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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AciI | CCGC | 3 cut(s) | 69, 129, 180 |
| AcuI | CTGAAG | 1 cut(s) | 270 |
| AfaI | GTAC | 1 cut(s) | 88 |
| AflIII | ACRYGT | 1 cut(s) | 471 |
| AjuI | GAANNNNNNNTTGG | 2 cut(s) | 103, 135 |
| Ama87I | CYCGRG | 1 cut(s) | 56 |
| Asp700I | GAANNNNTTC | 1 cut(s) | 264 |
| AspS9I | GGNCC | 1 cut(s) | 99 |
| AsuC2I | CCSGG | 1 cut(s) | 103 |
| AsuII | TTCGAA | 1 cut(s) | 122 |
| AvaI | CYCGRG | 1 cut(s) | 56 |
| AvaII | GGWCC | 1 cut(s) | 99 |
| BbsI | GAAGAC | 1 cut(s) | 308 |
| BccI | CCATC | 1 cut(s) | 150 |
| BcgI | CGANNNNNNTGC | 1 cut(s) | 446 |
| BcnI | CCSGG | 1 cut(s) | 103 |
| BisI | GCNGC | 1 cut(s) | 130 |
| BlsI | GCNGC | 1 cut(s) | 131 |
| Bme1390I | CCNGG | 1 cut(s) | 103 |
| Bme18I | GGWCC | 1 cut(s) | 99 |
| BmeT110I | CYCGRG | 1 cut(s) | 56 |
| BmgT120I | GGNCC | 1 cut(s) | 99 |
| BmrFI | CCNGG | 1 cut(s) | 103 |
| BmsI | GCATC | 1 cut(s) | 427 |
| BpiI | GAAGAC | 1 cut(s) | 308 |
| Bpu14I | TTCGAA | 1 cut(s) | 122 |
| BpuMI | CCSGG | 1 cut(s) | 103 |
| BsaAI | YACGTR | 1 cut(s) | 474 |
| BsaJI | CCNNGG | 1 cut(s) | 57 |
| BseDI | CCNNGG | 1 cut(s) | 57 |
| BseGI | GGATG | 1 cut(s) | 154 |
| BseYI | CCCAGC | 1 cut(s) | 382 |
| BsiHKCI | CYCGRG | 1 cut(s) | 56 |
| BsiSI | CCGG | 1 cut(s) | 102 |
| BslFI | GGGAC | 2 cut(s) | 118, 365 |
| BsmFI | GGGAC | 2 cut(s) | 118, 365 |
| BsoBI | CYCGRG | 1 cut(s) | 56 |
| Bsp119I | TTCGAA | 1 cut(s) | 122 |
| Bsp1407I | TGTACA | 1 cut(s) | 86 |
| BspACI | CCGC | 3 cut(s) | 69, 129, 180 |
| BspT104I | TTCGAA | 1 cut(s) | 122 |
| BsrGI | TGTACA | 1 cut(s) | 86 |
| BssECI | CCNNGG | 1 cut(s) | 57 |
| Bst6I | CTCTTC | 2 cut(s) | 363, 383 |
| BstAPI | GCANNNNNTGC | 1 cut(s) | 17 |
| BstAUI | TGTACA | 1 cut(s) | 86 |
| BstBAI | YACGTR | 1 cut(s) | 474 |
| BstBI | TTCGAA | 1 cut(s) | 122 |
| BstC8I | GCNNGC | 1 cut(s) | 78 |
| BstF5I | GGATG | 1 cut(s) | 154 |
| BstMWI | GCNNNNNNNGC | 1 cut(s) | 17 |
| BstSCI | CCNGG | 1 cut(s) | 101 |
| BstV2I | GAAGAC | 1 cut(s) | 308 |
| BtsCI | GGATG | 1 cut(s) | 154 |
| Cac8I | GCNNGC | 1 cut(s) | 78 |
| Cfr13I | GGNCC | 1 cut(s) | 99 |
| Csp6I | GTAC | 1 cut(s) | 87 |
| CviQI | GTAC | 1 cut(s) | 87 |
| Eam1104I | CTCTTC | 2 cut(s) | 363, 383 |
| EarI | CTCTTC | 2 cut(s) | 363, 383 |
| Eco47I | GGWCC | 1 cut(s) | 99 |
| Eco57I | CTGAAG | 1 cut(s) | 270 |
| Eco88I | CYCGRG | 1 cut(s) | 56 |
| FaiI | YATR | 2 cut(s) | 97, 402 |
| FaqI | GGGAC | 2 cut(s) | 118, 365 |
| FauI | CCCGC | 1 cut(s) | 62 |
