diff test-data/meme-out1.json @ 5:16b4a3869bd5 draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 8d5ae1d04c43988fdcc458f4f08376a15e72db8e"
author iuc
date Thu, 20 Feb 2020 18:12:40 -0500
parents 6164d9298db9
children
line wrap: on
line diff
--- a/test-data/meme-out1.json	Mon Feb 17 14:52:56 2020 -0500
+++ b/test-data/meme-out1.json	Thu Feb 20 18:12:40 2020 -0500
@@ -4,568 +4,568 @@
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+      [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],
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+      [14.5241078193678, 0, 1.579391734876198e-10, 0, 0.9999999998420608, 0, 0.6666666666666666, 0, 0.2283875686150971],
+      [0, 0, 0, 4.265755112875697, 1, 0, 0.6666666666666666, 0, 0.1527017303572566],
+      [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],
+      [36.74643825905866, 2.840451207903069, 0.9017931974247095, 2.838321200172145, 0.09820680257529046, 0, 0.6666666666666666, 0, 0.6795000277328883],
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+      [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],
+      [0, 0, 1, 0, 0, 0, 1, 0, 0],
+      [0, 0, 1, 0, 0, 0, 1, 0, 0],
+      [0, 0, 0.7442739211611341, 17.50475059858539, 0.2557260788388659, 1.06960501823124, 0.3050982248025448, 0, 0.1602429714378052],
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+      [0, 0, 1, 0, 0, 0, 1, 0, 0],
+      [13.35846477244377, 0, 1.14531252379555e-10, 0, 0.9999999998854687, 0, 0.6666666666666666, 0, 0.2100581548796061],
+      [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],
+      [0, 0, 1, 0, 0, 0, 1, 0, 0],
+      [0, 0, 0.8865010884064212, 218.5922878157176, 0.1134989115935788, 1.530423180614726, 0.2354010263272938, 0, 0.8881259810930876],
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+      [0, 0, 1, 0, 0, 0, 1, 0, 0],
+      [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],
+      [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],
+      [45.50580420187357, 0, 0.04363077890739035, 0, 0.9563692210926097, 0, 0.6666666666666666, 0, 0.7155661544788057],
+      [0, 0, 1, 0, 0, 0, 1, 0, 0],
+      [6.541752614465164, 0, 1.574952539047533e-10, 0, 0.9999999998425048, 0, 0.6666666666666666, 0, 0.102867246145532],
+      [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],
+      [0, 0, 1, 0, 0, 0, 1, 0, 0],
+      [0, 0, 1, 0, 0, 0, 1, 0, 0],
+      [3.390589237645251, 0, 0.21, 0, 0.79, 0, 0.6666666666666666, 0, 0.05331607571280209],
+      [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],
+      [13.39077653348591, 0, 5.726562618977749e-11, 0, 0.9999999999427344, 0, 0.6666666666666666, 0, 0.2105662483634787],
+      [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],
+      [9.294552726662207, 0, 1.140873327966885e-10, 0, 0.9999999998859127, 0, 0.6666666666666666, 0, 0.1461542646892579],
+      [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],
+      [0, 0, 1, 0, 0, 0, 1, 0, 0],
+      [0, 0, 0.6407821836656894, 12.68997921174063, 0.3592178163343106, 0.9892431175252376, 0.3195721639076984, 0, 0.1631799598105777],
+      [0, 0, 1, 0, 0, 0, 1, 0, 0],
+      [49.23861389633263, 0, 0.08857974308665691, 0, 0.9114202569133431, 0, 0.6666666666666666, 0, 0.7742635519935455],
+      [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],
+      [17.08661606035008, 0, 0.09000000000000001, 0, 0.91, 0, 0.6666666666666666, 0, 0.2686823002428582],
       [0, 0, 1, 0, 0, 0, 1, 0, 0],
       [0, 0, 1, 0, 0, 0, 1, 0, 0] 
       ]
@@ -593,186 +593,10 @@
  "branch attributes":{
    "0":{
      "CHICKEN_CK_160_2005":{
-       "EBF site 10 (partition 1)":1,
        "EBF site 100 (partition 1)":1,
-       "EBF site 102 (partition 1)":0.08580161701153581,
+       "EBF site 102 (partition 1)":0.4618577742407079,
        "EBF site 104 (partition 1)":1,
-       "EBF site 107 (partition 1)":1,
-       "EBF site 109 (partition 1)":1,
        "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 12 (partition 1)":1,
-       "EBF site 136 (partition 1)":1,
-       "EBF site 140 (partition 1)":1,
-       "EBF site 142 (partition 1)":1,
-       "EBF site 145 (partition 1)":0.9629323384920349,
-       "EBF site 146 (partition 1)":1,
-       "EBF site 147 (partition 1)":1,
-       "EBF site 150 (partition 1)":0.8846350834911286,
-       "EBF site 152 (partition 1)":1,
-       "EBF site 153 (partition 1)":1,
-       "EBF site 154 (partition 1)":0.6616021740572309,
-       "EBF site 155 (partition 1)":1,
-       "EBF site 156 (partition 1)":1,
-       "EBF site 157 (partition 1)":1,
-       "EBF site 16 (partition 1)":1,
-       "EBF site 167 (partition 1)":0.3783931497987309,
-       "EBF site 17 (partition 1)":1,
-       "EBF site 170 (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)":0.3661215769681019,
-       "EBF site 181 (partition 1)":1,
-       "EBF site 191 (partition 1)":0.3892538364474059,
-       "EBF site 195 (partition 1)":1,
-       "EBF site 196 (partition 1)":1,
-       "EBF site 197 (partition 1)":1,
-       "EBF site 200 (partition 1)":1,
-       "EBF site 204 (partition 1)":1,
-       "EBF site 206 (partition 1)":1,
-       "EBF site 209 (partition 1)":1,
-       "EBF site 21 (partition 1)":1,
-       "EBF site 211 (partition 1)":0.8830173900401994,
-       "EBF site 213 (partition 1)":1,
-       "EBF site 214 (partition 1)":0.3707369961642368,
-       "EBF site 217 (partition 1)":1,
-       "EBF site 221 (partition 1)":1,
-       "EBF site 222 (partition 1)":1,
-       "EBF site 224 (partition 1)":1,
-       "EBF site 226 (partition 1)":1,
-       "EBF site 228 (partition 1)":1,
-       "EBF site 230 (partition 1)":1,
-       "EBF site 231 (partition 1)":1,
-       "EBF site 233 (partition 1)":1,
-       "EBF site 237 (partition 1)":1,
-       "EBF site 240 (partition 1)":1,
-       "EBF site 241 (partition 1)":1,
-       "EBF site 250 (partition 1)":1,
-       "EBF site 254 (partition 1)":1,
-       "EBF site 256 (partition 1)":1,
-       "EBF site 258 (partition 1)":1,
-       "EBF site 265 (partition 1)":1,
-       "EBF site 271 (partition 1)":1,
-       "EBF site 278 (partition 1)":1,
-       "EBF site 279 (partition 1)":1,
-       "EBF site 28 (partition 1)":1,
-       "EBF site 283 (partition 1)":1,
-       "EBF site 288 (partition 1)":1,
-       "EBF site 291 (partition 1)":1,
-       "EBF site 298 (partition 1)":0.9313368604615063,
-       "EBF site 3 (partition 1)":1,
-       "EBF site 302 (partition 1)":1,
