Initializing nucleic acids...done.
Applying constraints...done.
Folding single strand...
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 95% [================================================  ] |                     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/c7c0ae03-e9b9-47e9-b402-28537a6a79c9/final_image/MAVS_fold_1.svg

first - Elapsed time since the previous call: 0.00 seconds
first - Current memory usage: 158.98 MB
setup complete - Elapsed time since the previous call: 0.00 seconds
setup complete - Current memory usage: 158.98 MB
config complete - Elapsed time since the previous call: 0.00 seconds
config complete - Current memory usage: 158.98 MB
read annotations - Elapsed time since the previous call: 0.09 seconds
read annotations - Current memory usage: 172.57 MB
Based on canonical annotations, the following gene is in your area of interest: MAVS(+)
write fasta - Elapsed time since the previous call: 0.29 seconds
write fasta - Current memory usage: 172.57 MB
Length of region: 100 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: 176.17 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/Fold "/disk1/www/rails/humanrnamap/public/result/c7c0ae03-e9b9-47e9-b402-28537a6a79c9/fasta/MAVS.fasta" "/disk1/www/rails/humanrnamap/public/result/c7c0ae03-e9b9-47e9-b402-28537a6a79c9/ct/MAVS.ct" --SHAPE "MAVS.dat"

fold - Elapsed time since the previous call: 0.12 seconds
fold - Current memory usage: 176.17 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/efn2 "/disk1/www/rails/humanrnamap/public/result/c7c0ae03-e9b9-47e9-b402-28537a6a79c9/ct/MAVS.ct" "/disk1/www/rails/humanrnamap/public/result/c7c0ae03-e9b9-47e9-b402-28537a6a79c9/fold_FE/MAVS.txt" -sh "MAVS.dat"

efn2 - Elapsed time since the previous call: 0.41 seconds
efn2 - Current memory usage: 176.17 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/c7c0ae03-e9b9-47e9-b402-28537a6a79c9/ct/MAVS.ct" 1 "/disk1/www/rails/humanrnamap/public/result/c7c0ae03-e9b9-47e9-b402-28537a6a79c9/fold_dbn/MAVS_temp1.dbn"

ct2dot - Elapsed time since the previous call: 0.01 seconds
ct2dot - Current memory usage: 176.17 MB
['java', '-cp', '/disk1/www/rails/humanrnamap/cli/bin/VARNAv3-93.jar', 'fr.orsay.lri.varna.applications.VARNAcmd', '-sequenceDBN', 'AAGGGACAAGUGUUUAUCUGAUCAGUUAUGUACUGUUUAUAAUAAGUAAAUCAGCAGAGGGGGAAUAAUACUUAGAACCUAUAGAGAGUAAAUCUGACAA', '-structureDBN', '.(((...(((((((..(((..((.(((...((((..........))))....))).))...)))..)))))))....))).((((.......))))....', '-o', '/disk1/www/rails/humanrnamap/public/result/c7c0ae03-e9b9-47e9-b402-28537a6a79c9/final_image/MAVS_fold_1.svg', '-title', 'MAVS, -12.9 ± 1.4\n kcal/mol, AUC: 0.474', '-titleSize', '12', '-basesStyle1', 'fill=#ffffff', '-applyBasesStyle1on', '3,4,5,10,11,12,13,14,15,17,19,20,22,25,26,27,29,30,31,34,35,36,37,38,40,43,46,47,51,54,57,59,60,61,62,63,66,69,72,73,75,80,82,84,86,88,89,93,95,96', '-basesStyle2', 'fill=#00ffff', '-applyBasesStyle2on', '32,76,77,78,79,48,85,87,92', '-basesStyle3', 'fill=#ffff00', '-applyBasesStyle3on', '1,2,67,68,74,81,21,23,24,90,91,28,94,39,42,49,52,53,55', '-basesStyle4', 'fill=#ff0000', '-applyBasesStyle4on', '64,65,6,7,8,9,70,71,16,18,83,33,97,98,99,100,41,44,45,50,56,58']
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Text: 'MAVS, -12.9 ± 1.4
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Updated SVG: /disk1/www/rails/humanrnamap/public/result/c7c0ae03-e9b9-47e9-b402-28537a6a79c9/final_image/MAVS_fold_final_1.svg
Combined SVG saved as /disk1/www/rails/humanrnamap/public/result/c7c0ae03-e9b9-47e9-b402-28537a6a79c9/final_image/MAVS_fold_final_1.svg
