Mercurial > repos > rdvelazquez > hyphy_meme

annotate test-data/meme-out1.json @ 3:f84a42d3ef98 draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 6c73b2e4c05bdddaef2026feb1073c1b0b4aa12e-dirty
author rdvelazquez
date Fri, 07 Jun 2019 10:20:49 -0400
parents 1fe6d55b5a9b
children
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
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1 {
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
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2 "analysis":{
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3 "info":"MEME (Mixed Effects Model of Evolution)\n estimates a site-wise synonymous (α) and a two-category mixture of non-synonymous\n (β-, with proportion p-, and β+ with proportion [1-p-]) rates, and\n uses a likelihood ratio test to determine if β+ > α at a site.\n The estimates aggregate information over a proportion of branches at a site,\n so the signal is derived from\n episodic diversification, which is a combination of strength of selection [effect size] and\n the proportion of the tree affected. A subset of branches can be selected\n for testing as well, in which case an additional (nuisance) parameter will be\n inferred -- the non-synonymous rate on branches NOT selected for testing. Multiple partitions within a NEXUS file are also supported\n for recombination - aware analysis.\n ",
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
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4 "version":"2.0.1",
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5 "citation":"Detecting Individual Sites Subject to Episodic Diversifying Selection. _PLoS Genet_ 8(7): e1002764.",
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6 "authors":"Sergei L. Kosakovsky Pond, Steven Weaver",
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7 "contact":"spond@temple.edu",
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8 "requirements":"in-frame codon alignment and a phylogenetic tree"
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9 },
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10 "fits":{
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11 "Nucleotide GTR":{
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12 "Log Likelihood":-4394.17778442101,
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13 "estimated parameters":47,
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14 "AIC-c":8882.482274823486,
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15 "Equilibrium frequencies":[
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20 ],
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21 "Rate Distributions":{
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22 "Substitution rate from nucleotide A to nucleotide C":0.1602243049428088,
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23 "Substitution rate from nucleotide A to nucleotide G":1,
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24 "Substitution rate from nucleotide A to nucleotide T":0.1350661843114337,
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25 "Substitution rate from nucleotide C to nucleotide G":0.04669906431175039,
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26 "Substitution rate from nucleotide C to nucleotide T":1.290725939052547,
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27 "Substitution rate from nucleotide G to nucleotide T":0.1442807316736102
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28 },
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29 "display order":0
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30 },
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31 "Global MG94xREV":{
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32 "Log Likelihood":-4272.739394378317,
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33 "estimated parameters":54,
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34 "AIC-c":8653.980859587502,
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35 "Equilibrium frequencies":[
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97 ],
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98 "Rate Distributions":{
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99 "non-synonymous/synonymous rate ratio for *test*":[
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100 [0.2936035676191999, 1]
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101 ]
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102 },
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103 "display order":1
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104 }
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105 },
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106 "timers":{
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107 "Total time":{
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108 "timer":816,
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109 "order":0
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110 },
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111 "Model fitting":{
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112 "timer":12,
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113 "order":1
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114 },
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115 "MEME analysis":{
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116 "timer":803,
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117 "order":2
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118 }
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119 },
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120 "tested":{
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121 "0":{
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122 "TREESPARROW_HENAN_1_2004":"test",
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123 "TREESPARROW_HENAN_3_2004":"test",
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124 "Node6":"test",
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125 "TREESPARROW_HENAN_4_2004":"test",
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126 "Node5":"test",
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127 "CHICKEN_HEBEI_326_2005":"test",
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128 "SWINE_ANHUI_1_2004":"test",
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129 "TREESPARROW_HENAN_2_2004":"test",
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130 "Node12":"test",
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131 "Node10":"test",
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132 "Node4":"test",
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133 "CHICKEN_HONGKONG_915_97":"test",
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134 "GOOSE_HONGKONG_W355_97":"test",
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135 "DUCK_HONGKONG_Y283_97":"test",
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136 "Node19":"test",
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137 "Node17":"test",
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138 "HONGKONG_1_97_98":"test",
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139 "Node16":"test",
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140 "HONGKONG_1_538_97":"test",
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141 "Node15":"test",
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142 "Node3":"test",
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143 "DUCK_GUANGZHOU_20_2005":"test",
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144 "GOOSE_SHANTOU_2216_2005":"test",
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145 "Node26":"test",
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146 "PEREGRINEFALCON_HK_D0028_2004":"test",
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147 "Node25":"test",
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148 "CK_HK_WF157_2003":"test",
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149 "Node24":"test",
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150 "Node2":"test",
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151 "HUMAN_VIETNAM_CL105_2005":"test",
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152 "DUCK_VIETNAM_376_2005":"test",
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153 "Node33":"test",
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154 "HUMAN_VIETNAM_3062_2004":"test",
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155 "Node32":"test",
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156 "MALLARD_VIETNAM_16_2003":"test",
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157 "Node31":"test",
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158 "Node1":"test",
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159 "CHICKEN_CK_160_2005":"test",
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160 "DUCK_VIETNAM_272_2005":"test"
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
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161 }
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
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162 },
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
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163 "input":{
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164 "file name":"/tmp/tmpv_gXOY/job_working_directory/002/2719/working/meme_input.fa",
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165 "number of sequences":21,
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
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166 "number of sites":566,
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167 "partition count":1,
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168 "trees":{
