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2023 lines
64 KiB
2023 lines
64 KiB
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{
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"jani-version":1,
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"features":[
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"derived-operators"
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],
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"name":"Converted from PRISM by IscasMC",
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"type":"ctmc",
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"actions":[
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{
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"name":"transc_da"
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},
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{
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"name":"transc_da_a"
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},
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{
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"name":"bind_a"
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},
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{
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"name":"rel_a"
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},
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{
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"name":"transl_a"
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},
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{
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"name":"deg_ma"
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},
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{
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"name":"bind_r"
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},
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{
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"name":"rel_r"
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},
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{
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"name":"deg_a"
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},
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{
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"name":"deactive"
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},
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{
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"name":"transl_r"
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},
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{
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"name":"deg_r"
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},
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{
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"name":"deg_c"
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},
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{
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"name":"transc_dr"
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},
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{
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"name":"transc_dr_a"
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},
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{
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"name":"deg_mr"
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}
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],
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"variables":[
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{
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"name":"da",
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"type":{
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"kind":"bounded",
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"base":"int",
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"lower-bound":0,
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"upper-bound":1
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}
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},
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{
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"name":"da_a",
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"type":{
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"kind":"bounded",
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"base":"int",
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"lower-bound":0,
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"upper-bound":1
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}
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},
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{
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"name":"maa",
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"type":{
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"kind":"bounded",
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"base":"int",
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"lower-bound":0,
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"upper-bound":1000000
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}
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},
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{
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"name":"a",
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"type":{
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"kind":"bounded",
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"base":"int",
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"lower-bound":0,
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"upper-bound":1000000
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}
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},
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{
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"name":"r",
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"type":{
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"kind":"bounded",
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"base":"int",
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"lower-bound":0,
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"upper-bound":1000000
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}
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},
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{
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"name":"c",
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"type":{
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"kind":"bounded",
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"base":"int",
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"lower-bound":0,
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"upper-bound":1000000
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}
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},
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{
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"name":"dr",
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"type":{
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"kind":"bounded",
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"base":"int",
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"lower-bound":0,
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"upper-bound":1
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}
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},
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{
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"name":"dr_a",
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"type":{
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"kind":"bounded",
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"base":"int",
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"lower-bound":0,
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"upper-bound":1
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}
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},
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{
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"name":"mr",
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"type":{
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"kind":"bounded",
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"base":"int",
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"lower-bound":0,
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"upper-bound":1000000
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}
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}
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],
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"observables":[
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{
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"name":"\"activated_protein\""
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},
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{
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"name":"\"repressor_transcriptions\""
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}
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],
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"initial-states":{
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"exp":{
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"op":"∧",
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"left":{
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"op":"∧",
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"left":{
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"op":"∧",
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"left":{
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"op":"∧",
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"left":{
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"op":"∧",
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"left":{
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"op":"∧",
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"left":{
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"op":"∧",
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"left":{
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"op":"∧",
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"left":{
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"op":"=",
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"left":"da",
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"right":1
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},
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"right":{
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"op":"=",
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"left":"da_a",
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"right":0
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}
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},
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"right":{
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"op":"=",
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"left":"maa",
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"right":0
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}
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},
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"right":{
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"op":"=",
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"left":"a",
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"right":0
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}
