COPASI48
constant: true
value: 1.6
name: kminusH2
type: Parameter

959285
stoichiometry: 1.0
species: COPASI14
type: SpeciesReference

958172
stoichiometry: 1.0
species: COPASI4
type: SpeciesReference

COPASI58
constant: true
value: 267.0
name: kminusOFF11
type: Parameter

958984
stoichiometry: 1.0
species: COPASI15
type: SpeciesReference

COPASI28
constant: true
value: 2.5E-7
name: A1tot
type: Parameter

COPASI14
constant: false
boundary condition: false
has only substance units: false
initial concentration: 1.25E-7
initial amount: NaN
in compartment: 116968
name: RNAP
type: Species

958547
stoichiometry: 1.0
species: COPASI14
type: SpeciesReference

958839
stoichiometry: 1.0
species: COPASI8
type: SpeciesReference

958401
stoichiometry: 1.0
species: COPASI13
type: SpeciesReference

958148
stoichiometry: 1.0
species: COPASI9
type: SpeciesReference

COPASI68
kinetic law: 958474
product: 958462
product: 958449
reactant: 958437
reactant: 958425
fast: false
reversible: false
name: Inhibition2
type: Reaction

COPASI78
kinetic law: 959020
product: 959008
reactant: 958996
reactant: 958984
fast: false
reversible: true
name: RNaseHbinding1
type: Reaction

COPASI4
constant: false
boundary condition: false
has only substance units: false
initial concentration: 2.5E-7
initial amount: NaN
in compartment: 116968
name: T21
type: Species

COPASI49
constant: true
value: 0.05
name: kcatON12
type: Parameter

COPASI29
constant: true
value: 1.0E-6
name: dI1tot
type: Parameter

958924
stoichiometry: 1.0
species: COPASI19
type: SpeciesReference

959248
stoichiometry: 1.0
species: COPASI22
type: SpeciesReference

COPASI15
constant: false
boundary condition: false
has only substance units: false
initial concentration: 1.5E-8
initial amount: NaN
in compartment: 116968
name: RNaseH
type: Species

COPASI59
constant: true
value: 0.05
name: kcatON11
type: Parameter

958245
stoichiometry: 1.0
species: COPASI11
type: SpeciesReference

COPASI69
kinetic law: 958535
product: 958523
product: 958511
reactant: 958499
reactant: 958486
fast: false
reversible: false
name: Release
type: Reaction

959140
stoichiometry: 1.0
species: COPASI15
type: SpeciesReference

COPASI79
kinetic law: 959068
product: 959056
reactant: 959044
reactant: 959032
fast: false
reversible: true
name: RNaseHbinding2
type: Reaction

958596
stoichiometry: 1.0
species: COPASI14
type: SpeciesReference

COPASI3
constant: false
boundary condition: false
has only substance units: false
initial concentration: 5.0E-7
initial amount: NaN
in compartment: 116968
name: A2
type: Species

959478
stoichiometry: 1.0
species: COPASI7
type: SpeciesReference

958317
stoichiometry: 1.0
species: COPASI3
type: SpeciesReference

959032
stoichiometry: 1.0
species: COPASI15
type: SpeciesReference

COPASI26
constant: true
value: 4.5E-8
name: T12tot
type: Parameter

COPASI7
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 116968
name: rA1
type: Species

958996
stoichiometry: 1.0
species: COPASI12
type: SpeciesReference

959297
stoichiometry: 1.0
species: COPASI23
type: SpeciesReference

COPASI46
constant: true
value: 267.0
name: kminusOFF21
type: Parameter

958184
stoichiometry: 1.0
species: COPASI5
type: SpeciesReference

COPASI16
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 116968
name: RNAPT12A2
type: Species

958499
stoichiometry: 1.0
species: COPASI11
type: SpeciesReference

COPASI66
kinetic law: 958353
product: 958341
reactant: 958329
reactant: 958317
fast: false
reversible: false
name: Annihilation3
type: Reaction

COPASI87
kinetic law: 959490
product: 959478
product: 959466
product: 959454
reactant: 959442
fast: false
reversible: false
name: RNAPcat6
type: Reaction

959236
stoichiometry: 1.0
species: COPASI6
type: SpeciesReference

COPASI6
constant: false
boundary condition: false
has only substance units: false
initial concentration: 1.0E-6
initial amount: NaN
in compartment: 116968
name: dI1
type: Species

COPASI27
constant: true
value: 2.5E-7
name: T21tot
type: Parameter

958936
stoichiometry: 1.0
species: COPASI14
type: SpeciesReference

COPASI47
constant: true
value: 7.6
name: kminusH1
type: Parameter

COPASI17
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 116968
name: RNAPT12
type: Species

COPASI67
kinetic law: 958413
product: 958401
product: 958389
reactant: 958377
reactant: 958365
fast: false
reversible: false
name: Inhibition1
type: Reaction