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169 "0":"(((((((TREESPARROW_HENAN_1_2004:0.0111334,TREESPARROW_HENAN_3_2004:0.00619375)Node6:0.000995666,TREESPARROW_HENAN_4_2004:0.00435165)Node5:0.00226776,(CHICKEN_HEBEI_326_2005:0.0210089,(SWINE_ANHUI_1_2004:0.00770239,TREESPARROW_HENAN_2_2004:0.00906278)Node12:0.00209522)Node10:0.00388724)Node4:0.00340492,(((CHICKEN_HONGKONG_915_97:-1,(GOOSE_HONGKONG_W355_97:-1,DUCK_HONGKONG_Y283_97:0.00279842)Node19:0.00289977)Node17:0.00130638,HONGKONG_1_97_98:0.00384493)Node16:0.000182536,HONGKONG_1_538_97:-1)Node15:0.0209617)Node3:0.00313061,(((DUCK_GUANGZHOU_20_2005:0.00629939,GOOSE_SHANTOU_2216_2005:0.00620784)Node26:0.00253061,PEREGRINEFALCON_HK_D0028_2004:0.0036083)Node25:0.0032889,CK_HK_WF157_2003:0.0066313)Node24:0.0046553)Node2:0.0116809,(((HUMAN_VIETNAM_CL105_2005:0.00652152,DUCK_VIETNAM_376_2005:0.00787762)Node33:0.00196789,HUMAN_VIETNAM_3062_2004:0.0016414)Node32:0.000312551,MALLARD_VIETNAM_16_2003:0.00324422)Node31:0.000412598)Node1:0.000340091,CHICKEN_CK_160_2005:0.00616834,DUCK_VIETNAM_272_2005:0.0094653)"
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
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170 }
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171 },
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
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172 "data partitions":{
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173 "0":{
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174 "name":"meme.filter.default",
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175 "coverage":[
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
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176 [0, 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56, 57, 58, 59, 60, 61, 62, 63, 64, 65, 66, 67, 68, 69, 70, 71, 72, 73, 74, 75, 76, 77, 78, 79, 80, 81, 82, 83, 84, 85, 86, 87, 88, 89, 90, 91, 92, 93, 94, 95, 96, 97, 98, 99, 100, 101, 102, 103, 104, 105, 106, 107, 108, 109, 110, 111, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 137, 138, 139, 140, 141, 142, 143, 144, 145, 146, 147, 148, 149, 150, 151, 152, 153, 154, 155, 156, 157, 158, 159, 160, 161, 162, 163, 164, 165, 166, 167, 168, 169, 170, 171, 172, 173, 174, 175, 176, 177, 178, 179, 180, 181, 182, 183, 184, 185, 186, 187, 188, 189, 190, 191, 192, 193, 194, 195, 196, 197, 198, 199, 200, 201, 202, 203, 204, 205, 206, 207, 208, 209, 210, 211, 212, 213, 214, 215, 216, 217, 218, 219, 220, 221, 222, 223, 224, 225, 226, 227, 228, 229, 230, 231, 232, 233, 234, 235, 236, 237, 238, 239, 240, 241, 242, 243, 244, 245, 246, 247, 248, 249, 250, 251, 252, 253, 254, 255, 256, 257, 258, 259, 260, 261, 262, 263, 264, 265, 266, 267, 268, 269, 270, 271, 272, 273, 274, 275, 276, 277, 278, 279, 280, 281, 282, 283, 284, 285, 286, 287, 288, 289, 290, 291, 292, 293, 294, 295, 296, 297, 298, 299, 300, 301, 302, 303, 304, 305, 306, 307, 308, 309, 310, 311, 312, 313, 314, 315, 316, 317, 318, 319, 320, 321, 322, 323, 324, 325, 326, 327, 328, 329, 330, 331, 332, 333, 334, 335, 336, 337, 338, 339, 340, 341, 342, 343, 344, 345, 346, 347, 348, 349, 350, 351, 352, 353, 354, 355, 356, 357, 358, 359, 360, 361, 362, 363, 364, 365, 366, 367, 368, 369, 370, 371, 372, 373, 374, 375, 376, 377, 378, 379, 380, 381, 382, 383, 384, 385, 386, 387, 388, 389, 390, 391, 392, 393, 394, 395, 396, 397, 398, 399, 400, 401, 402, 403, 404, 405, 406, 407, 408, 409, 410, 411, 412, 413, 414, 415, 416, 417, 418, 419, 420, 421, 422, 423, 424, 425, 426, 427, 428, 429, 430, 431, 432, 433, 434, 435, 436, 437, 438, 439, 440, 441, 442, 443, 444, 445, 446, 447, 448, 449, 450, 451, 452, 453, 454, 455, 456, 457, 458, 459, 460, 461, 462, 463, 464, 465, 466, 467, 468, 469, 470, 471, 472, 473, 474, 475, 476, 477, 478, 479, 480, 481, 482, 483, 484, 485, 486, 487, 488, 489, 490, 491, 492, 493, 494, 495, 496, 497, 498, 499, 500, 501, 502, 503, 504, 505, 506, 507, 508, 509, 510, 511, 512, 513, 514, 515, 516, 517, 518, 519, 520, 521, 522, 523, 524, 525, 526, 527, 528, 529, 530, 531, 532, 533, 534, 535, 536, 537, 538, 539, 540, 541, 542, 543, 544, 545, 546, 547, 548, 549, 550, 551, 552, 553, 554, 555, 556, 557, 558, 559, 560, 561, 562, 563, 564, 565]
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
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177 ]
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
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178 }
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
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179 },
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
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180 "branch attributes":{
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181 "0":{
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
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182 "TREESPARROW_HENAN_1_2004":{
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
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183 "original name":"TREESPARROW_HENAN_1_2004",
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184 "Nucleotide GTR":0.01066479252384179,
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
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185 "Global MG94xREV":0.01076673590455662,
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
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186 "EBF site 3 (partition 1)":0.9456096051294662,
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
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187 "EBF site 8 (partition 1)":1162.743096991633,
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
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188 "EBF site 9 (partition 1)":1,
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189 "EBF site 10 (partition 1)":218.8691185742497,
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190 "EBF site 11 (partition 1)":127.9229379574454,
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
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191 "EBF site 12 (partition 1)":1,
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192 "EBF site 16 (partition 1)":0.9451095622554209,
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
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193 "EBF site 17 (partition 1)":1,
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194 "EBF site 20 (partition 1)":3527.455058707973,
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195 "EBF site 21 (partition 1)":176.9630563981623,
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
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196 "EBF site 26 (partition 1)":408.9192237736214,
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
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197 "EBF site 27 (partition 1)":6018.398467534517,
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
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198 "EBF site 28 (partition 1)":1,
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199 "EBF site 32 (partition 1)":3526.472765483446,
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
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200 "EBF site 33 (partition 1)":1,
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201 "EBF site 34 (partition 1)":1,
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202 "EBF site 37 (partition 1)":0.05724236634162533,
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203 "EBF site 39 (partition 1)":1,
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204 "EBF site 45 (partition 1)":1,
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205 "EBF site 49 (partition 1)":1,
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206 "EBF site 50 (partition 1)":1,
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207 "EBF site 51 (partition 1)":0.9481415983525313,
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208 "EBF site 52 (partition 1)":1,
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209 "EBF site 54 (partition 1)":1,
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210 "EBF site 58 (partition 1)":1,
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
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211 "EBF site 59 (partition 1)":1,
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212 "EBF site 60 (partition 1)":0.9841498071715201,
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
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213 "EBF site 61 (partition 1)":0.9461884386551284,
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
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214 "EBF site 62 (partition 1)":1,
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215 "EBF site 64 (partition 1)":1,
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
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216 "EBF site 66 (partition 1)":1,
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217 "EBF site 68 (partition 1)":1,
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
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218 "EBF site 69 (partition 1)":1,
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219 "EBF site 70 (partition 1)":1,
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1027 "original name":"CHICKEN_HONGKONG_915_97",
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1038 "EBF site 20 (partition 1)":0.9966019428854687,
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1040 "EBF site 26 (partition 1)":0.9969268041252207,
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1041 "EBF site 27 (partition 1)":0.9914258216649664,
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1043 "EBF site 32 (partition 1)":0.9961075897976772,
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1045 "EBF site 34 (partition 1)":1,
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1046 "EBF site 37 (partition 1)":0.470837989129384,