-       "EBF site 304 (partition 1)":1,
-       "EBF site 306 (partition 1)":1,
-       "EBF site 309 (partition 1)":1,
-       "EBF site 312 (partition 1)":1,
-       "EBF site 315 (partition 1)":1,
-       "EBF site 327 (partition 1)":1,
-       "EBF site 328 (partition 1)":1,
-       "EBF site 329 (partition 1)":1,
-       "EBF site 33 (partition 1)":1,
-       "EBF site 332 (partition 1)":1,
-       "EBF site 336 (partition 1)":0.04701120253575093,
-       "EBF site 338 (partition 1)":0.6031756073048148,
-       "EBF site 339 (partition 1)":1,
-       "EBF site 341 (partition 1)":1,
-       "EBF site 342 (partition 1)":1,
-       "EBF site 344 (partition 1)":1,
-       "EBF site 348 (partition 1)":1,
-       "EBF site 351 (partition 1)":1,
-       "EBF site 353 (partition 1)":1,
-       "EBF site 354 (partition 1)":1,
-       "EBF site 357 (partition 1)":1,
-       "EBF site 361 (partition 1)":1,
-       "EBF site 362 (partition 1)":1,
-       "EBF site 369 (partition 1)":1,
-       "EBF site 379 (partition 1)":1,
-       "EBF site 384 (partition 1)":1,
-       "EBF site 389 (partition 1)":1,
-       "EBF site 39 (partition 1)":1,
-       "EBF site 403 (partition 1)":1,
-       "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,
-       "EBF site 440 (partition 1)":1,
-       "EBF site 441 (partition 1)":1,
-       "EBF site 445 (partition 1)":1,
-       "EBF site 45 (partition 1)":1,
-       "EBF site 454 (partition 1)":1,
-       "EBF site 466 (partition 1)":1,
-       "EBF site 477 (partition 1)":1,
-       "EBF site 478 (partition 1)":1,
-       "EBF site 479 (partition 1)":1,
-       "EBF site 481 (partition 1)":1,
-       "EBF site 485 (partition 1)":1,
-       "EBF site 488 (partition 1)":1,
-       "EBF site 489 (partition 1)":1,
-       "EBF site 494 (partition 1)":1,
-       "EBF site 499 (partition 1)":1,
-       "EBF site 50 (partition 1)":1,
-       "EBF site 506 (partition 1)":0.8746038011024435,
-       "EBF site 507 (partition 1)":1,
-       "EBF site 509 (partition 1)":1,
-       "EBF site 51 (partition 1)":1,
-       "EBF site 513 (partition 1)":1,
-       "EBF site 514 (partition 1)":1,
-       "EBF site 515 (partition 1)":0.3731521179087048,
-       "EBF site 519 (partition 1)":1,
-       "EBF site 52 (partition 1)":1,
-       "EBF site 527 (partition 1)":1,
-       "EBF site 529 (partition 1)":1,
-       "EBF site 537 (partition 1)":1,
-       "EBF site 539 (partition 1)":1,
-       "EBF site 54 (partition 1)":1,
-       "EBF site 540 (partition 1)":1,
-       "EBF site 544 (partition 1)":1,
-       "EBF site 545 (partition 1)":1,
-       "EBF site 549 (partition 1)":1,
-       "EBF site 553 (partition 1)":1,
-       "EBF site 558 (partition 1)":801.4390067003429,
-       "EBF site 560 (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,
-       "EBF site 61 (partition 1)":1,
-       "EBF site 62 (partition 1)":1,
-       "EBF site 64 (partition 1)":1,
-       "EBF site 66 (partition 1)":1,
-       "EBF site 68 (partition 1)":1,
-       "EBF site 69 (partition 1)":1,
-       "EBF site 70 (partition 1)":1,
-       "EBF site 73 (partition 1)":1,
-       "EBF site 77 (partition 1)":1,
-       "EBF site 78 (partition 1)":1,
-       "EBF site 79 (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 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":{
-       "EBF site 10 (partition 1)":1,
-       "EBF site 100 (partition 1)":1,
-       "EBF site 102 (partition 1)":0.02393651903157867,
-       "EBF site 104 (partition 1)":1,
-       "EBF site 107 (partition 1)":1,
-       "EBF site 109 (partition 1)":1,
-       "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,
@@ -780,27 +604,22 @@
        "EBF site 136 (partition 1)":1,
        "EBF site 140 (partition 1)":1,
        "EBF site 142 (partition 1)":1,
-       "EBF site 145 (partition 1)":0.8280682354255258,
+       "EBF site 145 (partition 1)":1,
        "EBF site 146 (partition 1)":1,
-       "EBF site 147 (partition 1)":1,
-       "EBF site 150 (partition 1)":0.6760382457596926,
        "EBF site 152 (partition 1)":1,
        "EBF site 153 (partition 1)":1,
-       "EBF site 154 (partition 1)":0.501546256330497,
+       "EBF site 154 (partition 1)":1,
        "EBF site 155 (partition 1)":1,
        "EBF site 156 (partition 1)":1,
        "EBF site 157 (partition 1)":1,
-       "EBF site 16 (partition 1)":1,
-       "EBF site 167 (partition 1)":0.1528560886952729,
-       "EBF site 17 (partition 1)":1,
+       "EBF site 16 (partition 1)":0.8956232595692452,
+       "EBF site 167 (partition 1)":0.2934693500080898,
        "EBF site 170 (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)":15835.34717611547,
+       "EBF site 178 (partition 1)":0.4307307240732443,
        "EBF site 181 (partition 1)":1,
-       "EBF site 191 (partition 1)":0.09537675770709819,
-       "EBF site 195 (partition 1)":1,
        "EBF site 196 (partition 1)":1,
        "EBF site 197 (partition 1)":1,
        "EBF site 200 (partition 1)":1,
@@ -808,206 +627,20 @@
        "EBF site 206 (partition 1)":1,
        "EBF site 209 (partition 1)":1,
        "EBF site 21 (partition 1)":1,
-       "EBF site 211 (partition 1)":0.6737403783181751,
        "EBF site 213 (partition 1)":1,
-       "EBF site 214 (partition 1)":0.1418107606887018,
        "EBF site 217 (partition 1)":1,
-       "EBF site 221 (partition 1)":1,
-       "EBF site 222 (partition 1)":1,
-       "EBF site 224 (partition 1)":1,
-       "EBF site 226 (partition 1)":1,
        "EBF site 228 (partition 1)":1,
-       "EBF site 230 (partition 1)":1,
-       "EBF site 231 (partition 1)":1,
-       "EBF site 233 (partition 1)":1,
        "EBF site 237 (partition 1)":1,
-       "EBF site 240 (partition 1)":1,
        "EBF site 241 (partition 1)":1,
        "EBF site 250 (partition 1)":1,
        "EBF site 254 (partition 1)":1,
        "EBF site 256 (partition 1)":1,
        "EBF site 258 (partition 1)":1,
-       "EBF site 265 (partition 1)":1,
-       "EBF site 271 (partition 1)":1,
        "EBF site 278 (partition 1)":1,
        "EBF site 279 (partition 1)":1,
        "EBF site 28 (partition 1)":1,
-       "EBF site 283 (partition 1)":1,
        "EBF site 288 (partition 1)":1,
-       "EBF site 291 (partition 1)":1,
-       "EBF site 298 (partition 1)":0.8360213979636671,
-       "EBF site 3 (partition 1)":1,
-       "EBF site 302 (partition 1)":1,
-       "EBF site 304 (partition 1)":1,
-       "EBF site 306 (partition 1)":1,
