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/356b7b1e-286e-4231-8185-cf63fb260c81/final_image/TFRC_fold_1.svg

first - Elapsed time since the previous call: 0.00 seconds
first - Current memory usage: 159.08 MB
setup complete - Elapsed time since the previous call: 0.00 seconds
setup complete - Current memory usage: 159.08 MB
config complete - Elapsed time since the previous call: 0.00 seconds
config complete - Current memory usage: 159.08 MB
read annotations - Elapsed time since the previous call: 0.09 seconds
read annotations - Current memory usage: 172.76 MB
Based on canonical annotations, the following gene is in your area of interest: TFRC(-)
write fasta - Elapsed time since the previous call: 1.18 seconds
write fasta - Current memory usage: 172.76 MB
Length of region: 100 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: 0.20 seconds
write dat - Current memory usage: 176.16 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/Fold "/disk1/www/rails/humanrnamap/public/result/356b7b1e-286e-4231-8185-cf63fb260c81/fasta/TFRC.fasta" "/disk1/www/rails/humanrnamap/public/result/356b7b1e-286e-4231-8185-cf63fb260c81/ct/TFRC.ct" --SHAPE "TFRC.dat"

fold - Elapsed time since the previous call: 0.13 seconds
fold - Current memory usage: 176.16 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/efn2 "/disk1/www/rails/humanrnamap/public/result/356b7b1e-286e-4231-8185-cf63fb260c81/ct/TFRC.ct" "/disk1/www/rails/humanrnamap/public/result/356b7b1e-286e-4231-8185-cf63fb260c81/fold_FE/TFRC.txt" -sh "TFRC.dat"

efn2 - Elapsed time since the previous call: 0.42 seconds
efn2 - Current memory usage: 176.16 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/356b7b1e-286e-4231-8185-cf63fb260c81/ct/TFRC.ct" 1 "/disk1/www/rails/humanrnamap/public/result/356b7b1e-286e-4231-8185-cf63fb260c81/fold_dbn/TFRC_temp1.dbn"

ct2dot - Elapsed time since the previous call: 0.02 seconds
ct2dot - Current memory usage: 176.16 MB
['java', '-cp', '/disk1/www/rails/humanrnamap/cli/bin/VARNAv3-93.jar', 'fr.orsay.lri.varna.applications.VARNAcmd', '-sequenceDBN', 'CUUUGCAGAAAAGGUUGCAAAUGCUGAAAGCUUAAAUGCAAUUGGUGUGUUGAUAUACAUGGACCAGACUAAAUUUCCCAUUGUUAACGCAGAACUUUCA', '-structureDBN', '.(((((((......))))))).(((((..((......))..)))))(((((((((...((((...............)))))))))))))..........', '-o', '/disk1/www/rails/humanrnamap/public/result/356b7b1e-286e-4231-8185-cf63fb260c81/final_image/TFRC_fold_1.svg', '-title', 'TFRC, -15.7 ± 1.2\n kcal/mol, AUC: 0.488', '-titleSize', '12', '-basesStyle1', 'fill=#ffffff', '-applyBasesStyle1on', '2,3,4,5,8,13,14,15,16,17,22,23,25,26,30,32,33,37,38,42,43,44,45,46,47,48,49,50,51,52,54,56,60,61,62,67,70,74,75,76,81,82,83,84,85,89,92,96,97,98', '-basesStyle2', 'fill=#00ffff', '-applyBasesStyle2on', '1,34,66,21,71,40,10', '-basesStyle3', 'fill=#ffff00', '-applyBasesStyle3on', '36,7,39,11,12,78,19,86,87,27,94,63', '-basesStyle4', 'fill=#ff0000', '-applyBasesStyle4on', '64,65,68,69,6,72,9,73,77,79,80,18,20,24,88,90,91,28,29,93,31,95,35,99,100,41,53,55,57,58,59']
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Text: 'G', X: 122.98414637776452, Y: 285.4082210265875, Width: 10.5, Height: 8
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Text: 'U', X: 140.48414637776452, Y: 285.4082210265875, Width: 10.5, Height: 8
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Text: 'G', X: 140.48414637776452, Y: 265.40822102658757, Width: 10.5, Height: 8
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Text: 'U', X: 295.4841463777645, Y: 305.40822102658757, Width: 10.5, Height: 8
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Text: '10', X: -4.0, Y: 143.11776372586223, Width: 18.0, Height: 8
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Text: '50', X: 116.7341463777645, Y: 245.40822102658757, Width: 18.0, Height: 8
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Text: '100', X: 339.7341463777645, Y: 325.40822102658757, Width: 27.0, Height: 8
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Text: 'TFRC, -15.7 ± 1.2
 kcal/mol, AUC: 0.488', X: 110.73414637776452, Y: 338.2082210265876, Width: 142.5, Height: 23
Calculated bounding box: (-4.0, 5.0, 366.7341463777645, 338.2082210265876)
Updated viewBox: -9.0 0.0 380.7341463777645 343.2082210265876
Updated SVG: /disk1/www/rails/humanrnamap/public/result/356b7b1e-286e-4231-8185-cf63fb260c81/final_image/TFRC_fold_final_1.svg
Combined SVG saved as /disk1/www/rails/humanrnamap/public/result/356b7b1e-286e-4231-8185-cf63fb260c81/final_image/TFRC_fold_final_1.svg