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1047 "EBF site 39 (partition 1)":1,
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1048 "EBF site 45 (partition 1)":1,
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1050 "EBF site 50 (partition 1)":1,
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1051 "EBF site 51 (partition 1)":0.9960476014485551,
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1053 "EBF site 54 (partition 1)":1,
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1054 "EBF site 58 (partition 1)":1,
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1055 "EBF site 59 (partition 1)":1,
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1056 "EBF site 60 (partition 1)":0.999100897376902,
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1057 "EBF site 61 (partition 1)":0.9971419905412566,
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1059 "EBF site 64 (partition 1)":1,
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1060 "EBF site 66 (partition 1)":1,
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1065 "EBF site 77 (partition 1)":1,
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1066 "EBF site 78 (partition 1)":1,
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1067 "EBF site 79 (partition 1)":1,
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1236 },
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1237 "HUMAN_VIETNAM_3062_2004":{
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1238 "original name":"HUMAN_VIETNAM_3062_2004",
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1267 "EBF site 60 (partition 1)":0.9973009794896002,
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1434 "EBF site 527 (partition 1)":0.9820906925833945,
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rdvelazquez
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1435 "EBF site 529 (partition 1)":0.9910320967381681,
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rdvelazquez
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1447 },
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rdvelazquez
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1448 "GOOSE_HONGKONG_W355_97":{
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rdvelazquez
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1449 "original name":"GOOSE_HONGKONG_W355_97",
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rdvelazquez
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1450 "Nucleotide GTR":0,
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rdvelazquez
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1451 "Global MG94xREV":0,
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rdvelazquez
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1452 "EBF site 3 (partition 1)":1.000000004454476,
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rdvelazquez
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1453 "EBF site 8 (partition 1)":0.9999999964832573,
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rdvelazquez
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1454 "EBF site 9 (partition 1)":1,
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rdvelazquez
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1455 "EBF site 10 (partition 1)":0.9999999977938284,
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rdvelazquez
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1456 "EBF site 11 (partition 1)":0.9999999997642667,
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1457 "EBF site 12 (partition 1)":1,
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rdvelazquez
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1458 "EBF site 16 (partition 1)":0.9999999982866217,
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rdvelazquez
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1459 "EBF site 17 (partition 1)":1,
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rdvelazquez
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1460 "EBF site 20 (partition 1)":1,
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rdvelazquez
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1461 "EBF site 21 (partition 1)":0.9999999977979862,
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rdvelazquez
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1462 "EBF site 26 (partition 1)":0.9999999951179953,
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rdvelazquez
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rdvelazquez
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1464 "EBF site 28 (partition 1)":1,
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rdvelazquez
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1465 "EBF site 32 (partition 1)":1,
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rdvelazquez
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1466 "EBF site 33 (partition 1)":1,
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rdvelazquez
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1467 "EBF site 34 (partition 1)":1,
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rdvelazquez
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1468 "EBF site 37 (partition 1)":1,
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rdvelazquez
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1469 "EBF site 39 (partition 1)":1,
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rdvelazquez
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1470 "EBF site 45 (partition 1)":1,
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rdvelazquez
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1471 "EBF site 49 (partition 1)":1,
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1472 "EBF site 50 (partition 1)":1,
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rdvelazquez
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1473 "EBF site 51 (partition 1)":1.000000003389824,
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rdvelazquez
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1474 "EBF site 52 (partition 1)":1,
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rdvelazquez
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1475 "EBF site 54 (partition 1)":1,
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rdvelazquez
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1476 "EBF site 58 (partition 1)":1,
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rdvelazquez
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1477 "EBF site 59 (partition 1)":1,
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rdvelazquez
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1478 "EBF site 60 (partition 1)":1.000000001960442,
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rdvelazquez
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1479 "EBF site 61 (partition 1)":1.00000000540656,
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rdvelazquez
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1480 "EBF site 62 (partition 1)":1,
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rdvelazquez
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1481 "EBF site 64 (partition 1)":1,
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rdvelazquez
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1482 "EBF site 66 (partition 1)":1,
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1483 "EBF site 68 (partition 1)":1,
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rdvelazquez
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1484 "EBF site 69 (partition 1)":1,
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rdvelazquez
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1485 "EBF site 70 (partition 1)":1,
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rdvelazquez
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1486 "EBF site 73 (partition 1)":1,
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rdvelazquez
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1487 "EBF site 77 (partition 1)":1,
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rdvelazquez
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1488 "EBF site 78 (partition 1)":1,
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rdvelazquez
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1489 "EBF site 79 (partition 1)":1,
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1490 "EBF site 80 (partition 1)":1,
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1491 "EBF site 81 (partition 1)":1,
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rdvelazquez
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1492 "EBF site 84 (partition 1)":1,
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rdvelazquez
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1493 "EBF site 86 (partition 1)":1,
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rdvelazquez
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1494 "EBF site 89 (partition 1)":1,
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rdvelazquez
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1495 "EBF site 91 (partition 1)":1,
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rdvelazquez
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1496 "EBF site 99 (partition 1)":1,
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rdvelazquez
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1497 "EBF site 100 (partition 1)":0.999999996075426,
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rdvelazquez
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1498 "EBF site 102 (partition 1)":0.999999997786059,
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rdvelazquez
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1499 "EBF site 104 (partition 1)":1.000000001910872,