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},
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"right":{
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"op":"=",
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"left":"r",
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"right":0
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}
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},
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"right":{
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"op":"=",
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"left":"c",
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"right":0
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}
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},
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"right":{
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"op":"=",
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"left":"dr",
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"right":1
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}
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},
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"right":{
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"op":"=",
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"left":"dr_a",
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"right":0
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}
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},
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"right":{
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"op":"=",
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"left":"mr",
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"right":0
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}
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}
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},
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"automata":[
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{
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"name":"activator_gene",
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"locations":[
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{
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"name":"location",
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"observables":[
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{
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"ref":"\"activated_protein\"",
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"value":"a"
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}
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]
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}
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],
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"initial-locations":[
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"location"
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],
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"edges":[
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{
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"location":"location",
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"action":"transc_da",
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"rate":{
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"exp":"da"
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},
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"guard":{
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"exp":{
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"op":"=",
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"left":"da",
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"right":1
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}
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},
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"destinations":[
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{
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"probability":{
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"exp":{
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"op":"/",
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"left":"da",
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"right":"da"
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}
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},
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"location":"location",
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"assignments":[
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],
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"observables":[
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]
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}
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]
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},
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{
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"location":"location",
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"action":"transc_da_a",
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"rate":{
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"exp":"da_a"
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},
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"guard":{
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"exp":{
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"op":"=",
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"left":"da_a",
|
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"right":1
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}
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},
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"destinations":[
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{
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"probability":{
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"exp":{
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"op":"/",
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"left":"da_a",
|
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"right":"da_a"
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}
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},
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"location":"location",
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"assignments":[
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],
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"observables":[
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]
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}
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]
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},
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{
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"location":"location",
|
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"action":"bind_a",
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"rate":{
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"exp":"da"
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},
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"guard":{
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"exp":{
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"op":"∧",
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"left":{
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"op":"=",
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"left":"da",
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"right":1
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},
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"right":{
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"op":"=",
|
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"left":"da_a",
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"right":0
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}
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}
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},
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"destinations":[
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{
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"probability":{
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"exp":{
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"op":"/",
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"left":"da",
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"right":"da"
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}
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},
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"location":"location",
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"assignments":[
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{
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"ref":"da",
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"value":0
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},
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{
|
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"ref":"da_a",
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"value":1
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}
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],
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"observables":[
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]
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}
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]
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},
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{
|
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"location":"location",
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"action":"rel_a",
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"rate":{
|
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"exp":"da_a"
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},
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"guard":{
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"exp":{
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"op":"∧",
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"left":{
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"op":"=",
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"left":"da",
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"right":0
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},
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"right":{
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"op":"=",
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"left":"da_a",
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"right":1
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}
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}
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},
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"destinations":[
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{
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"probability":{
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"exp":{
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"op":"/",
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"left":"da_a",
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"right":"da_a"
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}
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},
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"location":"location",
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"assignments":[
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{
|
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"ref":"da",
