//genesis
// kkit Version 8 flat dumpfile
 
// Saved on Thu Aug  7 16:39:32 2003
 
include kkit {argv 1}
 
FASTDT = 0.0001
SIMDT = 0.005
CONTROLDT = 10
PLOTDT = 10
MAXTIME = 3000
TRANSIENT_TIME = 2
VARIABLE_DT_FLAG = 1
DEFAULT_VOL = 2e-08
VERSION = 8.0
setfield /file/modpath value /home2/bhalla/scripts/modules
kparms
 
//genesis

initdump -version 3 -ignoreorphans 1
simobjdump table input output alloced step_mode stepsize x y z
simobjdump xtree path script namemode sizescale
simobjdump xcoredraw xmin xmax ymin ymax
simobjdump xtext editable
simobjdump xgraph xmin xmax ymin ymax overlay
simobjdump xplot pixflags script fg ysquish do_slope wy
simobjdump group xtree_fg_req xtree_textfg_req plotfield expanded movealone \
  link savename file version md5sum mod_save_flag x y z
simobjdump kpool CoTotal CoInit Co n nInit nTotal nMin vol slave_enable notes \
  xtree_fg_req xtree_textfg_req x y z
simobjdump kreac kf kb notes xtree_fg_req xtree_textfg_req x y z
simobjdump kenz CoComplexInit CoComplex nComplexInit nComplex vol k1 k2 k3 \
  keepconc usecomplex notes xtree_fg_req xtree_textfg_req link x y z
simobjdump stim level1 width1 delay1 level2 width2 delay2 baselevel trig_time \
  trig_mode notes xtree_fg_req xtree_textfg_req is_running x y z
simobjdump xtab input output alloced step_mode stepsize notes editfunc \
  xtree_fg_req xtree_textfg_req baselevel last_x last_y is_running x y z
simobjdump kchan perm gmax Vm is_active use_nernst notes xtree_fg_req \
  xtree_textfg_req x y z
simobjdump proto x y z
simobjdump linkinfo xtree_fg_req xtree_textfg_req uplink downlink x y z
simobjdump uplink xtree_fg_req xtree_textfg_req x y z
simobjdump downlink xtree_fg_req xtree_textfg_req x y z
simobjdump mirror notes xtree_fg_req x y z
simobjdump transport input output alloced step_mode stepsize dt delay clock \
  kf editfunc createfunc xtree_fg_req xtree_textfg_req plotfield manageclass \
  linkparms
simundump xtab /kinetics/noOligo 0 -270 6246.8 1 2 0 "" edit_xtab white red 0 \
  0 0 0 22.469 -0.71578 0
loadtab /kinetics/noOligo table 0 3000 0 3000 \
 31.75 31.2983 30.8467 30.395 29.9433 29.4917 29.187 29.0515 28.916 28.7805 \
 28.645 28.5095 28.332 28.1513 27.9707 27.79 27.6093 27.928 29.012 30.096 \
 31.18 32.264 33.348 34.0048 34.592 35.1792 35.7663 36.3535 36.97 37.6475 \
 38.325 39.0025 39.68 40.3575 39.858 39.045 38.232 37.419 36.606 36.8165 \
 40.0233 43.2302 46.437 49.6438 52.8507 54.1075 54.6043 55.1012 55.598 \
 56.0948 56.85 58.747 60.644 62.541 64.438 66.335 67.4107 68.043 68.6753 \
 69.3077 69.94 70.6447 71.9093 73.174 74.4387 75.7033 76.968 79.2008 82.1367 \
 85.0725 88.0083 90.9442 93.896 97.1932 100.49 103.788 107.085 110.382 \
 113.173 115.476 117.78 120.084 122.387 124.69 126.906 129.119 131.332 \
 133.545 135.759 139.301 144.54 149.779 155.019 160.258 165.497 168.042 170.3 \
 172.558 174.817 177.075 180.167 184.683 189.2 193.717 198.233 202.75 206.513 \
 210.127 213.74 217.353 220.967 224.594 228.252 231.91 235.569 239.227 \
 242.886 246.82 250.84 254.86 258.88 262.9 267.777 275.546 283.315 291.083 \
 298.852 306.621 312.447 317.415 322.383 327.352 332.32 336.636 337.494 \
 338.352 339.211 340.069 340.927 345.616 352.617 359.618 366.618 373.619 \
 380.62 387.621 394.622 401.623 408.623 415.624 421.175 425.556 429.937 \
 434.319 438.7 443.084 447.646 452.208 456.77 461.332 465.893 472.005 479.774 \
 487.543 495.311 503.08 510.849 519.517 528.234 536.951 545.668 554.385 \
 560.527 563.011 565.495 567.979 570.463 572.947 580.192 588.096 596 603.904 \
 611.808 619.712 627.617 635.521 643.425 651.329 659.233 662.502 664.67 \
 666.838 669.006 671.174 674.329 680.11 685.891 691.673 697.454 703.235 
loadtab -continue \
 710.317 717.86 725.402 732.945 740.488 746.94 749.108 751.276 753.444 \
 755.612 757.78 765.619 776.279 786.938 797.597 808.257 817.92 821.082 \
 824.243 827.405 830.567 833.728 836.026 837.742 839.459 841.175 842.891 \
 844.848 850.404 855.959 861.515 867.071 872.626 882.495 896.226 909.957 \
 923.687 937.418 951.149 955.733 960.25 964.767 969.283 973.8 978.027 981.912 \
 985.796 989.68 993.565 997.449 1000.88 1004.26 1007.65 1011.04 1014.42 \
 1019.67 1027.84 1036.02 1044.19 1052.37 1060.54 1063.44 1065.43 1067.42 \
 1069.41 1071.39 1075.89 1085.78 1095.67 1105.56 1115.45 1125.35 1132.62 \
 1139.17 1145.72 1152.27 1158.82 1163.33 1161.61 1159.89 1158.18 1156.46 \
 1154.74 1162.87 1174.98 1187.08 1199.18 1211.29 1222.57 1230.02 1237.48 \
 1244.93 1252.38 1259.83 1264.18 1266.8 1269.42 1272.04 1274.66 1277.65 \
 1283.75 1289.85 1295.95 1302.04 1308.14 1314.55 1321.19 1327.83 1334.47 \
 1341.11 1347.52 1348.06 1348.6 1349.15 1349.69 1350.23 1356.12 1367.32 \
 1378.52 1389.73 1400.93 1412.13 1415.16 1417.92 1420.67 1423.43 1426.18 \
