diff test-data/meme-out1.json @ 1:b678fe748dc5 draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 2c7a7ff8a55e7584e84335baa3159a63ce7a590c"
author iuc
date Wed, 21 Aug 2019 12:22:30 -0400
parents edabb77ac0d4
children f9a193154a55
line wrap: on
line diff
--- a/test-data/meme-out1.json	Thu Jan 17 04:25:13 2019 -0500
+++ b/test-data/meme-out1.json	Wed Aug 21 12:22:30 2019 -0400
@@ -1,849 +1,748 @@
 {
- "analysis":{
-   "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    ",
-   "version":"2.0.1",
-   "citation":"Detecting Individual Sites Subject to Episodic Diversifying Selection. _PLoS Genet_ 8(7): e1002764.",
-   "authors":"Sergei L. Kosakovsky Pond, Steven Weaver",
-   "contact":"spond@temple.edu",
-   "requirements":"in-frame codon alignment and a phylogenetic tree"
-  },
- "fits":{
-   "Nucleotide GTR":{
-     "Log Likelihood":-4394.17778442101,
-     "estimated parameters":47,
-     "AIC-c":8882.482274823486,
-     "Equilibrium frequencies":[
-      [0.3460163217230355],
-      [0.1876507375623983],
-      [0.2296889898480005],
-      [0.2366439508665657]
-      ],
-     "Rate Distributions":{
-       "Substitution rate from nucleotide A to nucleotide C":0.1602243049428088,
-       "Substitution rate from nucleotide A to nucleotide G":1,
-       "Substitution rate from nucleotide A to nucleotide T":0.1350661843114337,
-       "Substitution rate from nucleotide C to nucleotide G":0.04669906431175039,
-       "Substitution rate from nucleotide C to nucleotide T":1.290725939052547,
-       "Substitution rate from nucleotide G to nucleotide T":0.1442807316736102
-      },
-     "display order":0
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+      [3.061154404304819, 0, 0.00216176808798, 0, 0.99783823191202, 0, 0.6666666666666666, 0, 0.08843180928010583],
+      [3.070342138997149, 0, 0.1049198018154368, 0, 0.8950801981845632, 0, 0.6666666666666666, 0, 0.08869722810409122],
+      [0, 0, 1, 0, 0, 0, 1, 0, 0],
+      [0, 0, 1, 0, 0, 0, 1, 0, 0],
+      [0, 0, 1, 0, 0, 0, 1, 0, 0],
+      [4.769561320193029, 0, 0.1812832787403597, 0, 0.8187167212596403, 0, 0.6666666666666666, 0, 0.1377849272888491],
+      [1.782909487103588, 0, 0.000399847213596, 0, 0.999600152786404, 0, 0.6666666666666666, 0, 0.05150537702558042],
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+      [0, 0, 1, 0, 0, 0, 1, 0, 0],
+      [0, 0, 1, 0, 0, 0, 1, 0, 0],
+      [4.762007467925554, 2.780754057490743, 0.6590908209184688, 9.29121378073753e-05, 0.3409091790815312, 0, 0.6666666666666666, 0, 0.2601324163418038],
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+      [3.772186281145974, 0, 0.10495989356895, 0, 0.89504010643105, 0, 0.6666666666666666, 0, 0.1089723724207528],
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+      [0, 0, 1, 0, 0, 0, 1, 0, 0],
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+      [0, 0, 1, 0, 0, 0, 1, 0, 0],
+      [0, 0, 1, 0, 0, 0, 1, 0, 0] 
+      ]
     },
-   "Global MG94xREV":{
-     "Log Likelihood":-4272.739394378317,
-     "estimated parameters":54,
-     "AIC-c":8653.980859587502,
-     "Equilibrium frequencies":[
-      [0.04794212053691846],
-      [0.02918423386756777],
-      [0.03061835466109362],
-      [0.03395226455636327],
-      [0.02063374857573568],
-      [0.01256056547467788],
-      [0.01317779490778274],
-      [0.01461267216775245],
-      [0.02309512129134449],
-      [0.01405889880167917],
-      [0.01474975672164567],
-      [0.01635579860179934],
-      [0.03032452824999034],
-      [0.01845972006369387],
-      [0.01936683547765817],
-      [0.02147561255447049],
-      [0.02137643485619778],
-      [0.01301266750638816],
-      [0.01365211335015547],
-      [0.01513863724385318],
-      [0.009200176740799796],
-      [0.005600505497450756],
-      [0.005875715784779066],
-      [0.006515498921838312],
-      [0.01029765371767897],
-      [0.006268582428525358],
-      [0.0065766221888793],
-      [0.007292724214466442],
-      [0.01352110201678854],
-      [0.00823082081030041],
-      [0.008635285471781717],
-      [0.009575547089413102],
-      [0.03891475766269277],
-      [0.02368892689369449],
-      [0.02485300688252417],
-      [0.02755915117048418],
-      [0.01674847329457107],
-      [0.01019544726180969],
-      [0.01069645417478218],
-      [0.01186114818960848],
-      [0.0187463766345312],
-      [0.01141164874946168],
-      [0.01197242011780667],
-      [0.01327604894903844],
-      [0.02461450713626915],
-      [0.01498380807429274],
-      [0.01572011627491417],
-      [0.01743181671681681],
-      [0.02096427272215724],
-      [0.0243893513506083],
-      [0.01482209656025475],
-      [0.009022786801619234],
-      [0.009466168876559794],
-      [0.0104969020572672],
-      [0.01009910316608133],
-      [0.0105953757052942],
-      [0.01174906369078435],
-      [0.02178339453036125],
-      [0.01326039969204127],
-      [0.01391201915942615],
-      [0.01542684315477715]
-      ],
-     "Rate Distributions":{
-       "non-synonymous/synonymous rate ratio for *test*":[
-        [0.2936035676191999, 1]
-        ]
-      },
-     "display order":1
-    }
+   "headers":    [
+["alpha;", "Synonymous substitution rate at a site"],
+    ["&beta;<sup>-</sup>", "Non-synonymous substitution rate at a site for the negative/neutral evolution component"],
+    ["p<sup>-</sup>", "Mixture distribution weight allocated to &beta;<sup>-</sup>; loosely -- the proportion of the tree evolving neutrally or under negative selection"],
+    ["&beta;<sup>+</sup>", "Non-synonymous substitution rate at a site for the positive/neutral evolution component"],
+    ["p<sup>+</sup>", "Mixture distribution weight allocated to &beta;<sup>+</sup>; loosely -- the proportion of the tree evolving neutrally or under positive selection"],
+    ["LRT", "Likelihood ratio test statistic for episodic diversification, i.e., p<sup>+</sup> &gt; 0 <emph>and<emph> &beta;<sup>+</sup> &gt; &alpha;"],
+    ["p-value", "Asymptotic p-value for episodic diversification, i.e., p<sup>+</sup> &gt; 0 <emph>and<emph> &beta;<sup>+</sup> &gt; &alpha;"],
+    ["# 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"],
+    ["Total branch length", "The total length of branches contributing to inference at this site, and used to scale dN-dS"] 
+    ]
   },
- "timers":{
-   "Total time":{
-     "timer":816,
-     "order":0
-    },
-   "Model fitting":{
-     "timer":12,
-     "order":1
-    },
-   "MEME analysis":{
-     "timer":803,
-     "order":2
-    }
-  },
- "tested":{
-   "0":{
-     "TREESPARROW_HENAN_1_2004":"test",
-     "TREESPARROW_HENAN_3_2004":"test",
-     "Node6":"test",
-     "TREESPARROW_HENAN_4_2004":"test",
-     "Node5":"test",
-     "CHICKEN_HEBEI_326_2005":"test",
-     "SWINE_ANHUI_1_2004":"test",
-     "TREESPARROW_HENAN_2_2004":"test",
-     "Node12":"test",
-     "Node10":"test",
-     "Node4":"test",
-     "CHICKEN_HONGKONG_915_97":"test",
-     "GOOSE_HONGKONG_W355_97":"test",
-     "DUCK_HONGKONG_Y283_97":"test",
-     "Node19":"test",
-     "Node17":"test",
-     "HONGKONG_1_97_98":"test",
-     "Node16":"test",
-     "HONGKONG_1_538_97":"test",
-     "Node15":"test",
-     "Node3":"test",
-     "DUCK_GUANGZHOU_20_2005":"test",
-     "GOOSE_SHANTOU_2216_2005":"test",
-     "Node26":"test",
-     "PEREGRINEFALCON_HK_D0028_2004":"test",
-     "Node25":"test",
-     "CK_HK_WF157_2003":"test",
-     "Node24":"test",
-     "Node2":"test",
-     "HUMAN_VIETNAM_CL105_2005":"test",
-     "DUCK_VIETNAM_376_2005":"test",
-     "Node33":"test",
-     "HUMAN_VIETNAM_3062_2004":"test",
-     "Node32":"test",
-     "MALLARD_VIETNAM_16_2003":"test",
-     "Node31":"test",
-     "Node1":"test",
-     "CHICKEN_CK_160_2005":"test",
-     "DUCK_VIETNAM_272_2005":"test"
-    }
-  },
- "input":{
-   "file name":"/tmp/tmpv_gXOY/job_working_directory/002/2719/working/meme_input.fa",
-   "number of sequences":21,
-   "number of sites":566,
-   "partition count":1,
-   "trees":{
-     "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)"
-    }
-  },
- "data partitions":{
-   "0":{
-     "name":"meme.filter.default",
-     "coverage":[
-      [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]
-      ]
-    }
+ "analysis":{
+   "authors":"Sergei L. Kosakovsky Pond, Steven Weaver",
+   "citation":"Detecting Individual Sites Subject to Episodic Diversifying Selection. _PLoS Genet_ 8(7): e1002764.",
+   "contact":"spond@temple.edu",
+   "info":"MEME (Mixed Effects Model of Evolution)\n    estimates a site-wise synonymous (&alpha;) and a two-category mixture of non-synonymous\n    (&beta;-, with proportion p-, and &beta;+ with proportion [1-p-]) rates, and\n    uses a likelihood ratio test to determine if &beta;+ > &alpha; 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    ",
+   "requirements":"in-frame codon alignment and a phylogenetic tree",
+   "version":"2.1.1"
   },
  "branch attributes":{
    "0":{
-     "TREESPARROW_HENAN_1_2004":{
-       "original name":"TREESPARROW_HENAN_1_2004",
-       "Nucleotide GTR":0.01066479252384179,
-       "Global MG94xREV":0.01076673590455662,
-       "EBF site 3 (partition 1)":0.9456096051294662,
-       "EBF site 8 (partition 1)":1162.743096991633,
-       "EBF site 9 (partition 1)":1,
-       "EBF site 10 (partition 1)":218.8691185742497,
-       "EBF site 11 (partition 1)":127.9229379574454,
-       "EBF site 12 (partition 1)":1,
-       "EBF site 16 (partition 1)":0.9451095622554209,
-       "EBF site 17 (partition 1)":1,
-       "EBF site 20 (partition 1)":3527.455058707973,
-       "EBF site 21 (partition 1)":176.9630563981623,
-       "EBF site 26 (partition 1)":408.9192237736214,
-       "EBF site 27 (partition 1)":6018.398467534517,
-       "EBF site 28 (partition 1)":1,
-       "EBF site 32 (partition 1)":3526.472765483446,
-       "EBF site 33 (partition 1)":1,
-       "EBF site 34 (partition 1)":1,
-       "EBF site 37 (partition 1)":0.05724236634162533,
-       "EBF site 39 (partition 1)":1,
-       "EBF site 45 (partition 1)":1,
-       "EBF site 49 (partition 1)":1,
-       "EBF site 50 (partition 1)":1,
-       "EBF site 51 (partition 1)":0.9481415983525313,
-       "EBF site 52 (partition 1)":1,
-       "EBF site 54 (partition 1)":1,
-       "EBF site 58 (partition 1)":1,
-       "EBF site 59 (partition 1)":1,
-       "EBF site 60 (partition 1)":0.9841498071715201,
-       "EBF site 61 (partition 1)":0.9461884386551284,
-       "EBF site 62 (partition 1)":1,
-       "EBF site 64 (partition 1)":1,
-       "EBF site 66 (partition 1)":1,
-       "EBF site 68 (partition 1)":1,
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-     "TREESPARROW_HENAN_4_2004":{
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-     "CHICKEN_HEBEI_326_2005":{
-       "original name":"CHICKEN_HEBEI_326_2005",
-       "Nucleotide GTR":0.01918340076972257,
-       "Global MG94xREV":0.01967816199388366,
-       "EBF site 3 (partition 1)":201.3664072283461,
-       "EBF site 8 (partition 1)":0.815982228470628,
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-       "EBF site 60 (partition 1)":1.374217218769874,
-       "EBF site 61 (partition 1)":0.9045285513937416,
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@@ -854,418 +753,168 @@
        "EBF site 77 (partition 1)":1,
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        "EBF site 79 (partition 1)":1,
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-       "EBF site 104 (partition 1)":239.5003012847062,
+       "EBF site 9 (partition 1)":1,
+       "EBF site 99 (partition 1)":0.8808503402352853,
+       "Global MG94xREV":0.007175724053468586,
+       "Nucleotide GTR":0.007145880346319336,
+       "original name":"CHICKEN_CK_160_2005"
+      },
+     "CHICKEN_HEBEI_326_2005":{
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-     "CHICKEN_HONGKONG_915_97":{
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-     "HUMAN_VIETNAM_3062_2004":{
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-       "EBF site 3 (partition 1)":0.9906300263401322,
-       "EBF site 8 (partition 1)":0.9802039169342038,
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-       "EBF site 10 (partition 1)":0.9808293444361174,
-       "EBF site 11 (partition 1)":0.9705900155743928,
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-       "EBF site 16 (partition 1)":0.9905896490842624,
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-       "EBF site 20 (partition 1)":0.9898122472084587,
-       "EBF site 21 (partition 1)":0.9812588963586316,
-       "EBF site 26 (partition 1)":0.9907871698623617,
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-       "EBF site 32 (partition 1)":0.9883416142293756,
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-       "EBF site 37 (partition 1)":0.2087588063223586,
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-       "EBF site 51 (partition 1)":0.9910771564013806,
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-       "EBF site 58 (partition 1)":1,
-       "EBF site 59 (partition 1)":1,
-       "EBF site 60 (partition 1)":0.9973009794896002,
-       "EBF site 61 (partition 1)":0.9907596345007754,
+       "EBF site 60 (partition 1)":1,
+       "EBF site 61 (partition 1)":1,
        "EBF site 62 (partition 1)":1,
        "EBF site 64 (partition 1)":1,
        "EBF site 66 (partition 1)":1,
@@ -1276,207 +925,168 @@
        "EBF site 77 (partition 1)":1,
        "EBF site 78 (partition 1)":1,
        "EBF site 79 (partition 1)":1,
-       "EBF site 80 (partition 1)":1,
+       "EBF site 8 (partition 1)":1,
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        "EBF site 86 (partition 1)":1,
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-       "EBF site 99 (partition 1)":0.9811666303409784,
-       "EBF site 100 (partition 1)":0.976525779087449,
-       "EBF site 102 (partition 1)":0.9735693660705761,
-       "EBF site 104 (partition 1)":0.9908584529896285,
+       "EBF site 9 (partition 1)":1,
+       "EBF site 99 (partition 1)":0.6672375608474398,
