Initializing nucleic acids...done.
Applying constraints...done.
Folding single strand...
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 97% [================================================= ] -                     done.
Writing output ct file...done.
Single strand folding complete.
Initializing nucleic acids...done.
Applying SHAPE constraints...done.
Calculating free energies...done.
efn2 complete.
Converting CT file...CT file conversion complete.
/disk1/www/rails/humanrnamap/cli/./main.py:567: DeprecationWarning: Call to deprecated function (or staticmethod) VARNA. (Class has been renamed 'Structure')
  v = VARNA(structure=fold_dbn, sequence=seq)
Output file: /disk1/www/rails/humanrnamap/public/result/584e006f-960f-4bc9-9bfe-4a8638f15f73/final_image/TEX2_fold_1.svg

first - Elapsed time since the previous call: 0.00 seconds
first - Current memory usage: 158.39 MB
setup complete - Elapsed time since the previous call: 0.00 seconds
setup complete - Current memory usage: 158.39 MB
config complete - Elapsed time since the previous call: 0.00 seconds
config complete - Current memory usage: 158.39 MB
read annotations - Elapsed time since the previous call: 0.09 seconds
read annotations - Current memory usage: 172.04 MB
Based on canonical annotations, the following gene is in your area of interest: TEX2(-)
write fasta - Elapsed time since the previous call: 0.60 seconds
write fasta - Current memory usage: 172.04 MB
Length of region: 87 nt.
100.0% of the region's A/C bases included in the filtered DMS dataset. Ideally, this number should be as high as possible for an experimenally-accurate prediction, and over 70% is recommended.
write dat - Elapsed time since the previous call: 0.19 seconds
write dat - Current memory usage: 175.18 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/Fold "/disk1/www/rails/humanrnamap/public/result/584e006f-960f-4bc9-9bfe-4a8638f15f73/fasta/TEX2.fasta" "/disk1/www/rails/humanrnamap/public/result/584e006f-960f-4bc9-9bfe-4a8638f15f73/ct/TEX2.ct" --SHAPE "TEX2.dat"

fold - Elapsed time since the previous call: 0.10 seconds
fold - Current memory usage: 175.18 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/efn2 "/disk1/www/rails/humanrnamap/public/result/584e006f-960f-4bc9-9bfe-4a8638f15f73/ct/TEX2.ct" "/disk1/www/rails/humanrnamap/public/result/584e006f-960f-4bc9-9bfe-4a8638f15f73/fold_FE/TEX2.txt" -sh "TEX2.dat"

efn2 - Elapsed time since the previous call: 0.43 seconds
efn2 - Current memory usage: 175.18 MB
This region has 1 predicted structures. 5 is the maximum structures visible on the web server. For up to 20 predictions per region, download and run the code locally.
Running command: /disk1/www/rails/humanrnamap/cli/bin/ct2dot "/disk1/www/rails/humanrnamap/public/result/584e006f-960f-4bc9-9bfe-4a8638f15f73/ct/TEX2.ct" 1 "/disk1/www/rails/humanrnamap/public/result/584e006f-960f-4bc9-9bfe-4a8638f15f73/fold_dbn/TEX2_temp1.dbn"

ct2dot - Elapsed time since the previous call: 0.02 seconds
ct2dot - Current memory usage: 175.18 MB
['java', '-cp', '/disk1/www/rails/humanrnamap/cli/bin/VARNAv3-93.jar', 'fr.orsay.lri.varna.applications.VARNAcmd', '-sequenceDBN', 'AAGAUUAUGAGGUUUGUUGAUAAAAUUACCAAGUCAAAAUAUUUCCAAAAAGCAACAGAGACAGAGUUUAUUAAAAAGAAGAUCGAA', '-structureDBN', '.......((((((...(((((...........)))))...)))).))........................................', '-o', '/disk1/www/rails/humanrnamap/public/result/584e006f-960f-4bc9-9bfe-4a8638f15f73/final_image/TEX2_fold_1.svg', '-title', 'TEX2, -1.4 ± 0.6\n kcal/mol, AUC: 0.506', '-titleSize', '12', '-basesStyle1', 'fill=#ffffff', '-applyBasesStyle1on', '3,5,6,8,9,11,12,13,14,15,16,17,18,19,21,26,27,33,34,40,42,43,44,52,58,60,64,66,67,68,69,71,72,78,81,83,85', '-basesStyle2', 'fill=#00ffff', '-applyBasesStyle2on', '49,23,73,59,79,47', '-basesStyle3', 'fill=#ffff00', '-applyBasesStyle3on', '36,37,75,77,80,82,51,84,22,55,25,28', '-basesStyle4', 'fill=#ff0000', '-applyBasesStyle4on', '1,2,4,7,10,20,24,29,30,31,32,35,38,39,41,45,46,48,50,53,54,56,57,61,62,63,65,70,74,76,86,87']
