C C G G C G D A I G C T I C T T A C T G C G G C C C G C G C C C C G G C G D A I G C T I C T T 0 P084 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A C T G C G G C C C G C G C C C C G G C G D A I G C T D C T T 0 P085 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A C T G C G C G C T A C G C C C C A A A A I A I A G G I C T T 0 P086 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A C T G C G G C C C G C G C C C C G G C G D A I G C T D C T T 0 P087 A T T G T T G C C C A A A C T T T G A A A D G I G G G I T C G A C T G T G G C C C G C G C C C C G G C G D A D G G T I C T T 0 P088 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T G T A T T G G C C C A C G C C C C A A A A I A I A G G I C T T 0 P089 A C T G C G G C C C G A A C T T T G A A A D G I G G G I T C G A C T G C G C G C T A C G C C C C A A A A I A I A G G I C T T 0 P090 A T T G T G C G C T A C G C C C C A A A A I A I A G G I C T T A C T G C G G C C C G C G T C C C G G C G D A D G G T I C T T END BESTPAIRS1 Haplotype estimates for each individual, with uncertain phases enclosed in () and uncertain genotypes enclosed in [] with phase known positions indicated by = BEGIN BESTPAIRS2 0 P001 = = = = = = ? = = C = ? ? = = T ? G = = = D ? = G = = = ? ? G = = = = = = ? = = T = ? ? = = C ? A = = = I ? = A = = = ? ? T 0 P002 = T = = T ? ? G = T A = = C = ? = A ? ? A I ? I A = G = = = = = C = = C ? ? C = C G = = T = ? = G ? ? G D ? D G = T = = = = 0 P003 A C T G C ? ? = = = ? ? ? = ? = ? ? = = = = G = ? ? ? = T C G G T A T T ? ? = = = ? ? ? = ? = ? ? = = = = A = ? ? ? = C T T 0 P004 = T = = T = = = = = A = A = ? T ? ? A A A = G = = G ? I ? ? G = C = = C = = = = = G = G = ? C ? ? G C G = A = = C ? D ? ? T 0 P005 = = ? ? ? = = ? ? = = = = = = = = = = = = ? = = = = = = = = ? = = ? ? ? = = ? ? = = = = = = = = = = = = ? = = = = = = = = ? 0 P006 = = = = = G C G = T = ? G = ? C C A = ? = I A = ? ? = = C T T = = = = = T G C = C = ? A = ? T T G = ? = D G = ? ? = = T C G 0 P007 = T = = T ? C G = T A = = = = = = A A A ? ? = = A G G I ? ? = = C = = C ? G C = C G = = = = = = G G C ? ? = = G C T D ? ? = 0 P008 = T = = T = C G = T A = = C = = ? ? A A A ? ? I A = G = = = = = C = = C = G C = C G = = T = = ? ? G C G ? ? D G = T = = = = 0 P009 = = ? = = G C G = ? = C ? = = C ? ? = ? = I A = A = = = C T T = = ? = = T G C = ? = A ? = = T ? ? = ? = D G = G = = = T C G 0 P010 = T = = T = C G = = A A A = (C) T ? ? A A A = G = = G ? I ? ? G = C = = C = G C = = G C G = (T) C ? ? G C G = A = = C ? D ? ? T 0 P011 A = T G = T = = = = = (A) A = = T ? ? = = = = G = G = ? = T ? G G = A T = G = = = = = (C) G = = C ? ? = = = = A = A = ? = C ? T 0 P012 = = = = = = = = = = = = G = C C C ? = = = I A = A = = = C T T = = = = = = = = = = = = A = T T T ? = = = D G = G = = = T C G 0 P013 = T ? = T = = = T = A A A C = T T = A ? A = ? I = = G = T C G = C ? = C = = = C = G C G T = C C = G ? G = ? D = = T = C T T 0 P014 = T ? = = T = ? ? = A A A C = T T = A A A = ? I = = ? = T C G = C ? = = G = ? ? = G C G T = C C = G C G = ? D = = ? = C T T 0 P015 = ? = = = (G) C G = T = = G = C C ? ? = = ? I ? = A = = = C T T = ? = = = (T) G C = C = = A = T T ? ? = = ? D ? = G = = = T C G 0 P016 = = = = = G C G C T = C G = C C ? ? = = ? I A = A = = = C T T = = = = = T G C T C = A A = T T ? ? = = ? D G = G = = = T C G 0 P017 = = = = T = = = = = ? = = T ? = = = = = = = ? D = G ? I ? ? = = = = = C = = = = = ? = = C ? = = = = = = = ? I = C ? D ? ? = 0 P018 = T = = = T = = = = A A A C = T = = A A A = ? I = = G = T C G = C = = = G = = = = G C G T = C = = G C G = ? D = = T = C T T 0 P019 = T = = T = = = T = ? A A C T T T = A A A = ? I = = G = T C G = C = = C = = = C = ? C G T C C C = G C G = ? D = = T = C T T 0 P020 (A) (C) (T) (G) (C) = = = = = (G) = A = = T T G = = = D G = G = = = T C G (G) (T) (A) (T) (T) = = = = = (A) = G = = C C A = = = I A = A = = = C T T 0 P021 = T = = T T = = = = ? A A = = T ? = A A ? = G = = G G I ? ? G = C = = C G = = = = ? C G = = C ? = G C ? = A = = C T D ? ? T 0 P022 = T = = T = = = T = A ? A C T T T = A A A = ? I = = G ? T C G = C = = C = = = C = G ? G T C C C = G C G = ? D = = T ? C T T 0 P023 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 P024 = = = = = ? C G = T = ? G = C C ? ? = = = ? = = A = = = C T T = = = = = ? G C = C = ? A = T T ? ? = = = ? = = G = = = T C G 0 P025 = T = = T T = = = = A A = (T) = ? = = = = = = ? (D) = (G) = (I) ? ? = = C = = C G = = = = G C = (C) = ? = = = = = = ? (I) = (C) = (D) ? ? = 0 P026 = = = = = G C G = T = C G = C C C A = ? = I ? = A = = = C T T = = = = = T G C = C = A A = T T T G = ? = D ? = G = = = T C G 0 P027 = T = = = = ? ? ? T A = = C = = = A A A A ? ? I A = G = = = = = C = = = = ? ? ? C G = = T = = = G G C G ? ? D G = T = = = = 0 P028 = T = = T = = = = = A A A = T T T = A A ? = ? = A G G I ? ? G = C = = C = = = = = G C G = C C C = G C ? = ? = G C T D ? ? T 0 P029 (A) = (T) (G) = = = = = = = (A) = = C = = A = = = I ? (I) A = = = = T T (G) = (A) (T) = = = = = = = (C) = = T = = G = = = D ? (D) G = = = = C G 0 P030 = T = = T T = = = = A A A = T T T = A A A = ? = = G ? ? ? ? T = C = = C G = = = = G C G = C C C = G C G = ? = = C ? ? ? ? G 0 P031 = = = = = = ? ? ? C = A A = T T T G = = = D G = G = = = T C G = = = = = = ? ? ? T = C G = C C C A = = = I A = A = = = C T T 0 P032 = = = = T = = = = = = = = T = = = = = = = ? ? D = G = I ? ? = = = = = C = = = = = = = = C = = = = = = = ? ? I = C = D ? ? = 0 P033 = = = = = = = = = = = = = = = = = = = = = = ? = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = ? = = = = 0 P034 = T = = T = ? G = T A = = = = = = = = = = = = = = = = = = = = = C = = C = ? C = C G = = = = = = = = = = = = = = = = = = = = 0 P035 ? ? = = T = C G = T A = = = = = = A A A A I ? = A G ? ? ? ? = ? ? = = C = G C = C G = = = = = = G G C G D ? = G C ? ? ? ? = 0 P036 = = = = = = ? = C = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = T = = = = = = = = = = = = = = = = = = = = = = 0 P037 = = = = = = = = = = = (C) = = = = = = = = = I ? = A = = = C T T = = = = = = = = = = = (A) = = = = = = = = = D ? = G = = = T C G 0 P038 A = T G = = C G = T = C = = C ? ? A = = = I = = = = ? ? = = = G = A T = = G C = C = A = = T ? ? G = = = D = = = = ? ? = = = 0 P039 = T = = = T = = = = = = = C = = = = = = = = ? I = C = D ? ? = = C = = = G = = = = = = = T = = = = = = = = ? D = G = I ? ? = 0 P040 = T = = = = ? ? ? T A = = C = = = A A A A ? ? I A = G = = = = = C = = = = ? ? ? C G = = T = = = G G C G ? ? D G = T = = = = 0 P041 = T = = = = C G = T A = = = = = = A A A A I ? = A G ? I ? ? = = C = = = = G C = C G = = = = = = G G C G D ? = G C ? D ? ? = 0 P042 A = T G = T = = = = = A A = T T T G = = ? D ? = G = = = = = = G = A T = G = = = = = C G = C C C A = = ? I ? = A = = = = = = 0 P043 = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = 0 P044 = = = = = (G) (C) = = (T) = (C) (G) = (C) = = = = = = I A = A = = = C T T = = = = = (T) (G) = = (C) = (A) (A) = (T) = = = = = = D G = G = = = T C G 0 P045 = = = = = G C G = T = C G = C C = A = = ? I ? = A = = = C T T = = = = = T G C = C = A A = T T = G = = ? D ? = G = = = T C G 0 P046 = = = = = G = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = T = = = = = = = = = = ? = = = = = = = = = = = = = = 0 P047 = T = = = = C G = T A = = C = = = A A A ? I ? I A = G = = = = = C = = = = G C = C G = = T = = = G G C ? D ? D G = T = = = = 0 P048 ? ? = = = ? C G = T = ? G = C C ? ? = = = I A = A = = = C T T ? ? = = = ? G C = C = ? A = T T ? ? = = = D G = G = = = T C G 0 P049 ? ? = = = (G) (C) (G) = (T) = (C) G T C C C = G C ? = ? D = = T = C T T ? ? = = = (T) (G) (C) = (C) = (A) A C T T T = A A ? = ? I = = G = T C G 0 P050 = = = = = = = ? ? = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = ? ? = = = = = = = = = = = = = ? = = = = = = = = 0 P051 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 P052 = T = = T = = = T = A A A = T T T = A A A = ? = = G G I ? ? G = C = = C = = = C = G C G = C C C = G C G = ? = = C T D ? ? T 0 P053 = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = 0 P054 = = = = = = G C T C = A A = T T T G = = = D G = G = = = T C G = = = = = = C G C T = C G = C C C A = = = I A = A = = = C T T 0 P055 = T = = T ? C G = T A = = = = = = A A A A I = = A G G I ? ? = = C = = C ? G C = C G = = = = = = G G C G D = = G C T D ? ? = 0 P056 = T = = T T ? ? ? = A A A = T T T = A A A = G = = G ? I ? ? G = C = = C G ? ? ? = G C G = C C C = G C G = A = = C ? D ? ? T 0 P057 = = = = = = G C = C = ? = = T T = G = = = D = = = = = = = = ? = = = = = = C G = T = ? = = C C = A = = = I = = = = = = = = ? 