-       "EBF site 309 (partition 1)":1,
-       "EBF site 312 (partition 1)":1,
-       "EBF site 315 (partition 1)":1,
-       "EBF site 327 (partition 1)":1,
-       "EBF site 328 (partition 1)":1,
-       "EBF site 329 (partition 1)":1,
-       "EBF site 33 (partition 1)":1,
-       "EBF site 332 (partition 1)":1,
-       "EBF site 336 (partition 1)":0.0368239186086554,
-       "EBF site 338 (partition 1)":0.2944385633682623,
-       "EBF site 339 (partition 1)":1,
-       "EBF site 341 (partition 1)":1,
-       "EBF site 342 (partition 1)":1,
-       "EBF site 344 (partition 1)":1,
-       "EBF site 348 (partition 1)":1,
-       "EBF site 351 (partition 1)":1,
-       "EBF site 353 (partition 1)":1,
-       "EBF site 354 (partition 1)":1,
-       "EBF site 357 (partition 1)":1,
-       "EBF site 361 (partition 1)":1,
-       "EBF site 362 (partition 1)":1,
-       "EBF site 369 (partition 1)":1,
-       "EBF site 379 (partition 1)":1,
-       "EBF site 384 (partition 1)":1,
-       "EBF site 389 (partition 1)":1,
-       "EBF site 39 (partition 1)":1,
-       "EBF site 403 (partition 1)":1,
-       "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,
-       "EBF site 440 (partition 1)":1,
-       "EBF site 441 (partition 1)":1,
-       "EBF site 445 (partition 1)":1,
-       "EBF site 45 (partition 1)":1,
-       "EBF site 454 (partition 1)":1,
-       "EBF site 466 (partition 1)":1,
-       "EBF site 477 (partition 1)":1,
-       "EBF site 478 (partition 1)":1,
-       "EBF site 479 (partition 1)":1,
-       "EBF site 481 (partition 1)":1,
-       "EBF site 485 (partition 1)":1,
-       "EBF site 488 (partition 1)":1,
-       "EBF site 489 (partition 1)":1,
-       "EBF site 494 (partition 1)":1,
-       "EBF site 499 (partition 1)":1,
-       "EBF site 50 (partition 1)":1,
-       "EBF site 506 (partition 1)":0.6500551016370714,
-       "EBF site 507 (partition 1)":1,
-       "EBF site 509 (partition 1)":1,
-       "EBF site 51 (partition 1)":1,
-       "EBF site 513 (partition 1)":1,
-       "EBF site 514 (partition 1)":1,
-       "EBF site 515 (partition 1)":0.1322033832081518,
-       "EBF site 519 (partition 1)":1,
-       "EBF site 52 (partition 1)":1,
-       "EBF site 527 (partition 1)":1,
-       "EBF site 529 (partition 1)":1,
-       "EBF site 537 (partition 1)":1,
-       "EBF site 539 (partition 1)":1,
-       "EBF site 54 (partition 1)":1,
-       "EBF site 540 (partition 1)":1,
-       "EBF site 544 (partition 1)":1,
-       "EBF site 545 (partition 1)":1,
-       "EBF site 549 (partition 1)":1,
-       "EBF site 553 (partition 1)":1,
-       "EBF site 558 (partition 1)":0.6653217390990939,
-       "EBF site 560 (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,
-       "EBF site 61 (partition 1)":1,
-       "EBF site 62 (partition 1)":1,
-       "EBF site 64 (partition 1)":1,
-       "EBF site 66 (partition 1)":1,
-       "EBF site 68 (partition 1)":1,
-       "EBF site 69 (partition 1)":1,
-       "EBF site 70 (partition 1)":1,
-       "EBF site 73 (partition 1)":1,
-       "EBF site 77 (partition 1)":1,
-       "EBF site 78 (partition 1)":1,
-       "EBF site 79 (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 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":{
-       "EBF site 10 (partition 1)":1,
-       "EBF site 100 (partition 1)":1,
-       "EBF site 102 (partition 1)":0.5240630813355003,
-       "EBF site 104 (partition 1)":1,
-       "EBF site 107 (partition 1)":1,
-       "EBF site 109 (partition 1)":1,
-       "EBF site 11 (partition 1)":1,
-       "EBF site 110 (partition 1)":1,
-       "EBF site 112 (partition 1)":1,
-       "EBF site 113 (partition 1)":1,
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-       "EBF site 12 (partition 1)":1,
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-       "EBF site 140 (partition 1)":1,
-       "EBF site 142 (partition 1)":1,
-       "EBF site 145 (partition 1)":0.9951285865433814,
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-       "EBF site 147 (partition 1)":1,
-       "EBF site 150 (partition 1)":0.9897158301577635,
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-       "EBF site 153 (partition 1)":1,
-       "EBF site 154 (partition 1)":0.9400060570137585,
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-       "EBF site 16 (partition 1)":1,
-       "EBF site 167 (partition 1)":0.9014392176703883,
-       "EBF site 17 (partition 1)":1,
-       "EBF site 170 (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)":0.9060196597105172,
-       "EBF site 181 (partition 1)":1,
-       "EBF site 191 (partition 1)":0.9099947152604509,
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-       "EBF site 196 (partition 1)":1,
-       "EBF site 197 (partition 1)":1,
-       "EBF site 200 (partition 1)":1,
-       "EBF site 204 (partition 1)":1,
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-       "EBF site 209 (partition 1)":1,
-       "EBF site 21 (partition 1)":1,
-       "EBF site 211 (partition 1)":0.98953821832221,
-       "EBF site 213 (partition 1)":1,
-       "EBF site 214 (partition 1)":0.9012082825971393,
-       "EBF site 217 (partition 1)":1,
-       "EBF site 221 (partition 1)":1,
-       "EBF site 222 (partition 1)":1,
-       "EBF site 224 (partition 1)":1,
-       "EBF site 226 (partition 1)":1,
-       "EBF site 228 (partition 1)":1,
-       "EBF site 230 (partition 1)":1,
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-       "EBF site 240 (partition 1)":1,
-       "EBF site 241 (partition 1)":1,
-       "EBF site 250 (partition 1)":1,
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-       "EBF site 28 (partition 1)":1,
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-       "EBF site 288 (partition 1)":1,
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-       "EBF site 298 (partition 1)":0.9940632478331154,
+       "EBF site 298 (partition 1)":0.7445639669913046,
        "EBF site 3 (partition 1)":1,
        "EBF site 302 (partition 1)":1,
        "EBF site 304 (partition 1)":1,
@@ -1016,107 +649,67 @@
        "EBF site 312 (partition 1)":1,
        "EBF site 315 (partition 1)":1,
        "EBF site 327 (partition 1)":1,
-       "EBF site 328 (partition 1)":1,
        "EBF site 329 (partition 1)":1,
-       "EBF site 33 (partition 1)":1,
        "EBF site 332 (partition 1)":1,
-       "EBF site 336 (partition 1)":0.5319670758465619,