 1429.45 1433.38 1437.31 1441.24 1445.16 1449.09 1454.89 1460.89 1466.9 \
 1472.91 1478.92 1485.69 1493.82 1501.95 1510.08 1518.21 1526.34 1528.46 \
 1529.32 1530.18 1531.03 1531.89 1534.75 1542.48 1550.2 1557.92 1565.65 \
 1573.37 1575.52 1575.88 1576.25 1576.61 1576.97 1579.14 1587.68 1596.21 \
 1604.75 1613.29 1621.82 1633.3 1646.13 1658.96 1671.79 1684.61 1696.04 \
 1699.61 1703.18 1706.74 1710.31 1713.88 1716.22 1717.8 1719.39 1720.97 \
 1722.55 1724.49 1730.59 1736.69 1742.79 1748.89 1754.98 1761.4 1768.09 \
 1774.77 1781.45 1788.14 1794.82 1800.82 1806.83 1812.84 1818.85 1824.85 \
 1826.52 
loadtab -continue \
 1823.4 1820.28 1817.17 1814.05 1810.93 1815.64 1820.83 1826.03 1831.22 \
 1836.41 1844.94 1858.36 1871.77 1885.19 1898.6 1912.02 1922.17 1931.83 \
 1941.5 1951.16 1960.83 1968.3 1971.41 1974.53 1977.65 1980.76 1983.88 \
 1983.63 1982.55 1981.46 1980.38 1979.3 1980.04 1985.82 1991.6 1997.38 \
 2003.16 2008.94 2016.27 2024.18 2032.08 2039.99 2047.89 2055.59 2062.46 \
 2069.32 2076.19 2083.05 2089.92 2094.25 2097.28 2100.3 2103.33 2106.35 \
 2109.57 2114.13 2118.7 2123.26 2127.82 2132.38 2137.64 2143.37 2149.11 \
 2154.85 2160.58 2166.18 2169.43 2172.68 2175.94 2179.19 2182.44 2185.53 \
 2188.46 2191.4 2194.33 2197.27 2200.21 2209.46 2218.81 2228.16 2237.51 \
 2246.86 2254.48 2259.99 2265.5 2271.01 2276.52 2282.03 2293.66 2305.85 \
 2318.05 2330.24 2342.44 2348.7 2345.26 2341.83 2338.4 2334.96 2331.53 \
 2338.33 2347 2355.67 2364.34 2373.02 2378.24 2375.81 2373.37 2370.93 2368.49 \
 2366.05 2377.16 2392.2 2407.24 2422.28 2437.32 2448.15 2445.67 2443.19 \
 2440.7 2438.22 2435.73 2439.97 2447.01 2454.06 2461.1 2468.15 2475.41 \
 2483.72 2492.03 2500.34 2508.65 2516.96 2524.56 2531.74 2538.92 2546.1 \
 2553.28 2559.34 2555.18 2551.03 2546.87 2542.71 2538.56 2539.86 2545.37 \
 2550.88 2556.39 2561.9 2567.63 2580.46 2593.28 2606.11 2618.94 2631.77 \
 2638.63 2639.4 2640.17 2640.93 2641.7 2642.47 2641.81 2641.08 2640.36 \
 2639.64 2638.92 2643.89 2656.58 2669.27 2681.96 2694.65 2707.35 2707.46 \
 2706.02 2704.57 2703.13 2701.68 2704.59 2715.43 2726.27 2737.11 2747.95 \
 2758.79 2765.12 2770.45 2775.78 2781.1 2786.43 2792.73 2801.44 2810.16 \
 2818.88 2827.6 2836.31 2838.87 2839.37 2839.87 2840.36 2840.86 2841.25 \
 2841.25 
loadtab -continue \
 2841.25 2841.25 2841.25 2841.25 2847.54 2856.8 2866.05 2875.31 2884.57 \
 2892.96 2896.12 2899.28 2902.44 2905.6 2908.76 2913.46 2919.16 2924.85 \
 2930.54 2936.23 2941.83 2946.35 2950.87 2955.38 2959.9 2964.42 2969.86 \
 2976.09 2982.32 2988.56 2994.79 3001.01 3002.41 3003.81 3005.21 3006.61 \
 3008.01 3010.74 3014.99 3019.23 3023.48 3027.72 3031.97 3030.27 3028.15 \
 3026.02 3023.9 3021.78 3025.45 3037.87 3050.29 3062.71 3075.13 3087.55 \
 3095.96 3103.73 3111.5 3119.26 3127.03 3130.78 3126.31 3121.84 3117.37 \
 3112.9 3108.42 3115.42 3125.4 3135.38 3145.36 3155.35 3165.46 3175.94 \
 3186.41 3196.89 3207.37 3217.85 3219.64 3218.1 3216.57 3215.03 3213.5 \
 3213.47 3219.92 3226.38 3232.84 3239.3 3245.76 3246.7 3244.71 3242.73 \
 3240.74 3238.75 3237.78 3244.42 3251.06 3257.7 3264.34 3270.98 3282.28 \
 3296.92 3311.55 3326.18 3340.82 3355.07 3361.66 3368.26 3374.85 3381.44 \
 3388.04 3387.03 3378.81 3370.59 3362.37 3354.15 3345.93 3354.27 3362.99 \
 3371.71 3380.43 3389.14 3393.04 3390.87 3388.7 3386.54 3384.37 3382.2 \
 3398.65 3416.98 3435.32 3453.66 3472 3481.8 3477.24 3472.68 3468.11 3463.55 \
 3458.99 3457.08 3455.68 3454.28 3452.88 3451.48 3453.34 3462.74 3472.13 \
 3481.53 3490.92 3500.32 3503.99 3505.93 3507.88 3509.82 3511.76 3516.73 \
 3531.68 3546.63 3561.58 3576.53 3591.48 3592.31 3587.03 3581.75 3576.46 \
 3571.18 3567.97 3575.52 3583.06 3590.6 3598.15 3605.69 3609.97 3612.32 \
 3614.67 3617.02 3619.37 3621.6 3622.68 3623.77 3624.85 3625.94 3627.02 \
 3633.54 3644.38 3655.22 3666.06 3676.9 3687.34 3680.16 3672.98 3665.8 \
 3658.61 3651.43 3654.28 3667.7 3681.11 3694.53 3707.94 3721.36 3724.71 \
 3727.55 
loadtab -continue \
 3730.4 3733.25 3736.09 3738.88 3741.59 3744.3 3747.01 3749.72 3752.43 \
 3760.48 3769.24 3778 3786.76 3795.53 3801.14 3800.82 3800.51 3800.19 3799.88 \
 3799.56 3804.08 3809.73 3815.38 3821.02 3826.67 3827.92 3817.72 3807.51 \
 3797.3 3787.09 3776.89 3789.73 3810.59 3831.46 3852.33 3873.2 3887.07 \
 3874.11 3861.15 3848.18 3835.22 3822.26 3831.5 3851.6 3871.7 3891.8 3911.89 \
 3928.88 3926.17 3923.46 3920.75 3918.04 3915.33 3921.56 3933.71 3945.86 \
 3958.01 3970.16 3981.44 3980.54 3979.63 3978.73 3977.83 3976.92 3973.14 \
 3966.82 3960.49 3954.17 3947.85 3941.52 3961.08 3980.72 4000.37 4020.02 \
 4039.67 4054.46 4063.58 4072.71 4081.83 4090.95 4100.08 4098.83 4096.75 \
 4094.67 4092.59 4090.52 4094.11 4106.53 4118.95 4131.37 4143.79 4156.21 \
