Table 1.

Candidate biosensor sequences. Bold sequences indicate the Spinach2 sequence, which flanks the riboswitch sequence. Italic and underlined indicate the part of the transducer stem derived from the native riboswitch. Blue indicates the tetraloop used for circular permutation of the P1 stem in the riboswitch.

Name	Sequence (5’ to 3’)
Tt 1–4	GATGTAACTGAATGAAATGGTGAAGGACGGGTCCATATCAAGAGAGGTGGAGGGACTGGCCC GATGAAACCCGGCAACCAGCCTTAGGGCATGGTGCCAATTCCTGCAGCGGTTTCGCTGAAAGATGT TGTTGAGTAGAGTGTGAGCTCCGTAACTAGTTACATC
Tt 1–5	GATGTAACTGAATGAAATGGTGAAGGACGGGTCCATTATCAAGAGAGGTGGAGGGACTGGCC CGATGAAACCCGGCAACCAGCCTTAGGGCATGGTGCCAATTCCTGCAGCGGTTTCGCTGAAAGATG ATTGTTGAGTAGAGTGTGAGCTCCGTAACTAGTTACATC
Tt 3-3	GATGTAACTGAATGAAATGGTGAAGGACGGGTCCAGGCATGGTGCCAATTCCTGCAGCGGTTT CGCTGAAAGATGAGAGGCAACTCTTATCAAGAGAGGTGGAGGGACTGGCCCGATGAAACCCGGCA ACCAGCCTTGTTGAGTAGAGTGTGAGCTCCGTAACTAGTTACATC
Tt 3-3 delA	GATGTAACTGAATGAAATGGTGAAGGACGGGTCCAGGCTGGTGCCAATTCCTGCAGCGGTTTC GCTGAAAGATGAGAGGCAACTCTTATCAAGAGAGGTGGAGGGACTGGCCCGATGAAACCCGGCAA CCAGCCTTGTTGAGTAGAGTGTGAGCTCCGTAACTAGTTACATC
Tt 3–4	GATGTAACTGAATGAAATGGTGAAGGACGGGTCCACTGGTGCCAATTCCTGCAGCGGTTTCGC TGAAAGATGAGAGGCAACTCTTATCAAGAGAGGTGGAGGGACTGGCCCGATGAAACCCGGCAACC AGTTGTTGAGTAGAGTGTGAGCTCCGTAACTAGTTACATC
Tt 4-3	GATGTAACTGAATGAAATGGTGAAGGACGGGTCCACTGAAAGATGAGAGGCAACTCTTATCAA GAGAGGTGGAGGGACTGGCCCGATGAAACCCGGCAACCAGCCTTAGGGCATGGTGCCAATTCCTG CAGTTGTTGAGTAGAGTGTGAGCTCCGTAACTAGTTACATC
Tt 4-4	GATGTAACTGAATGAAATGGTGAAGGACGGGTCCAGCTGAAAGATGAGAGGCAACTCTTATCA AGAGAGGTGGAGGGACTGGCCCGATGAAACCCGGCAACCAGCCTTAGGGCATGGTGCCAATTCCT GCAGCTTGTTGAGTAGAGTGTGAGCTCCGTAACTAGTTACATC
Tt 4–5	GATGTAACTGAATGAAATGGTGAAGGACGGGTCCACGCTGAAAGATGAGAGGCAACTCTTATC AAGAGAGGTGGAGGGACTGGCCCGATGAAACCCGGCAACCAGCCTTAGGGCATGGTGCCAATTCC TGCAGCGTTGTTGAGTAGAGTGTGAGCTCCGTAACTAGTTACATC
Bc 1–4	GATGTAACTGAATGAAATGGTGAAGGACGGGTCCATTATAACGAGAAGCGGAGGGACTGGCC CAATGAAGCTTCAGCAACCATTCATTGCGATGAAAAGGTGCTAAATCCAGCAAAGGGAACTTTGGC AGATAATTGTTGAGTAGAGTGTGAGCTCCGTAACTAGTTACATC
Bc 1–5	GATGTAACTGAATGAAATGGTGAAGGACGGGTCCACTTATAACGAGAAGCGGAGGGACTGGC CCAATGAAGCTTCAGCAACCATTCATTGCGATGAAAAGGTGCTAAATCCAGCAAAGGGAACTTTGG CAGATAAGTTGTTGAGTAGAGTGTGAGCTCCGTAACTAGTTACATC
