AllSequences = new Sequence Collection(File:"http://tare.medisin.ntnu.no/motiflab/datasets/benchmark/klepper/Sp1-Ets_locations.loc",format=Location)

DNA = new DNA Sequence Dataset(DataTrack:DNA)
Conservation = new Numeric Dataset(DataTrack:Conservation)
TFBS = new Region Dataset(File:"http://tare.medisin.ntnu.no/motiflab/datasets/benchmark/klepper/Sp1-Ets_sites.txt", format=GFF {Position="Relative",Relative-offset=1,Orientation="From Gene",Sort1="Position",Sort2="Type",Sort3="Score",Format="{SEQUENCENAME},{START},{END},{SEQUENCE},{TYPE}"})
Modules = new Region Dataset(File:"http://tare.medisin.ntnu.no/motiflab/datasets/benchmark/klepper/Sp1-Ets_modules.txt", format=GFF {Position="Relative",Relative-offset=1,Orientation="From Gene",Sort1="Position",Sort2="Type",Sort3="Score",Format="{SEQUENCENAME},{START},{END},{SEQUENCE},{TYPE}"})

# The example in the published paper used the TRANSFAC PRO collection but here we use TRANSFAC Public
# TRANSFAC_MOTIFS = new Motif Collection(Collection:TRANSFAC PRO)
TRANSFAC_MOTIFS = new Motif Collection(Collection:TRANSFAC Public)



all_sites = motifScanning on DNA with SimpleScanner {Motif Collection=TRANSFAC_MOTIFS,Score="Absolute",Threshold type="Percentage",Threshold=80}
conserved0_sites = filter all_sites where region max Conservation = 0
conserved10_sites = filter all_sites where region average Conservation < 0.1
conserved30_sites = filter all_sites where region average Conservation < 0.3
conserved60_sites = filter all_sites where region average Conservation < 0.6

interacting_sites10 = filter all_sites where not region distance to any interaction partner in 0 to 10
interacting_sites20 = filter all_sites where not region distance to any interaction partner in 0 to 20
interacting_sites30 = filter all_sites where not region distance to any interaction partner in 0 to 30


conserved10_interacting_sites10 = filter interacting_sites10 where region average Conservation < 0.1
conserved30_interacting_sites10 = filter interacting_sites10 where region average Conservation < 0.3
conserved60_interacting_sites10 = filter interacting_sites10 where region average Conservation < 0.6

conserved10_interacting_sites20 = filter interacting_sites20 where region average Conservation < 0.1
conserved30_interacting_sites20 = filter interacting_sites20 where region average Conservation < 0.3
conserved60_interacting_sites20 = filter interacting_sites20 where region average Conservation < 0.6