 4145.59 4131.09 4116.59 4102.09 4087.59 4078.01 4078.82 4079.64 4080.45 \
 4081.26 4082.08 4089.53 4098.79 4108.05 4117.31 4126.56 4134.81 4140.05 \
 4145.29 4150.53 4155.77 4161.01 4160.17 4156.92 4153.67 4150.42 4147.16 \
 4143.9 4140.55 4137.21 4133.87 4130.53 4127.18 4142.28 4167.48 4192.68 \
 4217.88 4243.09 4263.77 4248.09 4232.42 4216.75 4201.07 4185.4 4188.34 \
 4205.01 4221.68 4238.34 4255.01 4271.26 4277.67 4284.09 4290.5 4296.92 \
 4303.33 4306.29 4305.89 4305.48 4305.08 4304.67 4304.26 4310.78 4317.51 \
 4324.24 4330.97 4337.7 4341.22 4340.59 4339.96 4339.33 4338.7 4338.06 \
 4343.45 4349.5 4355.55 4361.61 4367.66 4373.94 4380.63 4387.31 4394 4400.68 \
 4407.37 4396.5 4382.05 4367.59 4353.14 4338.69 4331.07 4339.79 4348.51 \
 4357.22 4365.94 4374.66 4376.2 4375.48 4374.76 4374.03 4373.31 4376.19 \
 4391.45 4406.72 4421.99 4437.25 4452.52 4465.1 4476.49 4487.87 
loadtab -continue \
 4499.25 4510.63 4518.87 4509.97 4501.08 4492.18 4483.28 4474.38 4466.6 \
 4459.51 4452.42 4445.33 4438.24 4433.29 4451.45 4469.6 4487.76 4505.92 \
 4524.08 4529.1 4523.36 4517.62 4511.89 4506.15 4500.51 4501.37 4502.23 \
 4503.09 4503.95 4504.8 4508.59 4515.54 4522.5 4529.45 4536.41 4543.37 \
 4547.55 4551.57 4555.59 4559.61 4563.63 4566.78 4568.67 4570.57 4572.47 \
 4574.37 4576.26 4582.98 4590.39 4597.79 4605.2 4612.61 4619.8 4626.57 \
 4633.35 4640.13 4646.9 4653.67 4644.1 4630.55 4617 4603.45 4589.9 4585.91 \
 4607.86 4629.81 4651.77 4673.72 4695.67 4700.67 4699.54 4698.41 4697.28 \
 4696.15 4692.55 4679 4665.45 4651.9 4638.35 4624.8 4627.36 4638.06 4648.77 \
 4659.47 4670.18 4679.84 4682.46 4685.08 4687.7 4690.32 4692.94 4696.66 \
 4701.13 4705.6 4710.07 4714.54 4718.95 4722.39 4725.82 4729.25 4732.68 \
 4736.12 4742.37 4751.17 4759.98 4768.79 4777.6 4786.4 4775.56 4764.49 \
 4753.42 4742.36 4731.29 4730.76 4742.91 4755.06 4767.21 4779.36 4791.51 \
 4787.02 4781.06 4775.1 4769.14 4763.17 4768.31 4791.25 4814.19 4837.14 \
 4860.08 4883.03 4871.7 4854.27 4836.83 4819.4 4801.97 4791.76 4797.36 \
 4802.96 4808.56 4814.16 4819.76 4826.35 4833.21 4840.08 4846.94 4853.81 \
 4861.12 4869.84 4878.56 4887.27 4895.99 4904.71 4901.87 4894.29 4886.7 \
 4879.11 4871.52 4867.06 4877.49 4887.93 4898.36 4908.79 4919.23 4912.97 \
 4897.25 4881.53 4865.81 4850.09 4838.05 4857.93 4877.8 4897.67 4917.55 \
 4937.42 4948.87 4953.93 4958.99 4964.05 4969.11 4973.73 4965.74 4957.75 \
 4949.75 4941.76 4933.76 4931.75 4935.77 4939.79 4943.81 4947.83 4951.85 \
 4947.26 4942.34 4937.41 4932.49 4927.57 4929.35 4940.1 4950.85 4961.6 
loadtab -continue \
 4972.35 4983.1 4991.51 4999.64 5007.77 5015.9 5024.03 5025.03 5013.24 \
 5001.45 4989.66 4977.88 4966.09 4980.99 5001.63 5022.27 5042.91 5063.55 \
 5075.52 5066.03 5056.55 5047.07 5037.58 5028.09 5031.05 5038.1 5045.15 \
 5052.19 5059.24 5066.33 5073.6 5080.88 5088.15 5095.42 5102.69 5102.44 \
 5098.69 5094.94 5091.19 5087.45 5083.85 5081.14 5078.43 5075.72 5073.01 \
 5070.3 5077.52 5091.03 5104.53 5118.04 5131.54 5143.35 5135 5126.64 5118.29 \
 5109.93 5101.57 5095.59 5091.62 5087.64 5083.67 5079.7 5075.92 5099.64 \
 5123.35 5147.06 5170.77 5194.49 5202.29 5192.3 5182.32 5172.34 5162.36 \
 5152.38 5149.8 5147.73 5145.65 5143.57 5141.49 5137.92 5132.14 5126.36 \
 5120.58 5114.8 5109.02 5116.55 5126.13 5135.7 5145.28 5154.85 5167.17 \
 5185.02 5202.86 5220.7 5238.54 5256.38 5242.32 5220.15 5197.97 5175.79 \
 5153.62 5142.01 5160.16 5178.32 5196.48 5214.63 5232.79 5243.82 5252.18 \
 5260.54 5268.89 5277.25 5283.44 5280.5 5277.57 5274.63 5271.69 5268.76 \
 5261.76 5252.63 5243.51 5234.39 5225.26 5219.41 5237.16 5254.91 5272.66 \
 5290.41 5308.16 5308.19 5295.72 5283.25 5270.79 5258.32 5246.67 5249.87 \
 5253.08 5256.29 5259.49 5262.7 5268.75 5277.47 5286.19 5294.9 5303.62 \
 5312.34 5299.78 5286.81 5273.85 5260.89 5247.93 5244.06 5251.46 5258.87 \
 5266.28 5273.69 5281.09 5295.99 5311.62 5327.25 5342.88 5358.5 5365.56 \
 5358.43 5351.29 5344.15 5337.02 5329.88 5335.4 5343.3 5351.21 5359.11 \
 5367.02 5371.99 5370.32 5368.65 5366.97 5365.3 5363.63 5357.57 5350.21 \
 5342.85 5335.49 5328.12 5324.15 5331.15 5338.16 5345.16 5352.16 5359.16 \
 5360.33 5359.02 5357.71 5356.4 5355.09 5357.08 5375.65 5394.21 5412.77 \
 5431.34 
loadtab -continue \
 5449.9 5448.31 5434.94 5421.58 5408.21 5394.84 5382.44 5379.19 5375.93 \
 5372.68 5369.43 5366.18 5376.2 5396.62 5417.03 5437.45 5457.86 5477.68 \
 5475.02 5472.35 5469.69 5467.02 5464.36 5458.46 5449.2 5439.94 5430.68 \
 5421.42 5412.16 5417.15 5422.79 5428.44 5434.08 5439.73 5446.19 5453.78 \
 5461.37 5468.96 5476.54 5484.13 5475.68 5465.16 5454.63 5444.11 5433.58 \
 5432.83 5450.17 5467.52 5484.86 5502.21 5519.55 5511.66 5498.07 5484.47 \
 5470.88 5457.28 5451.73 5466.82 5481.9 5496.99 5512.07 5527.16 5522.18 \