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"value":1
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},
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{
|
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"ref":"da_a",
|
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"value":0
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}
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],
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"observables":[
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]
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}
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]
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}
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]
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},
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{
|
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"name":"activator_mRNA",
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"locations":[
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{
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"name":"location"
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}
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],
|
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"initial-locations":[
|
|
"location"
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],
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"edges":[
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{
|
|
"location":"location",
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"action":"transc_da",
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"rate":{
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"exp":1
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},
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"guard":{
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"exp":{
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"op":"<",
|
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"left":"maa",
|
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"right":1000000
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}
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},
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"destinations":[
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{
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|
"probability":{
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"exp":{
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"op":"/",
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"left":1,
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"right":1
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}
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},
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"location":"location",
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"assignments":[
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{
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"ref":"maa",
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"value":{
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"op":"+",
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"left":"maa",
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"right":1
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}
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}
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]
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}
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]
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},
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{
|
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"location":"location",
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"action":"transc_da_a",
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"rate":{
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"exp":1
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|
},
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"guard":{
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"exp":{
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"op":"<",
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"left":"maa",
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"right":1000000
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}
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},
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"destinations":[
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{
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|
"probability":{
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"exp":{
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"op":"/",
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"left":1,
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"right":1
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}
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},
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"location":"location",
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"assignments":[
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{
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"ref":"maa",
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"value":{
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"op":"+",
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"left":"maa",
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"right":1
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}
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}
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]
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}
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]
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},
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{
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"location":"location",
|
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"action":"transl_a",
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"rate":{
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"exp":"maa"
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},
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"guard":{
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"exp":{
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"op":">",
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"left":"maa",
|
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"right":0
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}
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},
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|
"destinations":[
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|
{
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|
"probability":{
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|
"exp":{
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"op":"/",
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"left":"maa",
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"right":"maa"
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}
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},
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"location":"location",
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"assignments":[
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],
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"observables":[
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]
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}
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]
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},
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{
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"location":"location",
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"action":"deg_ma",
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"rate":{
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"exp":"maa"
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},
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"guard":{
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"exp":{
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"op":">",
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"left":"maa",
|
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"right":0
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}
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},
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"destinations":[
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|
{
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|
"probability":{
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|
"exp":{
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"op":"/",
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"left":"maa",
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"right":"maa"
|
|
}
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},
|
|
"location":"location",
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"assignments":[
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{
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"ref":"maa",
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"value":{
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"op":"-",
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"left":"maa",
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"right":1
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}
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}
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],
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"observables":[
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]
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}
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]
|
|
}
|
|
]
|
|
},
|
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{
|
|
"name":"activator_protein",
|
|
"locations":[
|
|
{
|
|
"name":"location"
|
|
}
|
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],
|
|
"initial-locations":[
|
|
"location"
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|
],
|
|
"edges":[
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|
{
|
|
"location":"location",
|
|
"action":"transl_a",
|
|
"rate":{
|
|
"exp":1
|
|
},
|
|
"guard":{
|
|
"exp":{
|
|
"op":"<",
|
|
"left":"a",
|
|
"right":1000000
|
|
}
|
|
},
|
|
"destinations":[
|
|
{
|
|
"probability":{
|
|
"exp":{
|
|
"op":"/",
|
|
"left":1,
|
|
"right":1
|
|
}
|
|
},
|
|
"location":"location",
|
|
"assignments":[
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|
{
|
|
"ref":"a",
|
|
"value":{
|
|
"op":"+",
|
|
"left":"a",
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|
"right":1
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|
}
|
|
}
|
|
]
|
|
}
|
|
]
|
|
},
|
|
{
|
|
"location":"location",
|
|
"action":"bind_a",
|
|
"rate":{
|
|
"exp":"a"
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|
},
|
|
"guard":{
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|
"exp":{
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|
"op":">",
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|
"left":"a",
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|
"right":0
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|
}
|
|
},
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|
"destinations":[
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|
{
|
|
"probability":{
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|
"exp":{
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|
"op":"/",
|
|
"left":"a",
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|
"right":"a"
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|
