Initializing nucleic acids...done.
Applying constraints...done.
Folding single strand...
  0% [=                                                 ] /                     
  5% [===                                               ] -                     
 10% [======                                            ] \                     
 15% [========                                          ] |                     
 21% [===========                                       ] /                     
 26% [==============                                    ] -                     
 31% [================                                  ] \                     
 37% [===================                               ] |                     
 42% [======================                            ] /                     
 47% [========================                          ] -                     
 53% [===========================                       ] \                     
 58% [==============================                    ] |                     
 63% [================================                  ] /                     
 69% [===================================               ] -                     
 74% [======================================            ] \                     
 79% [========================================          ] |                     
 85% [===========================================       ] /                     
 90% [==============================================    ] -                     
 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/016ce0db-41b1-4659-b396-71c3e9fae53d/final_image/MYH10_fold_1.svg

first - Elapsed time since the previous call: 0.00 seconds
first - Current memory usage: 158.34 MB
setup complete - Elapsed time since the previous call: 0.00 seconds
setup complete - Current memory usage: 158.34 MB
config complete - Elapsed time since the previous call: 0.00 seconds
config complete - Current memory usage: 158.34 MB
read annotations - Elapsed time since the previous call: 0.09 seconds
read annotations - Current memory usage: 171.94 MB
Based on canonical annotations, the following gene is in your area of interest: MYH10(-)
write fasta - Elapsed time since the previous call: 1.17 seconds
write fasta - Current memory usage: 171.94 MB
Length of region: 94 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: 175.55 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/Fold "/disk1/www/rails/humanrnamap/public/result/016ce0db-41b1-4659-b396-71c3e9fae53d/fasta/MYH10.fasta" "/disk1/www/rails/humanrnamap/public/result/016ce0db-41b1-4659-b396-71c3e9fae53d/ct/MYH10.ct" --SHAPE "MYH10.dat"

fold - Elapsed time since the previous call: 0.11 seconds
fold - Current memory usage: 175.55 MB
Running command: /disk1/www/rails/humanrnamap/cli/bin/efn2 "/disk1/www/rails/humanrnamap/public/result/016ce0db-41b1-4659-b396-71c3e9fae53d/ct/MYH10.ct" "/disk1/www/rails/humanrnamap/public/result/016ce0db-41b1-4659-b396-71c3e9fae53d/fold_FE/MYH10.txt" -sh "MYH10.dat"

efn2 - Elapsed time since the previous call: 0.50 seconds
efn2 - Current memory usage: 175.55 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/016ce0db-41b1-4659-b396-71c3e9fae53d/ct/MYH10.ct" 1 "/disk1/www/rails/humanrnamap/public/result/016ce0db-41b1-4659-b396-71c3e9fae53d/fold_dbn/MYH10_temp1.dbn"

ct2dot - Elapsed time since the previous call: 0.02 seconds
ct2dot - Current memory usage: 175.55 MB
['java', '-cp', '/disk1/www/rails/humanrnamap/cli/bin/VARNAv3-93.jar', 'fr.orsay.lri.varna.applications.VARNAcmd', '-sequenceDBN', 'CGUCGCACUGAGAAGAAGCUGAAAGAAAUCUUCAUGCAGGUUGAGGAUGAGCGUCGACACGCGGACCAGUAUAAAGAGCAGAUGGAGAAGGCCA', '-structureDBN', '.......(((.......((((......(((((((.......)))))))....(((........)))))))........))).(((......)))', '-o', '/disk1/www/rails/humanrnamap/public/result/016ce0db-41b1-4659-b396-71c3e9fae53d/final_image/MYH10_fold_1.svg', '-title', 'MYH10, -14.4 ± 0.7\n kcal/mol, AUC: 0.774', '-titleSize', '12', '-basesStyle1', 'fill=#ffffff', '-applyBasesStyle1on', '2,3,5,9,10,12,15,18,20,21,25,29,31,32,35,36,39,40,41,42,43,45,46,48,49,51,53,54,56,61,63,64,69,70,72,76,78,81,83,84,85,87,90,91', '-basesStyle2', 'fill=#00ffff', '-applyBasesStyle2on', '16,66,28,93,47', '-basesStyle3', 'fill=#ffff00', '-applyBasesStyle3on', '1,65,68,71,75,77,14,79,80,17,22,27,92,30,94,33,38,44,50,55,60', '-basesStyle4', 'fill=#ff0000', '-applyBasesStyle4on', '67,4,6,7,8,73,74,11,13,82,19,86,23,24,88,26,89,34,37,52,57,58,59,62']
Warning: Font Verdana not found. Using default font.