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rdvelazquez
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1500 "EBF site 107 (partition 1)":1,
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rdvelazquez
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1501 "EBF site 109 (partition 1)":1,
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rdvelazquez
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1502 "EBF site 110 (partition 1)":0.9999999999623042,
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rdvelazquez
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1503 "EBF site 112 (partition 1)":1,
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rdvelazquez
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1504 "EBF site 113 (partition 1)":1,
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rdvelazquez
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1505 "EBF site 117 (partition 1)":1,
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rdvelazquez
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1506 "EBF site 128 (partition 1)":1,
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rdvelazquez
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1507 "EBF site 131 (partition 1)":1,
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rdvelazquez
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1508 "EBF site 136 (partition 1)":1,
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rdvelazquez
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rdvelazquez
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1510 "EBF site 140 (partition 1)":1,
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rdvelazquez
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1511 "EBF site 142 (partition 1)":1.000000000108778,
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rdvelazquez
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1512 "EBF site 143 (partition 1)":1,
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rdvelazquez
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1513 "EBF site 145 (partition 1)":1.000000002037219,
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rdvelazquez
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1514 "EBF site 146 (partition 1)":1,
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rdvelazquez
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1515 "EBF site 147 (partition 1)":1,
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rdvelazquez
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1516 "EBF site 150 (partition 1)":1,
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rdvelazquez
parents:
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1517 "EBF site 152 (partition 1)":1,
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rdvelazquez
parents:
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1518 "EBF site 153 (partition 1)":1,
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rdvelazquez
parents:
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1519 "EBF site 154 (partition 1)":1,
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rdvelazquez
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1520 "EBF site 155 (partition 1)":1,
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rdvelazquez
parents:
diff changeset
1521 "EBF site 156 (partition 1)":1.000000004606383,
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rdvelazquez
parents:
diff changeset
1522 "EBF site 157 (partition 1)":0.999999996366886,
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rdvelazquez
parents:
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1523 "EBF site 167 (partition 1)":1,
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rdvelazquez
parents:
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1524 "EBF site 170 (partition 1)":1,
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rdvelazquez
parents:
diff changeset
1525 "EBF site 171 (partition 1)":1.000000004708058,
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rdvelazquez
parents:
diff changeset
1526 "EBF site 172 (partition 1)":1.000000002345886,
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rdvelazquez
parents:
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1658 },
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1659 "DUCK_HONGKONG_Y283_97":{
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rdvelazquez
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1660 "original name":"DUCK_HONGKONG_Y283_97",
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1661 "Nucleotide GTR":0,
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1828 "EBF site 431 (partition 1)":1,
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1834 "EBF site 466 (partition 1)":1,
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1835 "EBF site 471 (partition 1)":1,
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1836 "EBF site 473 (partition 1)":1,
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1837 "EBF site 477 (partition 1)":1,
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1838 "EBF site 478 (partition 1)":1,
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rdvelazquez
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1843 "EBF site 489 (partition 1)":0.9999999979293545,
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1846 "EBF site 499 (partition 1)":1,
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1849 "EBF site 507 (partition 1)":1,
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1850 "EBF site 508 (partition 1)":1,
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1851 "EBF site 509 (partition 1)":1,
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1856 "EBF site 527 (partition 1)":0.9999999985042536,
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1857 "EBF site 529 (partition 1)":1.000000002003295,
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1859 "EBF site 538 (partition 1)":1,
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1860 "EBF site 539 (partition 1)":1,
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1861 "EBF site 540 (partition 1)":1,
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rdvelazquez
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1869 },
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rdvelazquez
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1870 "DUCK_VIETNAM_376_2005":{
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rdvelazquez
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diff changeset
1871 "original name":"DUCK_VIETNAM_376_2005",
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1872 "Nucleotide GTR":0.008353464800246744,
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rdvelazquez
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1873 "Global MG94xREV":0.008507588898480372,
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rdvelazquez
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1874 "EBF site 3 (partition 1)":0.9566617425654628,
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rdvelazquez
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1875 "EBF site 8 (partition 1)":0.9103029121772825,
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rdvelazquez
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1876 "EBF site 9 (partition 1)":1,
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rdvelazquez
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1877 "EBF site 10 (partition 1)":0.913261702710533,
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rdvelazquez
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1878 "EBF site 11 (partition 1)":0.8702760380173156,
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rdvelazquez
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1879 "EBF site 12 (partition 1)":1,
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rdvelazquez
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1880 "EBF site 16 (partition 1)":0.9563144142561489,
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rdvelazquez
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1881 "EBF site 17 (partition 1)":1,
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rdvelazquez
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1882 "EBF site 20 (partition 1)":0.9527905929021566,
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rdvelazquez
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1883 "EBF site 21 (partition 1)":0.9151882402794148,
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rdvelazquez
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1884 "EBF site 26 (partition 1)":0.9573351401140932,
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rdvelazquez
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1885 "EBF site 27 (partition 1)":0.8867197988168598,
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rdvelazquez
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1886 "EBF site 28 (partition 1)":1,
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rdvelazquez
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1887 "EBF site 32 (partition 1)":0.9462700079742482,
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rdvelazquez
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1888 "EBF site 33 (partition 1)":1,
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rdvelazquez
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1889 "EBF site 34 (partition 1)":1,
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rdvelazquez
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1890 "EBF site 37 (partition 1)":0.06706411247894857,
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rdvelazquez
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1891 "EBF site 39 (partition 1)":1,