-       "EBF site 338 (partition 1)":0.9530808677350798,
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-       "EBF site 341 (partition 1)":1,
+       "EBF site 336 (partition 1)":0.03271648327333754,
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        "EBF site 389 (partition 1)":1,
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        "EBF site 417 (partition 1)":1,
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        "EBF site 488 (partition 1)":1,
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        "EBF site 50 (partition 1)":1,
-       "EBF site 506 (partition 1)":0.9887972959537547,
-       "EBF site 507 (partition 1)":1,
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        "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)":0.8918744793469561,
-       "EBF site 519 (partition 1)":1,
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        "EBF site 52 (partition 1)":1,
        "EBF site 527 (partition 1)":1,
        "EBF site 529 (partition 1)":1,
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        "EBF site 539 (partition 1)":1,
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        "EBF site 545 (partition 1)":1,
        "EBF site 549 (partition 1)":1,
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-       "EBF site 558 (partition 1)":0.9892858887307303,
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        "EBF site 560 (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,
-       "EBF site 61 (partition 1)":1,
-       "EBF site 62 (partition 1)":1,
-       "EBF site 64 (partition 1)":1,
-       "EBF site 66 (partition 1)":1,
        "EBF site 68 (partition 1)":1,
        "EBF site 69 (partition 1)":1,
-       "EBF site 70 (partition 1)":1,
-       "EBF site 73 (partition 1)":1,
-       "EBF site 77 (partition 1)":1,
        "EBF site 78 (partition 1)":1,
        "EBF site 79 (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 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"
+       "Global MG94xREV":0.00645863855906697,
+       "Nucleotide GTR":0.006373291987009584,
+       "original name":"CHICKEN_CK_160_2005"
       },
-     "CK_HK_WF157_2003":{
-       "EBF site 10 (partition 1)":1,
+     "CHICKEN_HEBEI_326_2005":{
        "EBF site 100 (partition 1)":1,
-       "EBF site 102 (partition 1)":1379.756035017705,
+       "EBF site 102 (partition 1)":0.06569877494136181,
        "EBF site 104 (partition 1)":1,
-       "EBF site 107 (partition 1)":1,
-       "EBF site 109 (partition 1)":1,
        "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,
@@ -1124,27 +717,22 @@
        "EBF site 136 (partition 1)":1,
        "EBF site 140 (partition 1)":1,
        "EBF site 142 (partition 1)":1,
-       "EBF site 145 (partition 1)":0.9437923890358962,
+       "EBF site 145 (partition 1)":1,
        "EBF site 146 (partition 1)":1,
-       "EBF site 147 (partition 1)":1,
-       "EBF site 150 (partition 1)":0.8851921878588614,
        "EBF site 152 (partition 1)":1,
        "EBF site 153 (partition 1)":1,
-       "EBF site 154 (partition 1)":0.6798007785957374,
+       "EBF site 154 (partition 1)":1,
        "EBF site 155 (partition 1)":1,
        "EBF site 156 (partition 1)":1,
        "EBF site 157 (partition 1)":1,
-       "EBF site 16 (partition 1)":1,
-       "EBF site 167 (partition 1)":0.3797768736854915,
-       "EBF site 17 (partition 1)":1,
+       "EBF site 16 (partition 1)":0.7844317844147759,
+       "EBF site 167 (partition 1)":0.0798862423565137,
        "EBF site 170 (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)":0.3677075418706205,
+       "EBF site 178 (partition 1)":5161.854768892544,
        "EBF site 181 (partition 1)":1,
-       "EBF site 191 (partition 1)":0.3909088473139561,
-       "EBF site 195 (partition 1)":1,
        "EBF site 196 (partition 1)":1,
        "EBF site 197 (partition 1)":1,
        "EBF site 200 (partition 1)":1,
@@ -1152,34 +740,20 @@
        "EBF site 206 (partition 1)":1,
        "EBF site 209 (partition 1)":1,
        "EBF site 21 (partition 1)":1,
-       "EBF site 211 (partition 1)":0.8836978374536213,
        "EBF site 213 (partition 1)":1,
-       "EBF site 214 (partition 1)":0.3778106224838331,
        "EBF site 217 (partition 1)":1,
-       "EBF site 221 (partition 1)":1,
-       "EBF site 222 (partition 1)":1,
-       "EBF site 224 (partition 1)":1,
-       "EBF site 226 (partition 1)":1,
        "EBF site 228 (partition 1)":1,
-       "EBF site 230 (partition 1)":1,
-       "EBF site 231 (partition 1)":1,
-       "EBF site 233 (partition 1)":1,
        "EBF site 237 (partition 1)":1,
-       "EBF site 240 (partition 1)":1,
        "EBF site 241 (partition 1)":1,
        "EBF site 250 (partition 1)":1,
        "EBF site 254 (partition 1)":1,
        "EBF site 256 (partition 1)":1,
        "EBF site 258 (partition 1)":1,
-       "EBF site 265 (partition 1)":1,
-       "EBF site 271 (partition 1)":1,
        "EBF site 278 (partition 1)":1,
        "EBF site 279 (partition 1)":1,
        "EBF site 28 (partition 1)":1,
-       "EBF site 283 (partition 1)":1,
        "EBF site 288 (partition 1)":1,
-       "EBF site 291 (partition 1)":1,
-       "EBF site 298 (partition 1)":0.9316810582498189,
+       "EBF site 298 (partition 1)":0.5638294970328166,
        "EBF site 3 (partition 1)":1,
        "EBF site 302 (partition 1)":1,
        "EBF site 304 (partition 1)":1,
@@ -1188,107 +762,67 @@
        "EBF site 312 (partition 1)":1,
        "EBF site 315 (partition 1)":1,
        "EBF site 327 (partition 1)":1,
-       "EBF site 328 (partition 1)":1,
        "EBF site 329 (partition 1)":1,
-       "EBF site 33 (partition 1)":1,
        "EBF site 332 (partition 1)":1,
-       "EBF site 336 (partition 1)":0.04728563578028874,
-       "EBF site 338 (partition 1)":0.6046360278098571,
-       "EBF site 339 (partition 1)":1,
-       "EBF site 341 (partition 1)":1,
+       "EBF site 336 (partition 1)":0.02455830900453714,
+       "EBF site 341 (partition 1)":0.3158303901000457,
        "EBF site 342 (partition 1)":1,
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        "EBF site 369 (partition 1)":1,
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        "EBF site 389 (partition 1)":1,
-       "EBF site 39 (partition 1)":1,
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        "EBF site 417 (partition 1)":1,
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        "EBF site 488 (partition 1)":1,