}
|
|
},
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|
"location":"location",
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|
"assignments":[
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|
{
|
|
"ref":"a",
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|
"value":{
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|
"op":"-",
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|
"left":"a",
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|
"right":1
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|
}
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|
}
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|
]
|
|
}
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|
]
|
|
},
|
|
{
|
|
"location":"location",
|
|
"action":"bind_r",
|
|
"rate":{
|
|
"exp":"a"
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|
},
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|
"guard":{
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|
"exp":{
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|
"op":">",
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|
"left":"a",
|
|
"right":0
|
|
}
|
|
},
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|
"destinations":[
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|
{
|
|
"probability":{
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|
"exp":{
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|
"op":"/",
|
|
"left":"a",
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|
"right":"a"
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|
}
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|
},
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|
"location":"location",
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|
"assignments":[
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|
{
|
|
"ref":"a",
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|
"value":{
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|
"op":"-",
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|
"left":"a",
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|
"right":1
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|
}
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|
}
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|
],
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|
"observables":[
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|
]
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|
}
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|
]
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|
},
|
|
{
|
|
"location":"location",
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|
"action":"rel_a",
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|
"rate":{
|
|
"exp":1
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|
},
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|
"guard":{
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|
"exp":{
|
|
"op":"<",
|
|
"left":"a",
|
|
"right":1000000
|
|
}
|
|
},
|
|
"destinations":[
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|
{
|
|
"probability":{
|
|
"exp":{
|
|
"op":"/",
|
|
"left":1,
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|
"right":1
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|
}
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|
},
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|
"location":"location",
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|
"assignments":[
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|
{
|
|
"ref":"a",
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|
"value":{
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|
"op":"+",
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|
"left":"a",
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|
"right":1
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|
}
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|
}
|
|
]
|
|
}
|
|
]
|
|
},
|
|
{
|
|
"location":"location",
|
|
"action":"rel_r",
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|
"rate":{
|
|
"exp":1
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|
},
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|
"guard":{
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|
"exp":{
|
|
"op":"<",
|
|
"left":"a",
|
|
"right":1000000
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|
}
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|
},
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|
"destinations":[
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|
{
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|
"probability":{
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|
"exp":{
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|
"op":"/",
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|
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|
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|
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|
|
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|
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}
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|
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|
},
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|
{
|
|
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|
|
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|
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|
|
"name":"location"
|
|
}
|
|
],
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|
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|
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|
|
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|
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|
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|
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|
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|
|
"right":1000000
|
|
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|
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|
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|
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|
|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
|
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|
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|
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|
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|
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|
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|
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|
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|
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|
|
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|
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|
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|
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|
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|
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|
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|
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|
|
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|
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|
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|
|
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|
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|
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|
|
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|
|
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|
|
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|
|
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|
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|
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|
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|
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|
|
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|
|
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|
|
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|
|
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|
|
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|
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|
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|
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|
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|
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|
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|
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|
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|
|
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|
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|
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|
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|
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|
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|
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|
|
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|
|
{
|
|
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|
|
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|
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|
|
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|
|
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|
|
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|
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|
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|
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|
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|
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|
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|
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|
|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
|
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|
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|
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|
|
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|
|
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|
|
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|
|
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|
|
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|
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|
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|
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|
|
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|
|
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|
|
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|
|
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|
|
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|
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|
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|
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|
|
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|
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|
|
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|
|
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|
|
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|
|
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|
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|
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|
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|
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|
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|
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|
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|
|
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|
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|
