Initializing nucleic acids...done.
Applying constraints...done.
Folding single strand...
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 98% [==================================================] /                     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/cbb7e9f1-1ec5-44fc-8385-47e39a58764a/final_image/MYC_fold_1.svg

first - Elapsed time since the previous call: 0.00 seconds
first - Current memory usage: 158.93 MB
setup complete - Elapsed time since the previous call: 0.00 seconds
setup complete - Current memory usage: 158.93 MB
config complete - Elapsed time since the previous call: 0.00 seconds
config complete - Current memory usage: 158.93 MB
read annotations - Elapsed time since the previous call: 0.10 seconds
read annotations - Current memory usage: 172.48 MB
Based on canonical annotations, the following gene is in your area of interest: MYC(+)
write fasta - Elapsed time since the previous call: 0.77 seconds
write fasta - Current memory usage: 172.48 MB
Length of region: 81 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: 176.21 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/Fold "/disk1/www/rails/humanrnamap/public/result/cbb7e9f1-1ec5-44fc-8385-47e39a58764a/fasta/MYC.fasta" "/disk1/www/rails/humanrnamap/public/result/cbb7e9f1-1ec5-44fc-8385-47e39a58764a/ct/MYC.ct" --SHAPE "MYC.dat"

fold - Elapsed time since the previous call: 0.09 seconds
fold - Current memory usage: 176.21 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/efn2 "/disk1/www/rails/humanrnamap/public/result/cbb7e9f1-1ec5-44fc-8385-47e39a58764a/ct/MYC.ct" "/disk1/www/rails/humanrnamap/public/result/cbb7e9f1-1ec5-44fc-8385-47e39a58764a/fold_FE/MYC.txt" -sh "MYC.dat"

efn2 - Elapsed time since the previous call: 0.43 seconds
efn2 - Current memory usage: 176.21 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/cbb7e9f1-1ec5-44fc-8385-47e39a58764a/ct/MYC.ct" 1 "/disk1/www/rails/humanrnamap/public/result/cbb7e9f1-1ec5-44fc-8385-47e39a58764a/fold_dbn/MYC_temp1.dbn"

