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/e6c9012d-fa4b-4f03-8879-72b64b41efdd/final_image/TFRC_fold_1.svg

first - Elapsed time since the previous call: 0.00 seconds
first - Current memory usage: 158.32 MB
setup complete - Elapsed time since the previous call: 0.00 seconds
setup complete - Current memory usage: 158.32 MB
config complete - Elapsed time since the previous call: 0.00 seconds
config complete - Current memory usage: 158.32 MB
read annotations - Elapsed time since the previous call: 0.09 seconds
read annotations - Current memory usage: 171.83 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: 171.83 MB
Length of region: 97 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: 175.35 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/Fold "/disk1/www/rails/humanrnamap/public/result/e6c9012d-fa4b-4f03-8879-72b64b41efdd/fasta/TFRC.fasta" "/disk1/www/rails/humanrnamap/public/result/e6c9012d-fa4b-4f03-8879-72b64b41efdd/ct/TFRC.ct" --SHAPE "TFRC.dat"

fold - Elapsed time since the previous call: 0.14 seconds
fold - Current memory usage: 175.35 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/efn2 "/disk1/www/rails/humanrnamap/public/result/e6c9012d-fa4b-4f03-8879-72b64b41efdd/ct/TFRC.ct" "/disk1/www/rails/humanrnamap/public/result/e6c9012d-fa4b-4f03-8879-72b64b41efdd/fold_FE/TFRC.txt" -sh "TFRC.dat"

efn2 - Elapsed time since the previous call: 0.42 seconds
efn2 - Current memory usage: 175.35 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/e6c9012d-fa4b-4f03-8879-72b64b41efdd/ct/TFRC.ct" 1 "/disk1/www/rails/humanrnamap/public/result/e6c9012d-fa4b-4f03-8879-72b64b41efdd/fold_dbn/TFRC_temp1.dbn"

ct2dot - Elapsed time since the previous call: 0.02 seconds
ct2dot - Current memory usage: 175.35 MB
['java', '-cp', '/disk1/www/rails/humanrnamap/cli/bin/VARNAv3-93.jar', 'fr.orsay.lri.varna.applications.VARNAcmd', '-sequenceDBN', 'AUAUACCCGGUUCAGCCUGGCUCGGCAAGUAGAUGGCGAUAACAGUCAUGUGGAGAUGAAACUUGCUGUAGAUGAAGAAGAAAAUGCUGACAAUAAC', '-structureDBN', '.....((.(((...))).))(((((((((((.(((((.......))))).).........)))))))).))..........................', '-o', '/disk1/www/rails/humanrnamap/public/result/e6c9012d-fa4b-4f03-8879-72b64b41efdd/final_image/TFRC_fold_1.svg', '-title', 'TFRC, -20.1 ± 1.1\n kcal/mol, AUC: 0.788', '-titleSize', '12', '-basesStyle1', 'fill=#ffffff', '-applyBasesStyle1on', '2,4,9,10,11,12,15,18,19,20,22,24,25,29,30,32,34,35,36,38,40,45,46,49,50,51,52,53,55,57,58,63,64,65,67,68,69,71,73,74,77,80,85,86,88,89,94', '-basesStyle2', 'fill=#00ffff', '-applyBasesStyle2on', '96,48,17,82,37,27,28', '-basesStyle3', 'fill=#ffff00', '-applyBasesStyle3on', '1,33,66,90,70,7,47,16,93,23,26,61,95', '-basesStyle4', 'fill=#ff0000', '-applyBasesStyle4on', '3,5,6,8,72,75,76,13,14,78,79,81,83,84,21,87,91,92,31,97,39,41,42,43,44,54,56,59,60,62']
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Text: 'G', X: 305.24491439471774, Y: 259.11788061142204, Width: 10.5, Height: 8
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Text: 'TFRC, -20.1 ± 1.1
 kcal/mol, AUC: 0.788', X: 290.24745719735887, Y: 291.91788061142205, Width: 142.5, Height: 23
Calculated bounding box: (4.75, 5.0, 721.9949143947177, 291.91788061142205)
Updated viewBox: -0.25 0.0 727.2449143947177 296.91788061142205
Updated SVG: /disk1/www/rails/humanrnamap/public/result/e6c9012d-fa4b-4f03-8879-72b64b41efdd/final_image/TFRC_fold_final_1.svg
Combined SVG saved as /disk1/www/rails/humanrnamap/public/result/e6c9012d-fa4b-4f03-8879-72b64b41efdd/final_image/TFRC_fold_final_1.svg