958644
stoichiometry: 1.0
species: COPASI14
type: SpeciesReference

958233
stoichiometry: 1.0
species: COPASI6
type: SpeciesReference

COPASI86
kinetic law: 959430
product: 959418
product: 959406
product: 959394
reactant: 959382
fast: false
reversible: false
name: RNAPcat5
type: Reaction

COPASI5
constant: false
boundary condition: false
has only substance units: false
initial concentration: 2.5E-7
initial amount: NaN
in compartment: 116968
name: A1
type: Species

COPASI18
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 116968
name: RNAPT21A1
type: Species

COPASI44
constant: true
value: 262.0
name: kminusOFF12
type: Parameter

958608
stoichiometry: 1.0
species: COPASI10
type: SpeciesReference

COPASI54
constant: true
value: 0.24
name: kcatH2
type: Parameter

COPASI9
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 116968
name: T12A2
type: Species

958196
stoichiometry: 1.0
species: COPASI10
type: SpeciesReference

COPASI85
kinetic law: 959370
product: 959358
reactant: 959346
reactant: 959333
fast: false
reversible: true
name: RNAPbinding6
type: Reaction

958389
stoichiometry: 1.0
species: COPASI2
type: SpeciesReference

958960
stoichiometry: 1.0
species: COPASI8
type: SpeciesReference

958523
stoichiometry: 1.0
species: COPASI12
type: SpeciesReference

959406
stoichiometry: 1.0
species: COPASI23
type: SpeciesReference

958425
stoichiometry: 1.0
species: COPASI10
type: SpeciesReference

958123
stoichiometry: 1.0
species: COPASI2
type: SpeciesReference

958221
stoichiometry: 1.0
species: COPASI5
type: SpeciesReference

COPASI45
constant: true
value: 24.7
name: kminusON21
type: Parameter

958437
stoichiometry: 1.0
species: COPASI6
type: SpeciesReference

COPASI19
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 116968
name: RNAPT21
type: Species

958572
stoichiometry: 1.0
species: COPASI16
type: SpeciesReference

COPASI55
constant: true
value: 74000.0
name: kTA11
type: Parameter

959454
stoichiometry: 1.0
species: COPASI14
type: SpeciesReference

COPASI8
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 116968
name: rI2
type: Species

959056
stoichiometry: 1.0
species: COPASI21
type: SpeciesReference

958948
stoichiometry: 1.0
species: COPASI4
type: SpeciesReference

958486
stoichiometry: 1.0
species: COPASI7
type: SpeciesReference

COPASI84
kinetic law: 959321
product: 959309
reactant: 959297
reactant: 959285
fast: false
reversible: true
name: RNAPbinding5
type: Reaction

958281
stoichiometry: 1.0
species: COPASI6
type: SpeciesReference

COPASI42
constant: true
value: 1.0E8
name: kplusH
type: Parameter

COPASI83
kinetic law: 959273
product: 959261
product: 959248
reactant: 959236
reactant: 959224
fast: false
reversible: false
name: Inhibition3
type: Reaction

COPASI56
constant: true
value: 28000.0
name: kTAI11
type: Parameter

958136
stoichiometry: 1.0
species: COPASI3
type: SpeciesReference

958888
stoichiometry: 1.0
species: COPASI2
type: SpeciesReference

959466
stoichiometry: 1.0
species: COPASI22
type: SpeciesReference

958620
stoichiometry: 1.0
species: COPASI18
type: SpeciesReference

COPASI43
constant: true
value: 6.8
name: kminusON12
type: Parameter

116968
constant: true
size: 1.0
spatial dimensions: 3.0
name: compartment
type: Compartment

958329
stoichiometry: 1.0
species: COPASI8
type: SpeciesReference

959044
stoichiometry: 1.0
species: COPASI13
type: SpeciesReference

COPASI82
kinetic law: 959212
product: 959200
reactant: 959188
reactant: 959176
fast: false
reversible: false
name: Activation3
type: Reaction

COPASI57
constant: true
value: 24.7
name: kminusON11
type: Parameter

959008
stoichiometry: 1.0
species: COPASI20
type: SpeciesReference

958449
stoichiometry: 1.0
species: COPASI4
type: SpeciesReference

958293
stoichiometry: 1.0
species: COPASI12
type: SpeciesReference

959309
stoichiometry: 1.0
species: COPASI24
type: SpeciesReference

958875
stoichiometry: 1.0
species: COPASI14
type: SpeciesReference

958560
stoichiometry: 1.0
species: COPASI9
type: SpeciesReference

958462
stoichiometry: 1.0
species: COPASI11
type: SpeciesReference

COPASI13
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 116968
name: A2rI2
type: Species