Text: 'C', X: 4.75, Y: 482.96668132707987, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'G', X: 22.25, Y: 482.96668132707987, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'U', X: 39.75, Y: 482.96668132707987, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'C', X: 57.25, Y: 482.96668132707987, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'G', X: 74.75, Y: 482.96668132707987, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'C', X: 92.25, Y: 482.96668132707987, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'A', X: 109.75, Y: 482.96668132707987, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'C', X: 127.25, Y: 482.96668132707987, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'U', X: 127.25, Y: 462.96668132707987, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'G', X: 127.25, Y: 442.96668132707987, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'A', X: 111.3819760081885, Y: 435.5872985880769, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'G', X: 98.43634799008075, Y: 423.81189242819494, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'A', X: 89.59102935675185, Y: 408.7118986107033, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'A', X: 85.65084930836542, Y: 391.66125474603655, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'G', X: 86.97432200233072, Y: 374.21138669376376, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'A', X: 93.44102560718204, Y: 357.95004543603216, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'A', X: 104.46255939867902, Y: 344.35683875415276, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'G', X: 119.0360819198091, Y: 334.66860277748935, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'C', X: 116.01961566300287, Y: 314.8973880621121, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'U', X: 113.00314940619666, Y: 295.12617334673484, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'G', X: 109.98668314939044, Y: 275.3549586313576, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'A', X: 93.45358507924149, Y: 269.61864487577975, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'A', X: 79.74829441685789, Y: 258.736841938804, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'A', X: 70.41353274708914, Y: 243.93444848814175, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'G', X: 66.50005766947332, Y: 226.87768032660324, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'A', X: 68.44838537755456, Y: 209.4865145680488, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'A', X: 76.0392044182845, Y: 193.71856943906994, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'A', X: 88.41806225436947, Y: 181.34874704852655, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'U', X: 82.51399162346593, Y: 162.24005923420236, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'C', X: 76.60992099256237, Y: 143.13137141987818, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'U', X: 70.7058503616588, Y: 124.022683605554, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'U', X: 64.80177973075524, Y: 104.91399579122981, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'C', X: 58.89770909985168, Y: 85.80530797690562, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'A', X: 52.993638468948106, Y: 66.69662016258144, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'U', X: 38.86394089345562, Y: 56.37180351270297, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'G', X: 33.55756930658279, Y: 39.69569446381172, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'C', X: 39.122391940005414, Y: 23.104041698428887, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'A', X: 53.410797511828235, Y: 13.0, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'G', X: 70.90851485336373, Y: 13.282984565328888, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'G', X: 84.86271505243795, Y: 23.843784214628272, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'U', X: 89.88810557567055, Y: 40.606708855558054, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'U', X: 84.04525616722492, Y: 57.10250538736318, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'G', X: 89.94932679812848, Y: 76.21119320168737, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'A', X: 95.85339742903204, Y: 95.31988101601155, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'G', X: 101.7574680599356, Y: 114.42856883033573, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'G', X: 107.66153869083917, Y: 133.53725664465992, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'A', X: 113.56560932174273, Y: 152.6459444589841, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'U', X: 119.46967995264629, Y: 171.75463227330818, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'G', X: 136.66881846563575, Y: 174.98567458361651, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'A', X: 151.83127810170345, Y: 183.72351286231094, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'G', X: 163.25030493757401, Y: 196.98457715299548, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'C', X: 169.64052250268153, Y: 213.27614305288944, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'G', X: 170.2826194740869, Y: 230.7643594136083, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'U', X: 188.3031553458983, Y: 239.4396281064362, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'C', X: 206.32369121770967, Y: 248.1148967992641, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'G', X: 223.14134022673133, Y: 243.27576558967837, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'A', X: 239.8867344508776, Y: 248.35929599011473, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'C', X: 