 5510.35 5498.51 5486.68 5474.84 5468.02 5479.99 5491.96 5503.92 5515.89 \
 5527.86 5531.35 5530.77 5530.18 5529.59 5529 5528.84 5531.23 5533.62 5536.02 \
 5538.41 5540.8 5540.25 5537.76 5535.28 5532.79 5530.31 5528.49 5535.54 \
 5542.59 5549.63 5556.68 5563.72 5565.28 5562.08 5558.87 5555.66 5552.46 \
 5549.25 5550.74 5552.23 5553.72 5555.21 5556.7 5559.41 5563.52 5567.63 \
 5571.74 5575.85 5579.96 5580.8 5581.38 5581.97 5582.56 5583.14 5586.21 \
 5593.08 5599.94 5606.81 5613.67 5620.54 5607.64 5591.51 5575.39 5559.26 \
 5543.14 5535.77 5546.61 5557.45 5568.29 5579.13 5589.97 5589.18 5585.3 \
 5581.41 5577.53 5573.65 5573.23 5582.99 5592.75 5602.5 5612.26 5622.01 \
 5625.43 5626.38 5627.33 5628.28 5629.23 5629 5623.58 5618.16 5612.74 5607.32 \
 5601.9 5610.53 5626.75 5642.96 5659.18 5675.39 5688.98 5682.25 5675.52 \
 5668.79 5662.06 5655.33 5651.87 5650.79 5649.7 5648.62 5647.54 5646.79 \
 5653.43 5660.07 5666.71 5673.35 5679.99 5679.64 5672.55 5665.46 5658.37 \
 5651.27 5644.18 5636.61 5629.02 5621.43 5613.84 5606.26 5608.96 5624.81 \
 5640.67 5656.52 5672.38 5688.23 5687.06 5684.07 5681.09 5678.11 5675.13 
loadtab -continue \
 5673.83 5675.41 5677 5678.58 5680.16 5681.74 5686.44 5691.77 5697.1 5702.43 \
 5707.76 5712.39 5715.37 5718.35 5721.33 5724.31 5727.3 5729.28 5730.95 \
 5732.62 5734.29 5735.96 5737.17 5736.81 5736.44 5736.08 5735.72 5735.36 \
 5738.82 5743.97 5749.12 5754.27 5759.42 5763.53 5762.13 5760.73 5759.33 \
 5757.93 5756.53 5752.08 5745.81 5739.53 5733.25 5726.97 5721.52 5724.59 \
 5727.66 5730.74 5733.81 5736.88 5734.02 5726.39 5718.76 5711.13 5703.49 \
 5696.23 5708.6 5720.98 5733.36 5745.73 5758.11 5764.26 5763.76 5763.27 \
 5762.77 5762.27 5761.78 5767.06 5772.66 5778.26 5783.86 5789.46 5795.06 \
 5800.67 5806.27 5811.87 5817.47 5823.07 5810.94 5796.35 5781.76 5767.17 \
 5752.58 5742.77 5742.09 5741.41 5740.74 5740.06 5739.38 5753.59 5771.34 \
 5789.1 5806.85 5824.6 5837.64 5838.13 5838.63 5839.13 5839.62 5840.12 \
 5832.02 5820.86 5809.7 5798.55 5787.39 5782.36 5801.37 5820.39 5839.4 \
 5858.42 5877.43 5878.05 5869.51 5860.98 5852.44 5843.9 5836.1 5833.07 \
 5830.05 5827.02 5823.99 5820.97 5822.37 5826.75 5831.13 5835.51 5839.89 \
 5844.06 5844.96 5845.86 5846.77 5847.67 5848.57 5841.54 5827.4 5813.27 \
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loadtab -continue \
 5910.4 5910.76 5911.12 5911.48 5911.85 5908.1 5901.28 5894.46 5887.64 \
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 6042.11 6047.98 6053.85 6053.03 6038.99 6024.94 6010.89 5996.85 5982.8 \
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loadtab -continue \
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 6118.69 6107.58 6103.19 6101.39 6099.58 6097.77 6095.97 6094.71 6095.84 \
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loadtab -continue \
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 6171.96 6165.78 6161.33 6181.39 6201.44 6221.49 6241.55 6261.6 6265.58 \
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 6240.01 6224.83 6209.66 6194.48 6179.3 6172.23 6182.31 6192.38 
loadtab -continue \
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 6209.19 6222.38 6235.56 6248.75 6239.41 6221.11 6202.82 6184.53 6166.24 \
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 6200.77 6188.62 6176.47 6164.74 6181.05 6197.35 6213.66 6229.96 6246.27 \
 6254.58 6254.22 6253.85 6253.49 6253.13 6252.77 6245.84 6238.52 6231.2 \
 6223.89 6216.57 6217.41 6230.01 6242.61 6255.22 6267.82 6280.42 6269.68 \
 6255.58 6241.49 6227.4 6213.31 6206.53 6213.98 6221.44 6228.89 6236.34 \
 6243.79 6244.6 6243.78 6242.97 6242.16 6241.34 6239.14 6233.18 6227.22 \
 6221.26 6215.3 6209.33 6198.76 6186.52 6174.28 6162.04 6149.8 6140.8 6144.82 \
 6148.84 6152.86 6156.88 6160.9 6168.67 6178.34 6188 6197.67 6207.33 6215.07 \
 6209.78 6204.5 6199.21 6193.93 6188.64 6189.69 6195.07 6200.44 6205.82 \
 6211.19 6217.49 6238.44 6259.4 6280.36 
loadtab -continue \
 6301.32 6322.27 6322.43 6303.68 6284.94 6266.2 6247.45 6228.71 6225.82 \
 6223.11 6220.4 6217.69 6214.98 6210.55 6204.04 6197.54 6191.04 6184.53 \
 6178.03 6192.27 6208.35 6224.43 6240.51 6256.59 6263.8 6256.75 6249.7 \
 6242.66 6235.61 6228.57 6228.31 6229.25 6230.2 6231.15 6232.1 6234.42 \
 6239.75 6245.08 6250.41 6255.74 6261.07 6258.73 6254.22 6249.7 6245.18 \
 6240.67 6235.51 6228.38 6221.24 6214.1 6206.97 6199.83 6202.29 6208.71 \
 6215.12 6221.54 6227.95 6235.06 6245.49 6255.93 6266.36 6276.79 6287.23 \
 6281.6 6266.88 6252.15 6237.43 6222.7 6209.82 6212.89 6215.96 6219.03 6222.1 \
 6225.17 6222.52 6215.52 6208.52 6201.52 6194.52 6188.08 6197.92 6207.77 \
 6217.62 6227.46 6237.31 6234.67 6219.45 6204.23 6189 6173.78 6158.56 6168.87 \