[Baseline_1,modules_baseline_1] = moduleDiscovery on all_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Baseline_2,modules_baseline_2] = moduleDiscovery on all_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Baseline_3,modules_baseline_3] = moduleDiscovery on all_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Baseline_4,modules_baseline_4] = moduleDiscovery on all_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Baseline_5,modules_baseline_5] = moduleDiscovery on all_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Baseline_6,modules_baseline_6] = moduleDiscovery on all_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Baseline_7,modules_baseline_7] = moduleDiscovery on all_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Baseline_8,modules_baseline_8] = moduleDiscovery on all_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Baseline_9,modules_baseline_9] = moduleDiscovery on all_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Baseline_10,modules_baseline_10] = moduleDiscovery on all_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved0_1,modules_C0_1] = moduleDiscovery on conserved0_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved0_2,modules_C0_2] = moduleDiscovery on conserved0_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved0_3,modules_C0_3] = moduleDiscovery on conserved0_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved0_4,modules_C0_4] = moduleDiscovery on conserved0_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved0_5,modules_C0_5] = moduleDiscovery on conserved0_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved0_6,modules_C0_6] = moduleDiscovery on conserved0_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved0_7,modules_C0_7] = moduleDiscovery on conserved0_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved0_8,modules_C0_8] = moduleDiscovery on conserved0_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved0_9,modules_C0_9] = moduleDiscovery on conserved0_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved0_10,modules_C0_10] = moduleDiscovery on conserved0_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved10_1,modules_C10_1] = moduleDiscovery on conserved10_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved10_2,modules_C10_2] = moduleDiscovery on conserved10_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved10_3,modules_C10_3] = moduleDiscovery on conserved10_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved10_4,modules_C10_4] = moduleDiscovery on conserved10_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved10_5,modules_C10_5] = moduleDiscovery on conserved10_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved10_6,modules_C10_6] = moduleDiscovery on conserved10_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved10_7,modules_C10_7] = moduleDiscovery on conserved10_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved10_8,modules_C10_8] = moduleDiscovery on conserved10_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved10_9,modules_C10_9] = moduleDiscovery on conserved10_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved10_10,modules_C10_10] = moduleDiscovery on conserved10_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved30_1,modules_C30_1] = moduleDiscovery on conserved30_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved30_2,modules_C30_2] = moduleDiscovery on conserved30_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved30_3,modules_C30_3] = moduleDiscovery on conserved30_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved30_4,modules_C30_4] = moduleDiscovery on conserved30_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved30_5,modules_C30_5] = moduleDiscovery on conserved30_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved30_6,modules_C30_6] = moduleDiscovery on conserved30_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved30_7,modules_C30_7] = moduleDiscovery on conserved30_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved30_8,modules_C30_8] = moduleDiscovery on conserved30_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved30_9,modules_C30_9] = moduleDiscovery on conserved30_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved30_10,modules_C30_10] = moduleDiscovery on conserved30_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved60_1,modules_C60_1] = moduleDiscovery on conserved60_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved60_2,modules_C60_2] = moduleDiscovery on conserved60_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved60_3,modules_C60_3] = moduleDiscovery on conserved60_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved60_4,modules_C60_4] = moduleDiscovery on conserved60_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved60_5,modules_C60_5] = moduleDiscovery on conserved60_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved60_6,modules_C60_6] = moduleDiscovery on conserved60_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved60_7,modules_C60_7] = moduleDiscovery on conserved60_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved60_8,modules_C60_8] = moduleDiscovery on conserved60_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved60_9,modules_C60_9] = moduleDiscovery on conserved60_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Conserved60_10,modules_C60_10] = moduleDiscovery on conserved60_sites with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"

[Interacting10_1,modules_I10_1] = moduleDiscovery on interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Interacting10_2,modules_I10_2] = moduleDiscovery on interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Interacting10_3,modules_I10_3] = moduleDiscovery on interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Interacting10_4,modules_I10_4] = moduleDiscovery on interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Interacting10_5,modules_I10_5] = moduleDiscovery on interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Interacting10_6,modules_I10_6] = moduleDiscovery on interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Interacting10_7,modules_I10_7] = moduleDiscovery on interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Interacting10_8,modules_I10_8] = moduleDiscovery on interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Interacting10_9,modules_I10_9] = moduleDiscovery on interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Interacting10_10,modules_I10_10] = moduleDiscovery on interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Interacting20_1,modules_I20_1] = moduleDiscovery on interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Interacting20_2,modules_I20_2] = moduleDiscovery on interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Interacting20_3,modules_I20_3] = moduleDiscovery on interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Interacting20_4,modules_I20_4] = moduleDiscovery on interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Interacting20_5,modules_I20_5] = moduleDiscovery on interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Interacting20_6,modules_I20_6] = moduleDiscovery on interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Interacting20_7,modules_I20_7] = moduleDiscovery on interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Interacting20_8,modules_I20_8] = moduleDiscovery on interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Interacting20_9,modules_I20_9] = moduleDiscovery on interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Interacting20_10,modules_I20_10] = moduleDiscovery on interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Interacting30_1,modules_I30_1] = moduleDiscovery on interacting_sites30 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Interacting30_2,modules_I30_2] = moduleDiscovery on interacting_sites30 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Interacting30_3,modules_I30_3] = moduleDiscovery on interacting_sites30 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Interacting30_4,modules_I30_4] = moduleDiscovery on interacting_sites30 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Interacting30_5,modules_I30_5] = moduleDiscovery on interacting_sites30 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Interacting30_6,modules_I30_6] = moduleDiscovery on interacting_sites30 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Interacting30_7,modules_I30_7] = moduleDiscovery on interacting_sites30 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Interacting30_8,modules_I30_8] = moduleDiscovery on interacting_sites30 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Interacting30_9,modules_I30_9] = moduleDiscovery on interacting_sites30 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[Interacting30_10,modules_I30_10] = moduleDiscovery on interacting_sites30 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"