+       "Global MG94xREV":0.02385327399859699,
+       "Nucleotide GTR":0.02307716026671574,
+       "original name":"CHICKEN_HEBEI_326_2005"
+      },
+     "CHICKEN_HONGKONG_915_97":{
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-       "EBF site 492 (partition 1)":0.9767024855007604,
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-       "EBF site 506 (partition 1)":0.7477216522977915,
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-       "EBF site 558 (partition 1)":0.9762431532734251,
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        "EBF site 560 (partition 1)":1,
-       "EBF site 564 (partition 1)":1
-      },
-     "GOOSE_HONGKONG_W355_97":{
-       "original name":"GOOSE_HONGKONG_W355_97",
-       "Nucleotide GTR":0,
-       "Global MG94xREV":0,
-       "EBF site 3 (partition 1)":1.000000004454476,
-       "EBF site 8 (partition 1)":0.9999999964832573,
-       "EBF site 9 (partition 1)":1,
-       "EBF site 10 (partition 1)":0.9999999977938284,
-       "EBF site 11 (partition 1)":0.9999999997642667,
-       "EBF site 12 (partition 1)":1,
-       "EBF site 16 (partition 1)":0.9999999982866217,
-       "EBF site 17 (partition 1)":1,
-       "EBF site 20 (partition 1)":1,
-       "EBF site 21 (partition 1)":0.9999999977979862,
-       "EBF site 26 (partition 1)":0.9999999951179953,
-       "EBF site 27 (partition 1)":1,
-       "EBF site 28 (partition 1)":1,
-       "EBF site 32 (partition 1)":1,
-       "EBF site 33 (partition 1)":1,
-       "EBF site 34 (partition 1)":1,
-       "EBF site 37 (partition 1)":1,
-       "EBF site 39 (partition 1)":1,
-       "EBF site 45 (partition 1)":1,
-       "EBF site 49 (partition 1)":1,
-       "EBF site 50 (partition 1)":1,
-       "EBF site 51 (partition 1)":1.000000003389824,
-       "EBF site 52 (partition 1)":1,
-       "EBF site 54 (partition 1)":1,
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        "EBF site 58 (partition 1)":1,
        "EBF site 59 (partition 1)":1,
-       "EBF site 60 (partition 1)":1.000000001960442,
-       "EBF site 61 (partition 1)":1.00000000540656,
+       "EBF site 60 (partition 1)":1,
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        "EBF site 62 (partition 1)":1,
        "EBF site 64 (partition 1)":1,
        "EBF site 66 (partition 1)":1,
@@ -1487,207 +1097,168 @@
        "EBF site 77 (partition 1)":1,
        "EBF site 78 (partition 1)":1,
        "EBF site 79 (partition 1)":1,
-       "EBF site 80 (partition 1)":1,
+       "EBF site 8 (partition 1)":1,
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        "EBF site 84 (partition 1)":1,
        "EBF site 86 (partition 1)":1,
        "EBF site 89 (partition 1)":1,
-       "EBF site 91 (partition 1)":1,
-       "EBF site 99 (partition 1)":1,
-       "EBF site 100 (partition 1)":0.999999996075426,
-       "EBF site 102 (partition 1)":0.999999997786059,
-       "EBF site 104 (partition 1)":1.000000001910872,
+       "EBF site 9 (partition 1)":1,
+       "EBF site 99 (partition 1)":0.9893523071378251,
+       "Global MG94xREV":0.0005960633860178878,
+       "Nucleotide GTR":0.0005880667993917226,
+       "original name":"CHICKEN_HONGKONG_915_97"
+      },
+     "CK_HK_WF157_2003":{
+       "EBF site 10 (partition 1)":1,
+       "EBF site 100 (partition 1)":1,
+       "EBF site 102 (partition 1)":1379.756035017705,
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        "EBF site 107 (partition 1)":1,
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-       "EBF site 110 (partition 1)":0.9999999999623042,
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        "EBF site 112 (partition 1)":1,
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        "EBF site 117 (partition 1)":1,
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        "EBF site 140 (partition 1)":1,
-       "EBF site 142 (partition 1)":1.000000000108778,
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-       "EBF site 145 (partition 1)":1.000000002037219,
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-       "EBF site 150 (partition 1)":1,
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-       "EBF site 154 (partition 1)":1,
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        "EBF site 279 (partition 1)":1,
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        "EBF site 481 (partition 1)":1,
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        "EBF site 488 (partition 1)":1,
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        "EBF site 494 (partition 1)":1,
        "EBF site 499 (partition 1)":1,
-       "EBF site 500 (partition 1)":1,
-       "EBF site 506 (partition 1)":1,
+       "EBF site 50 (partition 1)":1,
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        "EBF site 507 (partition 1)":1,
-       "EBF site 508 (partition 1)":1,
        "EBF site 509 (partition 1)":1,
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        "EBF site 519 (partition 1)":1,
-       "EBF site 527 (partition 1)":0.9999999985042536,
-       "EBF site 529 (partition 1)":1.000000002003295,
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        "EBF site 537 (partition 1)":1,
-       "EBF site 538 (partition 1)":1,
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-       "EBF site 558 (partition 1)":1,
+       "EBF site 558 (partition 1)":0.8807204271780398,
        "EBF site 560 (partition 1)":1,
-       "EBF site 564 (partition 1)":1
-      },
-     "DUCK_HONGKONG_Y283_97":{
-       "original name":"DUCK_HONGKONG_Y283_97",
-       "Nucleotide GTR":0,
-       "Global MG94xREV":0,
-       "EBF site 3 (partition 1)":1.000000004454476,
-       "EBF site 8 (partition 1)":0.9999999964832573,
-       "EBF site 9 (partition 1)":1,
-       "EBF site 10 (partition 1)":0.9999999977938284,
-       "EBF site 11 (partition 1)":0.9999999997642667,
-       "EBF site 12 (partition 1)":1,
-       "EBF site 16 (partition 1)":0.9999999982866217,
-       "EBF site 17 (partition 1)":1,
-       "EBF site 20 (partition 1)":1,
-       "EBF site 21 (partition 1)":0.9999999977979862,
-       "EBF site 26 (partition 1)":0.9999999951179953,
-       "EBF site 27 (partition 1)":1,
-       "EBF site 28 (partition 1)":1,
-       "EBF site 32 (partition 1)":1,
-       "EBF site 33 (partition 1)":1,
-       "EBF site 34 (partition 1)":1,
-       "EBF site 37 (partition 1)":1,
-       "EBF site 39 (partition 1)":1,
-       "EBF site 45 (partition 1)":1,
-       "EBF site 49 (partition 1)":1,
-       "EBF site 50 (partition 1)":1,
-       "EBF site 51 (partition 1)":1.000000003389824,
-       "EBF site 52 (partition 1)":1,
-       "EBF site 54 (partition 1)":1,
+       "EBF site 564 (partition 1)":1,
        "EBF site 58 (partition 1)":1,
        "EBF site 59 (partition 1)":1,
-       "EBF site 60 (partition 1)":1.000000001960442,
-       "EBF site 61 (partition 1)":1.00000000540656,
+       "EBF site 60 (partition 1)":1,
+       "EBF site 61 (partition 1)":1,
        "EBF site 62 (partition 1)":1,
        "EBF site 64 (partition 1)":1,
        "EBF site 66 (partition 1)":1,
@@ -1698,207 +1269,168 @@
        "EBF site 77 (partition 1)":1,
        "EBF site 78 (partition 1)":1,
        "EBF site 79 (partition 1)":1,
-       "EBF site 80 (partition 1)":1,
+       "EBF site 8 (partition 1)":1,
        "EBF site 81 (partition 1)":1,
        "EBF site 84 (partition 1)":1,
        "EBF site 86 (partition 1)":1,
        "EBF site 89 (partition 1)":1,
-       "EBF site 91 (partition 1)":1,
-       "EBF site 99 (partition 1)":1,
-       "EBF site 100 (partition 1)":0.999999996075426,
-       "EBF site 102 (partition 1)":0.999999997786059,
-       "EBF site 104 (partition 1)":1.000000001910872,
+       "EBF site 9 (partition 1)":1,
+       "EBF site 99 (partition 1)":0.8814241490294908,
+       "Global MG94xREV":0.007138402704329205,
+       "Nucleotide GTR":0.007037915764630463,
+       "original name":"CK_HK_WF157_2003"
+      },
+     "GOOSE_HONGKONG_W355_97":{
+       "EBF site 10 (partition 1)":1,
+       "EBF site 100 (partition 1)":1,
+       "EBF site 102 (partition 1)":0.8777289496419938,
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        "EBF site 107 (partition 1)":1,
        "EBF site 109 (partition 1)":1,
-       "EBF site 110 (partition 1)":0.9999999999623042,
+       "EBF site 11 (partition 1)":1,
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        "EBF site 112 (partition 1)":1,
        "EBF site 113 (partition 1)":1,
        "EBF site 117 (partition 1)":1,
-       "EBF site 128 (partition 1)":1,
-       "EBF site 131 (partition 1)":1,
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        "EBF site 136 (partition 1)":1,
-       "EBF site 139 (partition 1)":1,
        "EBF site 140 (partition 1)":1,
-       "EBF site 142 (partition 1)":1.000000000108778,
-       "EBF site 143 (partition 1)":1,
-       "EBF site 145 (partition 1)":1.000000002037219,
+       "EBF site 142 (partition 1)":1,
+       "EBF site 145 (partition 1)":0.9990802771705413,
        "EBF site 146 (partition 1)":1,
        "EBF site 147 (partition 1)":1,
-       "EBF site 150 (partition 1)":1,
+       "EBF site 150 (partition 1)":0.9980516398241603,
        "EBF site 152 (partition 1)":1,
        "EBF site 153 (partition 1)":1,
-       "EBF site 154 (partition 1)":1,
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        "EBF site 155 (partition 1)":1,
-       "EBF site 156 (partition 1)":1.000000004606383,
-       "EBF site 157 (partition 1)":0.999999996366886,
-       "EBF site 167 (partition 1)":1,
+       "EBF site 156 (partition 1)":1,
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+       "EBF site 167 (partition 1)":0.9803796983900606,
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        "EBF site 170 (partition 1)":1,
-       "EBF site 171 (partition 1)":1.000000004708058,
-       "EBF site 172 (partition 1)":1.000000002345886,
-       "EBF site 173 (partition 1)":1,
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        "EBF site 175 (partition 1)":1,
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-       "EBF site 179 (partition 1)":0.9999999967984248,
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        "EBF site 181 (partition 1)":1,
-       "EBF site 185 (partition 1)":1,
-       "EBF site 191 (partition 1)":1,
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        "EBF site 195 (partition 1)":1,
        "EBF site 196 (partition 1)":1,
        "EBF site 197 (partition 1)":1,
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+       "EBF site 211 (partition 1)":0.9980181864097681,
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-       "EBF site 214 (partition 1)":1,
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-     "DUCK_VIETNAM_376_2005":{
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-       "EBF site 8 (partition 1)":0.9103029121772825,
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-       "EBF site 51 (partition 1)":0.9586918192169548,
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-       "EBF site 60 (partition 1)":0.9874069141126161,
-       "EBF site 61 (partition 1)":0.9571563752066132,
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@@ -1909,418 +1441,168 @@
        "EBF site 77 (partition 1)":1,
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        "EBF site 79 (partition 1)":1,
-       "EBF site 80 (partition 1)":1,
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-       "EBF site 104 (partition 1)":0.9576152231821882,
+       "EBF site 9 (partition 1)":1,
+       "EBF site 99 (partition 1)":0.9979824063197961,
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+       "Nucleotide GTR":0.0001122503888485257,
+       "original name":"GOOSE_HONGKONG_W355_97"
+      },
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-     "MALLARD_VIETNAM_16_2003":{
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-       "Nucleotide GTR":0.00355551262918992,
-       "Global MG94xREV":0.003602318751584569,
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-       "EBF site 8 (partition 1)":0.9607301024530821,
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-       "EBF site 560 (partition 1)":1,
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-      },
-     "CHICKEN_CK_160_2005":{
-       "original name":"CHICKEN_CK_160_2005",
-       "Nucleotide GTR":0.006564644089644057,
-       "Global MG94xREV":0.006696317239039201,
-       "EBF site 3 (partition 1)":0.9656566441068151,
-       "EBF site 8 (partition 1)":0.9285284291514248,
-       "EBF site 9 (partition 1)":1,
-       "EBF site 10 (partition 1)":0.9308598963843883,
-       "EBF site 11 (partition 1)":0.8958984487588691,
-       "EBF site 12 (partition 1)":1,
-       "EBF site 16 (partition 1)":0.9654154145805287,
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-       "EBF site 20 (partition 1)":0.9626076792970237,
-       "EBF site 21 (partition 1)":0.9323992745911285,
-       "EBF site 26 (partition 1)":0.9662016253872076,
-       "EBF site 27 (partition 1)":0.9092602088436235,
-       "EBF site 28 (partition 1)":1,
-       "EBF site 32 (partition 1)":0.9573809615898511,
-       "EBF site 33 (partition 1)":1,
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-       "EBF site 37 (partition 1)":0.08000394285014073,
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-       "EBF site 49 (partition 1)":1,
-       "EBF site 50 (partition 1)":1,
-       "EBF site 51 (partition 1)":0.9672734312822182,
-       "EBF site 52 (partition 1)":1,
-       "EBF site 54 (partition 1)":1,
-       "EBF site 58 (partition 1)":1,
-       "EBF site 59 (partition 1)":1,
-       "EBF site 60 (partition 1)":0.9900438636503005,
-       "EBF site 61 (partition 1)":0.9660708260504639,
+       "EBF site 60 (partition 1)":1,
+       "EBF site 61 (partition 1)":1,
        "EBF site 62 (partition 1)":1,
        "EBF site 64 (partition 1)":1,
        "EBF site 66 (partition 1)":1,
