chemart / tominaga-stacked-strings
View on GitHubTominaga's stackable-string chemistry — A notation designed to make molecular biology expressible. A molecule is a stack of lines of elements, each line displaced horizontally relative to the first - so a double strand, a sticky end, or a polymerase sitting on…
chemistry
official · built in
systems-biology
fidelity: reconstructed
constructive
#banzhaf-yamamoto
{"species": [{"id": "0#FFFFFFFFF/", "structure": "FFFFFFFFF"}, {"id": "0#GGATGTAC/0#CCTACATGCCGA/", "structure": "GGATGTAC\nCCTACATGCCGA"}, {"id": "0#GGATGACGAC/0#CCTACTGCTGGTCG/", "structure": "GGATGACGAC\nCCTACTGCTGGTCG"}, {"id": "0#GGATGTCG/0#CCTACAGCGACC/", "structure": "GGATGTCG\nCCTACAGCGACC"}, {"id": "0#GGATGG/0#CCTACCGCGT/", "structure": "GGATGG\nCCTACCGCGT"}, {"id": "0#X/0#XAGCG/", "structure": "X\nXAGCG"}, {"id": "0#GGATGXXXXXXXCTGGCTCGCAGCCGCAGCTGTCGCX/0#CCTACXXXXXXXGACCGAGCGTCGGCGTCGACAGCGX/", "structure": "GGATGXXXXXXXCTGGCTCGCAGCCGCAGCTGTCGCX\nCCTACXXXXXXXGACCGAGCGTCGGCGTCGACAGCGX"}, {"id": "0#GGATGXXXXXXXCTGGCTCGCAGCCTGGCTTGTCGCXX/0#CCTACXXXXXXXGACCGAGCGTCGGACCGAACAGCGXX/", "structure": "GGATGXXXXXXXCTGGCTCGCAGCCTGGCTTGTCGCXX\nCCTACXXXXXXXGACCGAGCGTCGGACCGAACAGCGXX"}, {"id": "0#FFFFFFFFF/-5#GGATGTAC/-5#CCTACATGCCGA/", "structure": " FFFFFFFFF\nGGATGTAC\nCCTACATGCCGA"}, {"id": "0#FFFFFFFFF/-5#GGATGACGAC/-5#CCTACTGCTGGTCG/", "structure": " FFFFFFFFF\nGGATGACGAC\nCCTACTGCTGGTCG"}, {"id": "0#FFFFFFFFF/-5#GGATGTCG/-5#CCTACAGCGACC/", "structure": " FFFFFFFFF\nGGATGTCG\nCCTACAGCGACC"}, {"id": "0#FFFFFFFFF/-5#GGATGG/-5#CCTACCGCGT/", "structure": " FFFFFFFFF\nGGATGG\nCCTACCGCGT"}, {"id": "0#FFFFFFFFF/-5#GGATGXXXXXXXCTGGCTCGCAGCCGCAGCTGTCGCX/-5#CCTACXXXXXXXGACCGAGCGTCGGCGTCGACAGCGX/", "structure": " FFFFFFFFF\nGGATGXXXXXXXCTGGCTCGCAGCCGCAGCTGTCGCX\nCCTACXXXXXXXGACCGAGCGTCGGCGTCGACAGCGX"}, {"id": "0#FFFFFFFFF/-5#GGATGXXXXXXXCTGGCTCGCAGCCTGGCTTGTCGCXX/-5#CCTACXXXXXXXGACCGAGCGTCGGACCGAACAGCGXX/", "structure": " FFFFFFFFF\nGGATGXXXXXXXCTGGCTCGCAGCCTGGCTTGTCGCXX\nCCTACXXXXXXXGACCGAGCGTCGGACCGAACAGCGXX"}, {"id": "0#FFFFFFFFF/-5#GGATGXXXXXXXCT/-5#CCTACXXXXXXXGACCGA/", "structure": " FFFFFFFFF\nGGATGXXXXXXXCT\nCCTACXXXXXXXGACCGA"}, {"id": "0#GGCTCGCAGCCGCAGCTGTCGCX/4#GCGTCGGCGTCGACAGCGX/", "structure": "GGCTCGCAGCCGCAGCTGTCGCX\n