 6180.17 6191.46 6202.75 6214.04 6225.74 6237.98 6250.22 6262.46 6274.7 \
 6286.94 6283.65 6278.5 6273.35 6268.21 6263.06 6251.46 6228.29 6205.12 \
 6181.94 6158.77 6135.6 6157.55 6189.22 6220.88 6252.54 6284.2 6302 6285.52 \
 6269.03 6252.55 6236.06 6219.58 6220.06 6226.11 6232.16 6238.21 6244.27 \
 6246.77 6236.52 6226.26 6216.01 6205.76 6195.5 6197.46 6205.09 6212.73 \
 6220.36 6227.99 6235.67 6243.57 6251.48 6259.38 6267.28 6275.19 6273.49 \
 6265.72 6257.95 6250.19 6242.42 6234.78 6228.73 6222.68 6216.62 6210.57 \
 6204.52 6202.48 6203.84 6205.19 6206.55 6207.91 6209.27 6212.07 6214.87 \
 6217.67 6220.47 6223.27 6230.74 6243.44 6256.13 6268.82 6281.51 6294.2 \
 6277.73 6259.3 6240.87 6222.44 6204.02 6192.06 6189.71 6187.36 6185.01 \
 6182.66 6180.31 6187.95 6197.12 6206.29 6215.46 6224.63 6225.83 6211.02 \
 6196.2 6181.39 6166.57 6151.76 6160.41 6175.05 6189.68 6204.32 
loadtab -continue \
 6218.95 6228.59 6224.16 6219.74 6215.31 6210.89 6206.46 6218.91 6237.7 \
 6256.49 6275.28 6294.07 6306.9 6294.66 6282.42 6270.18 6257.94 6245.7 \
 6244.47 6248.98 6253.5 6258.02 6262.53 6266.04 6262.24 6258.45 6254.66 \
 6250.86 6247.07 6251.81 6262.56 6273.31 6284.06 6294.81 6304.46 6294.08 \
 6283.69 6273.3 6262.91 6252.52 6248.25 6249.69 6251.14 6252.58 6254.03 \
 6255.47 6257.41 6259.35 6261.29 6263.23 6265.17 6263.39 6256.97 6250.56 \
 6244.15 6237.73 6231.32 6226.59 6222.03 6217.47 6212.91 6208.34 6209.46 \
 6219.98 6230.51 6241.03 6251.56 6262.08 6250.94 6235.72 6220.5 6205.28 \
 6190.06 6183.01 6194.49 6205.96 6217.43 6228.9 6240.38 6246.66 6251.4 \
 6256.14 6260.89 6265.63 6268.83 6267.07 6265.31 6263.55 6261.79 6260.03 \
 6258.42 6256.89 6255.35 6253.82 6252.28 6250.52 6247.63 6244.74 6241.85 \
 6238.96 6236.07 6222 6201.41 6180.81 6160.22 6139.62 6121.95 6131.89 6141.83 \
 6151.76 6161.7 6171.64 6180.33 6188.06 6195.78 6203.5 6211.23 6219.14 \
 6234.32 6249.49 6264.67 6279.85 6295.02 6296.41 6283.49 6270.58 6257.66 \
 6244.74 6231.82 6228.14 6224.89 6221.64 6218.39 6215.13 6212.45 6210.56 \
 6208.66 6206.76 6204.86 6202.97 6210.83 6219.95 6229.08 6238.2 6247.32 \
 6251.02 6244.65 6238.28 6231.91 6225.54 6219.18 6215.9 6213.33 6210.75 \
 6208.18 6205.6 6205.76 6212.95 6220.13 6227.31 6234.49 6241.67 6239.16 \
 6233.33 6227.5 6221.68 6215.85 6211.43 6212.29 6213.15 6214 6214.86 6215.72 \
 6217.19 6218.95 6220.71 6222.47 6224.24 6224.08 6212.21 6200.33 6188.45 \
 6176.57 6164.69 6166.7 6177.76 6188.83 6199.89 6210.96 6220.58 6211 6201.43 \
 6191.85 6182.28 6172.7 6176.83 6192.86 6208.9 6224.93 6240.97 
loadtab -continue \
 6257
simundump group /kinetics/luciferase 0 yellow black x 0 0 "" x؏`ݎ��� \
  /home2/bhalla/scripts/modules/x؏`ݎ���_0.g 0 0 0 29 -20 0
simundump kpool /kinetics/luciferase/E.S1_in 0 0 0 3.0033e-12 36.04 0 0 0 \
  1.2e+13 0 "" blue yellow 23 -20 0
simundump kreac /kinetics/luciferase/k5 0 2.6e-05 0 "" white yellow 23 -22 0
simundump kpool /kinetics/luciferase/E.S1 0 0 0 5.7885e-11 694.62 0 0 0 \
  1.2e+13 0 "" blue yellow 23 -24 0
simundump kpool /kinetics/luciferase/S1 0 1e+05 600 600 7.2e+15 7.2e+15 \
  1.2e+18 0 1.2e+13 0 "" blue yellow 23 -26 0
simundump kreac /kinetics/luciferase/k1 0 1.6667e-15 6 "" white yellow 21 -25 \
  0
simundump kpool /kinetics/luciferase/E 0 10 0 3.1995e-10 3839.4 0 1.2e+14 0 \
  1.2e+13 0 "" 54 yellow 19 -26 0
simundump kreac /kinetics/luciferase/k1_prime 0 8.3335e-14 10 "" white yellow \
  25 -25 0
simundump kpool /kinetics/luciferase/S2 0 1000 1000 1000 1.2e+16 1.2e+16 \
  1.2e+16 0 1.2e+13 0 "" blue yellow 27 -25 0
simundump kreac /kinetics/luciferase/k4 0 0.09 8.3335e-14 "" white yellow 35 \
  -22 0
simundump kpool /kinetics/luciferase/E.S1.S2 0 0 0 5.4394e-09 65273 0 0 0 \
  1.2e+13 0 "" 26 yellow 27 -26 0
simundump kreac /kinetics/luciferase/k2 0 30 0 "" white yellow 29 -26 0
simundump kpool /kinetics/luciferase/E.P1 0 0 0 1.6318e-08 1.9582e+05 0 0 0 \
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simundump kreac /kinetics/luciferase/k3 0 10 0 "" white yellow 33 -26 0
simundump kpool /kinetics/luciferase/E.P 0 0 0 1.8086e-06 2.1704e+07 0 0 0 \
  1.2e+13 0 "" 58 yellow 35 -26 0
simundump kpool /kinetics/luciferase/P 0 0 0 0.00032273 3.8728e+09 0 0 0 \
  1.2e+13 0 "" blue yellow 37 -26 0
simundump kreac /kinetics/luciferase/k1_prime_2 0 8.3335e-14 10 "" white \
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simundump kreac /kinetics/luciferase/k1_2 0 1.6667e-15 6 "" white yellow 25 \
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simundump kpool /kinetics/luciferase/E.S2 0 0 0 1.6027e-08 1.9232e+05 0 0 0 \
  1.2e+13 0 "" 47 yellow 23 -28 0
simundump kpool /kinetics/luciferase/AMP 0 0 0 0.00032564 3.9076e+09 0 0 0 \
  1.2e+13 0 "" blue yellow 29 -28 0