@@ -2331,207 +1613,168 @@
        "EBF site 77 (partition 1)":1,
        "EBF site 78 (partition 1)":1,
        "EBF site 79 (partition 1)":1,
-       "EBF site 80 (partition 1)":1,
+       "EBF site 8 (partition 1)":1,
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        "EBF site 84 (partition 1)":1,
        "EBF site 86 (partition 1)":1,
        "EBF site 89 (partition 1)":1,
-       "EBF site 91 (partition 1)":1,
-       "EBF site 99 (partition 1)":0.9319346235755531,
-       "EBF site 100 (partition 1)":0.9161385657384337,
-       "EBF site 102 (partition 1)":105.8781665435946,
-       "EBF site 104 (partition 1)":0.9664340577878574,
+       "EBF site 9 (partition 1)":1,
+       "EBF site 99 (partition 1)":0.8612043671212002,
+       "Global MG94xREV":0.008478136758765393,
+       "Nucleotide GTR":0.006212833720293081,
+       "original name":"GOOSE_SHANTOU_2216_2005"
+      },
+     "HONGKONG_1_538_97":{
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        "EBF site 107 (partition 1)":1,
        "EBF site 109 (partition 1)":1,
-       "EBF site 110 (partition 1)":0.9316168150517212,
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-       "EBF site 113 (partition 1)":0.6411626984748268,
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-       "EBF site 131 (partition 1)":0.9464279933499851,
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        "EBF site 140 (partition 1)":1,
-       "EBF site 142 (partition 1)":0.901229693435297,
-       "EBF site 143 (partition 1)":0.6189271060664825,
-       "EBF site 145 (partition 1)":0.9745115494415201,
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-       "EBF site 150 (partition 1)":0.9317668629623537,
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-       "EBF site 154 (partition 1)":0.6428030967020025,
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-       "EBF site 156 (partition 1)":0.8135079284511934,
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-       "EBF site 172 (partition 1)":0.8585009142575097,
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-       "EBF site 179 (partition 1)":0.8981463585465627,
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-       "EBF site 191 (partition 1)":0.9274282510762,
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-       "EBF site 200 (partition 1)":0.9655837893824482,
-       "EBF site 201 (partition 1)":0.9332867971303134,
-       "EBF site 204 (partition 1)":0.7505192193979368,
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-       "EBF site 492 (partition 1)":0.9167232306589276,
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-       "EBF site 506 (partition 1)":0.3741695564636963,
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-       "EBF site 558 (partition 1)":1066.021992686242,
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        "EBF site 560 (partition 1)":1,
-       "EBF site 564 (partition 1)":1
-      },
-     "DUCK_GUANGZHOU_20_2005":{
-       "original name":"DUCK_GUANGZHOU_20_2005",
-       "Nucleotide GTR":0.006543973858645086,
-       "Global MG94xREV":0.006650482064933933,
-       "EBF site 3 (partition 1)":0.9658868329405114,
-       "EBF site 8 (partition 1)":0.9324655735391838,
-       "EBF site 9 (partition 1)":1,
-       "EBF site 10 (partition 1)":0.9313153554276732,
-       "EBF site 11 (partition 1)":0.9132834620362205,
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-       "EBF site 16 (partition 1)":0.9656473696951859,
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-       "EBF site 20 (partition 1)":0.9628579782308547,
-       "EBF site 21 (partition 1)":0.9328456926452565,
-       "EBF site 26 (partition 1)":0.966428267758947,
-       "EBF site 27 (partition 1)":0.9098435054089957,
-       "EBF site 28 (partition 1)":1,
-       "EBF site 32 (partition 1)":0.9576649916476296,
-       "EBF site 33 (partition 1)":1,
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-       "EBF site 37 (partition 1)":0.08041777051266696,
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-       "EBF site 51 (partition 1)":0.9674929635425732,
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-       "EBF site 54 (partition 1)":1,
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        "EBF site 58 (partition 1)":1,
        "EBF site 59 (partition 1)":1,
-       "EBF site 60 (partition 1)":0.9901134441914786,
-       "EBF site 61 (partition 1)":0.9662983537837204,
+       "EBF site 60 (partition 1)":1,
+       "EBF site 61 (partition 1)":1,
        "EBF site 62 (partition 1)":1,
        "EBF site 64 (partition 1)":1,
        "EBF site 66 (partition 1)":1,
@@ -2542,207 +1785,168 @@
        "EBF site 77 (partition 1)":1,
        "EBF site 78 (partition 1)":1,
        "EBF site 79 (partition 1)":1,
-       "EBF site 80 (partition 1)":1,
+       "EBF site 8 (partition 1)":1,
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        "EBF site 84 (partition 1)":1,
        "EBF site 86 (partition 1)":1,
        "EBF site 89 (partition 1)":1,
-       "EBF site 91 (partition 1)":1,
-       "EBF site 99 (partition 1)":0.9323808052834754,
-       "EBF site 100 (partition 1)":113.1564658761383,
-       "EBF site 102 (partition 1)":0.8974704618610457,
-       "EBF site 104 (partition 1)":0.9666591751582015,
+       "EBF site 9 (partition 1)":1,
+       "EBF site 99 (partition 1)":1,
+       "Global MG94xREV":0,
+       "Nucleotide GTR":0,
+       "original name":"HONGKONG_1_538_97"
+      },
+     "HONGKONG_1_97_98":{
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+       "EBF site 102 (partition 1)":0.0887845880768766,
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        "EBF site 109 (partition 1)":1,
-       "EBF site 110 (partition 1)":0.9320678990026473,
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-       "EBF site 113 (partition 1)":0.6347561113594405,
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-       "EBF site 128 (partition 1)":1,
-       "EBF site 131 (partition 1)":0.9467825439084255,
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-       "EBF site 142 (partition 1)":0.9018779467891175,
-       "EBF site 143 (partition 1)":8911.271510419441,
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-       "EBF site 150 (partition 1)":0.9322140995199317,
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-       "EBF site 154 (partition 1)":0.6704561525510387,
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-       "EBF site 157 (partition 1)":0.8649810299933941,
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-       "EBF site 558 (partition 1)":0.915366329883305,
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-      },
-     "CK_HK_WF157_2003":{
-       "original name":"CK_HK_WF157_2003",
-       "Nucleotide GTR":0.006579217513757813,
-       "Global MG94xREV":0.006689704249997951,
-       "EBF site 3 (partition 1)":0.9656909091743442,
-       "EBF site 8 (partition 1)":0.9321266099815247,
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-       "EBF site 10 (partition 1)":0.9309320462043673,
-       "EBF site 11 (partition 1)":0.8960515948322754,
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-       "EBF site 16 (partition 1)":0.9654491599151163,
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-       "EBF site 20 (partition 1)":0.9626440605403142,
-       "EBF site 21 (partition 1)":0.9324696000061263,
-       "EBF site 26 (partition 1)":0.9662351623434289,
-       "EBF site 27 (partition 1)":0.9093469461480688,
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-       "EBF site 32 (partition 1)":0.9574225848893132,
-       "EBF site 33 (partition 1)":1,
-       "EBF site 34 (partition 1)":1,
-       "EBF site 37 (partition 1)":0.08006464217414724,
-       "EBF site 39 (partition 1)":1,
-       "EBF site 45 (partition 1)":1,
-       "EBF site 49 (partition 1)":1,
-       "EBF site 50 (partition 1)":1,
-       "EBF site 51 (partition 1)":0.9673075685896347,
-       "EBF site 52 (partition 1)":1,
-       "EBF site 54 (partition 1)":1,
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        "EBF site 58 (partition 1)":1,
        "EBF site 59 (partition 1)":1,
-       "EBF site 60 (partition 1)":0.9900539013026975,
-       "EBF site 61 (partition 1)":0.9661045271014564,
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        "EBF site 62 (partition 1)":1,
        "EBF site 64 (partition 1)":1,
        "EBF site 66 (partition 1)":1,
@@ -2753,207 +1957,168 @@
        "EBF site 77 (partition 1)":1,
        "EBF site 78 (partition 1)":1,
        "EBF site 79 (partition 1)":1,
-       "EBF site 80 (partition 1)":1,
+       "EBF site 8 (partition 1)":1,
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        "EBF site 84 (partition 1)":1,
        "EBF site 86 (partition 1)":1,
        "EBF site 89 (partition 1)":1,
-       "EBF site 91 (partition 1)":1,
-       "EBF site 99 (partition 1)":0.9319997044375546,
-       "EBF site 100 (partition 1)":0.8939579251965307,
-       "EBF site 102 (partition 1)":324.2188737795408,
-       "EBF site 104 (partition 1)":0.9664671122697169,
+       "EBF site 9 (partition 1)":1,
+       "EBF site 99 (partition 1)":0.9260580476744792,
+       "Global MG94xREV":0.004315099710833928,
+       "Nucleotide GTR":0.004255811615041097,
+       "original name":"HONGKONG_1_97_98"
+      },
+     "HUMAN_VIETNAM_3062_2004":{
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+       "EBF site 102 (partition 1)":0.2759123777588493,
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        "EBF site 107 (partition 1)":1,
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-       "EBF site 110 (partition 1)":0.931689895446618,
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-       "EBF site 113 (partition 1)":376.5430399059064,
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-       "EBF site 128 (partition 1)":1,
-       "EBF site 131 (partition 1)":0.9464825684912992,
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-       "EBF site 139 (partition 1)":0.9648229438118399,
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-       "EBF site 142 (partition 1)":0.9013475941409462,
-       "EBF site 143 (partition 1)":0.6192049724669081,
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-       "EBF site 150 (partition 1)":0.9318321059309381,
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-       "EBF site 191 (partition 1)":0.927505853160328,
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-       "EBF site 403 (partition 1)":0.9660907284097803,
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        "EBF site 408 (partition 1)":1,
        "EBF site 417 (partition 1)":1,
        "EBF site 424 (partition 1)":1,
        "EBF site 429 (partition 1)":1,
        "EBF site 431 (partition 1)":1,
+       "EBF site 433 (partition 1)":1,
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        "EBF site 445 (partition 1)":1,
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-       "EBF site 462 (partition 1)":0.9367857487681674,
-       "EBF site 466 (partition 1)":0.8680583968261797,
-       "EBF site 471 (partition 1)":1,
-       "EBF site 473 (partition 1)":1,
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        "EBF site 478 (partition 1)":1,
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        "EBF site 488 (partition 1)":1,
-       "EBF site 489 (partition 1)":0.9662076842902607,
-       "EBF site 492 (partition 1)":0.9168064988146389,
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        "EBF site 494 (partition 1)":1,
-       "EBF site 499 (partition 1)":0.39826869298857,
-       "EBF site 500 (partition 1)":1,
-       "EBF site 506 (partition 1)":826.2393141477881,
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        "EBF site 507 (partition 1)":1,
-       "EBF site 508 (partition 1)":1,
        "EBF site 509 (partition 1)":1,
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        "EBF site 513 (partition 1)":1,
        "EBF site 514 (partition 1)":1,
-       "EBF site 515 (partition 1)":0.2504604229182272,
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        "EBF site 519 (partition 1)":1,
-       "EBF site 527 (partition 1)":0.9353309878306851,
-       "EBF site 529 (partition 1)":0.9659899851904508,
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        "EBF site 537 (partition 1)":1,
-       "EBF site 538 (partition 1)":1,
        "EBF site 539 (partition 1)":1,
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        "EBF site 549 (partition 1)":1,
        "EBF site 553 (partition 1)":1,
-       "EBF site 558 (partition 1)":0.9148945816065093,
+       "EBF site 558 (partition 1)":0.968105960267864,
        "EBF site 560 (partition 1)":1,
-       "EBF site 564 (partition 1)":1
-      },
-     "SWINE_ANHUI_1_2004":{
-       "original name":"SWINE_ANHUI_1_2004",
-       "Nucleotide GTR":0.01028807762625412,
-       "Global MG94xREV":0.01045341754044692,
-       "EBF site 3 (partition 1)":0.9473507341627828,
-       "EBF site 8 (partition 1)":0.8964189476211573,
-       "EBF site 9 (partition 1)":1,
-       "EBF site 10 (partition 1)":0.8948668607623241,
-       "EBF site 11 (partition 1)":0.8448237339111392,
-       "EBF site 12 (partition 1)":1,
-       "EBF site 16 (partition 1)":177.2144652756125,
-       "EBF site 17 (partition 1)":1,
-       "EBF site 20 (partition 1)":0.9423822521286482,
-       "EBF site 21 (partition 1)":78.43372664696247,
-       "EBF site 26 (partition 1)":0.9479395734938442,
-       "EBF site 27 (partition 1)":0.8633887522501467,
-       "EBF site 28 (partition 1)":1,
-       "EBF site 32 (partition 1)":0.9345267666922183,
-       "EBF site 33 (partition 1)":1,
-       "EBF site 34 (partition 1)":1,
-       "EBF site 37 (partition 1)":0.05823955322720196,
-       "EBF site 39 (partition 1)":1,
-       "EBF site 45 (partition 1)":1,
-       "EBF site 49 (partition 1)":1,
-       "EBF site 50 (partition 1)":1,
