Table 1. Overview of Phage Terminator Librarya.
| phage | ID | terminator sequence | genomic location TTS | free energy(kcal/mol) | stem-loop free energy (kcal/mol) | average ONT-cappable-seq TE (%) |
|---|---|---|---|---|---|---|
| LUZ7 | LUZ7 T1 | ugccaaguccuaacucucuauccauccucugccucacuccuucauuggaguggggc | 465(+) | –21.50 | – | 99 |
| uuaccuuuucaagcacacauaagaucaauagcacacaaagagca | ||||||
| LUZ7 | LUZ7 T7 | agagcgcgcgcucgaccuguaacaccaugcccaaccuccucuuggggguugggcgu | 4098(+) | –40.50 | –14.5 | 95 |
| guucuuugugcuauccgucaguccguaaggaguuccaacaugaa | ||||||
| LUZ7 | LUZ7 T25 | cacgagaucacugucacgcaaggucucauugaggucaggcgugauggugaucucgu | 21202(+) | –51.40 | – | 38 |
| acaugaauguggcggccugugggcugccugcgacuuugcacgag | ||||||
| LUZ7 | LUZ7 T27 | ucguucaugaggaaucccgcaugacgcauaccuggguaaugggccaagguccagua | 22088(+) | –28.60 | – | 70 |
| cccccacauuucaagcaggugaccauggaagaguacgaccucuu | ||||||
| LUZ7 | LUZ7 T31 | agagauuccaaaucccugacuccaucuaggaaaccagaaccccucuucggaggggu | 26996(+) | –32.10 | –11.8 | 91 |
| uuuuuauugucugagguuccaccaugagcaagucauacacaguu | ||||||
| LUZ7 | LUZ7 T32 | uccgugggguccgcuccuuccccauagguuucauccaaccucaacccccuacaggc | 27816(−) | –39.20 | –14.4 | 94 |
| augucgcuaccuguaggggguuuuuuuauaccuggucgaaggga | ||||||
| LUZ7 | LUZ7 T47 | gucuccuagccucugaguucacccacccuuucuagauagccagcuuuaugcuggcu | 42911(+) | –38.50 | –11.7 | 58 |
| uucuuaugucuaugucucguagacauaagggagugcucuggccc | ||||||
| LUZ7 | LUZ7 T50 | uucugggagauccuggcaaacgcauucaaaaagaaaggggagcauuagcuccccuu | 43803(+) | –26.80 | –14.7 | 90 |
| cuucuuuacagguucaucaaaccuuucaccaucggcaguucacu | ||||||
| LUZ7 | LUZ7 T56 | caagaccguagcccgccuguaagguaggcuggaggggagggaaaccuccccuuuuu | 59943(−) | –34.70 | –15.6 | 65 |
| uaacuccgcccagaggaaucaaaccaugucucucgacaacgccc | ||||||
| LUZ7 | LUZ7 T61 | gacggggaggcugggcguaagggugaaggggaaccaggacgguuccccuuuuucuu | 65450(−) | –43.40 | –15.5 | 95 |
| uuaggcuuugccgguacuaccgaacccaccuucaccucgacugg | ||||||
| LUZ100 | LUZ100 T1 | ccguagguaacacaaacggcaaggauugccgguaauccccaaggaugguggaugcc | 732(+) | –41.00 | – | 94 |
| ucaaggcacauugacugggucauucccaggaucagugcgccuug | ||||||
| LUZ100 | LUZ100 T4 | gucuugcauccgacuauccacuggcacauugaauaacccggcaucguccggguuuu | 3985(+) | –20.20 | –8.5 | 61 |
| cuuuucccaucaacuauccacugucgcaaccuuugcagaccgcu | ||||||
| LUZ100 | LUZ100 T6 | ccaauuaccacacagguauggaagaccgcccccgguaugcccagcgcugccggggg | 8683(+) | –33.10 | –14.4 | 39 |
| uuucuguuucaagacccacgacaacugugaggagaaccccauga | ||||||
| LUZ100 | LUZ100 T14 | acgcucaaaucguggggccgcuaggcagcuugcuccgucugccgaaucacggagcu | 20828(+) | –30.50 | – | 53 |
| uucacuggcauguagcucagaugguagagcacccggcuguuaac | ||||||
| LUZ100 | LUZ100 T15 | ggugcagcuacggaaacugcacaagcccuagcacgucgggagacguuacugggcaa | 21029(+) | –31.30 | – | 74 |
| ccccuaccucgaacgacgagugccucaagucgcacuggcagcaa | ||||||
| LUZ100 | LUZ100 T16 | cuguugcguaagcaacuauccaccaucgcauaggagggccagaaauggcucuccua | 22194(+) | –32.20 | –9.5 | 82 |
| uuuuuuucuuauggggguuccaugauuucuccaaccacugagcu | ||||||
| LUZ100 | LUZ100 T19 | uucugggaucaguaacaaccauucguucaacgcacaggggcggccuucgggucgccc | 31652(+) | –31.60 | –17 | 38 |
| uuuuucuuugucuggaggaaaagcauggcucuugcacgaguca | ||||||
| LUZ100 | LUZ100 T20 | ggaugguuauguagaacauggaugugacugaggggagcaggaggcuccucucgguc | 36750(+) | –33.80 | – | 82 |
| ucuuugcaagaucgcugcaagaucgacgacguucaauuaccaca | ||||||
| LUZ100 | LUZ100 T22 | ucugcgaaucgaggccggugccgggggcugccggugcuggucggggggcuggcgac | 37192(+) | –41.60 | – | 86 |
| acaagccacgacacaagaugcccgccaagccgcgccguugcugg |
a
An overview of the selected transcription termination sites and their associated terminator sequences of phage LUZ7 and LUZ100 is presented. Intrinsic terminators predicted by ARNold are indicated in bold, and predicted hairpins are underlined. Free energies of the entire terminator region and the predicted stem loop structure are computed using RNAfold and ARNold, respectively.22,23 TTS, transcription termination site; TE, termination efficiency as calculated by the ONT-cappable-seq pipeline.18