251.17596196618388, Y: 261.7310517148461, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'A', X: 253.37935566428382, Y: 279.09179954624454, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'C', X: 245.78848924923022, Y: 294.8597815389742, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'G', X: 230.84394761608038, Y: 303.9653394257422, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'C', X: 213.3506397935439, Y: 303.48089079046963, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'G', X: 198.93294388312486, Y: 293.5621936134752, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'G', X: 192.22637959186432, Y: 277.3982675909575, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'A', X: 174.20584372005294, Y: 268.7229988981296, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'C', X: 156.1853078482416, Y: 260.0477302053017, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'C', X: 142.11490706187845, Y: 270.4532009640475, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'A', X: 145.13137331868467, Y: 290.22441567942474, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'G', X: 148.14783957549088, Y: 309.995630394802, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'U', X: 151.16430583229712, Y: 329.76684511017925, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'A', X: 167.9638080144753, Y: 334.66855159170086, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'U', X: 182.53736203067695, Y: 344.35676728587555, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'A', X: 193.55892837736576, Y: 357.9499668822008, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'A', X: 200.02566091623473, Y: 374.2113127757833, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'A', X: 201.34915528169046, Y: 391.6611942270886, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'G', X: 197.40898746395806, Y: 408.71185631300494, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'A', X: 188.56367112216736, Y: 423.81186885649817, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'G', X: 175.61803662765078, Y: 435.58729018799966, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'C', X: 159.75, Y: 442.96668132707987, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'A', X: 159.75, Y: 462.96668132707987, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'G', X: 159.75, Y: 482.96668132707987, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'A', X: 177.25, Y: 482.96668132707987, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'U', X: 194.75, Y: 482.96668132707987, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'G', X: 194.75, Y: 462.96668132707987, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'G', X: 194.75, Y: 442.96668132707987, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'A', X: 185.90309990849715, Y: 427.8676247144951, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'G', X: 188.8683050233931, Y: 410.620691350976, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'A', X: 202.2500121168788, Y: 399.343321662825, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'A', X: 219.7499878831212, Y: 399.343321662825, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'G', X: 233.1316949766069, Y: 410.620691350976, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'G', X: 236.09690009150285, Y: 427.86762471449515, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'C', X: 227.25, Y: 442.96668132707987, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'C', X: 227.25, Y: 462.96668132707987, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'A', X: 227.25, Y: 482.96668132707987, Width: 10.5, Height: 8
Warning: Font Verdana not found. Using default font.
Text: '1', X: 5.5, Y: 502.96668132707987, Width: 9.0, Height: 8
Warning: Font Verdana not found. Using default font.
Text: '10', X: 105.8726747418269, Y: 452.4153534159277, Width: 18.0, Height: 8
Warning: Font Verdana not found. Using default font.
Text: '20', X: 89.48193469081941, Y: 298.14263960354106, Width: 18.0, Height: 8
Warning: Font Verdana not found. Using default font.
Text: '30', X: 53.75123317823817, Y: 149.03544205078174, Width: 18.0, Height: 8
Warning: Font Verdana not found. Using default font.
Text: '40', X: 97.53876735236256, Y: 12.4339285696106, Width: 18.0, Height: 8
Warning: Font Verdana not found. Using default font.
Text: '50', X: 160.8327806575737, Y: 168.31574915151782, Width: 18.0, Height: 8
Warning: Font Verdana not found. Using default font.
Text: '60', X: 256.86007755336095, Y: 308.2881291716077, Width: 18.0, Height: 8
Warning: Font Verdana not found. Using default font.
Text: '70', X: 163.41490900189342, Y: 317.7676493784185, Width: 18.0, Height: 8
Warning: Font Verdana not found. Using default font.
Text: '80', X: 176.0, Y: 462.96668132707987, Width: 18.0, Height: 8
Warning: Font Verdana not found. Using default font.
Text: '90', X: 246.7341463777645, Y: 400.6762240263546, Width: 18.0, Height: 8
Warning: Font Verdana not found. Using default font.
Text: '94', X: 223.5, Y: 502.96668132707987, Width: 18.0, Height: 8
Warning: Font Verdana not found. Using default font.
Text: 'MYH10, -14.4 ± 0.7
 kcal/mol, AUC: 0.774', X: 63.06467783214191, Y: 515.7666813270798, Width: 142.5, Height: 23
Calculated bounding box: (4.75, 4.4339285696106, 274.86007755336095, 515.7666813270798)
Updated viewBox: -0.25 -0.5660714303893997 280.11007755336095 521.3327527574693
Updated SVG: /disk1/www/rails/humanrnamap/public/result/016ce0db-41b1-4659-b396-71c3e9fae53d/final_image/MYH10_fold_final_1.svg
Combined SVG saved as /disk1/www/rails/humanrnamap/public/result/016ce0db-41b1-4659-b396-71c3e9fae53d/final_image/MYH10_fold_final_1.svg