-       "EBF site 51 (partition 1)":0.9496003957872833,
-       "EBF site 52 (partition 1)":1,
-       "EBF site 54 (partition 1)":1,
+       "EBF site 564 (partition 1)":1,
        "EBF site 58 (partition 1)":1,
        "EBF site 59 (partition 1)":1,
-       "EBF site 60 (partition 1)":0.9846799934281137,
-       "EBF site 61 (partition 1)":0.9477028382676119,
+       "EBF site 60 (partition 1)":1,
+       "EBF site 61 (partition 1)":1,
        "EBF site 62 (partition 1)":1,
        "EBF site 64 (partition 1)":1,
        "EBF site 66 (partition 1)":1,
@@ -2964,207 +2129,168 @@
        "EBF site 77 (partition 1)":1,
        "EBF site 78 (partition 1)":1,
        "EBF site 79 (partition 1)":1,
-       "EBF site 80 (partition 1)":1,
+       "EBF site 8 (partition 1)":1,
        "EBF site 81 (partition 1)":1,
        "EBF site 84 (partition 1)":1,
        "EBF site 86 (partition 1)":1,
        "EBF site 89 (partition 1)":1,
-       "EBF site 91 (partition 1)":1,
-       "EBF site 99 (partition 1)":0.8963264779933855,
-       "EBF site 100 (partition 1)":82.58800819054494,
-       "EBF site 102 (partition 1)":0.84491025209221,
-       "EBF site 104 (partition 1)":0.9484200845824684,
+       "EBF site 9 (partition 1)":1,
+       "EBF site 99 (partition 1)":0.9683042684597656,
+       "Global MG94xREV":0.001798825297134293,
+       "Nucleotide GTR":0.001785073334670078,
+       "original name":"HUMAN_VIETNAM_3062_2004"
+      },
+     "HUMAN_VIETNAM_CL105_2005":{
+       "EBF site 10 (partition 1)":1,
+       "EBF site 100 (partition 1)":1,
+       "EBF site 102 (partition 1)":0.08079671030388207,
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        "EBF site 107 (partition 1)":1,
        "EBF site 109 (partition 1)":1,
-       "EBF site 110 (partition 1)":0.8959877857640357,
+       "EBF site 11 (partition 1)":1,
+       "EBF site 110 (partition 1)":1,
        "EBF site 112 (partition 1)":1,
-       "EBF site 113 (partition 1)":0.5165317767697698,
+       "EBF site 113 (partition 1)":1,
        "EBF site 117 (partition 1)":1,
-       "EBF site 128 (partition 1)":1,
-       "EBF site 131 (partition 1)":0.9182934114919091,
+       "EBF site 12 (partition 1)":1,
        "EBF site 136 (partition 1)":1,
-       "EBF site 139 (partition 1)":0.9457124257644358,
        "EBF site 140 (partition 1)":1,
-       "EBF site 142 (partition 1)":0.853326347490033,
-       "EBF site 143 (partition 1)":0.4878886060038336,
-       "EBF site 145 (partition 1)":0.9438606626379387,
+       "EBF site 142 (partition 1)":1,
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        "EBF site 146 (partition 1)":1,
        "EBF site 147 (partition 1)":1,
-       "EBF site 150 (partition 1)":0.8960775065414761,
+       "EBF site 150 (partition 1)":312.3835033944718,
        "EBF site 152 (partition 1)":1,
        "EBF site 153 (partition 1)":1,
-       "EBF site 154 (partition 1)":25.09413438088676,
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        "EBF site 155 (partition 1)":1,
-       "EBF site 156 (partition 1)":4.499756971788964,
-       "EBF site 157 (partition 1)":50.30770762147371,
-       "EBF site 167 (partition 1)":0.3300399268347061,
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+       "EBF site 167 (partition 1)":0.3369366653567789,
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        "EBF site 170 (partition 1)":1,
-       "EBF site 171 (partition 1)":0.8967388115950629,
-       "EBF site 172 (partition 1)":5.942799200194697,
-       "EBF site 173 (partition 1)":1,
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        "EBF site 175 (partition 1)":1,
-       "EBF site 178 (partition 1)":0.3408185413691375,
-       "EBF site 179 (partition 1)":0.8880985742086042,
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        "EBF site 181 (partition 1)":1,
-       "EBF site 185 (partition 1)":0.03580613030726361,
-       "EBF site 191 (partition 1)":0.8899599465249952,
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        "EBF site 195 (partition 1)":1,
        "EBF site 196 (partition 1)":1,
        "EBF site 197 (partition 1)":1,
-       "EBF site 200 (partition 1)":0.946935411453702,
-       "EBF site 201 (partition 1)":0.8983357051692643,
-       "EBF site 204 (partition 1)":0.5999492105734479,
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        "EBF site 206 (partition 1)":1,
        "EBF site 209 (partition 1)":1,
-       "EBF site 211 (partition 1)":0.8957694185779095,
-       "EBF site 212 (partition 1)":1,
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-       "EBF site 214 (partition 1)":0.3193222052208656,
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        "EBF site 224 (partition 1)":1,
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-       "EBF site 228 (partition 1)":0.9039203126417032,
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        "EBF site 231 (partition 1)":1,
-       "EBF site 233 (partition 1)":0.9486244807972981,
-       "EBF site 235 (partition 1)":0.9373058345866213,
-       "EBF site 236 (partition 1)":1,
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        "EBF site 241 (partition 1)":1,
-       "EBF site 242 (partition 1)":0.9382222303426924,
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        "EBF site 254 (partition 1)":1,
        "EBF site 256 (partition 1)":1,
-       "EBF site 258 (partition 1)":0.9482459440040046,
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        "EBF site 271 (partition 1)":1,
        "EBF site 278 (partition 1)":1,
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-       "EBF site 282 (partition 1)":1,
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        "EBF site 288 (partition 1)":1,
        "EBF site 291 (partition 1)":1,
-       "EBF site 293 (partition 1)":1,
-       "EBF site 296 (partition 1)":1,
-       "EBF site 298 (partition 1)":0.6176628198208322,
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        "EBF site 304 (partition 1)":1,
        "EBF site 306 (partition 1)":1,
        "EBF site 309 (partition 1)":1,
-       "EBF site 311 (partition 1)":1,
        "EBF site 312 (partition 1)":1,
-       "EBF site 315 (partition 1)":0.9481627397340481,
-       "EBF site 317 (partition 1)":1,
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        "EBF site 327 (partition 1)":1,
        "EBF site 328 (partition 1)":1,
        "EBF site 329 (partition 1)":1,
-       "EBF site 331 (partition 1)":1,
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-       "EBF site 336 (partition 1)":0.0836136348389323,
-       "EBF site 338 (partition 1)":0.6318602011662815,
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-       "EBF site 341 (partition 1)":0.7964357547120917,
-       "EBF site 342 (partition 1)":0.9481158220139241,
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        "EBF site 361 (partition 1)":1,
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-       "EBF site 377 (partition 1)":1,
        "EBF site 379 (partition 1)":1,
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-       "EBF site 384 (partition 1)":0.8937010810097756,
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        "EBF site 389 (partition 1)":1,
-       "EBF site 403 (partition 1)":0.9476895497119755,
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        "EBF site 424 (partition 1)":1,
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        "EBF site 431 (partition 1)":1,
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        "EBF site 445 (partition 1)":1,
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        "EBF site 454 (partition 1)":1,
-       "EBF site 462 (partition 1)":0.9037793217195411,
-       "EBF site 466 (partition 1)":102.2179244656358,
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-       "EBF site 473 (partition 1)":1,
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        "EBF site 477 (partition 1)":1,
        "EBF site 478 (partition 1)":1,
-       "EBF site 485 (partition 1)":1,
        "EBF site 479 (partition 1)":1,
        "EBF site 481 (partition 1)":1,
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        "EBF site 488 (partition 1)":1,
-       "EBF site 489 (partition 1)":107.6488149584761,
-       "EBF site 492 (partition 1)":0.874183730272122,
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        "EBF site 494 (partition 1)":1,
-       "EBF site 499 (partition 1)":4.008910826934978,
-       "EBF site 500 (partition 1)":1,
-       "EBF site 506 (partition 1)":0.2690728934646583,
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        "EBF site 507 (partition 1)":1,
-       "EBF site 508 (partition 1)":1,
        "EBF site 509 (partition 1)":1,
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        "EBF site 513 (partition 1)":1,
        "EBF site 514 (partition 1)":1,
-       "EBF site 515 (partition 1)":0.1532918837756237,
+       "EBF site 515 (partition 1)":0.3325336627673959,
        "EBF site 519 (partition 1)":1,
-       "EBF site 527 (partition 1)":0.901744468726935,
-       "EBF site 529 (partition 1)":0.9475102529355975,
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+       "EBF site 527 (partition 1)":1,
+       "EBF site 529 (partition 1)":1,
        "EBF site 537 (partition 1)":1,
-       "EBF site 538 (partition 1)":1,
        "EBF site 539 (partition 1)":1,
+       "EBF site 54 (partition 1)":1,
        "EBF site 540 (partition 1)":1,
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        "EBF site 545 (partition 1)":1,
        "EBF site 549 (partition 1)":1,
        "EBF site 553 (partition 1)":1,
-       "EBF site 558 (partition 1)":0.8710029154370792,
+       "EBF site 558 (partition 1)":0.8606992173468657,
        "EBF site 560 (partition 1)":1,
-       "EBF site 564 (partition 1)":1
-      },
-     "DUCK_VIETNAM_272_2005":{
-       "original name":"DUCK_VIETNAM_272_2005",
-       "Nucleotide GTR":0.009000770074836861,
-       "Global MG94xREV":0.009186995735120685,
-       "EBF site 3 (partition 1)":0.9533166735226652,
-       "EBF site 8 (partition 1)":0.9035741251545967,
-       "EBF site 9 (partition 1)":1,
-       "EBF site 10 (partition 1)":0.9067650427683629,
-       "EBF site 11 (partition 1)":0.8608831574803189,
-       "EBF site 12 (partition 1)":1,
-       "EBF site 16 (partition 1)":0.9529271469597721,
-       "EBF site 17 (partition 1)":1,
-       "EBF site 20 (partition 1)":0.9491393666604192,
-       "EBF site 21 (partition 1)":0.908831586168351,
-       "EBF site 26 (partition 1)":0.9540367556689295,
-       "EBF site 27 (partition 1)":0.8784639178826307,
-       "EBF site 28 (partition 1)":1,
-       "EBF site 32 (partition 1)":0.9421450998190494,
-       "EBF site 33 (partition 1)":1,
-       "EBF site 34 (partition 1)":1,
-       "EBF site 37 (partition 1)":0.06352115612296987,
-       "EBF site 39 (partition 1)":1,
-       "EBF site 45 (partition 1)":1,
-       "EBF site 49 (partition 1)":1,
-       "EBF site 50 (partition 1)":1,
-       "EBF site 51 (partition 1)":0.9554993857392499,
-       "EBF site 52 (partition 1)":1,
-       "EBF site 54 (partition 1)":1,
+       "EBF site 564 (partition 1)":1,
        "EBF site 58 (partition 1)":1,
        "EBF site 59 (partition 1)":1,
-       "EBF site 60 (partition 1)":0.9864231218921221,
-       "EBF site 61 (partition 1)":0.9538393859708345,
+       "EBF site 60 (partition 1)":1,
+       "EBF site 61 (partition 1)":1,
        "EBF site 62 (partition 1)":1,
        "EBF site 64 (partition 1)":1,
        "EBF site 66 (partition 1)":1,
@@ -3175,207 +2301,168 @@
        "EBF site 77 (partition 1)":1,
        "EBF site 78 (partition 1)":1,
        "EBF site 79 (partition 1)":1,
-       "EBF site 80 (partition 1)":1,
+       "EBF site 8 (partition 1)":1,
        "EBF site 81 (partition 1)":1,
        "EBF site 84 (partition 1)":1,
        "EBF site 86 (partition 1)":1,
        "EBF site 89 (partition 1)":1,
-       "EBF site 91 (partition 1)":1,
-       "EBF site 99 (partition 1)":0.9081280683517454,
-       "EBF site 100 (partition 1)":0.887424573107503,
-       "EBF site 102 (partition 1)":0.8810815105519455,
-       "EBF site 104 (partition 1)":0.9543337527615872,
+       "EBF site 9 (partition 1)":1,
+       "EBF site 99 (partition 1)":320.7003130353374,
+       "Global MG94xREV":0.008457752730161283,
+       "Nucleotide GTR":0.006523328810549479,
+       "original name":"HUMAN_VIETNAM_CL105_2005"
+      },
+     "MALLARD_VIETNAM_16_2003":{
+       "EBF site 10 (partition 1)":1,
+       "EBF site 100 (partition 1)":1,
+       "EBF site 102 (partition 1)":0.1555919318429866,
+       "EBF site 104 (partition 1)":1,
        "EBF site 107 (partition 1)":1,
        "EBF site 109 (partition 1)":1,
-       "EBF site 110 (partition 1)":0.9077663640840393,
+       "EBF site 11 (partition 1)":1,
+       "EBF site 110 (partition 1)":1,
        "EBF site 112 (partition 1)":1,
-       "EBF site 113 (partition 1)":0.554055723505572,
+       "EBF site 113 (partition 1)":1,
        "EBF site 117 (partition 1)":1,
-       "EBF site 128 (partition 1)":1,
-       "EBF site 131 (partition 1)":0.9276164070611785,
+       "EBF site 12 (partition 1)":1,
        "EBF site 136 (partition 1)":1,
-       "EBF site 139 (partition 1)":593.1782299163925,
        "EBF site 140 (partition 1)":1,
-       "EBF site 142 (partition 1)":0.8679615111578051,
-       "EBF site 143 (partition 1)":0.5272951087006295,
-       "EBF site 145 (partition 1)":0.9652656159954184,
+       "EBF site 142 (partition 1)":1,
+       "EBF site 145 (partition 1)":0.9804466477838129,
        "EBF site 146 (partition 1)":1,
        "EBF site 147 (partition 1)":1,
-       "EBF site 150 (partition 1)":0.9079054590985749,
+       "EBF site 150 (partition 1)":0.9398379405190808,
        "EBF site 152 (partition 1)":1,
        "EBF site 153 (partition 1)":1,
-       "EBF site 154 (partition 1)":0.5588936892965776,
+       "EBF site 154 (partition 1)":0.7997863164754097,