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Text: 'C', X: 73.79167526325841, Y: 28.28073916612243, Width: 10.5, Height: 8
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Text: 'A', X: 80.64084807793847, Y: 61.69571720100021, Width: 10.5, Height: 8
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Text: 'U', X: 81.13476675855134, Y: 95.34950295460021, Width: 10.5, Height: 8
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Text: 'A', X: 131.45843800496743, Y: 202.35568294873588, Width: 10.5, Height: 8
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Text: 'U', X: 139.96992985053657, Y: 220.45414991593532, Width: 10.5, Height: 8
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Text: 'U', X: 148.48142169610583, Y: 238.55261688313476, Width: 10.5, Height: 8
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Text: 'U', X: 156.99291354167497, Y: 256.6510838503342, Width: 10.5, Height: 8
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Text: 'C', X: 167.71414245289736, Y: 270.4823979828803, Width: 10.5, Height: 8
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Text: 'C', X: 163.89850796065383, Y: 287.56135970253996, Width: 10.5, Height: 8
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Text: 'A', X: 163.89850796065383, Y: 307.56135970253996, Width: 10.5, Height: 8
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Text: 'A', X: 181.39850796065383, Y: 307.56135970253996, Width: 10.5, Height: 8
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Text: 'A', X: 198.89850796065383, Y: 307.56135970253996, Width: 10.5, Height: 8
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Text: 'A', X: 216.39850796065383, Y: 307.56135970253996, Width: 10.5, Height: 8
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Text: 'A', X: 233.89850796065383, Y: 307.56135970253996, Width: 10.5, Height: 8
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Text: 'G', X: 251.39850796065383, Y: 307.56135970254, Width: 10.5, Height: 8
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Text: 'C', X: 268.89850796065383, Y: 307.56135970254, Width: 10.5, Height: 8
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Text: 'A', X: 286.39850796065383, Y: 307.56135970254, Width: 10.5, Height: 8
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Text: 'A', X: 303.89850796065383, Y: 307.56135970254, Width: 10.5, Height: 8
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Text: 'C', X: 321.39850796065383, Y: 307.56135970254, Width: 10.5, Height: 8
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Text: 'A', X: 338.89850796065383, Y: 307.56135970254, Width: 10.5, Height: 8
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Text: 'G', X: 356.39850796065383, Y: 307.56135970254, Width: 10.5, Height: 8
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Text: 'A', X: 373.89850796065383, Y: 307.56135970254, Width: 10.5, Height: 8
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Text: 'G', X: 391.39850796065383, Y: 307.56135970254, Width: 10.5, Height: 8
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Text: 'A', X: 408.89850796065383, Y: 307.56135970254, Width: 10.5, Height: 8
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Text: 'C', X: 426.39850796065383, Y: 307.56135970254, Width: 10.5, Height: 8
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Text: 'A', X: 443.89850796065383, Y: 307.56135970254, Width: 10.5, Height: 8
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Text: 'G', X: 461.39850796065383, Y: 307.56135970254, Width: 10.5, Height: 8
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Text: 'A', X: 478.89850796065383, Y: 307.56135970254, Width: 10.5, Height: 8
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Text: 'G', X: 496.3985079606539, Y: 307.56135970254, Width: 10.5, Height: 8
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Text: 'U', X: 513.8985079606539, Y: 307.56135970254, Width: 10.5, Height: 8