0 P058 = = = = = G C ? ? T = C G = C C C A = = = I A = A = = = C T T = = = = = T G ? ? C = A A = T T T G = = = D G = G = = = T C G 0 P059 = T = = = T = = = = ? A A C T T T = A A A = ? I = = ? = T C G = C = = = G = = = = ? C G T C C C = G C G = ? D = = ? = C T T 0 P060 = = = = = G C G = T A = = = = = = A A A A I ? = A G ? ? ? ? = = = = = = T G C = C G = = = = = = G G C G D ? = G C ? ? ? ? = 0 P061 ? ? T G = T = = = = = A A = = = T = = = = = ? = = = = = = = = ? ? A T = G = = = = = C G = = = C = = = = = ? = = = = = = = = 0 P062 = T = = T = C G = T A = = = = = = A A A A I = = A G G I ? ? = = C = = C = G C = C G = = = = = = G G C G D = = G C T D ? ? = 0 P063 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 P064 = = = = = = = = = = = = = = C C ? A = = = I = = A = = = C T T = = = = = = = = = = = = = = T T ? G = = = D = = G = = = T C G 0 P065 = = = = = G C G = T = C G = C C ? A = = = I ? = A = = = C T T = = = = = T G C = C = A A = T T ? G = = = D ? = G = = = T C G 0 P066 = T = = = T = = = = A A A C T T T = A A A = ? I = = G = T C G = C = = = G = = = = G C G T C C C = G C G = ? D = = T = C T T 0 P067 = = = = = = G C T C = A ? = T T T G = = = D ? = G = = = T C G = = = = = = C G C T = C ? = C C C A = = = I ? = A = = = C T T 0 P068 = = = = = G C G = T = C G = C C C A = = = I A = A = ? ? C T T = = = = = T G C = C = A A = T T T G = = = D G = G = ? ? T C G 0 P069 = T = = = = = = T = A A A C T T T = A A A = ? I A = G = T C G = C = = = = = = C = G C G T C C C = G C G = ? D G = T = C T T 0 P070 = T = = T = ? ? ? T A = = C = = = A A A A I ? I A = G = = = = = C = = C = ? ? ? C G = = T = = = G G C G D ? D G = T = = = = 0 P071 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 0 P072 = T = = T ? = = = = A ? A = T T T = A A A = G = = G G ? ? ? G = C = = C ? = = = = G ? G = C C C = G C G = A = = C T ? ? ? T 0 P073 ? ? = = = G C G = T = C ? = C C C A = = = I A = A = = = C T T ? ? = = = T G C = C = A ? = T T T G = = = D G = G = = = T C G 0 P074 = = = = = G C ? ? T = C G = ? C ? ? = = = I A = A = = = C T T = = = = = T G ? ? C = A A = ? T ? ? = = = D G = G = = = T C G 0 P075 = = = = = G C G = T = C ? = ? C ? ? = = ? I ? = A = = = C T T = = = = = T G C = C = A ? = ? T ? ? = = ? D ? = G = = = T C G 0 P076 = T = = T = ? ? = T A = = C = = ? ? A A A I ? I A = G = = = = = C = = C = ? ? = C G = = T = = ? ? G C G D ? D G = T = = = = 0 P077 = T = = T = C G = T A = = = = = = A A A A I = = A G G I ? ? = = C = = C = G C = C G = = = = = = G G C G D = = G C T D ? ? = 0 P078 = T ? = T = C ? = ? A = = = = = ? ? ? ? A I = = A G G I ? ? ? = C ? = C = G ? = ? G = = = = = ? ? ? ? G D = = G C T D ? ? ? 