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rdvelazquez
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1892 "EBF site 45 (partition 1)":1,
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rdvelazquez
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1893 "EBF site 49 (partition 1)":1,
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rdvelazquez
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1894 "EBF site 50 (partition 1)":1,
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rdvelazquez
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1895 "EBF site 51 (partition 1)":0.9586918192169548,
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rdvelazquez
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1896 "EBF site 52 (partition 1)":1,
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rdvelazquez
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1897 "EBF site 54 (partition 1)":1,
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rdvelazquez
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1898 "EBF site 58 (partition 1)":1,
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rdvelazquez
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1899 "EBF site 59 (partition 1)":1,
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rdvelazquez
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1900 "EBF site 60 (partition 1)":0.9874069141126161,
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rdvelazquez
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1901 "EBF site 61 (partition 1)":0.9571563752066132,
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1902 "EBF site 62 (partition 1)":1,
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1903 "EBF site 64 (partition 1)":1,
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rdvelazquez
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1904 "EBF site 66 (partition 1)":1,
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rdvelazquez
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1905 "EBF site 68 (partition 1)":1,
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1906 "EBF site 69 (partition 1)":1,
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1907 "EBF site 70 (partition 1)":1,
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1908 "EBF site 73 (partition 1)":1,
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1909 "EBF site 77 (partition 1)":1,
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1910 "EBF site 78 (partition 1)":1,
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1911 "EBF site 79 (partition 1)":1,
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rdvelazquez
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1912 "EBF site 80 (partition 1)":1,
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rdvelazquez
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1913 "EBF site 81 (partition 1)":1,
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rdvelazquez
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1914 "EBF site 84 (partition 1)":1,
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rdvelazquez
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1915 "EBF site 86 (partition 1)":1,
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rdvelazquez
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1916 "EBF site 89 (partition 1)":1,
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1917 "EBF site 91 (partition 1)":1,
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1918 "EBF site 99 (partition 1)":0.9222243378497063,
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1919 "EBF site 100 (partition 1)":0.8951516718405531,
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1920 "EBF site 102 (partition 1)":0.8822397028819549,
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1921 "EBF site 104 (partition 1)":0.9576152231821882,
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1922 "EBF site 107 (partition 1)":1,
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1923 "EBF site 109 (partition 1)":1,
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1924 "EBF site 110 (partition 1)":0.9173232424122557,
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1925 "EBF site 112 (partition 1)":1,
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1926 "EBF site 113 (partition 1)":0.5760273516290358,
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1927 "EBF site 117 (partition 1)":1,
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1928 "EBF site 128 (partition 1)":1,
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1929 "EBF site 131 (partition 1)":0.9326955990196455,
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1930 "EBF site 136 (partition 1)":1,
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1931 "EBF site 139 (partition 1)":0.9555319839837216,
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1932 "EBF site 140 (partition 1)":1,
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1933 "EBF site 142 (partition 1)":0.8768947818177953,
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1934 "EBF site 143 (partition 1)":0.5503217235144682,
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1935 "EBF site 145 (partition 1)":0.9677760961688875,
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1936 "EBF site 146 (partition 1)":1,
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1937 "EBF site 147 (partition 1)":1,
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1938 "EBF site 150 (partition 1)":0.9220344961526402,
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1939 "EBF site 152 (partition 1)":1,
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1940 "EBF site 153 (partition 1)":1,
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1941 "EBF site 154 (partition 1)":0.5805308989842042,
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1942 "EBF site 155 (partition 1)":1,
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1943 "EBF site 156 (partition 1)":186.8069704267104,
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1944 "EBF site 157 (partition 1)":61.46244742981912,
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1945 "EBF site 167 (partition 1)":0.3852205982381149,
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1946 "EBF site 170 (partition 1)":1,
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1947 "EBF site 171 (partition 1)":0.9148289003456938,
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1948 "EBF site 172 (partition 1)":0.8249061482144869,
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1949 "EBF site 173 (partition 1)":1,
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1950 "EBF site 175 (partition 1)":1,
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1951 "EBF site 178 (partition 1)":0.4028211720090112,
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1952 "EBF site 179 (partition 1)":145.750623030693,
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1953 "EBF site 181 (partition 1)":1,
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1954 "EBF site 185 (partition 1)":0.04589168935206885,
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1955 "EBF site 191 (partition 1)":0.7977552943260235,
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1956 "EBF site 195 (partition 1)":1,
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1957 "EBF site 196 (partition 1)":1,
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1958 "EBF site 197 (partition 1)":1,
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1959 "EBF site 200 (partition 1)":0.9565341582444904,
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1960 "EBF site 201 (partition 1)":0.916222865107566,
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1961 "EBF site 204 (partition 1)":0.7248982098008665,
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1962 "EBF site 206 (partition 1)":1,
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1963 "EBF site 209 (partition 1)":1,
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1964 "EBF site 211 (partition 1)":0.9140385369958551,
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1965 "EBF site 212 (partition 1)":1,
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1966 "EBF site 213 (partition 1)":1,
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1967 "EBF site 214 (partition 1)":0.3752557925768049,
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1968 "EBF site 217 (partition 1)":1,
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1969 "EBF site 221 (partition 1)":1,
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1970 "EBF site 222 (partition 1)":1,
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1971 "EBF site 224 (partition 1)":1,
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1972 "EBF site 226 (partition 1)":1,
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1973 "EBF site 228 (partition 1)":0.9007558657573438,
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1974 "EBF site 230 (partition 1)":1,
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1975 "EBF site 231 (partition 1)":1,
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1976 "EBF site 233 (partition 1)":0.9579320644469356,
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1977 "EBF site 235 (partition 1)":322.7347759782938,
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1978 "EBF site 236 (partition 1)":1,
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1979 "EBF site 237 (partition 1)":1,
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1980 "EBF site 240 (partition 1)":1,
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1981 "EBF site 241 (partition 1)":1,
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1982 "EBF site 242 (partition 1)":3.593458681512879,
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1983 "EBF site 250 (partition 1)":1,
