############# Model summary Number of compounds: 2207 Number of reactions: 2038 Number of genes: 2012 Ratio rxn with genes/rxns: 89.89205103042198% ############# Analyzing targets #Topological analysis Number of targets: 85 Reading draft network from /shared/chondrus/networks/chondrus_1.3.sbml ... done. Reading seeds from growth_medium/seeds_artefacts.sbml ... done. Reading targets from targets_compounds/targets.sbml ... done. Checking draftnet for unproducible targets ... done. 59 producible targets: "M_GLYCEROL_c" "M_HIS_c" "M_SER_c" "M_L__45__ORNITHINE_c" "M_ARACHIDIC_ACID_c" "M_ACET_c" "M_CPD__45__7875_c" "M_CPD__45__7873_c" "M_CPD__45__7836_c" "M_ISOBUTYRATE_c" "M_BENZALDEHYDE_c" "M_CPD__45__7031_c" "M_BUTANAL_c" "M_L__45__ALPHA__45__ALANINE_c" "M_ILE_c" "M_HEPTADECANE__45__CPD_c" "M_CPD__45__7830_c" "M_CPD__45__681_c" "M_GLYCERATE_c" "M_CPD__45__14553_c" "M_LEU_c" "M_ACETONE_c" "M_LINOLEIC_ACID_c" "M_CHLOROPHYLL__45__A_c" "M_CPD__45__7845_c" "M_CPD__45__348_c" "M_THR_c" "M_PALMITATE_c" "M_CPD1F__45__129_c" "M_HEXANAL_c" "M_OLEATE__45__CPD_c" "M_ARG_c" "M_TYR_c" "M_CPD1F__45__130_c" "M_ETOH_c" "M_L__45__CITRULLINE_c" "M_TETRACOSANOATE_c" "M_L__45__ASPARTATE_c" "M_GLY_c" "M_HYDROXY__45__915__45__DIOXOPROSTA__45__13__45__ENOATE_c" "M_ARACHIDONIC_ACID_c" "M_MEK_c" "M_CYSTINE_c" "M_PHE_c" "M_CPD__45__9245_c" "M_METHYLBUT__45__CPD_c" "M_LYS_c" "M_MET_c" "M_GLT_c" "M_BUTANOL_c" "M_DODECANOATE_c" "M_D__45__Galactosyl__45__12__45__diacyl__45__glycerols_c" "M_ACETALD_c" "M_CPD__45__18778_c" "M_VAL_c" "M_PRO_c" "M_CPD__45__14646_c" "M_CPD__45__8462_c" "M_STEARIC_ACID_c" 26 unproducible targets: "M_CPD0__45__1264_c" "M_ICOSAPENTAENOATE_c" "M_CPD__45__9053_c" "M_LINOLENIC_ACID_c" "M_SITOSTEROL_c" "M_CPD__45__12653_c" "M_PENTANOL_c" "M_CPD__45__843_c" "M_CAMPESTEROL_c" "M_BRASSICASTEROL_c" "M_LUTEIN_c" "M_DOCOSANOATE_c" "M_7__45__DEHYDROCHOLESTEROL_c" "M_CPD__45__8117_c" "M_CPD__45__9288_c" "M_iota__45__Carrageenan_c" "M_STIGMASTEROL_c" "M_CPD__45__8669_c" "M_CPD__45__7872_c" "M_CPD0__45__1265_c" "M_nu__45__Carrageenan_c" "M_CHOLESTEROL_c" "M_CYCLOARTENOL_c" "M_CPD__45__19039_c" "M_CPD__45__7834_c" "M_24__45__METHYLENECHOLESTEROL_c" #Flux Balance Analysis DODECANOATE_c // DODECANOATE_c 200.00000000000009 positive CPD__45__7836_c // CPD-7836_c 166.66666666666669 positive CPD__45__8462_c // CPD-8462_c 141.1764705885531 positive PALMITATE_c // PALMITATE_c 142.8571428571429 positive CPD__45__7830_c // CPD-7830_c 2.431633426397702 positive STEARIC_ACID_c // STEARIC_ACID_c 124.99999999999991 positive ARACHIDIC_ACID_c // ARACHIDIC_ACID_c 111.11111111111114 positive DOCOSANOATE_c // DOCOSANOATE_c 2.431633426397703 positive CPD__45__7834_c // CPD-7834_c 2.431633426397703 positive TETRACOSANOATE_c // TETRACOSANOATE_c 90.90909090909092 positive CPD__45__9245_c // CPD-9245_c 143.1043626525665 positive OLEATE__45__CPD_c // OLEATE-CPD_c 125.21674976231698 positive LINOLEIC_ACID_c // LINOLEIC_ACID_c 122.64340082683714 positive LINOLENIC_ACID_c // LINOLENIC_ACID_c 