        "EBF site 489 (partition 1)":1,
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        "EBF site 499 (partition 1)":1,
        "EBF site 50 (partition 1)":1,
-       "EBF site 506 (partition 1)":610.9812534626535,
-       "EBF site 507 (partition 1)":1,
+       "EBF site 506 (partition 1)":0.2258487451037979,
        "EBF site 509 (partition 1)":1,
-       "EBF site 51 (partition 1)":1,
-       "EBF site 513 (partition 1)":1,
-       "EBF site 514 (partition 1)":1,
-       "EBF site 515 (partition 1)":0.3749086051203841,
-       "EBF site 519 (partition 1)":1,
+       "EBF site 515 (partition 1)":0.08274866900645356,
        "EBF site 52 (partition 1)":1,
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        "EBF site 529 (partition 1)":1,
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        "EBF site 539 (partition 1)":1,
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-       "EBF site 540 (partition 1)":1,
-       "EBF site 544 (partition 1)":1,
        "EBF site 545 (partition 1)":1,
        "EBF site 549 (partition 1)":1,
        "EBF site 553 (partition 1)":1,
-       "EBF site 558 (partition 1)":0.8807204271780398,
+       "EBF site 558 (partition 1)":0.3700328203884394,
        "EBF site 560 (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,
-       "EBF site 61 (partition 1)":1,
-       "EBF site 62 (partition 1)":1,
-       "EBF site 64 (partition 1)":1,
-       "EBF site 66 (partition 1)":1,
        "EBF site 68 (partition 1)":1,
        "EBF site 69 (partition 1)":1,
-       "EBF site 70 (partition 1)":1,
-       "EBF site 73 (partition 1)":1,
-       "EBF site 77 (partition 1)":1,
        "EBF site 78 (partition 1)":1,
        "EBF site 79 (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 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"
+       "Global MG94xREV":0.02423152216561739,
+       "Nucleotide GTR":0.02374038722405768,
+       "original name":"CHICKEN_HEBEI_326_2005"
       },
-     "GOOSE_HONGKONG_W355_97":{
-       "EBF site 10 (partition 1)":1,
+     "CK_HK_WF157_2003":{
        "EBF site 100 (partition 1)":1,
-       "EBF site 102 (partition 1)":0.8777289496419938,
+       "EBF site 102 (partition 1)":3.856684674269879,
        "EBF site 104 (partition 1)":1,
-       "EBF site 107 (partition 1)":1,
-       "EBF site 109 (partition 1)":1,
        "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,
@@ -1296,27 +830,22 @@
        "EBF site 136 (partition 1)":1,
        "EBF site 140 (partition 1)":1,
        "EBF site 142 (partition 1)":1,
-       "EBF site 145 (partition 1)":0.9990802771705413,
+       "EBF site 145 (partition 1)":1,
        "EBF site 146 (partition 1)":1,
-       "EBF site 147 (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)":0.9884234737321324,
+       "EBF site 154 (partition 1)":1,
        "EBF site 155 (partition 1)":1,
        "EBF site 156 (partition 1)":1,
        "EBF site 157 (partition 1)":1,
-       "EBF site 16 (partition 1)":1,
-       "EBF site 167 (partition 1)":0.9803796983900606,
-       "EBF site 17 (partition 1)":1,
+       "EBF site 16 (partition 1)":0.9046289052755122,
+       "EBF site 167 (partition 1)":0.2316419784994734,
        "EBF site 170 (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)":0.981406216169705,
+       "EBF site 178 (partition 1)":0.4434509641896167,
        "EBF site 181 (partition 1)":1,
-       "EBF site 191 (partition 1)":0.982152760032229,
-       "EBF site 195 (partition 1)":1,
        "EBF site 196 (partition 1)":1,
        "EBF site 197 (partition 1)":1,
        "EBF site 200 (partition 1)":1,
@@ -1324,378 +853,20 @@
        "EBF site 206 (partition 1)":1,
        "EBF site 209 (partition 1)":1,
        "EBF site 21 (partition 1)":1,
-       "EBF site 211 (partition 1)":0.9980181864097681,
        "EBF site 213 (partition 1)":1,
-       "EBF site 214 (partition 1)":0.9803513611233006,
        "EBF site 217 (partition 1)":1,
-       "EBF site 221 (partition 1)":1,
-       "EBF site 222 (partition 1)":1,
-       "EBF site 224 (partition 1)":1,
-       "EBF site 226 (partition 1)":1,
        "EBF site 228 (partition 1)":1,
-       "EBF site 230 (partition 1)":1,
-       "EBF site 231 (partition 1)":1,
-       "EBF site 233 (partition 1)":1,
        "EBF site 237 (partition 1)":1,
-       "EBF site 240 (partition 1)":1,
        "EBF site 241 (partition 1)":1,
        "EBF site 250 (partition 1)":1,
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        "EBF site 258 (partition 1)":1,
-       "EBF site 265 (partition 1)":1,
-       "EBF site 271 (partition 1)":1,
-       "EBF site 278 (partition 1)":1,
-       "EBF site 279 (partition 1)":1,
-       "EBF site 28 (partition 1)":1,
-       "EBF site 283 (partition 1)":1,
-       "EBF site 288 (partition 1)":1,
-       "EBF site 291 (partition 1)":1,
-       "EBF site 298 (partition 1)":0.9988775632047748,
-       "EBF site 3 (partition 1)":1,
-       "EBF site 302 (partition 1)":1,
-       "EBF site 304 (partition 1)":1,
-       "EBF site 306 (partition 1)":1,
-       "EBF site 309 (partition 1)":1,
-       "EBF site 312 (partition 1)":1,
-       "EBF site 315 (partition 1)":1,
-       "EBF site 327 (partition 1)":1,
-       "EBF site 328 (partition 1)":1,
-       "EBF site 329 (partition 1)":1,
-       "EBF site 33 (partition 1)":1,
-       "EBF site 332 (partition 1)":1,
-       "EBF site 336 (partition 1)":0.8787687757558389,
-       "EBF site 338 (partition 1)":0.9909317579852976,
-       "EBF site 339 (partition 1)":1,
-       "EBF site 341 (partition 1)":1,
-       "EBF site 342 (partition 1)":1,
-       "EBF site 344 (partition 1)":1,
-       "EBF site 348 (partition 1)":1,
-       "EBF site 351 (partition 1)":1,
-       "EBF site 353 (partition 1)":1,
-       "EBF site 354 (partition 1)":1,
-       "EBF site 357 (partition 1)":1,
-       "EBF site 361 (partition 1)":1,
-       "EBF site 362 (partition 1)":1,
-       "EBF site 369 (partition 1)":1,
-       "EBF site 379 (partition 1)":1,
-       "EBF site 384 (partition 1)":1,
-       "EBF site 389 (partition 1)":1,
-       "EBF site 39 (partition 1)":1,
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-       "Nucleotide GTR":0.0001122503888485257,
-       "original name":"GOOSE_HONGKONG_W355_97"
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-       "EBF site 102 (partition 1)":0.05219608459941513,
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-       "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"