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1984 "EBF site 253 (partition 1)":1,
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1985 "EBF site 254 (partition 1)":1,
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1986 "EBF site 256 (partition 1)":1,
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1987 "EBF site 258 (partition 1)":0.9575860982877624,
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1988 "EBF site 265 (partition 1)":1,
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1989 "EBF site 268 (partition 1)":1,
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1990 "EBF site 271 (partition 1)":1,
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1991 "EBF site 278 (partition 1)":1,
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1992 "EBF site 279 (partition 1)":1,
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rdvelazquez
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1993 "EBF site 282 (partition 1)":1,
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rdvelazquez
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1994 "EBF site 283 (partition 1)":1,
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rdvelazquez
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1995 "EBF site 288 (partition 1)":1,
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rdvelazquez
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1996 "EBF site 291 (partition 1)":1,
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1997 "EBF site 293 (partition 1)":1,
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rdvelazquez
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1998 "EBF site 296 (partition 1)":1,
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rdvelazquez
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1999 "EBF site 298 (partition 1)":0.3723346163223445,
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rdvelazquez
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2000 "EBF site 302 (partition 1)":1,
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2001 "EBF site 304 (partition 1)":1,
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rdvelazquez
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2002 "EBF site 306 (partition 1)":1,
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rdvelazquez
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2003 "EBF site 309 (partition 1)":1,
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rdvelazquez
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diff changeset
2004 "EBF site 311 (partition 1)":1,
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rdvelazquez
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2005 "EBF site 312 (partition 1)":1,
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rdvelazquez
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diff changeset
2006 "EBF site 315 (partition 1)":0.9573908390602411,
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rdvelazquez
parents:
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2007 "EBF site 317 (partition 1)":1,
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rdvelazquez
parents:
diff changeset
2008 "EBF site 327 (partition 1)":1,
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rdvelazquez
parents:
diff changeset
2009 "EBF site 328 (partition 1)":1,
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rdvelazquez
parents:
diff changeset
2010 "EBF site 329 (partition 1)":1,
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rdvelazquez
parents:
diff changeset
2011 "EBF site 331 (partition 1)":1,
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rdvelazquez
parents:
diff changeset
2012 "EBF site 332 (partition 1)":1,
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rdvelazquez
parents:
diff changeset
2013 "EBF site 336 (partition 1)":0.07737790620602035,
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rdvelazquez
parents:
diff changeset
2014 "EBF site 338 (partition 1)":0.6815814401903888,
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rdvelazquez
parents:
diff changeset
2015 "EBF site 339 (partition 1)":1,
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rdvelazquez
parents:
diff changeset
2016 "EBF site 341 (partition 1)":0.8241912078366742,
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rdvelazquez
parents:
diff changeset
2017 "EBF site 342 (partition 1)":0.95742755918444,
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rdvelazquez
parents:
diff changeset
2018 "EBF site 344 (partition 1)":1,
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rdvelazquez
parents:
diff changeset
2019 "EBF site 348 (partition 1)":1,
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rdvelazquez
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2020 "EBF site 351 (partition 1)":1,
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rdvelazquez
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2021 "EBF site 353 (partition 1)":1,
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2022 "EBF site 354 (partition 1)":1,
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2023 "EBF site 357 (partition 1)":1,
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2024 "EBF site 358 (partition 1)":1,
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2025 "EBF site 361 (partition 1)":1,
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2026 "EBF site 362 (partition 1)":1,
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2027 "EBF site 369 (partition 1)":1,
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rdvelazquez
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2028 "EBF site 375 (partition 1)":1,
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2029 "EBF site 377 (partition 1)":1,
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2030 "EBF site 379 (partition 1)":1,
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rdvelazquez
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2031 "EBF site 433 (partition 1)":1,
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rdvelazquez
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2032 "EBF site 384 (partition 1)":0.9121536181285803,
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rdvelazquez
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2033 "EBF site 389 (partition 1)":1,
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rdvelazquez
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2034 "EBF site 403 (partition 1)":0.9571419936755389,
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rdvelazquez
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2035 "EBF site 408 (partition 1)":1,
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rdvelazquez
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2036 "EBF site 417 (partition 1)":1,
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rdvelazquez
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2037 "EBF site 424 (partition 1)":1,
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rdvelazquez
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2038 "EBF site 429 (partition 1)":1,
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2039 "EBF site 431 (partition 1)":1,
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rdvelazquez
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2040 "EBF site 440 (partition 1)":1,
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2041 "EBF site 441 (partition 1)":1,
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rdvelazquez
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2042 "EBF site 445 (partition 1)":1,
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rdvelazquez
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2043 "EBF site 454 (partition 1)":1,
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rdvelazquez
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2044 "EBF site 462 (partition 1)":0.9206163412292598,
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rdvelazquez
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2045 "EBF site 466 (partition 1)":0.836317738397839,
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rdvelazquez
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2046 "EBF site 471 (partition 1)":1,
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rdvelazquez
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2047 "EBF site 473 (partition 1)":1,
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rdvelazquez
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2048 "EBF site 477 (partition 1)":1,
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rdvelazquez
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2049 "EBF site 478 (partition 1)":1,
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2050 "EBF site 485 (partition 1)":1,
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2051 "EBF site 479 (partition 1)":1,
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rdvelazquez
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2052 "EBF site 481 (partition 1)":1,
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rdvelazquez
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2053 "EBF site 488 (partition 1)":1,
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rdvelazquez
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2054 "EBF site 489 (partition 1)":0.9573101516494996,
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rdvelazquez
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2055 "EBF site 492 (partition 1)":0.8958592201584041,
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rdvelazquez
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2056 "EBF site 494 (partition 1)":1,
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rdvelazquez