2.4316334263977044 positive CPD__45__8117_c // CPD-8117_c 2.431633426397703 positive CPD__45__12653_c // CPD-12653_c 2.431633426397703 positive ARACHIDONIC_ACID_c // ARACHIDONIC_ACID_c 111.88292307110794 positive ICOSAPENTAENOATE_c // ICOSAPENTAENOATE_c 2.431633426397703 positive CPD0__45__1264_c // CPD0-1264_c 2.431633426397703 positive CPD0__45__1265_c // CPD0-1265_c 2.431633426397703 positive CYCLOARTENOL_c // CYCLOARTENOL_c 2.4316334263977053 positive CHOLESTEROL_c // CHOLESTEROL_c 2.431633426397605 positive 7__45__DEHYDROCHOLESTEROL_c // 7-DEHYDROCHOLESTEROL_c 2.4316334263977035 positive BRASSICASTEROL_c // BRASSICASTEROL_c 2.431633426397703 positive CAMPESTEROL_c // CAMPESTEROL_c 2.431633426397703 positive 24__45__METHYLENECHOLESTEROL_c // 24-METHYLENECHOLESTEROL_c 2.431633426397703 positive SITOSTEROL_c // SITOSTEROL_c 2.431633426397703 positive STIGMASTEROL_c // STIGMASTEROL_c 2.431633426397703 positive HYDROXY__45__915__45__DIOXOPROSTA__45__13__45__ENOATE_c // HYDROXY-915-DIOXOPROSTA-13-ENOATE_c 112.06934349544139 positive LUTEIN_c // LUTEIN_c 2.431633426397703 positive CHLOROPHYLL__45__A_c // CHLOROPHYLL-A_c 34.194091805953754 positive CPD1F__45__129_c // CPD1F-129_c 53.1569122481562 positive CPD__45__14646_c // CPD-14646_c 53.156912248156296 positive CPD1F__45__130_c // CPD1F-130_c 52.28227901492618 positive CPD__45__8669_c // CPD-8669_c 2.431633426397703 positive D__45__Galactosyl__45__12__45__diacyl__45__glycerols_c // D-Galactosyl-12-diacyl-glycerols_c 500.13824926647703 positive L__45__ALPHA__45__ALANINE_c // L-ALPHA-ALANINE_c 479.5580166469213 positive ARG_c // ARG_c 114.30363812771442 positive L__45__ASPARTATE_c // L-ASPARTATE_c 745.2057143043305 positive L__45__CITRULLINE_c // L-CITRULLINE_c 155.68122855609292 positive CYSTINE_c // CYSTINE_c 116.51885720924425 positive GLT_c // GLT_c 543.0921044686312 positive GLY_c // GLY_c 630.7539231007263 positive HIS_c // HIS_c 146.1140103659808 positive ILE_c // ILE_c 278.9555325640912 positive LEU_c // LEU_c 278.9555325640922 positive LYS_c // LYS_c 187.3681275149018 positive MET_c // MET_c 187.17125991407391 positive L__45__ORNITHINE_c // L-ORNITHINE_c 206.71022509206605 positive PHE_c // PHE_c 209.49949879318692 positive PRO_c // PRO_c 332.242926478295 positive SER_c // SER_c 666.6666666666657 positive THR_c // THR_c 500.0000000000012 positive TYR_c // TYR_c 238.52989319465397 positive VAL_c // VAL_c 324.15419015722347 positive CPD__45__18778_c // CPD-18778_c 199.25788105949985 positive CPD__45__14553_c // CPD-14553_c 2.431633426397703 positive iota__45__Carrageenan_c // iota-Carrageenan_c 2.431633426397703 positive nu__45__Carrageenan_c // nu-Carrageenan_c 2.431633426397703 positive GLYCEROL_c // GLYCEROL_c 999.9999999999999 positive HEPTADECANE__45__CPD_c // HEPTADECANE-CPD_c 111.111111111111 positive CPD__45__7875_c // CPD-7875_c 142.8571428571428 positive CPD__45__348_c // CPD-348_c 125.00000000000007 positive CPD__45__7873_c // CPD-7873_c 111.11111111111103 positive