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        "EBF site 3 (partition 1)":1,
        "EBF site 302 (partition 1)":1,
        "EBF site 304 (partition 1)":1,
@@ -1704,107 +875,67 @@
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+       "EBF site 336 (partition 1)":0.04461369533298304,
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-       "EBF site 558 (partition 1)":1,
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        "EBF site 68 (partition 1)":1,
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        "EBF site 78 (partition 1)":1,
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        "EBF site 84 (partition 1)":1,
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        "EBF site 89 (partition 1)":1,
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-       "EBF site 99 (partition 1)":1,
-       "Global MG94xREV":0,
-       "Nucleotide GTR":0,
-       "original name":"HONGKONG_1_538_97"
+       "Global MG94xREV":0.00642299379534039,
+       "Nucleotide GTR":0.006310687609704974,
+       "original name":"CK_HK_WF157_2003"
       },
-     "HONGKONG_1_97_98":{
-       "EBF site 10 (partition 1)":1,
+     "MALLARD_VIETNAM_16_2003":{
        "EBF site 100 (partition 1)":1,
-       "EBF site 102 (partition 1)":0.0887845880768766,
+       "EBF site 102 (partition 1)":4.507359529600316,
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        "EBF site 11 (partition 1)":1,
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        "EBF site 112 (partition 1)":1,
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        "EBF site 117 (partition 1)":1,
@@ -1812,27 +943,22 @@
        "EBF site 136 (partition 1)":1,
        "EBF site 140 (partition 1)":1,
        "EBF site 142 (partition 1)":1,
-       "EBF site 145 (partition 1)":0.965448716358223,
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-       "EBF site 150 (partition 1)":0.928481687637048,
        "EBF site 152 (partition 1)":1,
        "EBF site 153 (partition 1)":1,
-       "EBF site 154 (partition 1)":0.6535249589737977,
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        "EBF site 157 (partition 1)":1,
-       "EBF site 16 (partition 1)":1,
-       "EBF site 167 (partition 1)":0.5205236721430598,
-       "EBF site 17 (partition 1)":1,
+       "EBF site 16 (partition 1)":0.9573640277810944,
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        "EBF site 170 (partition 1)":1,
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        "EBF site 175 (partition 1)":1,
-       "EBF site 178 (partition 1)":0.5210762065413646,
+       "EBF site 178 (partition 1)":0.6970990247035137,
        "EBF site 181 (partition 1)":1,
-       "EBF site 191 (partition 1)":0.5439333800916231,
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        "EBF site 196 (partition 1)":1,
        "EBF site 197 (partition 1)":1,
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@@ -1840,378 +966,20 @@
        "EBF site 206 (partition 1)":1,
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        "EBF site 21 (partition 1)":1,
-       "EBF site 211 (partition 1)":0.9273804558418192,
        "EBF site 213 (partition 1)":1,
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-       "EBF site 99 (partition 1)":0.9683042684597656,
-       "Global MG94xREV":0.001798825297134293,
-       "Nucleotide GTR":0.001785073334670078,
-       "original name":"HUMAN_VIETNAM_3062_2004"
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-       "EBF site 298 (partition 1)":0.9196963953495797,
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        "EBF site 3 (partition 1)":1,
        "EBF site 302 (partition 1)":1,
        "EBF site 304 (partition 1)":1,
@@ -2220,107 +988,67 @@
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+       "EBF site 336 (partition 1)":0.06770041982896659,
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-       "EBF site 558 (partition 1)":0.8606992173468657,
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        "EBF site 84 (partition 1)":1,
        "EBF site 86 (partition 1)":1,
        "EBF site 89 (partition 1)":1,
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-       "EBF site 99 (partition 1)":320.7003130353374,
-       "Global MG94xREV":0.008457752730161283,
-       "Nucleotide GTR":0.006523328810549479,
-       "original name":"HUMAN_VIETNAM_CL105_2005"
+       "Global MG94xREV":0.002547563847867838,
+       "Nucleotide GTR":0.002596872549070691,
+       "original name":"MALLARD_VIETNAM_16_2003"
       },
-     "MALLARD_VIETNAM_16_2003":{
-       "EBF site 10 (partition 1)":1,
+     "Node11":{
        "EBF site 100 (partition 1)":1,
-       "EBF site 102 (partition 1)":0.1555919318429866,
+       "EBF site 102 (partition 1)":2.751373061276218,
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        "EBF site 11 (partition 1)":1,
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        "EBF site 112 (partition 1)":1,
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        "EBF site 117 (partition 1)":1,
@@ -2328,27 +1056,22 @@
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        "EBF site 140 (partition 1)":1,
        "EBF site 142 (partition 1)":1,
-       "EBF site 145 (partition 1)":0.9804466477838129,
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        "EBF site 153 (partition 1)":1,
-       "EBF site 154 (partition 1)":0.7997863164754097,
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@@ -2356,34 +1079,20 @@
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@@ -3419,106 +1325,66 @@
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-       "Nucleotide GTR":0.002124825996303432
+       "Global MG94xREV":0.003770854449924277,
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-     "Node2":{
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+     "Node4":{
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@@ -3590,106 +1437,66 @@
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-       "Global MG94xREV":0.0132379127248045,
-       "Nucleotide GTR":0.01301891180558006
+       "Global MG94xREV":0.002388729972850264,
+       "Nucleotide GTR":0.002273329319054118
       },
-     "Node23":{
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+     "Node5":{
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@@ -3697,27 +1504,22 @@