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2057 "EBF site 499 (partition 1)":0.3295263901368651,
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rdvelazquez
parents:
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2058 "EBF site 500 (partition 1)":1,
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rdvelazquez
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2059 "EBF site 506 (partition 1)":0.3017248793137638,
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rdvelazquez
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2060 "EBF site 507 (partition 1)":1,
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rdvelazquez
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2061 "EBF site 508 (partition 1)":1,
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rdvelazquez
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2062 "EBF site 509 (partition 1)":1,
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rdvelazquez
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2063 "EBF site 513 (partition 1)":1,
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rdvelazquez
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2064 "EBF site 514 (partition 1)":1,
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rdvelazquez
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2065 "EBF site 515 (partition 1)":0.2107294376283946,
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rdvelazquez
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2066 "EBF site 519 (partition 1)":1,
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rdvelazquez
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2067 "EBF site 527 (partition 1)":0.9187166771122882,
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rdvelazquez
parents:
diff changeset
2068 "EBF site 529 (partition 1)":0.9584087013369034,
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rdvelazquez
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2069 "EBF site 537 (partition 1)":1,
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2082 "original name":"MALLARD_VIETNAM_16_2003",
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2293 "original name":"CHICKEN_CK_160_2005",
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rdvelazquez
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2504 "original name":"DUCK_GUANGZHOU_20_2005",
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2715 "original name":"CK_HK_WF157_2003",
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2926 "original name":"SWINE_ANHUI_1_2004",
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3135 },
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rdvelazquez
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3137 "original name":"DUCK_VIETNAM_272_2005",
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3138 "Nucleotide GTR":0.009000770074836861,
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rdvelazquez
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3347 "HONGKONG_1_97_98":{
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3348 "original name":"HONGKONG_1_97_98",
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3558 "GOOSE_SHANTOU_2216_2005":{
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3559 "original name":"GOOSE_SHANTOU_2216_2005",
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3769 "TREESPARROW_HENAN_3_2004":{
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3770 "original name":"TREESPARROW_HENAN_3_2004",
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3980 "PEREGRINEFALCON_HK_D0028_2004":{
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3981 "original name":"PEREGRINEFALCON_HK_D0028_2004",
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3982 "Nucleotide GTR":0.003605869024912319,
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4191 "TREESPARROW_HENAN_2_2004":{
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4192 "original name":"TREESPARROW_HENAN_2_2004",
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rdvelazquez
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rdvelazquez
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rdvelazquez
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4403 "original name":"HONGKONG_1_538_97",
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rdvelazquez
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rdvelazquez
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rdvelazquez
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5242 },
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5243 "Node15":{
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rdvelazquez
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rdvelazquez
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rdvelazquez
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rdvelazquez
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rdvelazquez
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rdvelazquez
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7342 },
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rdvelazquez
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7343 "Node32":{
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rdvelazquez
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rdvelazquez
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rdvelazquez
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rdvelazquez
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rdvelazquez
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rdvelazquez
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rdvelazquez
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rdvelazquez
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rdvelazquez
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rdvelazquez
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7553 "Node33":{
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7565 "EBF site 21 (partition 1)":0.9754309157627106,
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7567 "EBF site 27 (partition 1)":0.9665965960703886,
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7582 "EBF site 60 (partition 1)":0.9964504328806711,
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7583 "EBF site 61 (partition 1)":0.9878524916325083,
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rdvelazquez
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8392 }
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8396 "attribute type":"node label",
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8398 },
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8399 "Nucleotide GTR":{
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rdvelazquez
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8403 "Global MG94xREV":{
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rdvelazquez
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rdvelazquez
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rdvelazquez
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8412 "attribute type":"branch label",
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rdvelazquez
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rdvelazquez
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rdvelazquez
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rdvelazquez
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8417 "display order":11
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rdvelazquez
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8419 "EBF site 10 (partition 1)":{
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rdvelazquez
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rdvelazquez
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8421 "display order":12
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rdvelazquez
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rdvelazquez
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8423 "EBF site 11 (partition 1)":{
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rdvelazquez
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8424 "attribute type":"branch label",
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rdvelazquez
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8425 "display order":13
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rdvelazquez
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rdvelazquez
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8427 "EBF site 12 (partition 1)":{
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rdvelazquez
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8428 "attribute type":"branch label",
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rdvelazquez
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8429 "display order":14
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rdvelazquez
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rdvelazquez
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8431 "EBF site 16 (partition 1)":{
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rdvelazquez
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8432 "attribute type":"branch label",
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rdvelazquez
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8433 "display order":18
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rdvelazquez
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rdvelazquez
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8435 "EBF site 17 (partition 1)":{
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rdvelazquez
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8436 "attribute type":"branch label",
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rdvelazquez
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8437 "display order":19
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rdvelazquez