        "EBF site 155 (partition 1)":1,
-       "EBF site 156 (partition 1)":41.52747035345026,
-       "EBF site 157 (partition 1)":0.8359081913706863,
-       "EBF site 167 (partition 1)":0.3641247898109347,
+       "EBF site 156 (partition 1)":1,
+       "EBF site 157 (partition 1)":1,
+       "EBF site 16 (partition 1)":1,
+       "EBF site 167 (partition 1)":97545.48844556566,
+       "EBF site 17 (partition 1)":1,
        "EBF site 170 (partition 1)":1,
-       "EBF site 171 (partition 1)":0.9084154603885543,
-       "EBF site 172 (partition 1)":0.8126639691053864,
-       "EBF site 173 (partition 1)":1,
+       "EBF site 171 (partition 1)":1,
+       "EBF site 172 (partition 1)":1,
        "EBF site 175 (partition 1)":1,
-       "EBF site 178 (partition 1)":0.3792343215212065,
-       "EBF site 179 (partition 1)":0.8635741705223631,
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        "EBF site 181 (partition 1)":1,
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-     "HONGKONG_1_97_98":{
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-       "Global MG94xREV":0.004314895088765959,
-       "EBF site 3 (partition 1)":1.000000004454476,
-       "EBF site 8 (partition 1)":0.9999999964832573,
-       "EBF site 9 (partition 1)":1,
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-       "EBF site 11 (partition 1)":0.9999999997642667,
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-       "EBF site 20 (partition 1)":0.9757051885784491,
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-       "EBF site 26 (partition 1)":0.9780350203985584,
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-       "EBF site 51 (partition 1)":0.9718114110707652,
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        "EBF site 59 (partition 1)":1,
-       "EBF site 60 (partition 1)":0.9935467664242656,
-       "EBF site 61 (partition 1)":0.9795505100713831,
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@@ -3386,207 +2473,168 @@
        "EBF site 77 (partition 1)":1,
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        "EBF site 79 (partition 1)":1,
-       "EBF site 80 (partition 1)":1,
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-       "EBF site 104 (partition 1)":0.9781953556142299,
+       "EBF site 9 (partition 1)":1,
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+       "Global MG94xREV":0.003602587208878145,
+       "Nucleotide GTR":0.003553392842782155,
+       "original name":"MALLARD_VIETNAM_16_2003"
+      },
+     "Node10":{
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-     "GOOSE_SHANTOU_2216_2005":{
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-       "Nucleotide GTR":0.005955910502620024,
-       "Global MG94xREV":0.006043520177212924,
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-       "EBF site 8 (partition 1)":0.9383887733562705,
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-       "EBF site 51 (partition 1)":0.9703954571131927,
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@@ -3597,207 +2645,167 @@
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+       "Global MG94xREV":0,
+       "Nucleotide GTR":0
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+     "Node11":{
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-     "TREESPARROW_HENAN_3_2004":{
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@@ -3808,418 +2816,167 @@
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+       "EBF site 99 (partition 1)":0.9782634293665382,
+       "Global MG94xREV":0.001225488404204026,
+       "Nucleotide GTR":0.001210485197934742
+      },
+     "Node13":{
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-     "TREESPARROW_HENAN_2_2004":{
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-       "EBF site 60 (partition 1)":0.9903438601626456,
-       "EBF site 61 (partition 1)":0.9668133188011906,
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@@ -4230,207 +2987,167 @@
        "EBF site 77 (partition 1)":1,
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+       "EBF site 99 (partition 1)":0.9808097883353573,
+       "Global MG94xREV":0.001080416808372546,
+       "Nucleotide GTR":0.001066764914531977
+      },
+     "Node17":{
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        "EBF site 560 (partition 1)":1,
-       "EBF site 564 (partition 1)":1
-      },
-     "HONGKONG_1_538_97":{
-       "original name":"HONGKONG_1_538_97",
-       "Nucleotide GTR":0,
-       "Global MG94xREV":0,
-       "EBF site 3 (partition 1)":1.000000004454476,
-       "EBF site 8 (partition 1)":0.9999999964832573,
-       "EBF site 9 (partition 1)":1,
-       "EBF site 10 (partition 1)":0.9999999977938284,
-       "EBF site 11 (partition 1)":0.9999999997642667,
-       "EBF site 12 (partition 1)":1,
-       "EBF site 16 (partition 1)":0.9999999982866217,
-       "EBF site 17 (partition 1)":1,
-       "EBF site 20 (partition 1)":1,
-       "EBF site 21 (partition 1)":0.9999999977979862,
-       "EBF site 26 (partition 1)":0.9999999951179953,
-       "EBF site 27 (partition 1)":1,
-       "EBF site 28 (partition 1)":1,
-       "EBF site 32 (partition 1)":1,
-       "EBF site 33 (partition 1)":1,
-       "EBF site 34 (partition 1)":1,
-       "EBF site 37 (partition 1)":1,
-       "EBF site 39 (partition 1)":1,
-       "EBF site 45 (partition 1)":1,
-       "EBF site 49 (partition 1)":1,
-       "EBF site 50 (partition 1)":1,
-       "EBF site 51 (partition 1)":1.000000003389824,
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-       "EBF site 54 (partition 1)":1,
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        "EBF site 58 (partition 1)":1,
        "EBF site 59 (partition 1)":1,
-       "EBF site 60 (partition 1)":1.000000001960442,
-       "EBF site 61 (partition 1)":1.00000000540656,
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@@ -4441,206 +3158,167 @@
        "EBF site 77 (partition 1)":1,
        "EBF site 78 (partition 1)":1,
        "EBF site 79 (partition 1)":1,
-       "EBF site 80 (partition 1)":1,
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        "EBF site 84 (partition 1)":1,
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-       "EBF site 100 (partition 1)":0.999999996075426,
-       "EBF site 102 (partition 1)":0.999999997786059,
-       "EBF site 104 (partition 1)":1.000000001910872,
+       "EBF site 9 (partition 1)":1,
+       "EBF site 99 (partition 1)":0.9300423709258947,
+       "Global MG94xREV":0.004073204078824585,
+       "Nucleotide GTR":0.004102183201918705
+      },
+     "Node18":{
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+       "EBF site 102 (partition 1)":0.1680104696563284,
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        "EBF site 481 (partition 1)":1,
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        "EBF site 488 (partition 1)":1,
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-       "EBF site 500 (partition 1)":1,
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        "EBF site 507 (partition 1)":1,
-       "EBF site 508 (partition 1)":1,
        "EBF site 509 (partition 1)":1,
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        "EBF site 513 (partition 1)":1,
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-       "EBF site 558 (partition 1)":1,
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        "EBF site 560 (partition 1)":1,
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-      },
-     "Node1":{
-       "Nucleotide GTR":0.001137020858809014,
-       "Global MG94xREV":0.001099957222584888,
-       "EBF site 3 (partition 1)":0.994240864755329,
-       "EBF site 8 (partition 1)":0.9878092895260177,
-       "EBF site 9 (partition 1)":1,
-       "EBF site 10 (partition 1)":0.9881952406346444,
-       "EBF site 11 (partition 1)":0.9818644423363808,
-       "EBF site 12 (partition 1)":1,
-       "EBF site 16 (partition 1)":0.9942165898639223,
-       "EBF site 17 (partition 1)":1,
-       "EBF site 20 (partition 1)":0.9937375699252601,
-       "EBF site 21 (partition 1)":0.9884621909733902,
-       "EBF site 26 (partition 1)":0.9943377733955079,
-       "EBF site 27 (partition 1)":0.9842537873413659,
-       "EBF site 28 (partition 1)":1,
-       "EBF site 32 (partition 1)":0.9928302031533051,
-       "EBF site 33 (partition 1)":1,
-       "EBF site 34 (partition 1)":1,
-       "EBF site 37 (partition 1)":0.3058829704737202,
-       "EBF site 39 (partition 1)":1,
-       "EBF site 45 (partition 1)":1,
-       "EBF site 49 (partition 1)":1,
-       "EBF site 50 (partition 1)":1,
-       "EBF site 51 (partition 1)":0.9945161716442698,
-       "EBF site 52 (partition 1)":1,
-       "EBF site 54 (partition 1)":1,
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        "EBF site 58 (partition 1)":1,
        "EBF site 59 (partition 1)":1,
-       "EBF site 60 (partition 1)":0.9983425929821205,
-       "EBF site 61 (partition 1)":0.9943209408501463,
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        "EBF site 62 (partition 1)":1,
        "EBF site 64 (partition 1)":1,
        "EBF site 66 (partition 1)":1,
@@ -4651,416 +3329,167 @@
        "EBF site 77 (partition 1)":1,
        "EBF site 78 (partition 1)":1,
        "EBF site 79 (partition 1)":1,
-       "EBF site 80 (partition 1)":1,
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        "EBF site 84 (partition 1)":1,
        "EBF site 86 (partition 1)":1,
        "EBF site 89 (partition 1)":1,
-       "EBF site 91 (partition 1)":1,
-       "EBF site 99 (partition 1)":0.9883978584195311,
-       "EBF site 100 (partition 1)":0.9855412453775866,
-       "EBF site 102 (partition 1)":0.9919764194278646,
-       "EBF site 104 (partition 1)":0.9943817319795303,
+       "EBF site 9 (partition 1)":1,
+       "EBF site 99 (partition 1)":0.9452571728891861,
+       "Global MG94xREV":0.003154669328502593,
+       "Nucleotide GTR":0.003090718895550302
+      },
+     "Node19":{
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+       "EBF site 102 (partition 1)":1,
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        "EBF site 107 (partition 1)":1,
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-       "EBF site 110 (partition 1)":0.9883304810414775,
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        "EBF site 112 (partition 1)":1,
-       "EBF site 113 (partition 1)":0.9247311702167187,
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        "EBF site 117 (partition 1)":1,
-       "EBF site 128 (partition 1)":1,
-       "EBF site 131 (partition 1)":0.9908921133551516,
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-       "EBF site 139 (partition 1)":0.9958603048956467,
        "EBF site 140 (partition 1)":1,
-       "EBF site 142 (partition 1)":0.9828132592157206,
-       "EBF site 143 (partition 1)":0.9197231123526316,
-       "EBF site 145 (partition 1)":0.9957497385013173,
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        "EBF site 147 (partition 1)":1,
-       "EBF site 150 (partition 1)":0.9883681693474735,
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-       "EBF site 154 (partition 1)":0.9233506843743658,
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-       "EBF site 156 (partition 1)":0.9784206245901895,
-       "EBF site 157 (partition 1)":0.9784135811715918,
-       "EBF site 167 (partition 1)":0.8590033204200664,
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@@ -5071,206 +3500,167 @@
        "EBF site 77 (partition 1)":1,
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+       "EBF site 99 (partition 1)":1,
+       "Global MG94xREV":0,
+       "Nucleotide GTR":0.002124825996303432
+      },
+     "Node2":{
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@@ -5281,206 +3671,167 @@
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-       "EBF site 3 (partition 1)":1.000000004454476,
-       "EBF site 8 (partition 1)":0.9999999964832573,
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@@ -5491,30 +3842,33 @@
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-       "EBF site 104 (partition 1)":1.000000001910872,
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+       "Global MG94xREV":0.0006131546155282801,
+       "Nucleotide GTR":0.0005584834254851166
+      },
+     "Node24":{
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@@ -5522,29 +3876,27 @@
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@@ -5552,105 +3904,93 @@
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@@ -5701,206 +4013,167 @@
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-       "EBF site 104 (partition 1)":0.993753039405617,
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+       "Global MG94xREV":0,
+       "Nucleotide GTR":0
+      },
+     "Node25":{
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@@ -5911,416 +4184,167 @@
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@@ -6331,416 +4355,167 @@
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-     "Node26":{
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-       "Global MG94xREV":0.00234427970690879,
-       "EBF site 3 (partition 1)":0.9877826766391051,
-       "EBF site 8 (partition 1)":0.9755272018582036,
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-       "EBF site 20 (partition 1)":0.9867109068470776,
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-       "EBF site 37 (partition 1)":0.1708678874475574,
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-       "EBF site 60 (partition 1)":0.9964793969900448,
-       "EBF site 61 (partition 1)":0.9879473338368787,
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@@ -6751,206 +4526,167 @@
        "EBF site 77 (partition 1)":1,
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        "EBF site 79 (partition 1)":1,
-       "EBF site 80 (partition 1)":1,
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-       "EBF site 99 (partition 1)":0.9754772520913251,