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Text: 'U', X: 531.3985079606539, Y: 307.56135970254, Width: 10.5, Height: 8
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Text: 'A', X: 566.3985079606539, Y: 307.56135970254, Width: 10.5, Height: 8
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Text: 'U', X: 583.8985079606539, Y: 307.56135970254, Width: 10.5, Height: 8
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Text: 'U', X: 601.3985079606539, Y: 307.56135970254, Width: 10.5, Height: 8
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Text: 'A', X: 618.8985079606539, Y: 307.56135970254, Width: 10.5, Height: 8
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Text: 'A', X: 636.3985079606539, Y: 307.56135970254, Width: 10.5, Height: 8
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Text: 'A', X: 653.8985079606539, Y: 307.56135970254, Width: 10.5, Height: 8
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Text: 'A', X: 671.3985079606539, Y: 307.56135970254, Width: 10.5, Height: 8
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Text: 'A', X: 688.8985079606539, Y: 307.56135970254, Width: 10.5, Height: 8
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Text: 'G', X: 706.3985079606539, Y: 307.56135970254, Width: 10.5, Height: 8
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Text: 'G', X: 758.8985079606539, Y: 307.56135970254, Width: 10.5, Height: 8
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Text: 'U', X: 793.8985079606539, Y: 307.56135970254, Width: 10.5, Height: 8
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Text: 'C', X: 811.3985079606539, Y: 307.56135970254, Width: 10.5, Height: 8
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Text: 'G', X: 828.8985079606539, Y: 307.56135970254, Width: 10.5, Height: 8
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Text: 'A', X: 846.3985079606539, Y: 307.56135970254, Width: 10.5, Height: 8
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Text: 'A', X: 863.8985079606539, Y: 307.56135970254, Width: 10.5, Height: 8
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Text: '1', X: 9.64850796065383, Y: 327.56135970253996, Width: 9.0, Height: 8
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Text: '10', X: 104.31410652616438, Y: 266.121464929643, Width: 18.0, Height: 8
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Text: '20', X: 29.876279353603465, Y: 117.69214434933923, Width: 18.0, Height: 8
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Text: '30', X: 85.91203753889785, Y: 16.109806529715286, Width: 18.0, Height: 8
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Text: '40', X: 153.73751530127228, Y: 187.78210100347505, Width: 18.0, Height: 8
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Text: '50', X: 212.64850796065383, Y: 327.56135970253996, Width: 18.0, Height: 8
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Text: '60', X: 387.64850796065383, Y: 327.56135970254, Width: 18.0, Height: 8
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Text: '70', X: 562.6485079606539, Y: 327.56135970254, Width: 18.0, Height: 8
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Text: '80', X: 737.6485079606539, Y: 327.56135970254, Width: 18.0, Height: 8
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Text: '87', X: 860.1485079606539, Y: 327.56135970254, Width: 18.0, Height: 8
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Text: 'TEX2, -1.4 ± 0.6
 kcal/mol, AUC: 0.506', X: 368.32425398032694, Y: 340.36135970254, Width: 142.5, Height: 23
Calculated bounding box: (4.75, 5.0, 878.1485079606539, 340.36135970254)
Updated viewBox: -0.25 0.0 883.3985079606539 345.36135970254
Updated SVG: /disk1/www/rails/humanrnamap/public/result/584e006f-960f-4bc9-9bfe-4a8638f15f73/final_image/TEX2_fold_final_1.svg
Combined SVG saved as /disk1/www/rails/humanrnamap/public/result/584e006f-960f-4bc9-9bfe-4a8638f15f73/final_image/TEX2_fold_final_1.svg