Bc 3-3	GATGTAACTGAATGAAATGGTGAAGGACGGGTCCAGAAAAGGTGCTAAATCCAGCAAAGGGA ACTTTGGCAGATAAGGGGCAACTCTTATAACGAGAAGCGGAGGGACTGGCCCAATGAAGCTTCAG CAACCATTCTTGTTGAGTAGAGTGTGAGCTCCGTAACTAGTTACATC
Bc 3–4	GATGTAACTGAATGAAATGGTGAAGGACGGGTCCATGAAAAGGTGCTAAATCCAGCAAAGGG AACTTTGGCAGATAAGGGGCAACTCTTATAACGAGAAGCGGAGGGACTGGCCCAATGAAGCTTCA GCAACCATTCATTGTTGAGTAGAGTGTGAGCTCCGTAACTAGTTACATC
Bc 3–5	GATGTAACTGAATGAAATGGTGAAGGACGGGTCCAATGAAAAGGTGCTAAATCCAGCAAAGG GAACTTTGGCAGATAAGGGGCAACTCTTATAACGAGAAGCGGAGGGACTGGCCCAATGAAGCTTC AGCAACCATTCATTTGTTGAGTAGAGTGTGAGCTCCGTAACTAGTTACATC
Bc 4-3	GATGTAACTGAATGAAATGGTGAAGGACGGGTCCATTGGCAGATAAGGGGCAACTCTTATAAC GAGAAGCGGAGGGACTGGCCCAATGAAGCTTCAGCAACCATTCATTGCGATGAAAAGGTGCTAAAT CCAGCAATTGTTGAGTAGAGTGTGAGCTCCGTAACTAGTTACATC
Bc 4-4	GATGTAACTGAATGAAATGGTGAAGGACGGGTCCATTTGGCAGATAAGGGGCAACTCTTATAA CGAGAAGCGGAGGGACTGGCCCAATGAAGCTTCAGCAACCATTCATTGCGATGAAAAGGTGCTAA ATCCAGCAAATTGTTGAGTAGAGTGTGAGCTCCGTAACTAGTTACATC
Bc 4–5	GATGTAACTGAATGAAATGGTGAAGGACGGGTCCACTTTGGCAGATAAGGGGCAACTCTTATA ACGAGAAGCGGAGGGACTGGCCCAATGAAGCTTCAGCAACCATTCATTGCGATGAAAAGGTGCTA AATCCAGCAAAGTTGTTGAGTAGAGTGTGAGCTCCGTAACTAGTTACATC
Pi 1–4	GATGTAACTGAATGAAATGGTGAAGGACGGGTCCATATCAAGAAAGGCGGAGGGATTAGACC CATTGAAGCCTTAGCAACCCTTTAGTAATAAAGAAGGTGCTAAATTCTACTCAATTATTCGTAATTGG ATAGATATTGTTGAGTAGAGTGTGAGCTCCGTAACTAGTTACATC
Pi 1–5	GATGTAACTGAATGAAATGGTGAAGGACGGGTCCATTATCAAGAAAGGCGGAGGGATTAGAC CCATTGAAGCCTTAGCAACCCTTTAGTAATAAAGAAGGTGCTAAATTCTACTCAATTATTCGTAATTG GATAGATAATTGTTGAGTAGAGTGTGAGCTCCGTAACTAGTTACATC
Pi 3-3	GATGTAACTGAATGAAATGGTGAAGGACGGGTCCAAAGAAGGTGCTAAATTCTACTCAATTATT CGTAATTGGATAGATAACAGCAATGTTATCAAGAAAGGCGGAGGGATTAGACCCATTGAAGCCTTA GCAACCCTTTTGTTGAGTAGAGTGTGAGCTCCGTAACTAGTTACATC
Pi 3–4	GATGTAACTGAATGAAATGGTGAAGGACGGGTCCAAAAGAAGGTGCTAAATTCTACTCAATTA TTCGTAATTGGATAGATAACAGCAATGTTATCAAGAAAGGCGGAGGGATTAGACCCATTGAAGCCT TAGCAACCCTTTTTGTTGAGTAGAGTGTGAGCTCCGTAACTAGTTACATC
Pi 3–5	GATGTAACTGAATGAAATGGTGAAGGACGGGTCCATAAAGAAGGTGCTAAATTCTACTCAATT ATTCGTAATTGGATAGATAACAGCAATGTTATCAAGAAAGGCGGAGGGATTAGACCCATTGAAGCC TTAGCAACCCTTTATTGTTGAGTAGAGTGTGAGCTCCGTAACTAGTTACATC
