Initializing nucleic acids...done.
Applying constraints...done.
Folding single strand...
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 96% [================================================= ] -                     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/becdfee0-ef46-47e8-aba2-2648949ca5b8/final_image/TNRC18_fold_1.svg

first - Elapsed time since the previous call: 0.00 seconds
first - Current memory usage: 159.31 MB
setup complete - Elapsed time since the previous call: 0.00 seconds
setup complete - Current memory usage: 159.31 MB
config complete - Elapsed time since the previous call: 0.00 seconds
config complete - Current memory usage: 159.31 MB
read annotations - Elapsed time since the previous call: 0.09 seconds
read annotations - Current memory usage: 172.96 MB
Based on canonical annotations, the following gene is in your area of interest: TNRC18(-)
write fasta - Elapsed time since the previous call: 0.82 seconds
write fasta - Current memory usage: 172.96 MB
Length of region: 88 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: 0.18 seconds
write dat - Current memory usage: 176.66 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/Fold "/disk1/www/rails/humanrnamap/public/result/becdfee0-ef46-47e8-aba2-2648949ca5b8/fasta/TNRC18.fasta" "/disk1/www/rails/humanrnamap/public/result/becdfee0-ef46-47e8-aba2-2648949ca5b8/ct/TNRC18.ct" --SHAPE "TNRC18.dat"

fold - Elapsed time since the previous call: 0.10 seconds
fold - Current memory usage: 176.66 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/efn2 "/disk1/www/rails/humanrnamap/public/result/becdfee0-ef46-47e8-aba2-2648949ca5b8/ct/TNRC18.ct" "/disk1/www/rails/humanrnamap/public/result/becdfee0-ef46-47e8-aba2-2648949ca5b8/fold_FE/TNRC18.txt" -sh "TNRC18.dat"

efn2 - Elapsed time since the previous call: 0.50 seconds
efn2 - Current memory usage: 176.66 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/becdfee0-ef46-47e8-aba2-2648949ca5b8/ct/TNRC18.ct" 1 "/disk1/www/rails/humanrnamap/public/result/becdfee0-ef46-47e8-aba2-2648949ca5b8/fold_dbn/TNRC18_temp1.dbn"

ct2dot - Elapsed time since the previous call: 0.02 seconds
ct2dot - Current memory usage: 176.66 MB
['java', '-cp', '/disk1/www/rails/humanrnamap/cli/bin/VARNAv3-93.jar', 'fr.orsay.lri.varna.applications.VARNAcmd', '-sequenceDBN', 'CAUAUCCGCCUCCUGCCCCCUGACUAUAAGAUACAGUGUGCUGAGCCGUCCCCGGCCCUUCUGGUGCCAAGUGCCAAGCGCCGCAGCC', '-structureDBN', '.......((.((..((...(((...........)))...)).)))).((...((((.((..((((((...)))))))).))))..)).', '-o', '/disk1/www/rails/humanrnamap/public/result/becdfee0-ef46-47e8-aba2-2648949ca5b8/final_image/TNRC18_fold_1.svg', '-title', 'TNRC18, -20.9 ± 1.2\n kcal/mol, AUC: 0.688', '-titleSize', '12', '-basesStyle1', 'fill=#ffffff', '-applyBasesStyle1on', '3,5,8,11,14,15,21,22,25,27,30,32,36,37,38,39,40,42,43,45,48,49,54,55,59,60,62,63,64,65,66,71,72,73,78,80,83,86', '-basesStyle2', 'fill=#00ffff', '-applyBasesStyle2on', '9,10,74,13,16,17,81,82,20,87,88,41,50,52,53,56', '-basesStyle3', 'fill=#ffff00', '-applyBasesStyle3on', '2,67,68,69,6,7,75,12,18,19,31,34,35,46,47,51,57,58,61', '-basesStyle4', 'fill=#ff0000', '-applyBasesStyle4on', '1,33,4,70,44,76,77,79,84,85,23,24,26,28,29']
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Text: 'TNRC18, -20.9 ± 1.2
 kcal/mol, AUC: 0.688', X: 126.33494189886434, Y: 317.2747772137352, Width: 142.5, Height: 23
Calculated bounding box: (4.75, 5.0, 411.4690150956102, 317.2747772137352)
Updated viewBox: -0.25 0.0 416.7190150956102 322.2747772137352
Updated SVG: /disk1/www/rails/humanrnamap/public/result/becdfee0-ef46-47e8-aba2-2648949ca5b8/final_image/TNRC18_fold_final_1.svg
Combined SVG saved as /disk1/www/rails/humanrnamap/public/result/becdfee0-ef46-47e8-aba2-2648949ca5b8/final_image/TNRC18_fold_final_1.svg