COPASI50
constant: true
value: 0.002
name: kcatOFF12
type: Parameter

959152
stoichiometry: 1.0
species: COPASI3
type: SpeciesReference

959200
stoichiometry: 1.0
species: COPASI23
type: SpeciesReference

COPASI80
kinetic law: 959116
product: 959104
product: 959092
reactant: 959080
fast: false
reversible: false
name: RNaseHcat1
type: Reaction

COPASI70
kinetic law: 958584
product: 958572
reactant: 958560
reactant: 958547
fast: false
reversible: true
name: RNAPbinding1
type: Reaction

959442
stoichiometry: 1.0
species: COPASI25
type: SpeciesReference

958766
stoichiometry: 1.0
species: COPASI9
type: SpeciesReference

959346
stoichiometry: 1.0
species: COPASI22
type: SpeciesReference

COPASI40
constant: true
value: 28000.0
name: kAIrA1
type: Parameter

COPASI60
constant: true
value: 0.002
name: kcatOFF11
type: Parameter

COPASI33
constant: true
value: 74000.0
name: kTA21
type: Parameter

958717
stoichiometry: 1.0
species: COPASI19
type: SpeciesReference

959092
stoichiometry: 1.0
species: COPASI15
type: SpeciesReference

COPASI12
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 116968
name: rA1dI1
type: Species

958377
stoichiometry: 1.0
species: COPASI8
type: SpeciesReference

COPASI71
kinetic law: 958632
product: 958620
reactant: 958608
reactant: 958596
fast: false
reversible: true
name: RNAPbinding2
type: Reaction

COPASI81
kinetic law: 959164
product: 959152
product: 959140
reactant: 959128
fast: false
reversible: false
name: RNaseHcat2
type: Reaction

COPASI51
constant: true
value: 0.08
name: kcatON21
type: Parameter

958779
stoichiometry: 1.0
species: COPASI7
type: SpeciesReference

COPASI41
constant: true
value: 1.0E8
name: kplus
type: Parameter

COPASI32
constant: true
value: 1.5E-8
name: RNaseHtot
type: Parameter

COPASI61
constant: true
value: 3.0E-8
name: T11tot
type: Parameter

COPASI11
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 116968
name: A1dI1
type: Species

958863
stoichiometry: 1.0
species: COPASI17
type: SpeciesReference

MODEL1012090003
parameter: COPASI39
parameter: COPASI60
parameter: COPASI33
parameter: COPASI53
parameter: COPASI57
reaction: COPASI80
parameter: COPASI41
parameter: COPASI45
parameter: COPASI31
parameter: COPASI36
reaction: COPASI74
reaction: COPASI85
reaction: COPASI65
reaction: COPASI62
volume units: volume
parameter: COPASI43
parameter: COPASI37
length unit: length
parameter: COPASI29
parameter: COPASI26
species: COPASI6
reaction: COPASI79
name: Kim2011_Oscillator_DetailedII
reaction: COPASI72
species: COPASI22
species: COPASI3
reaction: COPASI67
parameter: COPASI49
parameter: COPASI38
species: COPASI4
reaction: COPASI73
species: COPASI20
parameter: COPASI52
parameter: COPASI56
species: COPASI15
parameter: COPASI40
parameter: COPASI44
parameter: COPASI30
reaction: COPASI76
parameter: COPASI54
reaction: COPASI84
reaction: COPASI64
curated: false
reaction: COPASI83
parameter: COPASI42
parameter: COPASI28
species: COPASI8
parameter: COPASI35
reaction: COPASI78
species: COPASI24
species: COPASI5
species: COPASI11
reaction: COPASI69
species: COPASI7
area units: area
reaction: COPASI66
parameter: COPASI48
species: COPASI19
parameter: COPASI47
species: COPASI23
species: COPASI2
species: COPASI16
reaction: COPASI87
reaction: COPASI71
parameter: COPASI50
species: COPASI17
species: COPASI21
parameter: COPASI61
parameter: COPASI32
species: COPASI14
compartment: 116968
reaction: COPASI77
parameter: COPASI51
parameter: COPASI55
reaction: COPASI81
time units: time
reaction: COPASI82
species: COPASI12
parameter: COPASI34
reaction: COPASI75

959382
stoichiometry: 1.0
species: COPASI24
type: SpeciesReference

959104
stoichiometry: 1.0
species: COPASI6
type: SpeciesReference

958900
stoichiometry: 1.0
species: COPASI7
type: SpeciesReference

COPASI21
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 116968
name: RNaseHA2rI2
type: Species

COPASI52
constant: true
value: 0.02
name: kcatOFF21
type: Parameter

COPASI72
kinetic law: 958680
product: 958668
reactant: 958656
reactant: 958644
fast: false
reversible: true
name: RNAPbinding3
type: Reaction

