Initializing nucleic acids...done.
Applying constraints...done.
Folding single strand...
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 94% [================================================  ] -                     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/dd980acf-e557-45e2-849f-da8f101b28c0/final_image/MLLT6_fold_1.svg

first - Elapsed time since the previous call: 0.00 seconds
first - Current memory usage: 158.88 MB
setup complete - Elapsed time since the previous call: 0.01 seconds
setup complete - Current memory usage: 158.88 MB
config complete - Elapsed time since the previous call: 0.00 seconds
config complete - Current memory usage: 158.88 MB
read annotations - Elapsed time since the previous call: 0.11 seconds
read annotations - Current memory usage: 172.50 MB
Based on canonical annotations, the following gene is in your area of interest: MLLT6(+)
write fasta - Elapsed time since the previous call: 0.57 seconds
write fasta - Current memory usage: 172.50 MB
Length of region: 90 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: 0.17 seconds
write dat - Current memory usage: 176.01 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/Fold "/disk1/www/rails/humanrnamap/public/result/dd980acf-e557-45e2-849f-da8f101b28c0/fasta/MLLT6.fasta" "/disk1/www/rails/humanrnamap/public/result/dd980acf-e557-45e2-849f-da8f101b28c0/ct/MLLT6.ct" --SHAPE "MLLT6.dat"

fold - Elapsed time since the previous call: 0.11 seconds
fold - Current memory usage: 176.01 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/efn2 "/disk1/www/rails/humanrnamap/public/result/dd980acf-e557-45e2-849f-da8f101b28c0/ct/MLLT6.ct" "/disk1/www/rails/humanrnamap/public/result/dd980acf-e557-45e2-849f-da8f101b28c0/fold_FE/MLLT6.txt" -sh "MLLT6.dat"

efn2 - Elapsed time since the previous call: 0.40 seconds
efn2 - Current memory usage: 176.01 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/dd980acf-e557-45e2-849f-da8f101b28c0/ct/MLLT6.ct" 1 "/disk1/www/rails/humanrnamap/public/result/dd980acf-e557-45e2-849f-da8f101b28c0/fold_dbn/MLLT6_temp1.dbn"

ct2dot - Elapsed time since the previous call: 0.01 seconds
ct2dot - Current memory usage: 176.01 MB
['java', '-cp', '/disk1/www/rails/humanrnamap/cli/bin/VARNAv3-93.jar', 'fr.orsay.lri.varna.applications.VARNAcmd', '-sequenceDBN', 'ACGGCCAAAAAGGAGCGGCUGCAGAUUCUCAACGUGCAGCUCUCUGUGCCCUUCCCUGCCCUGCCUGCUGCCCUGCCUGCCGCCAACGGC', '-structureDBN', '..(((.....(((.(((((.((((.........((((((....))))))...........))))..))))))))))).((((....))))', '-o', '/disk1/www/rails/humanrnamap/public/result/dd980acf-e557-45e2-849f-da8f101b28c0/final_image/MLLT6_fold_1.svg', '-title', 'MLLT6, -34.3 ± 1.3\n kcal/mol, AUC: 0.666', '-titleSize', '12', '-basesStyle1', 'fill=#ffffff', '-applyBasesStyle1on', '3,4,12,13,15,17,18,20,21,24,26,27,29,34,35,36,39,41,43,45,46,47,48,52,53,57,58,62,63,66,67,69,70,74,75,78,79,82,88,89', '-basesStyle2', 'fill=#00ffff', '-applyBasesStyle2on', '65,68,5,7,71,72,73,77,19,84,22,90,30,37,40,55,59', '-basesStyle3', 'fill=#ffff00', '-applyBasesStyle3on', '64,6,9,11,76,14,80,83,85,28,33,38,42,44,49,50,54,56,60,61', '-basesStyle4', 'fill=#ff0000', '-applyBasesStyle4on', '32,1,2,8,10,16,81,51,86,23,87,25,31']
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Text: 'C', X: 255.68600273954144, Y: 118.39589752015357, Width: 10.5, Height: 8
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Text: 'U', X: 82.0157684490166, Y: 70.65953454287671, Width: 10.5, Height: 8
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Text: '50', X: 471.41988010801396, Y: 122.91802706637846, Width: 18.0, Height: 8
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Text: '90', X: 136.0, Y: 140.42530299189332, Width: 18.0, Height: 8
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Text: 'MLLT6, -34.3 ± 1.3
 kcal/mol, AUC: 0.666', X: 227.65448368295182, Y: 191.2735263666509, Width: 142.5, Height: 23
Calculated bounding box: (4.75, 0.0, 593.0589673659036, 191.2735263666509)
Updated viewBox: -0.25 -5.0 598.3089673659036 201.2735263666509
Updated SVG: /disk1/www/rails/humanrnamap/public/result/dd980acf-e557-45e2-849f-da8f101b28c0/final_image/MLLT6_fold_final_1.svg
Combined SVG saved as /disk1/www/rails/humanrnamap/public/result/dd980acf-e557-45e2-849f-da8f101b28c0/final_image/MLLT6_fold_final_1.svg