CPD__45__7845_c // CPD-7845_c 90.90909090909095 positive CPD__45__7872_c // CPD-7872_c 2.431633426397703 positive ACETALD_c // ACETALD_c 1001.5997588331563 positive BUTANAL_c // BUTANAL_c 666.666666666667 positive CPD__45__7031_c // CPD-7031_c 500.0 positive METHYLBUT__45__CPD_c // METHYLBUT-CPD_c 500.00000000000017 positive CPD__45__9053_c // CPD-9053_c 2.431633426397703 positive HEXANAL_c // HEXANAL_c 400.0 positive BENZALDEHYDE_c // BENZALDEHYDE_c 382.15101787066766 positive ETOH_c // ETOH_c 1000.0 positive BUTANOL_c // BUTANOL_c 500.0 positive PENTANOL_c // PENTANOL_c 2.431633426397703 positive ACETONE_c // ACETONE_c 901.2955918946368 positive MEK_c // MEK_c 2.431633426397702 positive CPD__45__681_c // CPD-681_c 2.4316334263977057 positive CPD__45__843_c // CPD-843_c 2.431633426397703 positive ACET_c // ACET_c 1002.0476913064401 positive ISOBUTYRATE_c // ISOBUTYRATE_c 1000.0 positive CPD__45__9288_c // CPD-9288_c 2.431633426397703 positive CPD__45__19039_c // CPD-19039_c 2.431633426397703 positive GLYCERATE_c // GLYCERATE_c 1002.0203352385801 positive ############# Computing optimization Testing reaction biomass_rxn Growth rate: 2.4316334263978723 Status: optimal IN FLUXES OUT FLUXES OBJECTIVES ------------------ --------------- ----------------- Light_e 1e+03 BIOMASS_e 2.43 biomass_rxn 2.43 WATER_e 1e+03 PROTON_e 584 NITRATE_e 435 SULFATE_e 1.46 FVA analysis: Blocked reactions: 1464 Essential reactions: 74 Essential genes: 25 30/30 compounds with positive flux 0/30 compounds without flux GLY_c // GLY_c 165.9377804312936 positive GLYCOLLATE_c // GLYCOLLATE_c 1000.0000000000011 positive VAL_c // VAL_c 381.242779429873 positive L__45__ORNITHINE_c // L-ORNITHINE_c 1000.000000004739 positive 4__45__AMINO__45__BUTYRATE_c // 4-AMINO-BUTYRATE_c 999.9999999999998 positive GLT_c // GLT_c 28.776503487628393 positive TYR_c // TYR_c 999.8223345383665 positive PRO_c // PRO_c 245.66090392824648 positive SUC_c // SUC_c 999.3656420517962 positive GLYCERATE_c // GLYCERATE_c 999.9999999999978 positive GLN_c // GLN_c 22.32064162777703 positive MANNITOL_c // MANNITOL_c 2.666629240291366 positive CYS_c // CYS_c 764.7313174246916 positive L__45__ASPARTATE_c // L-ASPARTATE_c 59.54455479582485 positive ILE_c // ILE_c 1000.0000000000002 positive GLYCEROL_c // GLYCEROL_c 421.05263157894734 positive ASN_c // ASN_c 361.6247271611962 positive GLC_c // GLC_c 724.2440702516749 positive HIS_c // HIS_c 999.7157655606123 positive PHE_c // PHE_c 594.799220696447 positive LEU_c // LEU_c 929.5711519510564 positive THR_c // THR_c 769.2307692307695 positive LYS_c // LYS_c 534.6918461399578 positive L__45__ALPHA__45__ALANINE_c // L-ALPHA-ALANINE_c 18.023055982464314 positive TRP_c // TRP_c 999.0008189227248 positive MET_c // MET_c 622.0263974957368 positive ARG_c // ARG_c 999.6954692885244 positive SER_c // SER_c 199.00497512437823 positive CIT_c // CIT_c 51.04871967738291 positive THREO__45__DS__45__ISO__45__CITRATE_c // THREO-DS-ISO-CITRATE_c 105.17834127339542 positive