0 P079 = T = = = = = = = = A A A C T T T = A A A = ? I = = G = T C G = C = = = = = = = = G C G T C C C = G C G = ? D = = T = C T T 0 P080 = = = = = = = = = = = = = = = = = = = = = ? ? = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = ? ? = = = = ? = = = 0 P081 = = = = = G C G = T A = = = = = = A A A A I = = A G G I ? ? = = = = = = T G C = C G = = = = = = G G C G D = = G C T D ? ? = 0 P082 = T = = T = C ? ? ? A = = = = = ? ? A A A I = = A G G I ? ? = = C = = C = G ? ? ? G = = = = = ? ? G C G D = = G C T D ? ? = 0 P083 = T = = T T = = = = = = = = = = ? ? = = ? = = = = = = = = = = = C = = C G = = = = = = = = = = ? ? = = ? = = = = = = = = = = 0 P084 = T = = T = C ? ? ? A = = = = = ? ? A A A I = = A G ? ? ? ? = = C = = C = G ? ? ? G = = = = = ? ? G C G D = = G C ? ? ? ? = 0 P085 = T = = T = = = = ? = = = = = = = = = = ? = ? = = = = = = = = = C = = C = = = = ? = = = = = = = = = = ? = ? = = = = = = = = 0 P086 = T ? = T = C ? ? ? A = = = = = = A ? ? A I = = A G G I ? ? ? = C ? = C = G ? ? ? G = = = = = = G ? ? G D = = G C T D ? ? ? 0 P087 = T = = = T = = = = A A A = T T T = A A A = ? I = = G = T C G = C = = = G = = = = G C G = C C C = G C G = ? D = = T = C T T 0 P088 A = T G = = C G = T = = = = = = ? ? = = = = = = = = = = = = = G = A T = = G C = C = = = = = = ? ? = = = = = = = = = = = = = 0 P089 = = = = = = G C = C G A A = T T ? ? = = = D ? = G = = = T C G = = = = = = C G = T A C G = C C ? ? = = = I ? = A = = = C T T 0 P090 = T = = T = C ? ? ? A = = C = = ? ? ? ? A I ? ? A = ? = = = = = C = = C = G ? ? ? G = = T = = ? ? ? ? G D ? ? 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 = 0.99 = = 0.99 ? ? 1.00 = 1.00 1.00 = = 1.00 = ? = 1.00 ? ? 1.00 1.00 ? 1.00 1.00 = 1.00 = = = = 1.00 1.00 1.00 1.00 1.00 ? ? = = = ? ? ? = ? = ? ? = = = = 1.00 = ? ? ? = 1.00 1.00 1.00 = 1.00 = = 1.00 = = = = = 1.00 = 1.00 = ? 1.00 ? ? 1.00 1.00 1.00 = 1.00 = = 1.00 ? 1.00 ? ? 1.00 = = ? ? ? = = ? ? = = = = = = = = = = = = ? = = = = = = = = ? = = = = = 1.00 1.00 1.00 = 1.00 = ? 1.00 = ? 1.00 1.00 1.00 = ? = 1.00 1.00 = ? ? = = 1.00 1.00 1.00 = 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 ? ? = = 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 = = = = = = ? = = 0.98 0.99 0.99 = ? = 0.99 ? = = 1.00 ? ? = ? = 1.00 1.00 = 1.00 = = = 1.00 1.00 1.00 = 0.99 = = 0.99 = 0.99 0.99 = = 1.00 1.00 1.00 = 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 = = = = = 0.75 1.00 = = 0.97 ? ? = = = = 1.00 = 1.00 = ? = 1.00 ? 1.00 = = = = = = = = = = = = 1.00 = 1.00 1.00 1.00 ? = = = 1.00 1.00 = 1.00 = = = 1.00 1.00 1.00 = 0.99 ? = 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 0.95 = 1.00 1.00 1.00 = ? 1.00 = = ? = 1.00 1.00 1.00 = ? = = = 0.86 0.97 0.97 = 0.97 = = 1.00 = 1.00 1.00 ? ? = = ? 1.00 ? = 1.00 = = = 1.00 1.00 1.00 = = = = = 0.95 1.00 1.00 0.98 1.00 = 1.00 1.00 = 1.00 1.00 ? ? = = ? 