GCGTCGGCGTCGACAGCGX"}, {"id": "0#GGCTCGCAGCCTGGCTTGTCGCXX/4#GCGTCGGACCGAACAGCGXX/", "structure": "GGCTCGCAGCCTGGCTTGTCGCXX\n GCGTCGGACCGAACAGCGXX"}, {"id": "0#GGATGXXXXXXXCT/0#CCTACXXXXXXXGACCGA/", "structure": "GGATGXXXXXXXCT\nCCTACXXXXXXXGACCGA"}, {"id": "0#GGATGTACGGCTCGCAGCCGCAGCTGTCGCX/0#CCTACATGCCGAGCGTCGGCGTCGACAGCGX/", "structure": "GGATGTACGGCTCGCAGCCGCAGCTGTCGCX\nCCTACATGCCGAGCGTCGGCGTCGACAGCGX"}, {"id": "0#GGATGTACGGCTCGCAGCCTGGCTTGTCGCXX/0#CCTACATGCCGAGCGTCGGACCGAACAGCGXX/", "structure": "GGATGTACGGCTCGCAGCCTGGCTTGTCGCXX\nCCTACATGCCGAGCGTCGGACCGAACAGCGXX"}, {"id": "0#FFFFFFFFF/-5#GGATGTACGGCTCGCAGCCGCAGCTGTCGCX/-5#CCTACATGCCGAGCGTCGGCGTCGACAGCGX/", "structure": " FFFFFFFFF\nGGATGTACGGCTCGCAGCCGCAGCTGTCGCX\nCCTACATGCCGAGCGTCGGCGTCGACAGCGX"}, {"id": "0#FFFFFFFFF/-5#GGATGTACGGCTCGCAGCCTGGCTTGTCGCXX/-5#CCTACATGCCGAGCGTCGGACCGAACAGCGXX/", "structure": " FFFFFFFFF\nGGATGTACGGCTCGCAGCCTGGCTTGTCGCXX\nCCTACATGCCGAGCGTCGGACCGAACAGCGXX"}, {"id": "0#FFFFFFFFF/-5#GGATGTACGGCTCG/-5#CCTACATGCCGAGCGTCG/", "structure": " FFFFFFFFF\nGGATGTACGGCTCG\nCCTACATGCCGAGCGTCG"}, {"id": "0#CAGCCGCAGCTGTCGCX/4#GCGTCGACAGCGX/", "structure": "CAGCCGCAGCTGTCGCX\n GCGTCGACAGCGX"}, {"id": "0#CAGCCTGGCTTGTCGCXX/4#GACCGAACAGCGXX/", "structure": "CAGCCTGGCTTGTCGCXX\n GACCGAACAGCGXX"}, {"id": "0#GGATGTACGGCTCG/0#CCTACATGCCGAGCGTCG/", "structure": "GGATGTACGGCTCG\nCCTACATGCCGAGCGTCG"}, {"id": "0#GGATGACGACCAGCCGCAGCTGTCGCX/0#CCTACTGCTGGTCGGCGTCGACAGCGX/", "structure": "GGATGACGACCAGCCGCAGCTGTCGCX\nCCTACTGCTGGTCGGCGTCGACAGCGX"}, {"id": "0#GGATGACGACCAGCCTGGCTTGTCGCXX/0#CCTACTGCTGGTCGGACCGAACAGCGXX/", "structure": "GGATGACGACCAGCCTGGCTTGTCGCXX\nCCTACTGCTGGTCGGACCGAACAGCGXX"}, {"id": "0#FFFFFFFFF/-5#GGATGACGACCAGCCGCAGCTGTCGCX/-5#CCTACTGCTGGTCGGCGTCGACAGCGX/", "structure": " FFFFFFFFF\nGGATGACGACCAGCCGCAGCTGTCGCX\nCCTACTGCTGGTCGGCGTCGACAGCGX"}, {"id": "0#FFFFFFFFF/-5#GGATGACGACCAGCCTGGCTTGTCGCXX/-5#CCTACTGCTGGTCGGACCGAACAGCGXX/", "structure": " FFFFFFFFF\nGGATGACGACCAGCCTGGCTTGTCGCXX\nCCTACTGCTGGTCGGACCGAACAGCGXX"}, {"id": "0#FFFFFFFFF/-5#GGATGACGACCAGC/-5#CCTACTGCTGGTCGGCGT/", "structure": " FFFFFFFFF\nGGATGACGACCAGC\nCCTACTGCTGGTCGGCGT"}, {"id": "0#CGCAGCTGTCGCX/4#CGACAGCGX/", "structure": "CGCAGCTGTCGCX\n CGACAGCGX"}, {"id": "0#FFFFFFFFF/-5#GGATGACGACCAGC/-5#CCTACTGCTGGTCGGACC/", "structure": " FFFFFFFFF\nGGATGACGACCAGC\nCCTACTGCTGGTCGGACC"}, {"id": "0#CTGGCTTGTCGCXX/4#GAACAGCGXX/", "structure": "CTGGCTTGTCGCXX\n GAACAGCGXX"}, {"id": "0#GGATGACGACCAGC/0#CCTACTGCTGGTCGGCGT/", "structure": "GGATGACGACCAGC\nCCTACTGCTGGTCGGCGT"}, {"id": "0#GGATGACGACCAGC/0#CCTACTGCTGGTCGGACC/", "structure": "GGATGACGACCAGC\nCCTACTGCTGGTCGGACC"}, {"id": "0#GGATGTCGCTGGCTTGTCGCXX/0#CCTACAGCGACCGAACAGCGXX/", "structure": "GGATGTCGCTGGCTTGTCGCXX\nCCTACAGCGACCGAACAGCGXX"}, {"id": "0#GGATGGCGCAGCTGTCGCX/0#CCTACCGCGTCGACAGCGX/", "structure": "GGATGGCGCAGCTGTCGCX\nCCTACCGCGTCGACAGCGX"}, {"id": "0#FFFFFFFFF/-5#GGATGTCGCTGGCTTGTCGCXX/-5#CCTACAGCGACCGAACAGCGXX/", "structure": " FFFFFFFFF\nGGATGTCGCTGGCTTGTCGCXX\nCCTACAGCGACCGAACAGCGXX"}, {"id": "0#FFFFFFFFF/-5#GGATGGCGCAGCTGTCGCX/-5#CCTACCGCGTCGACAGCGX/", "structure": " FFFFFFFFF\nGGATGGCGCAGCTGTCGCX\nCCTACCGCGTCGACAGCGX"}, {"id": "0#FFFFFFFFF/-5#GGATGTCGCTGGCT/-5#CCTACAGCGACCGAACAG/", "structure": " FFFFFFFFF\nGGATGTCGCTGGCT\nCCTACAGCGACCGAACAG"}, {"id": "0#TGTCGCXX/4#CGXX/", "structure": "TGTCGCXX\n CGXX"}, {"id": "0#FFFFFFFFF/-5#GGATGGCGCAGCTG/-5#CCTACCGCGTCGACAGCG/", "structure": " FFFFFFFFF\nGGATGGCGCAGCTG\nCCTACCGCGTCGACAGCG"}, {"id": "0#TCGCX/4#X/", "structure": "TCGCX\n X"}, {"id": "0#GGATGTCGCTGGCT/0#CCTACAGCGACCGAACAG/", "structure": "GGATGTCGCTGGCT\nCCTACAGCGACCGAACAG"}, {"id": "0#GGATGGCGCAGCTG/0#CCTACCGCGTCGACAGCG/", "structure": "GGATGGCGCAGCTG\nCCTACCGCGTCGACAGCG"}, {"id": "0#XTCGCX/0#XAGCGX/", "structure": "XTCGCX\nXAGCGX"}], "reactions": [{"reactants": {"0#FFFFFFFFF/": 1, "0#GGATGTAC/0#CCTACATGCCGA/": 1}, "products": {"0#FFFFFFFFF/-5#GGATGTAC/-5#CCTACATGCCGA/": 