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-       "EBF site 104 (partition 1)":0.9880763725441569,
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+       "EBF site 99 (partition 1)":1,
+       "Global MG94xREV":0,
+       "Nucleotide GTR":0.002055454494921791
+      },
+     "Node5":{
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-       "EBF site 558 (partition 1)":0.9690939154700845,
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-      },
-     "Node3":{
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-       "Global MG94xREV":0.003116382074042159,
-       "EBF site 3 (partition 1)":0.9838174319176777,
-       "EBF site 8 (partition 1)":0.9702030119486544,
-       "EBF site 9 (partition 1)":1,
-       "EBF site 10 (partition 1)":0.9685531463572518,
-       "EBF site 11 (partition 1)":0.9499294636784974,
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-       "EBF site 16 (partition 1)":0.9837231324686045,
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-       "EBF site 20 (partition 1)":0.9823841118784657,
-       "EBF site 21 (partition 1)":0.9678199065918371,
-       "EBF site 26 (partition 1)":0.9840800960461302,
-       "EBF site 27 (partition 1)":0.9562913208423668,
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-       "EBF site 32 (partition 1)":0.9798677170571273,
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-       "EBF site 37 (partition 1)":0.1394530750982343,
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-       "EBF site 49 (partition 1)":1,
-       "EBF site 50 (partition 1)":1,
-       "EBF site 51 (partition 1)":0.9860463823524315,
-       "EBF site 52 (partition 1)":1,
-       "EBF site 54 (partition 1)":1,
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        "EBF site 58 (partition 1)":1,
        "EBF site 59 (partition 1)":1,
-       "EBF site 60 (partition 1)":0.9953304052467979,
-       "EBF site 61 (partition 1)":0.9849159394555819,
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@@ -6961,206 +4697,167 @@
        "EBF site 77 (partition 1)":1,
        "EBF site 78 (partition 1)":1,
        "EBF site 79 (partition 1)":1,
-       "EBF site 80 (partition 1)":1,
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-       "EBF site 99 (partition 1)":0.9675736119953896,
-       "EBF site 100 (partition 1)":0.9523968591950919,
-       "EBF site 102 (partition 1)":0.9540847509028757,
-       "EBF site 104 (partition 1)":0.9841970695658304,
+       "EBF site 9 (partition 1)":1,
+       "EBF site 99 (partition 1)":0.8926362832924923,
+       "Global MG94xREV":0.006421213234344543,
+       "Nucleotide GTR":0.004189213724227078
+      },
+     "Node7":{
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+       "EBF site 100 (partition 1)":1,
+       "EBF site 102 (partition 1)":1,
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        "EBF site 107 (partition 1)":1,
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@@ -7171,206 +4868,167 @@
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-       "EBF site 12 (partition 1)":1,
-       "EBF site 16 (partition 1)":0.9999999982866217,
-       "EBF site 17 (partition 1)":1,
-       "EBF site 20 (partition 1)":1,
-       "EBF site 21 (partition 1)":0.9999999977979862,
-       "EBF site 26 (partition 1)":0.9999999951179953,
-       "EBF site 27 (partition 1)":1,
-       "EBF site 28 (partition 1)":1,
-       "EBF site 32 (partition 1)":1,
-       "EBF site 33 (partition 1)":1,
-       "EBF site 34 (partition 1)":1,
-       "EBF site 37 (partition 1)":1,
-       "EBF site 39 (partition 1)":1,
-       "EBF site 45 (partition 1)":1,
-       "EBF site 49 (partition 1)":1,
-       "EBF site 50 (partition 1)":1,
-       "EBF site 51 (partition 1)":1.000000003389824,
-       "EBF site 52 (partition 1)":1,
-       "EBF site 54 (partition 1)":1,
+       "EBF site 564 (partition 1)":1,
        "EBF site 58 (partition 1)":1,
        "EBF site 59 (partition 1)":1,
-       "EBF site 60 (partition 1)":1.000000001960442,
-       "EBF site 61 (partition 1)":1.00000000540656,
+       "EBF site 60 (partition 1)":1,
+       "EBF site 61 (partition 1)":1,
        "EBF site 62 (partition 1)":1,
        "EBF site 64 (partition 1)":1,
        "EBF site 66 (partition 1)":1,
@@ -7381,206 +5039,167 @@
        "EBF site 77 (partition 1)":1,
        "EBF site 78 (partition 1)":1,
        "EBF site 79 (partition 1)":1,
-       "EBF site 80 (partition 1)":1,
+       "EBF site 8 (partition 1)":1,
        "EBF site 81 (partition 1)":1,
        "EBF site 84 (partition 1)":1,
        "EBF site 86 (partition 1)":1,
        "EBF site 89 (partition 1)":1,
-       "EBF site 91 (partition 1)":1,
-       "EBF site 99 (partition 1)":1,
-       "EBF site 100 (partition 1)":0.999999996075426,
-       "EBF site 102 (partition 1)":0.999999997786059,
-       "EBF site 104 (partition 1)":1.000000001910872,
+       "EBF site 9 (partition 1)":1,
+       "EBF site 99 (partition 1)":0.6821851695454719,
+       "Global MG94xREV":0.02246388212380395,
+       "Nucleotide GTR":0.02179689595862389
+      },
+     "PEREGRINEFALCON_HK_D0028_2004":{
+       "EBF site 10 (partition 1)":1,
+       "EBF site 100 (partition 1)":1,
+       "EBF site 102 (partition 1)":0.1032034263258886,
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        "EBF site 107 (partition 1)":1,
        "EBF site 109 (partition 1)":1,
-       "EBF site 110 (partition 1)":0.9999999999623042,
+       "EBF site 11 (partition 1)":1,
+       "EBF site 110 (partition 1)":1,
        "EBF site 112 (partition 1)":1,
        "EBF site 113 (partition 1)":1,
        "EBF site 117 (partition 1)":1,
-       "EBF site 128 (partition 1)":1,
-       "EBF site 131 (partition 1)":1,
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        "EBF site 136 (partition 1)":1,
-       "EBF site 139 (partition 1)":1,
        "EBF site 140 (partition 1)":1,
-       "EBF site 142 (partition 1)":1.000000000108778,
-       "EBF site 143 (partition 1)":1,
-       "EBF site 145 (partition 1)":1.000000002037219,
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        "EBF site 146 (partition 1)":1,
        "EBF site 147 (partition 1)":1,
-       "EBF site 150 (partition 1)":1,
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        "EBF site 152 (partition 1)":1,
        "EBF site 153 (partition 1)":1,
-       "EBF site 154 (partition 1)":1,
+       "EBF site 154 (partition 1)":0.8125542656684678,
        "EBF site 155 (partition 1)":1,
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-       "EBF site 157 (partition 1)":0.999999996366886,
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+       "EBF site 157 (partition 1)":1,
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+       "EBF site 167 (partition 1)":0.5671096289256772,
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-       "EBF site 172 (partition 1)":1.000000002345886,
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        "EBF site 181 (partition 1)":1,
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-       "EBF site 191 (partition 1)":1,
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        "EBF site 271 (partition 1)":1,
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        "EBF site 327 (partition 1)":1,
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        "EBF site 431 (partition 1)":1,
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        "EBF site 445 (partition 1)":1,
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        "EBF site 481 (partition 1)":1,
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        "EBF site 488 (partition 1)":1,
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        "EBF site 494 (partition 1)":1,
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-       "EBF site 558 (partition 1)":1,
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-      },
-     "Node33":{
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-       "Global MG94xREV":0.002362859503672296,
-       "EBF site 3 (partition 1)":0.9876865648732108,
-       "EBF site 8 (partition 1)":0.9740362707078668,
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-       "EBF site 11 (partition 1)":0.9615642793120964,
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-       "EBF site 16 (partition 1)":0.9876266615518602,
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-       "EBF site 20 (partition 1)":0.9866064145528383,
-       "EBF site 21 (partition 1)":0.9754309157627106,
-       "EBF site 26 (partition 1)":0.9878910136933974,
-       "EBF site 27 (partition 1)":0.9665965960703886,
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-       "EBF site 37 (partition 1)":0.1698793348799641,
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-       "EBF site 49 (partition 1)":1,
-       "EBF site 50 (partition 1)":1,
-       "EBF site 51 (partition 1)":0.9882731269808147,
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        "EBF site 58 (partition 1)":1,
        "EBF site 59 (partition 1)":1,
-       "EBF site 60 (partition 1)":0.9964504328806711,
-       "EBF site 61 (partition 1)":0.9878524916325083,
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        "EBF site 62 (partition 1)":1,
        "EBF site 64 (partition 1)":1,
        "EBF site 66 (partition 1)":1,
@@ -7591,206 +5210,168 @@
        "EBF site 77 (partition 1)":1,
        "EBF site 78 (partition 1)":1,
        "EBF site 79 (partition 1)":1,
-       "EBF site 80 (partition 1)":1,
+       "EBF site 8 (partition 1)":1,
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        "EBF site 84 (partition 1)":1,
        "EBF site 86 (partition 1)":1,
        "EBF site 89 (partition 1)":1,
-       "EBF site 91 (partition 1)":1,
-       "EBF site 99 (partition 1)":0.983209898079179,
-       "EBF site 100 (partition 1)":0.9692832377029885,
-       "EBF site 102 (partition 1)":0.9653915133861829,
-       "EBF site 104 (partition 1)":0.9879825471384228,
+       "EBF site 9 (partition 1)":1,
+       "EBF site 99 (partition 1)":0.9369013856364607,
+       "Global MG94xREV":0.003655946853100859,
+       "Nucleotide GTR":0.003602525374571392,
+       "original name":"PEREGRINEFALCON_HK_D0028_2004"
+      },
+     "SWINE_ANHUI_1_2004":{
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        "EBF site 107 (partition 1)":1,
        "EBF site 109 (partition 1)":1,
-       "EBF site 110 (partition 1)":0.9784823060177491,
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-       "EBF site 131 (partition 1)":0.9805882123911093,
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        "EBF site 140 (partition 1)":1,
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-       "EBF site 150 (partition 1)":0.9831672935018267,
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+       "attribute type":"branch label",
+       "display order":311
+      },
+     "EBF site 312 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":314
+      },
+     "EBF site 315 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":317
+      },
+     "EBF site 327 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":329
+      },
+     "EBF site 328 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":330
+      },
+     "EBF site 329 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":331
       },
      "EBF site 33 (partition 1)":{
        "attribute type":"branch label",
        "display order":35
       },
-     "EBF site 34 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":36
-      },
-     "EBF site 37 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":39
+     "EBF site 332 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":334
+      },
+     "EBF site 336 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":338
+      },
+     "EBF site 338 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":340
+      },
+     "EBF site 339 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":341
+      },
+     "EBF site 341 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":343
+      },
+     "EBF site 342 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":344
+      },
+     "EBF site 344 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":346
+      },
+     "EBF site 348 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":350
+      },
+     "EBF site 351 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":353
+      },
+     "EBF site 353 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":355
+      },
+     "EBF site 354 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":356
+      },
+     "EBF site 357 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":359
+      },
+     "EBF site 361 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":363
+      },
+     "EBF site 362 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":364
+      },
+     "EBF site 369 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":371
+      },
+     "EBF site 379 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":381
+      },
+     "EBF site 384 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":386
+      },
+     "EBF site 389 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":391
       },
      "EBF site 39 (partition 1)":{
        "attribute type":"branch label",
        "display order":41
       },
+     "EBF site 403 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":405
+      },
+     "EBF site 408 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":410
+      },
+     "EBF site 417 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":419
+      },
+     "EBF site 424 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":426
+      },
+     "EBF site 429 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":431
+      },
+     "EBF site 431 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":433
+      },
+     "EBF site 433 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":435
+      },
+     "EBF site 440 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":442