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|
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|
|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
|
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|
|
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|
|
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|
|
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|
|
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|
|
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|
|
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|
|
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|
|
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|
|
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|
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|
|
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|
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|
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|
|
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|
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|
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|
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|
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|
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|
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|
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|
|
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|
|
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|
|
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|
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|
|
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|
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|
|
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|
|
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|
|
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|
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|
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|
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|
|
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|
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|
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|
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|
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|
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{
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|
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|
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|
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|
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|
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|
},
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|
{
|
|
"name":"repressor_mRNA",
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|
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{
|
|
"name":"location"
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|
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|
|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
|
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|
|
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|
|
}
|
|
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|
|
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{
|
|
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|
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|
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|
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|
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|
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|
|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
|
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|
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|
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|
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|
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|
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|
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|
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|
|
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|
|
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|
|
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|
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|
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{
|
|
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|
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|
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|
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|
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|
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|
}
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|
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|
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|
}
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|
]
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|
},
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{
|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
|
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|
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|
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|
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|
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|
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|
{
|
|
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|
|
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|
|
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|
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|
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|
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|
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|
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|
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|
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|
|
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|
|
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|
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|
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|
|
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|
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|
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|
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|
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|
|
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|
|
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|
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|
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|
{
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|
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|
|
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|
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|
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|
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|
|
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|
|
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|
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|
|
}
|
|
]
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|
}
|
|
]
|
|
}
|
|
],
|
|
"system":{
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|
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|
|
{
|
|
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|
|
},
|
|
{
|
|
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|
|
},
|
|
{
|
|
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|
|
},
|
|
{
|
|
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|
|
},
|
|
{
|
|
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|
|
},
|
|
{
|
|
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|
|
},
|
|
{
|
|
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|
|
},
|
|
{
|
|
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|
|
}
|
|
],
|
|
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|
|
{
|
|
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|
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|
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|
null,
|
|
null,
|
|
null,
|
|
"transc_dr",
|
|
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|
|
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|
|
],
|
|
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|
|
},
|
|
{
|
|
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|
null,
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|
null,
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|
null,
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|
null,
|
|
null,
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|
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|
|
"transc_dr_a",
|
|
"transc_dr_a"
|
|
],
|
|
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|
|
},
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|
{
|
|
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|
null,
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null,
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|
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|
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|
|
null,
|
|
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|
|
null,
|
|
"transl_r"
|
|
],
|
|
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|
|
},
|
|
{
|
|
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|
null,
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|
null,
|
|
null,
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|
null,
|
|
null,
|
|
"deg_mr",
|
|
null,
|
|
"deg_mr"
|
|
],
|
|
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|
|
},
|
|
{
|
|
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|
|
null,
|
|
null,
|
|
"bind_r",
|
|
null,
|
|
null,
|
|
"bind_r",
|
|
"bind_r",
|
|
null
|
|
],
|
|
"result":"bind_r"
|
|
},
|
|
{
|
|
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|
|
null,
|
|
null,
|
|
"rel_r",
|
|
null,
|
|
null,
|
|
"rel_r",
|
|
"rel_r",
|
|
null
|
|
],
|
|
"result":"rel_r"
|
|
},
|
|
{
|
|
"synchronise":[
|
|
null,
|
|
null,
|
|
"deactive",
|
|
"deactive",
|
|
"deactive",
|
|
"deactive",
|
|
null,
|
|
null
|
|
],
|
|
"result":"deactive"
|
|
},
|
|
{
|
|
"synchronise":[
|
|
null,
|
|
null,
|
|
null,
|
|
"deg_c",
|
|
"deg_c",
|
|
"deg_c",
|
|
null,
|
|
null
|
|
],
|
|
"result":"deg_c"
|
|
},
|
|
{
|
|
"synchronise":[
|
|
"bind_a",
|
|
null,
|
|
"bind_a",
|
|
null,
|
|
null,
|
|
"bind_a",
|
|
null,
|
|
null
|
|
],
|
|
"result":"bind_a"
|
|
},
|
|
{
|
|
"synchronise":[
|
|
"rel_a",
|
|
null,
|
|
"rel_a",
|
|
null,
|
|
null,
|
|
"rel_a",
|
|
null,
|
|
null
|
|
],
|
|
"result":"rel_a"
|
|
},
|
|
{
|
|
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|
|
null,
|
|
"transl_a",
|
|
"transl_a",
|
|
null,
|
|
null,
|
|
"transl_a",
|
|
null,
|
|
null
|
|
],
|
|
"result":"transl_a"
|
|
},
|
|
{
|
|
"synchronise":[
|
|
"transc_da",
|
|
"transc_da",
|
|
null,
|
|
null,
|
|
null,
|
|
"transc_da",
|
|
null,
|
|
null
|
|
],
|
|
"result":"transc_da"
|
|
},
|
|
{
|
|
"synchronise":[
|
|
"transc_da_a",
|
|
"transc_da_a",
|
|
null,
|
|
null,
|
|
null,
|
|
"transc_da_a",
|
|
null,
|
|
null
|
|
],
|
|
"result":"transc_da_a"
|
|
},
|
|
{
|
|
"synchronise":[
|
|
null,
|
|
"deg_ma",
|
|
null,
|
|
null,
|
|
null,
|
|
"deg_ma",
|
|
null,
|
|
null
|
|
],
|
|
"result":"deg_ma"
|
|
},
|
|
{
|
|
"synchronise":[
|
|
null,
|
|
null,
|
|
"deg_a",
|
|
null,
|
|
null,
|
|
"deg_a",
|
|
null,
|
|
null
|
|
],
|
|
"result":"deg_a"
|
|
},
|
|
{
|
|
"synchronise":[
|
|
null,
|
|
null,
|
|
null,
|
|
"deg_r",
|
|
null,
|
|
"deg_r",
|
|
null,
|
|
null
|
|
],
|
|
"result":"deg_r"
|
|
}
|
|
]
|
|
}
|
|
}
|