Pi 4–7	GATGTAACTGAATGAAATGGTGAAGGACGGGTCCATAATTGGATAGATAACAGCAATGTTATC AAGAAAGGCGGAGGGATTAGACCCATTGAAGCCTTAGCAACCCTTTAGTAATAAAGAAGGTGCTAA ATTCTACTCAATTATTGTTGAGTAGAGTGTGAGCTCCGTAACTAGTTACATC
Pi 4-4	GATGTAACTGAATGAAATGGTGAAGGACGGGTCCATTGGATAGATAACAGCAATGTTATCAAG AAAGGCGGAGGGATTAGACCCATTGAAGCCTTAGCAACCCTTTAGTAATAAAGAAGGTGCTAAATT CTACTCAATTGTTGAGTAGAGTGTGAGCTCCGTAACTAGTTACATC
Pi 4–5	GATGTAACTGAATGAAATGGTGAAGGACGGGTCCAATTGGATAGATAACAGCAATGTTATCAA GAAAGGCGGAGGGATTAGACCCATTGAAGCCTTAGCAACCCTTTAGTAATAAAGAAGGTGCTAAAT TCTACTCAATTTGTTGAGTAGAGTGTGAGCTCCGTAACTAGTTACATC
Bs 1–4	GATGTAACTGAATGAAATGGTGAAGGACGGGTCCATATCAAGAGAAGCAGAGGGACTGGCCC GACGAAGCTTCAGCAACCGGTGTAATGGCGATCAGCCATGACCAAGGTGCTAAATCCAGCAAGCTC GAACAGCTTGGAAGATATTGTTGAGTAGAGTGTGAGCTCCGTAACTAGTTACATC
Bs 1–5	GATGTAACTGAATGAAATGGTGAAGGACGGGTCCATTATCAAGAGAAGCAGAGGGACTGGCC CGACGAAGCTTCAGCAACCGGTGTAATGGCGATCAGCCATGACCAAGGTGCTAAATCCAGCAAGCT CGAACAGCTTGGAAGATAATTGTTGAGTAGAGTGTGAGCTCCGTAACTAGTTACATC
Bs 3-3	GATGTAACTGAATGAAATGGTGAAGGACGGGTCCACATGACCAAGGTGCTAAATCCAGCAAGC TCGAACAGCTTGGAAGATAAGAAGCAATTCTTATCAAGAGAAGCAGAGGGACTGGCCCGACGAAG CTTCAGCAACCGGTGTAATGTTGTTGAGTAGAGTGTGAGCTCCGTAACTAGTTACATC
Bs 3–4	GATGTAACTGAATGAAATGGTGAAGGACGGGTCCACCATGACCAAGGTGCTAAATCCAGCAAG CTCGAACAGCTTGGAAGATAAGAAGCAATTCTTATCAAGAGAAGCAGAGGGACTGGCCCGACGAA GCTTCAGCAACCGGTGTAATGGTTGTTGAGTAGAGTGTGAGCTCCGTAACTAGTTACATC
Bs 3–5	GATGTAACTGAATGAAATGGTGAAGGACGGGTCCAGCCATGACCAAGGTGCTAAATCCAGCAA GCTCGAACAGCTTGGAAGATAAGAAGCAATTCTTATCAAGAGAAGCAGAGGGACTGGCCCGACGA AGCTTCAGCAACCGGTGTAATGGCTTGTTGAGTAGAGTGTGAGCTCCGTAACTAGTTACATC
Bs 4-4	GATGTAACTGAATGAAATGGTGAAGGACGGGTCCACTTGGAAGATAAGAAGCAATTCTTATCA AGAGAAGCAGAGGGACTGGCCCGACGAAGCTTCAGCAACCGGTGTAATGGCGATCAGCCATGACC AAGGTGCTAAATCCAGCAAGTTGTTGAGTAGAGTGTGAGCTCCGTAACTAGTTACATC
Bs 4–5	GATGTAACTGAATGAAATGGTGAAGGACGGGTCCAGCTTGGAAGATAAGAAGCAATTCTTATC AAGAGAAGCAGAGGGACTGGCCCGACGAAGCTTCAGCAACCGGTGTAATGGCGATCAGCCATGAC CAAGGTGCTAAATCCAGCAAGCTTGTTGAGTAGAGTGTGAGCTCCGTAACTAGTTACATC
Bs 4–6	GATGTAACTGAATGAAATGGTGAAGGACGGGTCCAAGCTTGGAAGATAAGAAGCAATTCTTAT CAAGAGAAGCAGAGGGACTGGCCCGACGAAGCTTCAGCAACCGGTGTAATGGCGATCAGCCATGA CCAAGGTGCTAAATCCAGCAAGCTTTGTTGAGTAGAGTGTGAGCTCCGTAACTAGTTACATC