Initializing nucleic acids...done.
Applying constraints...done.
Folding single strand...
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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/d7fd4c31-a927-4a58-a4ee-313f776eef03/final_image/TFRC_fold_1.svg

first - Elapsed time since the previous call: 0.00 seconds
first - Current memory usage: 158.18 MB
setup complete - Elapsed time since the previous call: 0.00 seconds
setup complete - Current memory usage: 158.18 MB
config complete - Elapsed time since the previous call: 0.00 seconds
config complete - Current memory usage: 158.18 MB
read annotations - Elapsed time since the previous call: 0.09 seconds
read annotations - Current memory usage: 171.73 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: 171.73 MB
Length of region: 101 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: 175.06 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/Fold "/disk1/www/rails/humanrnamap/public/result/d7fd4c31-a927-4a58-a4ee-313f776eef03/fasta/TFRC.fasta" "/disk1/www/rails/humanrnamap/public/result/d7fd4c31-a927-4a58-a4ee-313f776eef03/ct/TFRC.ct" --SHAPE "TFRC.dat"

fold - Elapsed time since the previous call: 0.12 seconds
fold - Current memory usage: 175.06 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/efn2 "/disk1/www/rails/humanrnamap/public/result/d7fd4c31-a927-4a58-a4ee-313f776eef03/ct/TFRC.ct" "/disk1/www/rails/humanrnamap/public/result/d7fd4c31-a927-4a58-a4ee-313f776eef03/fold_FE/TFRC.txt" -sh "TFRC.dat"

efn2 - Elapsed time since the previous call: 0.40 seconds
efn2 - Current memory usage: 175.06 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/d7fd4c31-a927-4a58-a4ee-313f776eef03/ct/TFRC.ct" 1 "/disk1/www/rails/humanrnamap/public/result/d7fd4c31-a927-4a58-a4ee-313f776eef03/fold_dbn/TFRC_temp1.dbn"

ct2dot - Elapsed time since the previous call: 0.02 seconds
ct2dot - Current memory usage: 175.06 MB
['java', '-cp', '/disk1/www/rails/humanrnamap/cli/bin/VARNAv3-93.jar', 'fr.orsay.lri.varna.applications.VARNAcmd', '-sequenceDBN', 'CUAUUGACAAGUCAUUUUAACUUUAUCACAUUAUUUGCAUGUUACCUCCUAUAAACUUAGUGCGGACAAGUUUUAAUCCAGAAUUGACCUUUUGACUUAAA', '-structureDBN', '..........((((.(((....(((..((.((.(((((((...................))))))).))))..)))....))).)))).............', '-o', '/disk1/www/rails/humanrnamap/public/result/d7fd4c31-a927-4a58-a4ee-313f776eef03/final_image/TFRC_fold_1.svg', '-title', 'TFRC, -7.8 ± 1.0\n kcal/mol, AUC: 0.476', '-titleSize', '12', '-basesStyle1', 'fill=#ffffff', '-applyBasesStyle1on', '2,4,5,6,11,12,15,16,17,18,22,23,24,26,31,32,34,35,36,37,40,41,42,43,47,50,52,57,58,60,61,62,64,65,70,71,72,73,74,77,81,84,85,86,90,91,92,93,94,97,98', '-basesStyle2', 'fill=#00ffff', '-applyBasesStyle2on', '1,3,78,79,80,87,88,89', '-basesStyle3', 'fill=#ffff00', '-applyBasesStyle3on', '66,67,68,9,75,76,19,95,96,33,99,39,44,46,53,54,59,63', '-basesStyle4', 'fill=#ff0000', '-applyBasesStyle4on', '69,7,8,10,13,14,82,83,20,21,25,27,28,29,30,100,101,38,45,48,49,51,55,56']
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Text: '101', X: 431.5, Y: 643.1336091293169, Width: 27.0, Height: 8
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Text: 'TFRC, -7.8 ± 1.0
 kcal/mol, AUC: 0.476', X: 156.25, Y: 655.9336091293169, Width: 142.5, Height: 23
Calculated bounding box: (4.75, 0.0, 458.5, 655.9336091293169)
Updated viewBox: -0.25 -5.0 463.75 665.9336091293169
Updated SVG: /disk1/www/rails/humanrnamap/public/result/d7fd4c31-a927-4a58-a4ee-313f776eef03/final_image/TFRC_fold_final_1.svg
Combined SVG saved as /disk1/www/rails/humanrnamap/public/result/d7fd4c31-a927-4a58-a4ee-313f776eef03/final_image/TFRC_fold_final_1.svg