+      },
+     "EBF site 441 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":443
+      },
+     "EBF site 445 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":447
+      },
      "EBF site 45 (partition 1)":{
        "attribute type":"branch label",
        "display order":47
       },
-     "EBF site 49 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":51
+     "EBF site 454 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":456
+      },
+     "EBF site 466 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":468
+      },
+     "EBF site 477 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":479
+      },
+     "EBF site 478 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":480
+      },
+     "EBF site 479 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":481
+      },
+     "EBF site 481 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":483
+      },
+     "EBF site 485 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":487
+      },
+     "EBF site 488 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":490
+      },
+     "EBF site 489 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":491
+      },
+     "EBF site 494 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":496
+      },
+     "EBF site 499 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":501
       },
      "EBF site 50 (partition 1)":{
        "attribute type":"branch label",
        "display order":52
       },
+     "EBF site 506 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":508
+      },
+     "EBF site 507 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":509
+      },
+     "EBF site 509 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":511
+      },
      "EBF site 51 (partition 1)":{
        "attribute type":"branch label",
        "display order":53
       },
+     "EBF site 513 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":515
+      },
+     "EBF site 514 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":516
+      },
+     "EBF site 515 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":517
+      },
+     "EBF site 519 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":521
+      },
      "EBF site 52 (partition 1)":{
        "attribute type":"branch label",
        "display order":54
       },
+     "EBF site 527 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":529
+      },
+     "EBF site 529 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":531
+      },
+     "EBF site 537 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":539
+      },
+     "EBF site 539 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":541
+      },
      "EBF site 54 (partition 1)":{
        "attribute type":"branch label",
        "display order":56
       },
+     "EBF site 540 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":542
+      },
+     "EBF site 544 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":546
+      },
+     "EBF site 545 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":547
+      },
+     "EBF site 549 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":551
+      },
+     "EBF site 553 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":555
+      },
+     "EBF site 558 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":560
+      },
+     "EBF site 560 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":562
+      },
+     "EBF site 564 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":566
+      },
      "EBF site 58 (partition 1)":{
        "attribute type":"branch label",
        "display order":60
@@ -8556,9 +6035,9 @@
        "attribute type":"branch label",
        "display order":81
       },
-     "EBF site 80 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":82
+     "EBF site 8 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":10
       },
      "EBF site 81 (partition 1)":{
        "attribute type":"branch label",
@@ -8576,1241 +6055,185 @@
        "attribute type":"branch label",
        "display order":91
       },
-     "EBF site 91 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":93
+     "EBF site 9 (partition 1)":{
+       "attribute type":"branch label",
+       "display order":11
       },
      "EBF site 99 (partition 1)":{
        "attribute type":"branch label",
        "display order":101
       },
-     "EBF site 100 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":102
-      },
-     "EBF site 102 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":104
-      },
-     "EBF site 104 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":106
-      },
-     "EBF site 107 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":109
-      },
-     "EBF site 109 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":111
-      },
-     "EBF site 110 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":112
-      },
-     "EBF site 112 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":114
-      },
-     "EBF site 113 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":115
-      },
-     "EBF site 117 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":119
-      },
-     "EBF site 128 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":130
-      },
-     "EBF site 131 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":133
-      },
-     "EBF site 136 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":138
-      },
-     "EBF site 139 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":141
-      },
-     "EBF site 140 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":142
-      },
-     "EBF site 142 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":144
-      },
-     "EBF site 143 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":145
-      },
-     "EBF site 145 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":147
-      },
-     "EBF site 146 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":148
-      },
-     "EBF site 147 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":149
-      },
-     "EBF site 150 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":152
-      },
-     "EBF site 152 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":154
-      },
-     "EBF site 153 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":155
-      },
-     "EBF site 154 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":156
-      },
-     "EBF site 155 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":157
-      },
-     "EBF site 156 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":158
-      },
-     "EBF site 157 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":159
-      },
-     "EBF site 167 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":169
-      },
-     "EBF site 170 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":172
-      },
-     "EBF site 171 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":173
-      },
-     "EBF site 172 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":174
-      },
-     "EBF site 173 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":175
-      },
-     "EBF site 175 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":177
-      },
-     "EBF site 178 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":180
-      },
-     "EBF site 179 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":181
-      },
-     "EBF site 181 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":183
-      },
-     "EBF site 185 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":187
-      },
-     "EBF site 191 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":193
-      },
-     "EBF site 195 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":197
-      },
-     "EBF site 196 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":198
-      },
-     "EBF site 197 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":199
-      },
-     "EBF site 200 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":202
-      },
-     "EBF site 201 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":203
-      },
-     "EBF site 204 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":206
-      },
-     "EBF site 206 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":208
-      },
-     "EBF site 209 (partition 1)":{
-       "attribute type":"branch label",
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-      },
-     "EBF site 211 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":213
-      },
-     "EBF site 212 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":214
-      },
-     "EBF site 213 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":215
-      },
-     "EBF site 214 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":216
-      },
-     "EBF site 217 (partition 1)":{
-       "attribute type":"branch label",
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-      },
-     "EBF site 221 (partition 1)":{
-       "attribute type":"branch label",
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-      },
-     "EBF site 222 (partition 1)":{
-       "attribute type":"branch label",
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-      },
-     "EBF site 224 (partition 1)":{
-       "attribute type":"branch label",
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-      },
-     "EBF site 226 (partition 1)":{
-       "attribute type":"branch label",
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-     "EBF site 228 (partition 1)":{
-       "attribute type":"branch label",
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-      },
-     "EBF site 230 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":232
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-     "EBF site 231 (partition 1)":{
-       "attribute type":"branch label",
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-     "EBF site 233 (partition 1)":{
-       "attribute type":"branch label",
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-     "EBF site 235 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":237
-      },
-     "EBF site 236 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":238
-      },
-     "EBF site 237 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":239
-      },
-     "EBF site 240 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":242
-      },
-     "EBF site 241 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":243
-      },
-     "EBF site 242 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":244
-      },
-     "EBF site 250 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":252
-      },
-     "EBF site 253 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":255
-      },
-     "EBF site 254 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":256
-      },
-     "EBF site 256 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":258
-      },
-     "EBF site 258 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":260
-      },
-     "EBF site 265 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":267
-      },
-     "EBF site 268 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":270
-      },
-     "EBF site 271 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":273
-      },
-     "EBF site 278 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":280
-      },
-     "EBF site 279 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":281
-      },
-     "EBF site 282 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":284
-      },
-     "EBF site 283 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":285
-      },
-     "EBF site 288 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":290
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-     "EBF site 291 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":293
-      },
-     "EBF site 293 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":295
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-     "EBF site 296 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":298
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-     "EBF site 298 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":300
-      },
-     "EBF site 302 (partition 1)":{
-       "attribute type":"branch label",
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-     "EBF site 304 (partition 1)":{
-       "attribute type":"branch label",
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-     "EBF site 306 (partition 1)":{
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-     "EBF site 309 (partition 1)":{
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-     "EBF site 311 (partition 1)":{
-       "attribute type":"branch label",
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-     "EBF site 312 (partition 1)":{
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-     "EBF site 315 (partition 1)":{
-       "attribute type":"branch label",
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-      },
-     "EBF site 317 (partition 1)":{
-       "attribute type":"branch label",
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-     "EBF site 327 (partition 1)":{
-       "attribute type":"branch label",
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-     "EBF site 328 (partition 1)":{
-       "attribute type":"branch label",
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-      },
-     "EBF site 329 (partition 1)":{
-       "attribute type":"branch label",
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-      },
-     "EBF site 331 (partition 1)":{
-       "attribute type":"branch label",
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-     "EBF site 332 (partition 1)":{
-       "attribute type":"branch label",
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-     "EBF site 336 (partition 1)":{
-       "attribute type":"branch label",
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-      },
-     "EBF site 338 (partition 1)":{
-       "attribute type":"branch label",