[C10_I10_1,modules_C10I10_1] = moduleDiscovery on conserved10_interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C10_I10_2,modules_C10I10_2] = moduleDiscovery on conserved10_interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C10_I10_3,modules_C10I10_3] = moduleDiscovery on conserved10_interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C10_I10_4,modules_C10I10_4] = moduleDiscovery on conserved10_interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C10_I10_5,modules_C10I10_5] = moduleDiscovery on conserved10_interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C10_I10_6,modules_C10I10_6] = moduleDiscovery on conserved10_interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C10_I10_7,modules_C10I10_7] = moduleDiscovery on conserved10_interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C10_I10_8,modules_C10I10_8] = moduleDiscovery on conserved10_interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C10_I10_9,modules_C10I10_9] = moduleDiscovery on conserved10_interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C10_I10_10,modules_C10I10_10] = moduleDiscovery on conserved10_interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C30_I10_1,modules_C30I10_1] = moduleDiscovery on conserved30_interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C30_I10_2,modules_C30I10_2] = moduleDiscovery on conserved30_interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C30_I10_3,modules_C30I10_3] = moduleDiscovery on conserved30_interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C30_I10_4,modules_C30I10_4] = moduleDiscovery on conserved30_interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C30_I10_5,modules_C30I10_5] = moduleDiscovery on conserved30_interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C30_I10_6,modules_C30I10_6] = moduleDiscovery on conserved30_interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C30_I10_7,modules_C30I10_7] = moduleDiscovery on conserved30_interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C30_I10_8,modules_C30I10_8] = moduleDiscovery on conserved30_interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C30_I10_9,modules_C30I10_9] = moduleDiscovery on conserved30_interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C30_I10_10,modules_C30I10_10] = moduleDiscovery on conserved30_interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C60_I10_1,modules_C60I10_1] = moduleDiscovery on conserved60_interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C60_I10_2,modules_C60I10_2] = moduleDiscovery on conserved60_interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C60_I10_3,modules_C60I10_3] = moduleDiscovery on conserved60_interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C60_I10_4,modules_C60I10_4] = moduleDiscovery on conserved60_interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C60_I10_5,modules_C60I10_5] = moduleDiscovery on conserved60_interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C60_I10_6,modules_C60I10_6] = moduleDiscovery on conserved60_interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C60_I10_7,modules_C60I10_7] = moduleDiscovery on conserved60_interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C60_I10_8,modules_C60I10_8] = moduleDiscovery on conserved60_interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C60_I10_9,modules_C60I10_9] = moduleDiscovery on conserved60_interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C60_I10_10,modules_C60I10_10] = moduleDiscovery on conserved60_interacting_sites10 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C10_I20_1,modules_C10I20_1] = moduleDiscovery on conserved10_interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C10_I20_2,modules_C10I20_2] = moduleDiscovery on conserved10_interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C10_I20_3,modules_C10I20_3] = moduleDiscovery on conserved10_interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C10_I20_4,modules_C10I20_4] = moduleDiscovery on conserved10_interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C10_I20_5,modules_C10I20_5] = moduleDiscovery on conserved10_interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C10_I20_6,modules_C10I20_6] = moduleDiscovery on conserved10_interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C10_I20_7,modules_C10I20_7] = moduleDiscovery on conserved10_interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C10_I20_8,modules_C10I20_8] = moduleDiscovery on conserved10_interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C10_I20_9,modules_C10I20_9] = moduleDiscovery on conserved10_interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C10_I20_10,modules_C10I20_10] = moduleDiscovery on conserved10_interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C30_I20_1,modules_C30I20_1] = moduleDiscovery on conserved30_interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C30_I20_2,modules_C30I20_2] = moduleDiscovery on conserved30_interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C30_I20_3,modules_C30I20_3] = moduleDiscovery on conserved30_interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C30_I20_4,modules_C30I20_4] = moduleDiscovery on conserved30_interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C30_I20_5,modules_C30I20_5] = moduleDiscovery on conserved30_interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C30_I20_6,modules_C30I20_6] = moduleDiscovery on conserved30_interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C30_I20_7,modules_C30I20_7] = moduleDiscovery on conserved30_interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C30_I20_8,modules_C30I20_8] = moduleDiscovery on conserved30_interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C30_I20_9,modules_C30I20_9] = moduleDiscovery on conserved30_interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C30_I20_10,modules_C30I20_10] = moduleDiscovery on conserved30_interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C60_I20_1,modules_C60I20_1] = moduleDiscovery on conserved60_interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C60_I20_2,modules_C60I20_2] = moduleDiscovery on conserved60_interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C60_I20_3,modules_C60I20_3] = moduleDiscovery on conserved60_interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C60_I20_4,modules_C60I20_4] = moduleDiscovery on conserved60_interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C60_I20_5,modules_C60I20_5] = moduleDiscovery on conserved60_interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C60_I20_6,modules_C60I20_6] = moduleDiscovery on conserved60_interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C60_I20_7,modules_C60I20_7] = moduleDiscovery on conserved60_interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C60_I20_8,modules_C60I20_8] = moduleDiscovery on conserved60_interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C60_I20_9,modules_C60I20_9] = moduleDiscovery on conserved60_interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"
[C60_I20_10,modules_C60I20_10] = moduleDiscovery on conserved60_interacting_sites20 with ModuleSearcher {Number of modules=1,Module size=2,Max length=200,Multiple=true,Overlap=false,Penalize incomplete=true,Genetic algorithm=true,Generations=50,Memory="256M",Module model="General",Motif comparison="Use precompiled table",Comparison table="TRANSFAC PRO"} module-prefix="MS"