1.00 1.00 = 1.00 = = = 1.00 1.00 1.00 = = = = 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 = = 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 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 = = 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 = 0.74 = ? = = = = = = ? 0.74 = 0.74 = 0.74 ? ? = = = = = = 1.00 1.00 1.00 = 1.00 = 1.00 1.00 = 1.00 1.00 1.00 1.00 = ? = 1.00 ? = 1.00 = = = 1.00 1.00 1.00 = 1.00 = = = = ? ? ? 1.00 1.00 = = 1.00 = = = 1.00 1.00 1.00 1.00 ? ? 1.00 1.00 = 1.00 = = = = = 1.00 = = 1.00 = = = = = 1.00 1.00 1.00 = 1.00 1.00 1.00 = 1.00 1.00 ? = ? = 1.00 1.00 1.00 1.00 ? ? 1.00 0.69 = 0.69 0.69 = = = = = = = 0.57 = = 0.92 = = 0.97 = = = 0.97 ? 0.80 0.97 = = = = 0.97 0.97 = 1.00 = = 1.00 1.00 = = = = 1.00 1.00 1.00 = 1.00 1.00 1.00 = 1.00 1.00 1.00 = ? = = 1.00 ? ? ? ? 1.00 = = = = = = ? ? ? 1.00 = 1.00 1.00 = 1.00 1.00 1.00 1.00 = = = 1.00 1.00 = 1.00 = = = 1.00 1.00 1.00 = = = = 0.95 = = = = = = = = 1.00 = = = = = = = ? ? 1.00 = 1.00 = 1.00 ? ? = = = = = = = = = = = = = = = = = = = = = = = ? = = = ? = = = = = 1.00 = = 1.00 = ? 1.00 = 1.00 1.00 = = = = = = = = = = = = = = = = = = = = ? ? = = 1.00 = 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 = = = = = = = = = 1.00 ? = 1.00 = = = 1.00 1.00 1.00 0.99 = 0.99 0.99 = = 1.00 1.00 = 1.00 = 1.00 = = 1.00 ? ? 1.00 = = = 1.00 = = = = ? ? = = = = 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 = = = = = 0.99 = = = = 1.00 1.00 = 1.00 1.00 = = = = = = 1.00 1.00 1.00 1.00 1.00 ? = 1.00 1.00 ? 1.00 ? ? = 1.00 = 1.00 1.00 = 1.00 = = = = = 1.00 1.00 = 1.00 1.00 1.00 1.00 = = ? 1.00 ? = 1.00 = = = = = = = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = 0.51 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 = 1.00 = = = = ? ? = = = ? 1.00 1.00 = 1.00 = ? 1.00 = 1.00 1.00 ? ? = = = 1.00 1.00 = 1.00 = = = 1.00 1.00 1.00 ? ? = = = 0.81 0.81 0.81 = 0.81 = 0.81 1.00 1.00 1.00 1.00 1.00 = 1.00 1.00 ? = ? 1.00 = = 1.00 = 1.00 1.00 1.00 = = = = = = = ? ? = = = = = = = = = = = = = ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 1.00 = = 1.00 = = = 1.00 = 1.00 1.00 1.00 = 1.00 1.00 1.00 = 1.00 1.00 1.00 = ? = = 1.00 1.00 1.00 ? ? 1.00 = = = = = = = = = = = = = = = = = = = = = = ? = = = = = = = = = = = = = = 1.00 1.00 1.00 1.00 = 1.00 1.00 = 1.00 1.00 1.00 1.00 = = = 1.00 1.00 = 1.00 = = = 1.00 1.00 1.00 = 0.99 = = 0.99 ? 1.00 1.00 = 1.00 1.00 = = = = = = 1.00 1.00 1.00 1.00 1.00 = = 1.00 1.00 1.00 1.00 ? ? = = 1.00 = = 1.00 1.00 ? ? ? = 1.00 1.00 1.00 = 1.00 1.00 1.00 = 1.00 1.00 1.00 = 1.00 = = 1.00 ? 1.00 ? ? 1.00 = = = = = = 1.00 1.00 = 1.00 = ? = = 1.00 1.00 = 1.00 = = = 1.00 = = = = = = = = ? = = = = = 1.00 1.00 ? ? 1.00 = 1.00 1.00 = 1.00 1.00 1.00 1.00 = = = 1.00 1.00 = 1.00 = = = 1.00 1.00 1.00 = 1.00 = = = 1.00 = = = = ? 1.00 1.00 1.00 1.00 1.00 1.00 = 1.00 1.00 1.00 = ? 