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-     "EBF site 339 (partition 1)":{
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-     "EBF site 341 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":343
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-     "EBF site 342 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":344
-      },
-     "EBF site 344 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":346
-      },
-     "EBF site 348 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":350
-      },
-     "EBF site 351 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":353
-      },
-     "EBF site 353 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":355
-      },
-     "EBF site 354 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":356
-      },
-     "EBF site 357 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":359
-      },
-     "EBF site 358 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":360
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-     "EBF site 361 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":363
-      },
-     "EBF site 362 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":364
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-     "EBF site 369 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":371
-      },
-     "EBF site 375 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":377
-      },
-     "EBF site 377 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":379
-      },
-     "EBF site 379 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":381
-      },
-     "EBF site 433 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":435
-      },
-     "EBF site 384 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":386
-      },
-     "EBF site 389 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":391
-      },
-     "EBF site 403 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":405
-      },
-     "EBF site 408 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":410
-      },
-     "EBF site 417 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":419
-      },
-     "EBF site 424 (partition 1)":{
-       "attribute type":"branch label",
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-      },
-     "EBF site 429 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":431
-      },
-     "EBF site 431 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":433
-      },
-     "EBF site 440 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":442
-      },
-     "EBF site 441 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":443
-      },
-     "EBF site 445 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":447
-      },
-     "EBF site 454 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":456
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-     "EBF site 462 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":464
-      },
-     "EBF site 466 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":468
-      },
-     "EBF site 471 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":473
-      },
-     "EBF site 473 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":475
-      },
-     "EBF site 477 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":479
-      },
-     "EBF site 478 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":480
-      },
-     "EBF site 485 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":487
-      },
-     "EBF site 479 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":481
-      },
-     "EBF site 481 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":483
-      },
-     "EBF site 488 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":490
-      },
-     "EBF site 489 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":491
-      },
-     "EBF site 492 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":494
-      },
-     "EBF site 494 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":496
-      },
-     "EBF site 499 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":501
-      },
-     "EBF site 500 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":502
-      },
-     "EBF site 506 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":508
-      },
-     "EBF site 507 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":509
-      },
-     "EBF site 508 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":510
-      },
-     "EBF site 509 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":511
-      },
-     "EBF site 513 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":515
-      },
-     "EBF site 514 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":516
-      },
-     "EBF site 515 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":517
-      },
-     "EBF site 519 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":521
-      },
-     "EBF site 527 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":529
-      },
-     "EBF site 529 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":531
-      },
-     "EBF site 537 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":539
-      },
-     "EBF site 538 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":540
-      },
-     "EBF site 539 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":541
-      },
-     "EBF site 540 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":542
-      },
-     "EBF site 544 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":546
-      },
-     "EBF site 545 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":547
-      },
-     "EBF site 549 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":551
-      },
-     "EBF site 553 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":555
-      },
-     "EBF site 558 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":560
-      },
-     "EBF site 560 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":562
-      },
-     "EBF site 564 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":566
+     "Global MG94xREV":{
+       "attribute type":"branch length",
+       "display order":1
+      },
+     "Nucleotide GTR":{
+       "attribute type":"branch length",
+       "display order":0
+      },
+     "original name":{
+       "attribute type":"node label",
+       "display order":-1
       }
     }
   },
- "MLE":{
-   "headers":[
-    ["alpha;", "Synonymous substitution rate at a site"],
-    ["&beta;<sup>-</sup>", "Non-synonymous substitution rate at a site for the negative/neutral evolution component"],
-    ["p<sup>-</sup>", "Mixture distribution weight allocated to &beta;<sup>-</sup>; loosely -- the proportion of the tree evolving neutrally or under negative selection"],
-    ["&beta;<sup>+</sup>", "Non-synonymous substitution rate at a site for the positive/neutral evolution component"],
-    ["p<sup>+</sup>", "Mixture distribution weight allocated to &beta;<sup>+</sup>; loosely -- the proportion of the tree evolving neutrally or under positive selection"],
-    ["LRT", "Likelihood ratio test statistic for episodic diversification, i.e., p<sup>+</sup> &gt; 0 <emph>and<emph> &beta;<sup>+</sup> &gt; &alpha;"],
-    ["p-value", "Asymptotic p-value for episodic diversification, i.e., p<sup>+</sup> &gt; 0 <emph>and<emph> &beta;<sup>+</sup> &gt; &alpha;"],
-    ["# 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"],
-    ["Total branch length", "The total length of branches contributing to inference at this site, and used to scale dN-dS"]
-    ],
-   "content":{
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-      [2.678942456400262, 5.858652373777976e-14, 0.03445131768569747, 0, 0.9655486823143026, 0, 0.6666666666666666, 0, 0.3107029313217802],
-      [0, 0, 1, 0, 0, 0, 1, 0, 0],
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-      [0, 0, 1, 0, 0, 0, 1, 0, 0],
-      [8.844981831006641e-17, 8.153334315915164e-17, 0.6000047345675635, 3.553758402405184, 0.3999952654324365, 0.8531795900839363, 0.346031112193832, 1, 0.3951606587101648],
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-      [5.922636877376851, 3.830380225985632e-14, 0.01771536752991297, 0, 0.982284632470087, 0, 0.6666666666666666, 0, 0.6869056237318886],
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-      [0, 0, 1, 0, 0, 0, 1, 0, 0],
-      [3.778232489478013, 2.03776205152443e-13, 0.02561078725613944, 0, 0.9743892127438606, 0, 0.6666666666666666, 0, 0.4381982550209036],
-      [0, 0, 1, 0, 0, 0, 1, 0, 0],
-      [0, 0, 1, 0, 0, 0, 1, 0, 0]
-      ]
+ "data partitions":{
+   "0":{
+     "coverage":      [
+[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] 
+      ],
+     "name":"meme.filter.default"
+    }
+  },
+ "fits":{
+   "Global MG94xREV":{
+     "AIC-c":7226.087178885974,
+     "Equilibrium frequencies":      [
+[0.0485984009412611],
+      [0.02956900357719973],
+      [0.03108082672838122],
+      [0.03449710399341214],
+      [0.02053762541952889],
+      [0.01249582512460089],
+      [0.01313471975854296],
+      [0.01457843439605254],
+      [0.02308459048229354],
+      [0.01404548967308914],
+      [0.01476361655896873],
+      [0.01638637286596178],
+      [0.03046946697462319],
+      [0.01853871239625653],
+      [0.01948657168142254],
+      [0.0216284558851606],
+      [0.02112660536120122],
+      [0.01285418156565452],
+      [0.01351139847963371],
+      [0.01499651610047861],
+      [0.008928077856285582],
+      [0.005432161572334556],
+      [0.005709900644757894],
+      [0.006337509553901212],
+      [0.01003528971321133],
+      [0.006105828827307119],
+      [0.006418011595122538],
+      [0.007123453161742795],
+      [0.01324562931848419],
+      [0.008059114150152886],
+      [0.008471165754069981],
+      [0.009402281622603544],
+      [0.03932718962871962],
+      [0.02392806734975356],
+      [0.02515147706283166],
+      [0.0279160244805243],
+      [0.01661962273972026],
+      [0.01011197230206122],
+      [0.01062898376612524],
+      [0.01179727815893297],
+      [0.01868069833194261],
+      [0.0113660043356041],
+      [0.01194713276105585],
+      [0.01326031269640911],
+      [0.02465674759639369],
+      [0.01500204623524711],
+      [0.01576908056409512],
+      [0.01750235335932507],
+      [0.02110645419006403],
+      [0.02462414883970813],
+      [0.01465982608978509],
+      [0.008919561995751803],
+      [0.009375607133978042],
+      [0.01040613549725428],
+      [0.01002571776178019],
+      [0.01053831914788704],
+      [0.0116966480569341],
+      [0.02174920799128454],
+      [0.01323299525169244],
+      [0.01390958039696969],
+      [0.01543846454447198] 
+      ],
+     "Log Likelihood":-3569.784907463222,
+     "Rate Distributions":{
+       "non-synonymous/synonymous rate ratio for *test*":        [
+[0.248895715005128, 1] 
+        ]
+      },
+     "display order":1,
+     "estimated parameters":43
+    },
+   "Nucleotide GTR":{
+     "AIC-c":7431.204675852382,
+     "Equilibrium frequencies":      [
+[0.3476574973769445],
+      [0.1861228958532913],
+      [0.2296428082660462],
+      [0.2365767985037179] 
+      ],
+     "Log Likelihood":-3679.541894127126,
+     "Rate Distributions":{
+       "Substitution rate from nucleotide A to nucleotide C":0.2089484190839437,
+       "Substitution rate from nucleotide A to nucleotide G":1,
+       "Substitution rate from nucleotide A to nucleotide T":0.1069376934774225,
+       "Substitution rate from nucleotide C to nucleotide G":0.01756475048192434,
+       "Substitution rate from nucleotide C to nucleotide T":1.483513244796427,
+       "Substitution rate from nucleotide G to nucleotide T":0.1186889750817524
+      },
+     "display order":0,
+     "estimated parameters":36
+    }
+  },
+ "input":{
+   "file name":"/tmp/tmpu23i1b/job_working_directory/000/3/working/meme_input.fa",
+   "number of sequences":13,
+   "number of sites":566,
+   "partition count":1,
+   "trees":{
+     "0":"(((((CHICKEN_HEBEI_326_2005:0.02100885319673648,(SWINE_ANHUI_1_2004:0.007702393698306516)Node7:0.002095219592954275)Node5:0.003887237703073042)Node4:0.003404921392531202,(((CHICKEN_HONGKONG_915_97:-1,(GOOSE_HONGKONG_W355_97:-1)Node13:0.002899766890966483)Node11:0.001306376767766534,HONGKONG_1_97_98:0.003844928589233716)Node10:0.000182535836694054,HONGKONG_1_538_97:-1)Node9:0.02096173714686362)Node3:0.003130608143291779,(((GOOSE_SHANTOU_2216_2005:0.006207842095177651)Node19:0.002530613798219486,PEREGRINEFALCON_HK_D0028_2004:0.003608296348267232)Node18:0.003288900909856382,CK_HK_WF157_2003:0.00663129750258774)Node17:0.004655295319725731)Node2:0.0116808817874948,(((HUMAN_VIETNAM_CL105_2005:0.006521522005742001)Node25:0.001967887030302483,HUMAN_VIETNAM_3062_2004:0.001641397323851184)Node24:0.0003125512332168847,MALLARD_VIETNAM_16_2003:0.003244216605281072)Node23:0.0004125980823087554,CHICKEN_CK_160_2005:0.006168335080088849)"
+    }
+  },
+ "tested":{
+   "0":{
+     "CHICKEN_CK_160_2005":"test",
+     "CHICKEN_HEBEI_326_2005":"test",
+     "CHICKEN_HONGKONG_915_97":"test",
+     "CK_HK_WF157_2003":"test",
+     "GOOSE_HONGKONG_W355_97":"test",
+     "GOOSE_SHANTOU_2216_2005":"test",
+     "HONGKONG_1_538_97":"test",
+     "HONGKONG_1_97_98":"test",
+     "HUMAN_VIETNAM_3062_2004":"test",
+     "HUMAN_VIETNAM_CL105_2005":"test",
+     "MALLARD_VIETNAM_16_2003":"test",
+     "Node10":"test",
+     "Node11":"test",
+     "Node13":"test",
+     "Node17":"test",
+     "Node18":"test",
+     "Node19":"test",
+     "Node2":"test",
+     "Node23":"test",
+     "Node24":"test",
+     "Node25":"test",
+     "Node3":"test",
+     "Node4":"test",
+     "Node5":"test",
+     "Node7":"test",
+     "Node9":"test",
+     "PEREGRINEFALCON_HK_D0028_2004":"test",
+     "SWINE_ANHUI_1_2004":"test"
+    }
+  },
+ "timers":{
+   "MEME analysis":{
+     "order":2,
+     "timer":249
+    },
+   "Model fitting":{
+     "order":1,
+     "timer":2
+    },
+   "Total time":{
+     "order":0,
+     "timer":252
     }
   }
 }
\ No newline at end of file