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/6c1525b0-3c4c-49b8-a97e-8bb0740eee66/final_image/IQGAP1_fold_1.svg

first - Elapsed time since the previous call: 0.00 seconds
first - Current memory usage: 159.32 MB
setup complete - Elapsed time since the previous call: 0.00 seconds
setup complete - Current memory usage: 159.32 MB
config complete - Elapsed time since the previous call: 0.00 seconds
config complete - Current memory usage: 159.32 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: IQGAP1(+)
write fasta - Elapsed time since the previous call: 0.34 seconds
write fasta - Current memory usage: 172.96 MB
Length of region: 78 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: 176.36 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/Fold "/disk1/www/rails/humanrnamap/public/result/6c1525b0-3c4c-49b8-a97e-8bb0740eee66/fasta/IQGAP1.fasta" "/disk1/www/rails/humanrnamap/public/result/6c1525b0-3c4c-49b8-a97e-8bb0740eee66/ct/IQGAP1.ct" --SHAPE "IQGAP1.dat"

fold - Elapsed time since the previous call: 0.08 seconds
fold - Current memory usage: 176.36 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/efn2 "/disk1/www/rails/humanrnamap/public/result/6c1525b0-3c4c-49b8-a97e-8bb0740eee66/ct/IQGAP1.ct" "/disk1/www/rails/humanrnamap/public/result/6c1525b0-3c4c-49b8-a97e-8bb0740eee66/fold_FE/IQGAP1.txt" -sh "IQGAP1.dat"

efn2 - Elapsed time since the previous call: 0.43 seconds
efn2 - Current memory usage: 176.36 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/6c1525b0-3c4c-49b8-a97e-8bb0740eee66/ct/IQGAP1.ct" 1 "/disk1/www/rails/humanrnamap/public/result/6c1525b0-3c4c-49b8-a97e-8bb0740eee66/fold_dbn/IQGAP1_temp1.dbn"

ct2dot - Elapsed time since the previous call: 0.01 seconds
ct2dot - Current memory usage: 176.36 MB
['java', '-cp', '/disk1/www/rails/humanrnamap/cli/bin/VARNAv3-93.jar', 'fr.orsay.lri.varna.applications.VARNAcmd', '-sequenceDBN', 'AAAAUCUGUAAAGGAAGACAGCAACCUCACUCUUCAAGAGAAGAAAGAGAAGAUCCAGACAGGUUUAAAGAAGCUAAC', '-structureDBN', '.((((((((...(((..........(((..(((((....)))))..)))....)))..))))))))............', '-o', '/disk1/www/rails/humanrnamap/public/result/6c1525b0-3c4c-49b8-a97e-8bb0740eee66/final_image/IQGAP1_fold_1.svg', '-title', 'IQGAP1, -11.9 ± 1.1\n kcal/mol, AUC: 0.781', '-titleSize', '12', '-basesStyle1', 'fill=#ffffff', '-applyBasesStyle1on', '64,65,66,5,70,7,8,9,73,75,13,14,17,21,27,31,33,34,38,40,43,47,49,52,54,58,62,63', '-basesStyle2', 'fill=#00ffff', '-applyBasesStyle2on', '32,57,2,72', '-basesStyle3', 'fill=#ffff00', '-applyBasesStyle3on', '1,3,35,67,71,41,42,74,44,16,55,56', '-basesStyle4', 'fill=#ff0000', '-applyBasesStyle4on', '4,6,10,11,12,15,18,19,20,22,23,24,25,26,28,29,30,36,37,39,45,46,48,50,51,53,59,60,61,68,69,76,77,78']
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Text: 'C', X: 61.97768385900913, Y: 267.4035797841443, Width: 10.5, Height: 8
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Text: 'A', X: 61.97768385900913, Y: 287.4035797841443, Width: 10.5, Height: 8
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Text: 'G', X: 61.97768385900913, Y: 307.4035797841443, Width: 10.5, Height: 8
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Text: 'G', X: 61.97768385900913, Y: 327.4035797841443, Width: 10.5, Height: 8
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Text: 'U', X: 61.97768385900913, Y: 347.4035797841443, Width: 10.5, Height: 8
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Text: 'U', X: 61.97768385900913, Y: 387.4035797841443, Width: 10.5, Height: 8
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Text: 'G', X: 184.47768385900912, Y: 387.4035797841443, Width: 10.5, Height: 8
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Text: 'C', X: 201.97768385900912, Y: 387.4035797841443, Width: 10.5, Height: 8
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Text: 'U', X: 219.47768385900912, Y: 387.4035797841443, Width: 10.5, Height: 8
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Text: 'A', X: 236.97768385900912, Y: 387.4035797841443, Width: 10.5, Height: 8
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Text: '10', X: -4.0, Y: 242.69245290408725, Width: 18.0, Height: 8
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Text: 'IQGAP1, -11.9 ± 1.1
 kcal/mol, AUC: 0.781', X: 99.1895994928513, Y: 420.2035797841444, Width: 142.5, Height: 23
Calculated bounding box: (-4.0, 5.0, 328.9015151266935, 420.2035797841444)
Updated viewBox: -9.0 0.0 342.9015151266935 425.2035797841444
Updated SVG: /disk1/www/rails/humanrnamap/public/result/6c1525b0-3c4c-49b8-a97e-8bb0740eee66/final_image/IQGAP1_fold_final_1.svg
Combined SVG saved as /disk1/www/rails/humanrnamap/public/result/6c1525b0-3c4c-49b8-a97e-8bb0740eee66/final_image/IQGAP1_fold_final_1.svg