1.00 = = ? = 1.00 1.00 1.00 = = = = = 1.00 1.00 1.00 = 1.00 1.00 = = = = = = 1.00 1.00 1.00 1.00 1.00 ? = 1.00 1.00 ? ? ? ? = ? ? 1.00 1.00 = 1.00 = = = = = 1.00 1.00 = = = 1.00 = = = = = ? = = = = = = = = = 1.00 = = 1.00 = 1.00 1.00 = 1.00 1.00 = = = = = = 1.00 1.00 1.00 1.00 1.00 = = 1.00 1.00 1.00 1.00 ? ? = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 1.00 1.00 ? 1.00 = = = 1.00 = = 1.00 = = = 1.00 1.00 1.00 = = = = = 1.00 1.00 1.00 = 1.00 = 1.00 1.00 = 1.00 1.00 ? 1.00 = = = 1.00 ? = 1.00 = = = 1.00 1.00 1.00 = 1.00 = = = 1.00 = = = = 1.00 1.00 1.00 1.00 1.00 1.00 1.00 = 1.00 1.00 1.00 = ? 1.00 = = 1.00 = 1.00 1.00 1.00 = = = = = = 1.00 1.00 1.00 1.00 = 1.00 ? = 1.00 1.00 1.00 1.00 = = = 1.00 ? = 1.00 = = = 1.00 1.00 1.00 = = = = = 1.00 1.00 1.00 = 1.00 = 1.00 1.00 = 1.00 1.00 1.00 1.00 = = = 1.00 1.00 = 1.00 = ? ? 1.00 1.00 1.00 = 1.00 = = = = = = 0.90 = 1.00 1.00 1.00 1.00 1.00 1.00 1.00 = 1.00 1.00 1.00 = ? 1.00 1.00 = 1.00 = 1.00 1.00 1.00 = 1.00 = = 1.00 = ? ? ? 1.00 1.00 = = 1.00 = = = 1.00 1.00 1.00 1.00 1.00 ? 1.00 1.00 = 1.00 = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = 1.00 = = 1.00 ? = = = = 1.00 ? 1.00 = 1.00 1.00 1.00 = 1.00 1.00 1.00 = 1.00 = = 1.00 1.00 ? ? ? 1.00 ? ? = = = 1.00 1.00 1.00 = 1.00 = 1.00 ? = 1.00 1.00 1.00 1.00 = = = 1.00 1.00 = 1.00 = = = 1.00 1.00 1.00 = = = = = 1.00 1.00 ? ? 1.00 = 1.00 1.00 = ? 1.00 ? ? = = = 1.00 1.00 = 1.00 = = = 1.00 1.00 1.00 = = = = = 1.00 1.00 1.00 = 1.00 = 1.00 ? = ? 1.00 ? ? = = ? 1.00 ? = 1.00 = = = 1.00 1.00 1.00 = 1.00 = = 1.00 = ? ? = 1.00 1.00 = = 1.00 = = ? ? 1.00 1.00 1.00 1.00 ? 1.00 1.00 = 1.00 = = = = = 1.00 = = 1.00 = 1.00 1.00 = 1.00 1.00 = = = = = = 1.00 1.00 1.00 1.00 1.00 = = 1.00 1.00 1.00 1.00 ? ? = = 1.00 ? = 1.00 = 1.00 ? = ? 1.00 = = = = = ? ? ? ? 1.00 1.00 = = 1.00 1.00 1.00 1.00 ? ? ? = 1.00 = = = = = = = = 1.00 1.00 1.00 1.00 1.00 1.00 1.00 = 1.00 1.00 1.00 = ? 1.00 = = 1.00 = 1.00 1.00 1.00 = = = = = = = = = = = = = = = = = = = = = ? ? = = = = ? = = = = = = = = 1.00 1.00 1.00 = 1.00 1.00 = = = = = = 1.00 1.00 1.00 1.00 1.00 = = 1.00 1.00 1.00 1.00 ? ? = = 1.00 = = 1.00 = 1.00 ? ? ? 1.00 = = = = = ? ? 1.00 1.00 1.00 1.00 = = 1.00 1.00 1.00 1.00 ? ? = = 1.00 = = 1.00 1.00 = = = = = = = = = = ? ? = = ? = = = = = = = = = = = 1.00 = = 1.00 = 1.00 ? ? ? 1.00 = = = = = ? ? 1.00 1.00 1.00 1.00 = = 1.00 1.00 ? ? ? ? = = 1.00 = = 1.00 = = = = ? = = = = = = = = = = ? = ? = = = = = = = = = 1.00 ? = 1.00 = 1.00 ? ? ? 1.00 = = = = = = 1.00 ? ? 1.00 1.00 = = 1.00 1.00 1.00 1.00 ? ? ? = 1.00 = = = 1.00 = = = = 1.00 1.00 1.00 = 1.00 1.00 1.00 = 1.00 1.00 1.00 = ? 1.00 = = 1.00 = 1.00 1.00 1.00 1.00 = 1.00 1.00 = = 1.00 1.00 = 1.00 = = = = = = ? ? = = = = = = = = = = = = = = = = = = = 0.97 0.97 = 0.97 0.97 0.93 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 = ? = = = = END PHASEPROBS