ct2dot - Elapsed time since the previous call: 0.02 seconds
ct2dot - Current memory usage: 176.21 MB
['java', '-cp', '/disk1/www/rails/humanrnamap/cli/bin/VARNAv3-93.jar', 'fr.orsay.lri.varna.applications.VARNAcmd', '-sequenceDBN', 'CCCGAGCCCCUGGUGCUCCAUGAGGAGACACCGCCCACCACCAGCAGCGACUCUGAGGAGGAACAAGAAGAUGAGGAAGAA', '-structureDBN', '..........(((((((((....)))).))))).((.((..(((.((...))))).)).))....................', '-o', '/disk1/www/rails/humanrnamap/public/result/cbb7e9f1-1ec5-44fc-8385-47e39a58764a/final_image/MYC_fold_1.svg', '-title', 'MYC, -22.5 ± 1.1\n kcal/mol, AUC: 0.8', '-titleSize', '12', '-basesStyle1', 'fill=#ffffff', '-applyBasesStyle1on', '67,4,6,70,72,73,11,12,13,14,15,75,17,76,79,21,22,24,25,27,33,44,47,49,52,54,55,57,58,60,61', '-basesStyle2', 'fill=#00ffff', '-applyBasesStyle2on', '1,39,8,43,16,18,19,51,26,59,29,62,31', '-basesStyle3', 'fill=#ffff00', '-applyBasesStyle3on', '65,2,68,5,69,9,74,77,78,80,30,32,36,37,40,42,45,46,48,50,53,56', '-basesStyle4', 'fill=#ff0000', '-applyBasesStyle4on', '64,34,3,35,66,38,7,71,41,10,81,20,23,28,63']
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Text: 'C', X: 212.25, Y: 198.9175762872722, Width: 10.5, Height: 8
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Text: 'G', X: 212.25, Y: 218.9175762872722, Width: 10.5, Height: 8
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Text: 'C', X: 229.75, Y: 218.9175762872722, Width: 10.5, Height: 8
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Text: 'C', X: 247.25, Y: 198.9175762872722, Width: 10.5, Height: 8
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Text: 'C', X: 322.8627621643917, Y: 47.67266051817717, Width: 10.5, Height: 8
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Text: 'U', X: 308.72062654066076, Y: 61.81479614190812, Width: 10.5, Height: 8
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Text: 'C', X: 299.2490999026333, Y: 76.64815394654858, Width: 10.5, Height: 8
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Text: 'A', X: 288.54714415869086, Y: 131.43837549761017, Width: 10.5, Height: 8
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Text: 'G', X: 279.75, Y: 146.56650342710665, Width: 10.5, Height: 8
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Text: 'G', X: 279.75, Y: 166.56650342710665, Width: 10.5, Height: 8
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Text: 'A', X: 286.42837715148926, Y: 182.74203985718944, Width: 10.5, Height: 8
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Text: 'A', X: 297.25, Y: 218.9175762872722, Width: 10.5, Height: 8
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Text: 'A', X: 314.75, Y: 218.9175762872722, Width: 10.5, Height: 8
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Text: 'C', X: 332.25, Y: 218.9175762872722, Width: 10.5, Height: 8
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Text: 'A', X: 349.75, Y: 218.9175762872722, Width: 10.5, Height: 8
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Text: 'A', X: 367.25, Y: 218.9175762872722, Width: 10.5, Height: 8
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Text: 'G', X: 384.75, Y: 218.9175762872722, Width: 10.5, Height: 8
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Text: 'A', X: 402.25, Y: 218.9175762872722, Width: 10.5, Height: 8
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Text: 'A', X: 419.75, Y: 218.9175762872722, Width: 10.5, Height: 8
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Text: 'G', X: 437.25, Y: 218.9175762872722, Width: 10.5, Height: 8
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Text: 'G', X: 489.75, Y: 218.9175762872722, Width: 10.5, Height: 8
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Text: 'A', X: 507.25, Y: 218.9175762872722, Width: 10.5, Height: 8
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Text: 'G', X: 524.75, Y: 218.9175762872722, Width: 10.5, Height: 8
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Text: 'G', X: 542.25, Y: 218.9175762872722, Width: 10.5, Height: 8
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Text: 'A', X: 559.75, Y: 218.9175762872722, Width: 10.5, Height: 8
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Text: 'A', X: 577.25, Y: 218.9175762872722, Width: 10.5, Height: 8
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Text: 'G', X: 594.75, Y: 218.91757628727223, Width: 10.5, Height: 8
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Text: 'A', X: 612.25, Y: 218.91757628727223, Width: 10.5, Height: 8
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Text: 'A', X: 629.75, Y: 218.91757628727223, Width: 10.5, Height: 8
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Text: '1', X: 5.5, Y: 238.9175762872722, Width: 9.0, Height: 8
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Text: '10', X: 158.5, Y: 238.9175762872722, Width: 18.0, Height: 8
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Text: '20', X: 116.54461275870909, Y: 57.52048555477239, Width: 18.0, Height: 8
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Text: '30', X: 228.5, Y: 158.9175762872722, Width: 18.0, Height: 8
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Text: '40', X: 215.01032847852713, Y: 134.9318502822572, Width: 18.0, Height: 8
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Text: '70', X: 433.5, Y: 238.9175762872722, Width: 18.0, Height: 8
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Text: '80', X: 608.5, Y: 238.91757628727223, Width: 18.0, Height: 8
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Text: '81', X: 626.0, Y: 238.91757628727223, Width: 18.0, Height: 8
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Text: 'MYC, -22.5 ± 1.1
 kcal/mol, AUC: 0.8', X: 260.25, Y: 251.71757628727224, Width: 124.5, Height: 23
Calculated bounding box: (4.75, 5.0, 644.0, 251.71757628727224)
Updated viewBox: -0.25 0.0 649.25 256.7175762872722
Updated SVG: /disk1/www/rails/humanrnamap/public/result/cbb7e9f1-1ec5-44fc-8385-47e39a58764a/final_image/MYC_fold_final_1.svg
Combined SVG saved as /disk1/www/rails/humanrnamap/public/result/cbb7e9f1-1ec5-44fc-8385-47e39a58764a/final_image/MYC_fold_final_1.svg