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rdvelazquez
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rdvelazquez
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diff changeset
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rdvelazquez
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diff changeset
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diff changeset
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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diff changeset
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rdvelazquez
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diff changeset
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rdvelazquez
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rdvelazquez
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diff changeset
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rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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diff changeset
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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diff changeset
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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diff changeset
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rdvelazquez
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diff changeset
9208 "attribute type":"branch label",
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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diff changeset
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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diff changeset
9210 },
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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diff changeset
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rdvelazquez
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9212 "attribute type":"branch label",
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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diff changeset
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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diff changeset
9214 },
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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rdvelazquez
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diff changeset
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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diff changeset
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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diff changeset
9218 },
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
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rdvelazquez
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9220 "attribute type":"branch label",
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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diff changeset
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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diff changeset
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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diff changeset
9224 "attribute type":"branch label",
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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diff changeset
9225 "display order":562
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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diff changeset
9226 },
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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diff changeset
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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diff changeset
9228 "attribute type":"branch label",
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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diff changeset
9229 "display order":566
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
parents:
diff changeset
9230 }
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
parents:
diff changeset
9231 }
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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diff changeset
9232 },
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
parents:
diff changeset
9233 "MLE":{
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
parents:
diff changeset
9234 "headers":[
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
parents:
diff changeset
9235 ["alpha;", "Synonymous substitution rate at a site"],
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
parents:
diff changeset
9236 ["&beta;<sup>-</sup>", "Non-synonymous substitution rate at a site for the negative/neutral evolution component"],
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
parents:
diff changeset
9237 ["p<sup>-</sup>", "Mixture distribution weight allocated to &beta;<sup>-</sup>; loosely -- the proportion of the tree evolving neutrally or under negative selection"],
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
parents:
diff changeset
9238 ["&beta;<sup>+</sup>", "Non-synonymous substitution rate at a site for the positive/neutral evolution component"],
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
parents:
diff changeset
9239 ["p<sup>+</sup>", "Mixture distribution weight allocated to &beta;<sup>+</sup>; loosely -- the proportion of the tree evolving neutrally or under positive selection"],
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
parents:
diff changeset
9240 ["LRT", "Likelihood ratio test statistic for episodic diversification, i.e., p<sup>+</sup> &gt; 0 <emph>and<emph> &beta;<sup>+</sup> &gt; &alpha;"],
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
parents:
diff changeset
9241 ["p-value", "Asymptotic p-value for episodic diversification, i.e., p<sup>+</sup> &gt; 0 <emph>and<emph> &beta;<sup>+</sup> &gt; &alpha;"],
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
parents:
diff changeset
9242 ["# branches under selection", "The (very approximate and rough) estimate of how many branches may have been under selection at this site, i.e., had an empirical Bayes factor of 100 or more for the &beta;<sup>+</sup> rate"],
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
parents:
diff changeset
9243 ["Total branch length", "The total length of branches contributing to inference at this site, and used to scale dN-dS"]
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
parents:
diff changeset
9244 ],
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
parents:
diff changeset
9245 "content":{
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
parents:
diff changeset
9246 "0":[
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
parents:
diff changeset
9247 [0, 0, 1, 0, 0, 0, 1, 0, 0],
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
parents:
diff changeset
9248 [0, 0, 1, 0, 0, 0, 1, 0, 0],
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
parents:
diff changeset
9249 [3.518153136581004e-17, 3.243045519502881e-17, 1.022166200682819e-08, 1.291751771813077, 0.999999989778338, 0.5894186108086057, 0.4058674930166563, 1, 0.3590955405423049],
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
parents:
diff changeset
9250 [0, 0, 1, 0, 0, 0, 1, 0, 0],
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
parents:
diff changeset
9251 [0, 0, 1, 0, 0, 0, 1, 0, 0],
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
parents:
diff changeset
9252 [0, 0, 1, 0, 0, 0, 1, 0, 0],
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
parents:
diff changeset
9253 [0, 0, 1, 0, 0, 0, 1, 0, 0],
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
parents:
diff changeset
9254 [0, 0, 1.015244473805534e-08, 2.805293595854978, 0.9999999898475552, 1.564165559839974, 0.2310493931422519, 2, 0.7798467493791119],
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
parents:
diff changeset
9255 [3.097517451103013, 3.633546560692318e-13, 0.006739028294327419, 0, 0.9932609717056726, 0, 0.6666666666666666, 0, 0.3592491319023247],
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
parents:
diff changeset
9256 [0, 0, 1.066894692458495e-08, 2.051552228725943, 0.9999999893310531, 0.4229558324457479, 0.4514150344986089, 1, 0.5703133313001572],
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
parents:
diff changeset
9257 [0, 0, 1.001269178443788e-08, 3.944223233914665, 0.9999999899873082, 2.43042776936683, 0.144470531376273, 1, 1.096459091757323],
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
parents:
diff changeset
9258 [4.145693582901539, 1.893694670765467, 1, 1.728430979317008, 0, 0, 0.6666666666666666, 0, 1.007246616185795],
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
parents:
diff changeset
9259 [0, 0, 1, 0, 0, 0, 1, 0, 0],
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
parents:
diff changeset
9260 [0, 0, 1, 0, 0, 0, 1, 0, 0],
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
parents:
diff changeset
9261 [0, 0, 1, 0, 0, 0, 1, 0, 0],
1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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rdvelazquez
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rdvelazquez
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rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
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rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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rdvelazquez
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rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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1fe6d55b5a9b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit b'6da8a2296bb256e47852690cf2221a7c943d8adc\n'-dirty
rdvelazquez
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