Benchmark = analyze benchmark {Answer=Modules,Aggregate=true}

!updates()=OFF
$setting(barchart.barwidth)=10
$setting(barchart.bardistance)=15
$setting(barchart.bargroupspacing)=30
$setting(barchart.gradientfill)=OFF
$setting(barchart.border)=DARKER
$setting(barchart.shadow)=2

!hide(TFBS)
!hide(all_sites)
!hide(conserved0_sites)
!hide(conserved10_sites)
!hide(conserved30_sites)
!hide(conserved60_sites)
!hide(interacting_sites10)
!hide(interacting_sites20)
!hide(interacting_sites30)
!hide(Interacting30)
!hide(tissue_sites)
!hide(tissue_C10_sites)
!hide(tissue_C30_sites)
!hide(tissue_C60_sites)
!hide(conserved10_interacting_sites10)
!hide(conserved30_interacting_sites10)
!hide(conserved60_interacting_sites10)
!hide(conserved10_interacting_sites20)
!hide(conserved30_interacting_sites20)
!hide(conserved60_interacting_sites20)
!color(Baseline)=GRAY
!color(Conserved0)=#990000
!color(Conserved10)=#DD0000
!color(Conserved30)=#FF4646
!color(Conserved60)=#FFB0B0
!color(Interacting10)=#E08000
!color(Interacting20)=#FFF000
!color(Interacting30)=#FFFF00
!color(C10_I10)=#0000AA
!color(C30_I10)=#6060FF
!color(C60_I10)=#C0C0FF
!color(C10_I20)=#00AA00
!color(C30_I20)=#55FF55
!color(C60_I20)=#CCFFCC

!color(Tissue)=#A000B0
!color(C10_T)=#E000E0
!color(C30_T)=#FF60FF
!color(C60_T)=#FFCCFF

$setting(stylesheet)="[green]"



!order(Baseline,Conserved0,Conserved10,Conserved30,Conserved60,Interacting10,Interacting20,Interacting30,C10_I10,C30_I10,C60_I10,C10_I20,C30_I20,C60_I20)

!updates()=ON
!refresh()

#Output_300 = output Benchmark in HTML format {Metrics="Sn,PPV,CC",X-axis="Statistic/Groups",Use abbreviations=true,Graph scale=300}
Output_Full = output Benchmark in HTML format {Metrics="Sn,Sp,PPV,PC,ASP,F,Acc,CC",X-axis="Statistic/Groups",Use abbreviations=true,Graph scale=100}