| Fnu4HI | GCNGC | 1 cut(s) | 130 |
| FokI | GGATG | 1 cut(s) | 161 |
| Fsp4HI | GCNGC | 1 cut(s) | 130 |
| GluI | GCNGC | 1 cut(s) | 130 |
| GsaI | CCCAGC | 1 cut(s) | 386 |
| HapII | CCGG | 1 cut(s) | 102 |
| HinfI | GANTC | 3 cut(s) | 158, 452, 458 |
| HpaII | CCGG | 1 cut(s) | 102 |
| Hpy166II | GTNNAC | 1 cut(s) | 87 |
| Hpy188I | TCNGA | 1 cut(s) | 457 |
| Hpy188III | TCNNGA | 2 cut(s) | 56, 146 |
| Hpy8I | GTNNAC | 1 cut(s) | 87 |
| Hpy99I | CGWCG | 1 cut(s) | 344 |
| HpyAV | CCTTC | 1 cut(s) | 322 |
| HpyCH4IV | ACGT | 1 cut(s) | 473 |
| HpyCH4V | TGCA | 7 cut(s) | 11, 20, 139, 272, 320, 440, 467 |
| HpyF10VI | GCNNNNNNNGC | 1 cut(s) | 17 |
| HpySE526I | ACGT | 1 cut(s) | 473 |
| LpnPI | CCDG | 2 cut(s) | 115, 396 |
| LweI | GCATC | 1 cut(s) | 427 |
| MaeII | ACGT | 1 cut(s) | 473 |
| MluCI | AATT | 1 cut(s) | 90 |
| MlyI | GAGTC | 1 cut(s) | 467 |
| MnlI | CCTC | 6 cut(s) | 52, 63, 337, 364, 402, 436 |
| MroXI | GAANNNNTTC | 1 cut(s) | 264 |
| MseI | TTAA | 1 cut(s) | 429 |
| MslI | CAYNNNNRTG | 1 cut(s) | 147 |
| MspI | CCGG | 1 cut(s) | 102 |
| MspR9I | CCNGG | 1 cut(s) | 103 |
| MwoI | GCNNNNNNNGC | 1 cut(s) | 17 |
| NciI | CCSGG | 1 cut(s) | 103 |
| NspV | TTCGAA | 1 cut(s) | 122 |
| PdmI | GAANNNNTTC | 1 cut(s) | 264 |
| PfeI | GAWTC | 2 cut(s) | 158, 452 |
| PkrI | GCNGC | 1 cut(s) | 131 |
| PleI | GAGTC | 1 cut(s) | 466 |
| PpsI | GAGTC | 1 cut(s) | 466 |
| Ppu21I | YACGTR | 1 cut(s) | 474 |
| PspFI | CCCAGC | 1 cut(s) | 382 |
| PspPI | GGNCC | 1 cut(s) | 99 |
| RsaI | GTAC | 1 cut(s) | 88 |
| RsaNI | GTAC | 1 cut(s) | 87 |
| RseI | CAYNNNNRTG | 1 cut(s) | 147 |
| SaqAI | TTAA | 1 cut(s) | 429 |
| SatI | GCNGC | 1 cut(s) | 130 |
| Sau96I | GGNCC | 1 cut(s) | 99 |
| SchI | GAGTC | 1 cut(s) | 467 |
| ScrFI | CCNGG | 1 cut(s) | 103 |
| SetI | ASST | 3 cut(s) | 55, 63, 476 |
| SfaNI | GCATC | 1 cut(s) | 427 |
| SfuI | TTCGAA | 1 cut(s) | 122 |
| SinI | GGWCC | 1 cut(s) | 99 |
| SmiMI | CAYNNNNRTG | 1 cut(s) | 147 |
| Sse9I | AATT | 1 cut(s) | 90 |
| SsiI | CCGC | 3 cut(s) | 69, 129, 180 |
| SspI | AATATT | 1 cut(s) | 417 |
| StyD4I | CCNGG | 1 cut(s) | 101 |
| TaiI | ACGT | 1 cut(s) | 476 |
| TaqI | TCGA | 1 cut(s) | 122 |
| TasI | AATT | 1 cut(s) | 90 |
| TatI | WGTACW | 1 cut(s) | 86 |
| TauI | GCSGC | 1 cut(s) | 132 |
| TfiI | GAWTC | 2 cut(s) | 158, 452 |
| Tru1I | TTAA | 1 cut(s) | 429 |
| Tru9I | TTAA | 1 cut(s) | 429 |
| TspDTI | ATGAA | 4 cut(s) | 165, 180, 270, 381 |
| VpaK11BI | GGWCC | 1 cut(s) | 99 |
| XmnI | GAANNNNTTC | 1 cut(s) | 264 |