simundump kpool /kinetics/luciferase/photon 0 0 0 0.00032562 3.9074e+09 0 0 0 \
  1.2e+13 0 "" blue yellow 33 -28 0
simundump kreac /kinetics/luciferase/k5_2 0 2.6e-05 0 "" white yellow 19 -30 \
  0
simundump kreac /kinetics/luciferase/k5_3 0 2.6e-05 0 "" white yellow 23 -30 \
  0
simundump kreac /kinetics/luciferase/k5_4 0 2.6e-05 0 "" white yellow 27 -30 \
  0
simundump kpool /kinetics/luciferase/num_photons 0 0 0 3.9074e+09 3.9074e+09 \
  0 3.9074e+09 0 1 0 "" 62 yellow 30 -30 0
simundump kpool /kinetics/luciferase/PMT_count 0 0 0 1.2127e+07 3.9074e+09 0 \
  3.9074e+09 0 322.2 0 "" 51 yellow 33 -30 0
simundump kreac /kinetics/luciferase/k6 0 0.0003 0 "" white yellow 35 -30 0
simundump kpool /kinetics/luciferase/E.P_in 0 0 0 1.0758e-06 1.2909e+07 0 0 0 \
  1.2e+13 0 "" blue yellow 35 -32 0
simundump kpool /kinetics/luciferase/E.S1.S2_in 0 0 0 2.8222e-10 3386.6 0 0 0 \
  1.2e+13 0 "" blue yellow 27 -32 0
simundump kpool /kinetics/luciferase/E.S2_in 0 0 0 8.3155e-10 9978.6 0 0 0 \
  1.2e+13 0 "" blue yellow 23 -32 0
simundump kpool /kinetics/luciferase/E_in 0 0 0 1.6601e-11 199.21 0 0 0 \
  1.2e+13 0 "" blue yellow 19 -32 0
simundump group /kinetics/Translation 0 16 black x 0 0 "" Translation \
  /home2/bhalla/scripts/modules/Translation_0.g 0 0 0 29 -13 0
simundump kpool /kinetics/Translation/Ribosome 0 0.0375 0.00375 0.00033752 \
  4.0502e+09 4.5e+10 4.5e+11 0 1.2e+13 0 "" 60 16 24 -13 0
simundump kreac /kinetics/Translation/Rib_RNA_Complex 0 8.3333e-12 2.25 "" \
  white 16 24.245 -7.5096 0
simundump kpool /kinetics/Translation/Rib_mRNA 0 0 0 1.3524e-05 1.6229e+08 0 \
  0 0 1.2e+13 0 "" 44 16 17.647 -12.486 0
simundump kreac /kinetics/Translation/Rib_mRNA-decay 0 0.0016667 0 "" white \
  16 12.289 -10.401 0
simundump kreac /kinetics/Translation/RibosomeDecay 0 0.000761 0 "" white 16 \
  28.085 -8.82 0
simundump kpool /kinetics/Translation/decayed_Ribosome 0 0 0 0.0032121 \
  3.8545e+10 0 0 0 1.2e+13 0 "" 53 16 29.722 -4.5546 0
simundump kreac /kinetics/Translation/B-subunit-bind-to_ribosome 0 1.1667e-14 \
  2.25 "" white 16 14.968 -14.808 0
simundump kpool /kinetics/Translation/primed-mRNA 0 0 0 2.9945e-09 35934 0 0 \
  0 1.2e+13 0 "" 50 16 18.242 -20.78 0
simundump kpool /kinetics/Translation/decayed_Rib_mRNA 0 0 0 2.2467e+09 \
  2.2467e+09 0 0 0 1 0 "" 47 16 12.606 -5.7868 0
simundump kreac /kinetics/Translation/Protein_Decay 0 1e-06 0 "" white 16 25 \
  -15 0
simundump kpool /kinetics/Translation/decayed_protein 0 0 0 6.385e-13 7.6621 \
  0 0 0 1.2e+13 0 "" 1 16 31.954 -15.415 0
simundump kpool /kinetics/Translation/B-subunit 0 0.00375 0.00375 0.003747 \
  4.4964e+10 4.5e+10 4.5e+10 0 1.2e+13 0 "" 1 16 12.438 -20.4 0
simundump kpool /kinetics/mRNA 0 0 0 0.00090191 1.0823e+10 0 0 0 1.2e+13 0 "" \
  blue black 31.186 -0.47544 0
simundump kpool /kinetics/DNA 0 0.0445 0.001111 7.6371e-06 9.1645e+07 \
  1.3332e+10 5.34e+11 0 1.2e+13 0 "" 0 black 13.879 1.4774 0
simundump kreac /kinetics/kreac 0 0.00166 0 "" white black 19.79 -3.4172 0
simundump transport /kinetics/transport 4 17 4857.1 1 6 0 0.67 150 4 0.12 \
  edit_transport transport_create_func yellow black output group \
  "kf dt delay"
loadtab /kinetics/transport table 1 223 0 223 \
 4351.02 4348.71 4346.4 4344.08 4341.77 4339.46 4337.15 4334.85 4332.54 \
 4330.23 4327.93 4325.63 4323.32 4321.02 4318.73 4316.43 4314.13 4854.5 \
 4851.92 4849.35 4846.78 4844.2 4841.63 4839.06 4836.49 4833.93 4831.36 \
 4828.8 4826.24 4823.67 4821.11 4818.55 4816 4813.44 4810.89 4808.33 4805.78 \
 4803.23 4800.68 4798.13 4795.58 4793.04 4790.49 4787.95 4785.41 4782.87 \
 4780.33 4777.79 4775.26 4772.72 4770.19 4767.65 4765.12 4762.59 4760.06 \
 4757.54 4755.01 4752.49 4749.96 4747.44 4744.92 4742.4 4739.88 4737.37 \
 4734.85 4732.34 4729.82 4727.31 4724.8 4722.29 4719.78 4717.28 4714.77 \
 4712.27 4709.77 4707.26 4704.76 4702.27 4699.77 4697.27 4694.78 4692.28 \
 4689.79 4687.3 4684.81 4682.32 4679.83 4677.35 4674.86 4672.38 4669.9 \
 4667.42 4664.94 4662.46 4659.98 4657.51 4655.03 4652.56 4650.09 4647.62 \
 4645.15 4642.68 4640.22 4637.75 4635.29 4632.82 4630.36 4627.9 4625.44 \
 4622.99 4620.53 4618.07 4615.62 4613.17 4610.72 4608.27 4605.82 4603.37 \
 4600.92 4598.48 4596.04 4593.59 4591.15 4588.71 4586.27 4583.84 4581.4 \
 4578.97 4576.53 4574.1 4571.67 4569.24 4566.81 4564.38 4561.96 4559.53 \
 4557.11 4554.69 4552.27 4549.85 4547.43 4545.01 4542.6 4540.18 4537.77 \
 4535.36 4532.94 4530.53 4528.13 4525.72 4523.31 4520.91 4518.51 4516.1 \
 4513.7 4511.3 4508.9 4506.51 4504.11 4501.72 4499.32 4496.93 4494.54 4492.15 \
 4489.76 4487.38 4484.99 4482.6 4480.22 4477.84 4475.46 4473.08 4470.7 \
 4468.32 4465.95 4463.57 4461.2 4458.83 4456.46 4454.09 4451.72 4449.35 \
 4446.98 4444.62 4442.25 4439.89 4437.53 4435.17 4432.81 4430.45 4428.1 \