COPASI31
constant: true
value: 1.25E-7
name: RNAPtot
type: Parameter

959358
stoichiometry: 1.0
species: COPASI25
type: SpeciesReference

958365
stoichiometry: 1.0
species: COPASI9
type: SpeciesReference

959080
stoichiometry: 1.0
species: COPASI20
type: SpeciesReference

COPASI10
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 116968
name: T21A1
type: Species

958803
stoichiometry: 1.0
species: COPASI18
type: SpeciesReference

COPASI73
kinetic law: 958729
product: 958717
reactant: 958704
reactant: 958692
fast: false
reversible: true
name: RNAPbinding4
type: Reaction

958511
stoichiometry: 1.0
species: COPASI5
type: SpeciesReference

959418
stoichiometry: 1.0
species: COPASI7
type: SpeciesReference

COPASI20
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 116968
name: RNaseHrA1dI1
type: Species

COPASI53
constant: true
value: 0.05
name: kcatH1
type: Parameter

959261
stoichiometry: 1.0
species: COPASI11
type: SpeciesReference

COPASI30
constant: true
value: 5.0E-7
name: A2tot
type: Parameter

COPASI74
kinetic law: 958791
product: 958779
product: 958766
product: 958753
reactant: 958741
fast: false
reversible: false
name: RNAPcat1
type: Reaction

COPASI64
kinetic law: 958257
product: 958245
reactant: 958233
reactant: 958221
fast: false
reversible: false
name: Annihilation1
type: Reaction

958656
stoichiometry: 1.0
species: COPASI2
type: SpeciesReference

959394
stoichiometry: 1.0
species: COPASI14
type: SpeciesReference

COPASI23
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 116968
name: T11A1
type: Species

COPASI37
constant: true
value: 31000.0
name: kAI2
type: Parameter

959176
stoichiometry: 1.0
species: COPASI22
type: SpeciesReference

959224
stoichiometry: 1.0
species: COPASI23
type: SpeciesReference

958741
stoichiometry: 1.0
species: COPASI16
type: SpeciesReference

COPASI75
kinetic law: 958851
product: 958839
product: 958827
product: 958815
reactant: 958803
fast: false
reversible: false
name: RNAPcat2
type: Reaction

COPASI65
kinetic law: 958305
product: 958293
reactant: 958281
reactant: 958269
fast: false
reversible: false
name: Annihilation2
type: Reaction

COPASI36
constant: true
value: 24000.0
name: krAI1
type: Parameter

958815
stoichiometry: 1.0
species: COPASI14
type: SpeciesReference

COPASI22
constant: false
boundary condition: false
has only substance units: false
initial concentration: 3.0E-8
initial amount: NaN
in compartment: 116968
name: T11
type: Species

958704
stoichiometry: 1.0
species: COPASI4
type: SpeciesReference

COPASI76
kinetic law: 958912
product: 958900
product: 958888
product: 958875
reactant: 958863
fast: false
reversible: false
name: RNAPcat3
type: Reaction

958269
stoichiometry: 1.0
species: COPASI7
type: SpeciesReference

COPASI2
constant: false
boundary condition: false
has only substance units: false
initial concentration: 4.5E-8
initial amount: NaN
in compartment: 116968
name: T12
type: Species

958668
stoichiometry: 1.0
species: COPASI17
type: SpeciesReference

COPASI62
kinetic law: 958160
product: 958148
reactant: 958136
reactant: 958123
fast: false
reversible: false
name: Activation1
type: Reaction

959188
stoichiometry: 1.0
species: COPASI5
type: SpeciesReference

COPASI35
constant: true
value: 53000.0
name: kAI1
type: Parameter

958692
stoichiometry: 1.0
species: COPASI14
type: SpeciesReference

959128
stoichiometry: 1.0
species: COPASI21
type: SpeciesReference

COPASI39
constant: true
value: 140000.0
name: kTAI12
type: Parameter

COPASI25
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 116968
name: RNAPT11
type: Species

COPASI77
kinetic law: 958972
product: 958960
product: 958948
product: 958936
reactant: 958924
fast: false
reversible: false
name: RNAPcat4
type: Reaction

959333
stoichiometry: 1.0
species: COPASI14
type: SpeciesReference

COPASI63
kinetic law: 958209
product: 958196
reactant: 958184
reactant: 958172
fast: false
reversible: false
name: Activation2
type: Reaction

958753
stoichiometry: 1.0
species: COPASI14
type: SpeciesReference

958827
stoichiometry: 1.0
species: COPASI10
type: SpeciesReference

COPASI34
constant: true
value: 14000.0
name: kTA12
type: Parameter

958341
stoichiometry: 1.0
species: COPASI13
type: SpeciesReference

COPASI38
constant: true
value: 28000.0
name: kTAI21
type: Parameter

COPASI24
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 116968
name: RNAPT11A1
type: Species