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@@ -3725,376 +1527,20 @@
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@@ -4103,106 +1549,66 @@
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+       "Global MG94xREV":0.003196119577897838,
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       },
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+     "Node7":{
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@@ -4210,27 +1616,22 @@
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@@ -4238,376 +1639,20 @@
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@@ -4616,106 +1661,66 @@
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-       "Nucleotide GTR":0.004189213724227078
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+     "Node9":{
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@@ -4723,27 +1728,22 @@
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-     "PEREGRINEFALCON_HK_D0028_2004":{
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+     "SWINE_ANHUI_1_2004":{
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-       "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 102 (partition 1)":0.04304779812427435,
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-       "EBF site 558 (partition 1)":0.8263997263369185,
-       "EBF site 560 (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,
-       "EBF site 61 (partition 1)":1,
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-       "EBF site 64 (partition 1)":1,
-       "EBF site 66 (partition 1)":1,
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-       "EBF site 69 (partition 1)":1,
-       "EBF site 70 (partition 1)":1,
-       "EBF site 73 (partition 1)":1,
-       "EBF site 77 (partition 1)":1,
-       "EBF site 78 (partition 1)":1,
-       "EBF site 79 (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 9 (partition 1)":1,
-       "EBF site 99 (partition 1)":0.8274022600721103,
-       "Global MG94xREV":0.01081751233170446,
-       "Nucleotide GTR":0.007656566904909031,
+       "Global MG94xREV":0.007944352318354534,
+       "Nucleotide GTR":0.00775874788653539,
        "original name":"SWINE_ANHUI_1_2004"
       }
     },
    "attributes":{
-     "EBF site 10 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":12
-      },
      "EBF site 100 (partition 1)":{
        "attribute type":"branch label",
        "display order":102
@@ -5411,22 +1955,10 @@
        "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 11 (partition 1)":{
        "attribute type":"branch label",
        "display order":13
       },
-     "EBF site 110 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":112
-      },
      "EBF site 112 (partition 1)":{
        "attribute type":"branch label",
        "display order":114
@@ -5463,14 +1995,6 @@
        "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
@@ -5503,10 +2027,6 @@
        "attribute type":"branch label",
        "display order":169
       },
-     "EBF site 17 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":19
-      },
      "EBF site 170 (partition 1)":{
        "attribute type":"branch label",
        "display order":172
@@ -5531,14 +2051,6 @@
        "attribute type":"branch label",
        "display order":183
       },
-     "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
@@ -5567,62 +2079,22 @@
        "attribute type":"branch label",
        "display order":23
       },
-     "EBF site 211 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":213
-      },
      "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",
        "display order":219
       },
-     "EBF site 221 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":223
-      },
-     "EBF site 222 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":224
-      },
-     "EBF site 224 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":226
-      },
-     "EBF site 226 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":228
-      },
      "EBF site 228 (partition 1)":{
        "attribute type":"branch label",
        "display order":230
       },
-     "EBF site 230 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":232
-      },
-     "EBF site 231 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":233
-      },
-     "EBF site 233 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":235
-      },
      "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
@@ -5643,14 +2115,6 @@
        "attribute type":"branch label",
        "display order":260
       },
-     "EBF site 265 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":267
-      },
-     "EBF site 271 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":273
-      },
      "EBF site 278 (partition 1)":{
        "attribute type":"branch label",
        "display order":280
@@ -5663,18 +2127,10 @@
        "attribute type":"branch label",
        "display order":30
       },
-     "EBF site 283 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":285
-      },
      "EBF site 288 (partition 1)":{
        "attribute type":"branch label",
        "display order":290
       },
-     "EBF site 291 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":293
-      },
      "EBF site 298 (partition 1)":{
        "attribute type":"branch label",
        "display order":300
@@ -5711,18 +2167,10 @@
        "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 332 (partition 1)":{
        "attribute type":"branch label",
        "display order":334
@@ -5731,14 +2179,6 @@
        "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
@@ -5747,10 +2187,6 @@
        "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
@@ -5767,10 +2203,6 @@
        "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
@@ -5787,26 +2219,10 @@
        "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
@@ -5815,10 +2231,6 @@
        "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
@@ -5827,10 +2239,6 @@
        "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
@@ -5843,10 +2251,6 @@
        "attribute type":"branch label",
        "display order":47
       },
-     "EBF site 454 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":456
-      },
      "EBF site 466 (partition 1)":{
        "attribute type":"branch label",
        "display order":468
@@ -5855,22 +2259,6 @@
        "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
@@ -5879,10 +2267,6 @@
        "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