 4425.74 4423.39 4421.04 4418.69 4416.33 4413.99 4411.64 4409.29 4406.95 
loadtab -continue \
 4404.6 4402.26 4399.92 4397.58 4395.24 4392.9 4390.56 4388.23 4385.89 \
 4383.56 4381.23 4378.9 4376.57 4374.24 4371.91 4369.59 4367.26 4364.94 \
 4362.62 4360.3 4357.98 4355.66 4353.34 0
simundump xgraph /graphs/conc1 0 0 2992 0 6322.3 0
simundump xgraph /graphs/conc2 0 0 3000 0 3.2362e-10 0
simundump xplot /graphs/conc1/PMT_count.Co 3 524288 \
  "delete_plot.w <s> <d>; edit_plot.D <w>" 14 0 1 1
simundump xplot /graphs/conc1/noOligo.output 3 524288 \
  "delete_plot.w <s> <d>; edit_plot.D <w>" 61 0 0 1
simundump xplot /graphs/conc2/E.Co 3 524288 \
  "delete_plot.w <s> <d>; edit_plot.D <w>" 54 0 0 1
simundump xgraph /moregraphs/conc3 0 -1 3000 0 9.7826e-06 0
simundump xgraph /moregraphs/conc4 0 0 3000 0 5e-08 0
simundump xcoredraw /edit/draw 0 -2 39 -34 3.4774
simundump xtree /edit/draw/tree 0 \
  /kinetics/#[],/kinetics/#[]/#[],/kinetics/#[]/#[]/#[][TYPE!=proto],/kinetics/#[]/#[]/#[][TYPE!=linkinfo]/##[] \
  "edit_elm.D <v>; drag_from_edit.w <d> <S> <x> <y> <z>" auto 0.6
simundump xtext /file/notes 0 1
xtextload /file/notes \
"Input rate at translation is = 0.00016" \
"" \
"Based on B_binding6.g." \
"Fixed dumping of location of transporters." \
""
addmsg /kinetics/luciferase/k5 /kinetics/luciferase/E.S1_in REAC B A 
addmsg /kinetics/luciferase/E.S1 /kinetics/luciferase/k5 SUBSTRATE n 
addmsg /kinetics/luciferase/E.S1_in /kinetics/luciferase/k5 PRODUCT n 
addmsg /kinetics/luciferase/k5 /kinetics/luciferase/E.S1 REAC A B 
addmsg /kinetics/luciferase/k1 /kinetics/luciferase/E.S1 REAC B A 
addmsg /kinetics/luciferase/k1_prime /kinetics/luciferase/E.S1 REAC A B 
addmsg /kinetics/luciferase/k1 /kinetics/luciferase/S1 REAC A B 
addmsg /kinetics/luciferase/k1_2 /kinetics/luciferase/S1 REAC A B 
addmsg /kinetics/luciferase/E /kinetics/luciferase/k1 SUBSTRATE n 
addmsg /kinetics/luciferase/E.S1 /kinetics/luciferase/k1 PRODUCT n 
addmsg /kinetics/luciferase/S1 /kinetics/luciferase/k1 SUBSTRATE n 
addmsg /kinetics/luciferase/k1 /kinetics/luciferase/E REAC A B 
addmsg /kinetics/luciferase/k1_prime_2 /kinetics/luciferase/E REAC A B 
addmsg /kinetics/luciferase/k5_2 /kinetics/luciferase/E REAC A B 
addmsg /kinetics/luciferase/k4 /kinetics/luciferase/E REAC B A 
addmsg /kinetics/Translation/Protein_Decay /kinetics/luciferase/E REAC A B 
addmsg /kinetics/transport /kinetics/luciferase/E MM_PRD output 
addmsg /kinetics/luciferase/E.S1 /kinetics/luciferase/k1_prime SUBSTRATE n 
addmsg /kinetics/luciferase/E.S1.S2 /kinetics/luciferase/k1_prime PRODUCT n 
addmsg /kinetics/luciferase/S2 /kinetics/luciferase/k1_prime SUBSTRATE n 
addmsg /kinetics/luciferase/k1_prime /kinetics/luciferase/S2 REAC A B 
addmsg /kinetics/luciferase/k1_prime_2 /kinetics/luciferase/S2 REAC A B 
addmsg /kinetics/luciferase/E.P /kinetics/luciferase/k4 SUBSTRATE n 
addmsg /kinetics/luciferase/P /kinetics/luciferase/k4 PRODUCT n 
addmsg /kinetics/luciferase/E /kinetics/luciferase/k4 PRODUCT n 
addmsg /kinetics/luciferase/k1_prime /kinetics/luciferase/E.S1.S2 REAC B A 
addmsg /kinetics/luciferase/k5_4 /kinetics/luciferase/E.S1.S2 REAC A B 
addmsg /kinetics/luciferase/k2 /kinetics/luciferase/E.S1.S2 REAC A B 
addmsg /kinetics/luciferase/k1_2 /kinetics/luciferase/E.S1.S2 REAC B A 
addmsg /kinetics/luciferase/E.S1.S2 /kinetics/luciferase/k2 SUBSTRATE n 
addmsg /kinetics/luciferase/E.P1 /kinetics/luciferase/k2 PRODUCT n 
addmsg /kinetics/luciferase/AMP /kinetics/luciferase/k2 PRODUCT n 
addmsg /kinetics/luciferase/k2 /kinetics/luciferase/E.P1 REAC B A 
addmsg /kinetics/luciferase/k3 /kinetics/luciferase/E.P1 REAC A B 
addmsg /kinetics/luciferase/E.P1 /kinetics/luciferase/k3 SUBSTRATE n 
addmsg /kinetics/luciferase/E.P /kinetics/luciferase/k3 PRODUCT n 
addmsg /kinetics/luciferase/photon /kinetics/luciferase/k3 PRODUCT n 
addmsg /kinetics/luciferase/k3 /kinetics/luciferase/E.P REAC B A 
addmsg /kinetics/luciferase/k6 /kinetics/luciferase/E.P REAC A B 
addmsg /kinetics/luciferase/k4 /kinetics/luciferase/E.P REAC A B 
addmsg /kinetics/luciferase/k4 /kinetics/luciferase/P REAC B A 
addmsg /kinetics/luciferase/E /kinetics/luciferase/k1_prime_2 SUBSTRATE n 
addmsg /kinetics/luciferase/E.S2 /kinetics/luciferase/k1_prime_2 PRODUCT n 
addmsg /kinetics/luciferase/S2 /kinetics/luciferase/k1_prime_2 SUBSTRATE n 
addmsg /kinetics/luciferase/E.S2 /kinetics/luciferase/k1_2 SUBSTRATE n 
addmsg /kinetics/luciferase/E.S1.S2 /kinetics/luciferase/k1_2 PRODUCT n 
addmsg /kinetics/luciferase/S1 /kinetics/luciferase/k1_2 SUBSTRATE n 
addmsg /kinetics/luciferase/k1_prime_2 /kinetics/luciferase/E.S2 REAC B A 
addmsg /kinetics/luciferase/k5_3 /kinetics/luciferase/E.S2 REAC A B 
