Initializing nucleic acids...done.
Applying constraints...done.
Folding single strand...
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 95% [================================================  ] |                     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/1146e4dc-bd25-4556-b867-a6686755124b/final_image/TFRC_fold_1.svg

first - Elapsed time since the previous call: 0.00 seconds
first - Current memory usage: 157.08 MB
setup complete - Elapsed time since the previous call: 0.00 seconds
setup complete - Current memory usage: 157.08 MB
config complete - Elapsed time since the previous call: 0.00 seconds
config complete - Current memory usage: 157.08 MB
read annotations - Elapsed time since the previous call: 0.09 seconds
read annotations - Current memory usage: 170.66 MB
Based on canonical annotations, the following gene is in your area of interest: TFRC(-)
write fasta - Elapsed time since the previous call: 0.56 seconds
write fasta - Current memory usage: 170.66 MB
Length of region: 99 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: 174.02 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/Fold "/disk1/www/rails/humanrnamap/public/result/1146e4dc-bd25-4556-b867-a6686755124b/fasta/TFRC.fasta" "/disk1/www/rails/humanrnamap/public/result/1146e4dc-bd25-4556-b867-a6686755124b/ct/TFRC.ct" --SHAPE "TFRC.dat"

fold - Elapsed time since the previous call: 0.13 seconds
fold - Current memory usage: 174.02 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/efn2 "/disk1/www/rails/humanrnamap/public/result/1146e4dc-bd25-4556-b867-a6686755124b/ct/TFRC.ct" "/disk1/www/rails/humanrnamap/public/result/1146e4dc-bd25-4556-b867-a6686755124b/fold_FE/TFRC.txt" -sh "TFRC.dat"

efn2 - Elapsed time since the previous call: 0.41 seconds
efn2 - Current memory usage: 174.02 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/1146e4dc-bd25-4556-b867-a6686755124b/ct/TFRC.ct" 1 "/disk1/www/rails/humanrnamap/public/result/1146e4dc-bd25-4556-b867-a6686755124b/fold_dbn/TFRC_temp1.dbn"

ct2dot - Elapsed time since the previous call: 0.03 seconds
ct2dot - Current memory usage: 174.02 MB
['java', '-cp', '/disk1/www/rails/humanrnamap/cli/bin/VARNAv3-93.jar', 'fr.orsay.lri.varna.applications.VARNAcmd', '-sequenceDBN', 'AAGUUAUAAAUCAAUGUCACUUAAAGGCUGUGGUAGUACUCCUGCAAAAUUUUAUAGCUCAGUUUAUCCAAGGUGUAACUCUAAUUCCCAUUUUGCAAA', '-structureDBN', '.........((((..(((.......)))..))))........((((((((..............((((...))))..............))))))))..', '-o', '/disk1/www/rails/humanrnamap/public/result/1146e4dc-bd25-4556-b867-a6686755124b/final_image/TFRC_fold_1.svg', '-title', 'TFRC, -9.6 ± 0.9\n kcal/mol, AUC: 0.598', '-titleSize', '12', '-basesStyle1', 'fill=#ffffff', '-applyBasesStyle1on', '3,4,5,7,11,15,16,17,21,22,26,27,29,30,31,32,33,34,36,37,40,43,44,50,51,52,53,55,57,59,62,63,64,65,67,72,73,74,75,76,80,82,85,86,91,92,93,94,95', '-basesStyle2', 'fill=#00ffff', '-applyBasesStyle2on', '96,97,98,99,8,42,47,18,19,88,89,28', '-basesStyle3', 'fill=#ffff00', '-applyBasesStyle3on', '48,81,20,41,46', '-basesStyle4', 'fill=#ff0000', '-applyBasesStyle4on', '1,2,6,9,10,12,13,14,23,24,25,35,38,39,45,49,54,56,58,60,61,66,68,69,70,71,77,78,79,83,84,87,90']
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Text: 'G', X: 384.75, Y: 73.95182584542647, Width: 10.5, Height: 8
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Text: 'U', X: 384.75, Y: 93.95182584542647, Width: 10.5, Height: 8
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Text: 'G', X: 384.75, Y: 113.95182584542647, Width: 10.5, Height: 8
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Text: '1', X: 5.5, Y: 459.27279104443085, Width: 9.0, Height: 8
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Text: '30', X: 220.38026567961222, Y: 371.4265777439963, Width: 18.0, Height: 8
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Text: '40', X: 296.0, Y: 459.2727910444309, Width: 18.0, Height: 8
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Text: '50', X: 332.05506868890745, Y: 310.65541965883483, Width: 18.0, Height: 8
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Text: '60', X: 262.82505039296433, Y: 155.38423429009265, Width: 18.0, Height: 8
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Text: '70', X: 364.75, Y: 8.0, Width: 18.0, Height: 8
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Text: '80', X: 466.67494960703567, Y: 155.38423429009265, Width: 18.0, Height: 8
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Text: '90', X: 397.44493131109255, Y: 310.65541965883483, Width: 18.0, Height: 8
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Text: '99', X: 416.0, Y: 459.2727910444309, Width: 18.0, Height: 8
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Text: 'TFRC, -9.6 ± 0.9
 kcal/mol, AUC: 0.598', X: 167.45838793666243, Y: 472.0727910444309, Width: 142.5, Height: 23
Calculated bounding box: (4.75, 0.0, 484.67494960703567, 472.0727910444309)
Updated viewBox: -0.25 -5.0 489.92494960703567 482.0727910444309
Updated SVG: /disk1/www/rails/humanrnamap/public/result/1146e4dc-bd25-4556-b867-a6686755124b/final_image/TFRC_fold_final_1.svg
Combined SVG saved as /disk1/www/rails/humanrnamap/public/result/1146e4dc-bd25-4556-b867-a6686755124b/final_image/TFRC_fold_final_1.svg