1}, "rate": null, "count": null}, {"reactants": {"0#FFFFFFFFF/": 1, "0#GGATGACGAC/0#CCTACTGCTGGTCG/": 1}, "products": {"0#FFFFFFFFF/-5#GGATGACGAC/-5#CCTACTGCTGGTCG/": 1}, "rate": null, "count": null}, {"reactants": {"0#FFFFFFFFF/": 1, "0#GGATGTCG/0#CCTACAGCGACC/": 1}, "products": {"0#FFFFFFFFF/-5#GGATGTCG/-5#CCTACAGCGACC/": 1}, "rate": null, "count": null}, {"reactants": {"0#FFFFFFFFF/": 1, "0#GGATGG/0#CCTACCGCGT/": 1}, "products": {"0#FFFFFFFFF/-5#GGATGG/-5#CCTACCGCGT/": 1}, "rate": null, "count": null}, {"reactants": {"0#FFFFFFFFF/": 1, "0#GGATGXXXXXXXCTGGCTCGCAGCCGCAGCTGTCGCX/0#CCTACXXXXXXXGACCGAGCGTCGGCGTCGACAGCGX/": 1}, "products": {"0#FFFFFFFFF/-5#GGATGXXXXXXXCTGGCTCGCAGCCGCAGCTGTCGCX/-5#CCTACXXXXXXXGACCGAGCGTCGGCGTCGACAGCGX/": 1}, "rate": null, "count": null}, {"reactants": {"0#FFFFFFFFF/": 1, "0#GGATGXXXXXXXCTGGCTCGCAGCCTGGCTTGTCGCXX/0#CCTACXXXXXXXGACCGAGCGTCGGACCGAACAGCGXX/": 1}, "products": {"0#FFFFFFFFF/-5#GGATGXXXXXXXCTGGCTCGCAGCCTGGCTTGTCGCXX/-5#CCTACXXXXXXXGACCGAGCGTCGGACCGAACAGCGXX/": 1}, "rate": null, "count": null}, {"reactants": {"0#FFFFFFFFF/-5#GGATGXXXXXXXCTGGCTCGCAGCCGCAGCTGTCGCX/-5#CCTACXXXXXXXGACCGAGCGTCGGCGTCGACAGCGX/": 1}, "products": {"0#FFFFFFFFF/-5#GGATGXXXXXXXCT/-5#CCTACXXXXXXXGACCGA/": 1, "0#GGCTCGCAGCCGCAGCTGTCGCX/4#GCGTCGGCGTCGACAGCGX/": 1}, "rate": null, "count": null}, {"reactants": {"0#FFFFFFFFF/-5#GGATGXXXXXXXCTGGCTCGCAGCCTGGCTTGTCGCXX/-5#CCTACXXXXXXXGACCGAGCGTCGGACCGAACAGCGXX/": 1}, "products": {"0#FFFFFFFFF/-5#GGATGXXXXXXXCT/-5#CCTACXXXXXXXGACCGA/": 1, "0#GGCTCGCAGCCTGGCTTGTCGCXX/4#GCGTCGGACCGAACAGCGXX/": 1}, "rate": null, "count": null}, {"reactants": {"0#FFFFFFFFF/-5#GGATGTAC/-5#CCTACATGCCGA/": 1}, "products": {"0#FFFFFFFFF/": 1, "0#GGATGTAC/0#CCTACATGCCGA/": 1}, "rate": null, "count": null}, {"reactants": {"0#FFFFFFFFF/-5#GGATGACGAC/-5#CCTACTGCTGGTCG/": 1}, "products": {"0#FFFFFFFFF/": 1, "0#GGATGACGAC/0#CCTACTGCTGGTCG/": 1}, "rate": null, "count": null}, {"reactants": {"0#FFFFFFFFF/-5#GGATGTCG/-5#CCTACAGCGACC/": 1}, "products": {"0#FFFFFFFFF/": 1, "0#GGATGTCG/0#CCTACAGCGACC/": 1}, 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