addmsg /kinetics/luciferase/k1_2 /kinetics/luciferase/E.S2 REAC A B 
addmsg /kinetics/luciferase/k2 /kinetics/luciferase/AMP REAC B A 
addmsg /kinetics/luciferase/k3 /kinetics/luciferase/photon REAC B A 
addmsg /kinetics/luciferase/E /kinetics/luciferase/k5_2 SUBSTRATE n 
addmsg /kinetics/luciferase/E_in /kinetics/luciferase/k5_2 PRODUCT n 
addmsg /kinetics/luciferase/E.S2 /kinetics/luciferase/k5_3 SUBSTRATE n 
addmsg /kinetics/luciferase/E.S2_in /kinetics/luciferase/k5_3 PRODUCT n 
addmsg /kinetics/luciferase/E.S1.S2 /kinetics/luciferase/k5_4 SUBSTRATE n 
addmsg /kinetics/luciferase/E.S1.S2_in /kinetics/luciferase/k5_4 PRODUCT n 
addmsg /kinetics/luciferase/photon /kinetics/luciferase/num_photons SUMTOTAL n nInit 
addmsg /kinetics/luciferase/photon /kinetics/luciferase/PMT_count SUMTOTAL n nInit 
addmsg /kinetics/luciferase/E.P /kinetics/luciferase/k6 SUBSTRATE n 
addmsg /kinetics/luciferase/E.P_in /kinetics/luciferase/k6 PRODUCT n 
addmsg /kinetics/luciferase/k6 /kinetics/luciferase/E.P_in REAC B A 
addmsg /kinetics/luciferase/k5_4 /kinetics/luciferase/E.S1.S2_in REAC B A 
addmsg /kinetics/luciferase/k5_3 /kinetics/luciferase/E.S2_in REAC B A 
addmsg /kinetics/luciferase/k5_2 /kinetics/luciferase/E_in REAC B A 
addmsg /kinetics/Translation/Rib_RNA_Complex /kinetics/Translation/Ribosome REAC A B 
addmsg /kinetics/Translation/RibosomeDecay /kinetics/Translation/Ribosome REAC A B 
addmsg /kinetics/transport /kinetics/Translation/Ribosome MM_PRD output 
addmsg /kinetics/Translation/Ribosome /kinetics/Translation/Rib_RNA_Complex SUBSTRATE n 
addmsg /kinetics/Translation/Rib_mRNA /kinetics/Translation/Rib_RNA_Complex PRODUCT n 
addmsg /kinetics/mRNA /kinetics/Translation/Rib_RNA_Complex SUBSTRATE n 
addmsg /kinetics/Translation/Rib_RNA_Complex /kinetics/Translation/Rib_mRNA REAC B A 
addmsg /kinetics/Translation/Rib_mRNA-decay /kinetics/Translation/Rib_mRNA REAC A B 
addmsg /kinetics/Translation/B-subunit-bind-to_ribosome /kinetics/Translation/Rib_mRNA REAC A B 
addmsg /kinetics/Translation/decayed_Rib_mRNA /kinetics/Translation/Rib_mRNA-decay PRODUCT n 
addmsg /kinetics/Translation/Rib_mRNA /kinetics/Translation/Rib_mRNA-decay SUBSTRATE n 
addmsg /kinetics/Translation/Ribosome /kinetics/Translation/RibosomeDecay SUBSTRATE n 
addmsg /kinetics/Translation/decayed_Ribosome /kinetics/Translation/RibosomeDecay PRODUCT n 
addmsg /kinetics/Translation/RibosomeDecay /kinetics/Translation/decayed_Ribosome REAC B A 
addmsg /kinetics/Translation/B-subunit /kinetics/Translation/B-subunit-bind-to_ribosome SUBSTRATE n 
addmsg /kinetics/Translation/Rib_mRNA /kinetics/Translation/B-subunit-bind-to_ribosome SUBSTRATE n 
addmsg /kinetics/Translation/primed-mRNA /kinetics/Translation/B-subunit-bind-to_ribosome PRODUCT n 
addmsg /kinetics/Translation/B-subunit-bind-to_ribosome /kinetics/Translation/primed-mRNA REAC B A 
addmsg /kinetics/Translation/Rib_mRNA-decay /kinetics/Translation/decayed_Rib_mRNA REAC B A 
addmsg /kinetics/Translation/decayed_protein /kinetics/Translation/Protein_Decay PRODUCT n 
addmsg /kinetics/luciferase/E /kinetics/Translation/Protein_Decay SUBSTRATE n 
addmsg /kinetics/Translation/Protein_Decay /kinetics/Translation/decayed_protein REAC B A 
addmsg /kinetics/Translation/B-subunit-bind-to_ribosome /kinetics/Translation/B-subunit REAC A B 
addmsg /kinetics/kreac /kinetics/mRNA REAC B A 
addmsg /kinetics/Translation/Rib_RNA_Complex /kinetics/mRNA REAC A B 
addmsg /kinetics/transport /kinetics/mRNA MM_PRD output 
addmsg /kinetics/kreac /kinetics/DNA REAC A B 
addmsg /kinetics/DNA /kinetics/kreac SUBSTRATE n 
addmsg /kinetics/mRNA /kinetics/kreac PRODUCT n 
addmsg /kinetics/Translation/primed-mRNA /kinetics/transport SUBSTRATE n 
addmsg /kinetics/luciferase/PMT_count /graphs/conc1/PMT_count.Co PLOT Co *PMT_count.Co *51 
addmsg /kinetics/noOligo /graphs/conc1/noOligo.output PLOT output *noOligo.output *white 
addmsg /kinetics/luciferase/E /graphs/conc2/E.Co PLOT Co *E.Co *54 
enddump
// End of dump

call /kinetics/luciferase/E.S1/notes LOAD \
"S1 is ATP. E.S1 is luciferase.ATP"
call /kinetics/luciferase/S1/notes LOAD \
"S1 is ATP" \
"Conc as specified by Promega."
call /kinetics/luciferase/S2/notes LOAD \
"S2 = LH2 = luciferin." \
""
call /kinetics/luciferase/E.S2/notes LOAD \
"S2 is Luciferin."
call /kinetics/luciferase/PMT_count/notes LOAD \
"Volume is scaled so that 1 photon gives a Co equivalent of 0.0031," \
"which is the collection efficiency." \
"" \
"vol = 1.6667e-21 / 0.0031 = 5.37e-19" \
""
call /kinetics/Translation/Rib_RNA_Complex/notes LOAD \
"Formation Of RBS and Ribosome Complex" \
"Rate taken from Kierzek et al." \
"Kf=100" \
"Kb=2.25"
call /kinetics/Translation/Protein_Decay/notes LOAD \
"Assuming same rate as Kierzek et al." \
""
complete_loading