@@ -5895,34 +2279,14 @@
        "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
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      "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
@@ -5943,18 +2307,6 @@
        "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
@@ -5991,22 +2343,6 @@
        "attribute type":"branch label",
        "display order":62
       },
-     "EBF site 61 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":63
-      },
-     "EBF site 62 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":64
-      },
-     "EBF site 64 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":66
-      },
-     "EBF site 66 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":68
-      },
      "EBF site 68 (partition 1)":{
        "attribute type":"branch label",
        "display order":70
@@ -6015,18 +2351,6 @@
        "attribute type":"branch label",
        "display order":71
       },
-     "EBF site 70 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":72
-      },
-     "EBF site 73 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":75
-      },
-     "EBF site 77 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":79
-      },
      "EBF site 78 (partition 1)":{
        "attribute type":"branch label",
        "display order":80
@@ -6039,10 +2363,6 @@
        "attribute type":"branch label",
        "display order":10
       },
-     "EBF site 81 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":83
-      },
      "EBF site 84 (partition 1)":{
        "attribute type":"branch label",
        "display order":86
@@ -6055,14 +2375,6 @@
        "attribute type":"branch label",
        "display order":91
       },
-     "EBF site 9 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":11
-      },
-     "EBF site 99 (partition 1)":{
-       "attribute type":"branch label",
-       "display order":101
-      },
      "Global MG94xREV":{
        "attribute type":"branch length",
        "display order":1
@@ -6087,153 +2399,137 @@
   },
  "fits":{
    "Global MG94xREV":{
-     "AIC-c":7226.087178885974,
+     "AIC-c":6011.13695012892,
      "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] 
+[0.0487448731499957],
+      [0.02916309663834602],
+      [0.03100171502919514],
+      [0.03392179881163448],
+      [0.02040080210426937],
+      [0.01220539771302355],
+      [0.01297489997065711],
+      [0.01419701929364967],
+      [0.02306796533539959],
+      [0.0138011088931582],
+      [0.01467121445635504],
+      [0.01605311140503505],
+      [0.03067687144383888],
+      [0.01835336741416609],
+      [0.01951047494908151],
+      [0.02134818687672324],
+      [0.02126077850204813],
+      [0.01271990463804815],
+      [0.01352184453103644],
+      [0.01479548113102975],
+      [0.008898103672735205],
+      [0.005323560008197935],
+      [0.005659189501089015],
+      [0.006192234446128948],
+      [0.010061425331433],
+      [0.006019552422614294],
+      [0.006399061496227086],
+      [0.007001795754005012],
+      [0.01338015932252603],
+      [0.008005085543223482],
+      [0.008509774660521757],
+      [0.009311319186526256],
+      [0.04013232935583105],
+      [0.02401038147590574],
+      [0.02552414146855538],
+      [0.02792828690027832],
+      [0.01679626299677307],
+      [0.01004887302569606],
+      [0.0106824148947738],
+      [0.01168860266413242],
+      [0.01899217543474583],
+      [0.01136264414662781],
+      [0.01207901411089265],
+      [0.0132167490129733],
+      [0.02525669324448205],
+      [0.01511058165209229],
+      [0.0160632443156804],
+      [0.01757625800461362],
+      [0.02112670632168297],
+      [0.02457406668036405],
+      [0.01477901198657192],
+      [0.008841991514828857],
+      [0.009399444257673735],
+      [0.01028478768834936],
+      [0.009997977173519282],
+      [0.01062831025955897],
+      [0.01162940185705429],
+      [0.02222333457585675],
+      [0.01329578296096281],
+      [0.01413402971424556],
+      [0.01546532867335853] 
       ],
-     "Log Likelihood":-3569.784907463222,
+     "Log Likelihood":-2978.298667783946,
      "Rate Distributions":{
        "non-synonymous/synonymous rate ratio for *test*":        [
-[0.248895715005128, 1] 
+[0.2932353608697501, 1] 
         ]
       },
      "display order":1,
-     "estimated parameters":43
+     "estimated parameters":27
     },
    "Nucleotide GTR":{
-     "AIC-c":7431.204675852382,
+     "AIC-c":6152.529196194525,
      "Equilibrium frequencies":      [
-[0.3476574973769445],
-      [0.1861228958532913],
-      [0.2296428082660462],
-      [0.2365767985037179] 
+[0.3478363400542389],
+      [0.184883858035609],
+      [0.2307510906732697],
+      [0.2365287112368824] 
       ],
-     "Log Likelihood":-3679.541894127126,
+     "Log Likelihood":-3056.215005465311,
      "Rate Distributions":{
-       "Substitution rate from nucleotide A to nucleotide C":0.2089484190839437,
+       "Substitution rate from nucleotide A to nucleotide C":0.1810796022573985,
        "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
+       "Substitution rate from nucleotide A to nucleotide T":0.08708610799393901,
+       "Substitution rate from nucleotide C to nucleotide G":0.02931879134098465,
+       "Substitution rate from nucleotide C to nucleotide T":1.419136867291551,
+       "Substitution rate from nucleotide G to nucleotide T":0.1065442350926398
       },
      "display order":0,
-     "estimated parameters":36
+     "estimated parameters":20
     }
   },
  "input":{
-   "file name":"/tmp/tmpu23i1b/job_working_directory/000/3/working/meme_input.fa",
-   "number of sequences":13,
+   "file name":"/tmp/tmpdqyv1aux/job_working_directory/000/3/working/./meme_input.fa",
+   "number of sequences":5,
    "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)"
+     "0":"(((((CHICKEN_HEBEI_326_2005:0.02100885319673648,(SWINE_ANHUI_1_2004:0.007702393698306516)Node7:0.002095219592954275)Node5:0.003887237703073042)Node4:-1)Node3:0.003130608143291779,(CK_HK_WF157_2003:0.00663129750258774)Node9:0.004655295319725731)Node2:0.0116808817874948,(MALLARD_VIETNAM_16_2003:0.003244216605281072)Node11:0.0004125980823087554,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
+     "timer":437
     },
    "Model fitting":{
      "order":1,
-     "timer":2
+     "timer":4
     },
    "Total time":{
      "order":0,
-     "timer":252
+     "timer":442
     }
   }
 }
\ No newline at end of file