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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AciI | CCGC | 9 cut(s) | 48, 64, 93, 99, 105, 173, 207, 226, 239 |
| AcoI | YGGCCR | 1 cut(s) | 204 |
| AfiI | CCNNNNNNNGG | 1 cut(s) | 111 |
| Ama87I | CYCGRG | 1 cut(s) | 20 |
| AoxI | GGCC | 2 cut(s) | 183, 204 |
| ApeKI | GCWGC | 1 cut(s) | 50 |
| AspLEI | GCGC | 1 cut(s) | 92 |
| AspS9I | GGNCC | 1 cut(s) | 191 |
| AsuC2I | CCSGG | 1 cut(s) | 152 |
| AsuHPI | GGTGA | 2 cut(s) | 127, 227 |
| AsuNHI | GCTAGC | 1 cut(s) | 95 |
| AvaI | CYCGRG | 1 cut(s) | 20 |
| AvaII | GGWCC | 1 cut(s) | 191 |
| BbvI | GCAGC | 1 cut(s) | 37 |
| BccI | CCATC | 2 cut(s) | 104, 119 |
| BceAI | ACGGC | 3 cut(s) | 181, 186, 194 |
| BcnI | CCSGG | 1 cut(s) | 152 |
| BfaI | CTAG | 3 cut(s) | 30, 54, 96 |
| BfoI | RGCGCY | 1 cut(s) | 93 |
| BisI | GCNGC | 5 cut(s) | 48, 51, 93, 100, 207 |
| BlsI | GCNGC | 5 cut(s) | 49, 52, 94, 101, 208 |
| Bme1390I | CCNGG | 1 cut(s) | 152 |
| Bme18I | GGWCC | 1 cut(s) | 191 |
| BmeT110I | CYCGRG | 1 cut(s) | 20 |
| BmgT120I | GGNCC | 1 cut(s) | 191 |
| BmiI | GGNNCC | 1 cut(s) | 103 |
| BmrFI | CCNGG | 1 cut(s) | 152 |
| BmsI | GCATC | 1 cut(s) | 34 |
| BmtI | GCTAGC | 1 cut(s) | 99 |
| BoxI | GACNNNNGTC | 1 cut(s) | 196 |
| BpuMI | CCSGG | 1 cut(s) | 152 |
| BsaXI | ACNNNNNCTCC | 2 cut(s) | 59, 89 |
| Bsc4I | CCNNNNNNNGG | 1 cut(s) | 111 |
| Bse118I | RCCGGY | 2 cut(s) | 11, 241 |
| BseGI | GGATG | 2 cut(s) | 49, 130 |
| BseLI | CCNNNNNNNGG | 1 cut(s) | 111 |
| BseRI | GAGGAG | 1 cut(s) | 83 |
| BseXI | GCAGC | 1 cut(s) | 37 |
| Bsh1285I | CGRYCG | 1 cut(s) | 16 |
| BshFI | GGCC | 2 cut(s) | 185, 206 |
| BsiEI | CGRYCG | 1 cut(s) | 16 |
| BsiHKCI | CYCGRG | 1 cut(s) | 20 |
| BsiSI | CCGG | 4 cut(s) | 12, 151, 186, 242 |
| BslFI | GGGAC | 1 cut(s) | 3 |
| BslI | CCNNNNNNNGG | 1 cut(s) | 111 |
| BsmFI | GGGAC | 1 cut(s) | 3 |
| BsnI | GGCC | 2 cut(s) | 185, 206 |
| BsoBI | CYCGRG | 1 cut(s) | 20 |
| BspACI | CCGC | 9 cut(s) | 48, 64, 93, 99, 105, 173, 207, 226, 239 |
| BspANI | GGCC | 2 cut(s) | 185, 206 |
| BspLI | GGNNCC | 1 cut(s) | 103 |
| BspOI | GCTAGC | 1 cut(s) | 99 |
| BsrFI | RCCGGY | 2 cut(s) | 11, 241 |
| BssAI | RCCGGY | 2 cut(s) | 11, 241 |
| Bst4CI | ACNGT | 1 cut(s) | 218 |
| Bst6I | CTCTTC | 1 cut(s) | 129 |
| BstC8I | GCNNGC | 2 cut(s) | 82, 97 |
| BstF5I | GGATG | 2 cut(s) | 49, 130 |
| BstH2I | RGCGCY | 1 cut(s) | 93 |
| BstHHI | GCGC | 1 cut(s) | 92 |
| BstMCI | CGRYCG | 1 cut(s) | 16 |
| BstMWI | GCNNNNNNNGC | 1 cut(s) | 96 |
| BstPAI | GACNNNNGTC | 1 cut(s) | 196 |
| BstSCI | CCNGG | 1 cut(s) | 150 |
| BstV1I | GCAGC | 1 cut(s) | 37 |
| BsuRI | GGCC | 2 cut(s) | 185, 206 |
| BtsCI | GGATG | 2 cut(s) | 49, 130 |
| Cac8I | GCNNGC | 2 cut(s) | 82, 97 |
| CfoI | GCGC | 1 cut(s) | 92 |
| Cfr10I | RCCGGY | 2 cut(s) | 11, 241 |
| Cfr13I | GGNCC | 1 cut(s) | 191 |
| CviJI | RGCY | 3 cut(s) | 102, 185, 206 |
| CviKI_1 | RGCY | 3 cut(s) | 102, 185, 206 |
| EaeI | YGGCCR | 1 cut(s) | 204 |
| Eam1104I | CTCTTC | 1 cut(s) | 129 |
| EarI | CTCTTC | 1 cut(s) | 129 |
| EciI | GGCGGA | 1 cut(s) | 94 |
| Eco47I | GGWCC | 1 cut(s) | 191 |
| Eco88I | CYCGRG | 1 cut(s) | 20 |
| FaqI | GGGAC | 1 cut(s) | 3 |
| FauI | CCCGC | 3 cut(s) | 57, 219, 246 |
| Fnu4HI | GCNGC | 5 cut(s) | 48, 51, 93, 100, 207 |
| FokI | GGATG | 2 cut(s) | 56, 137 |
| Fsp4HI | GCNGC | 5 cut(s) | 48, 51, 93, 100, 207 |
| FspBI | CTAG | 3 cut(s) | 30, 54, 96 |
| GlaI | GCGC | 1 cut(s) | 91 |
| GluI | GCNGC | 5 cut(s) | 48, 51, 93, 100, 207 |
| HaeII | RGCGCY | 1 cut(s) | 93 |
| HaeIII | GGCC | 2 cut(s) | 185, 206 |
| HapII | CCGG | 4 cut(s) | 12, 151, 186, 242 |
| HhaI | GCGC | 1 cut(s) | 92 |
| Hin6I | GCGC | 1 cut(s) | 90 |
| HinP1I | GCGC | 1 cut(s) | 90 |
| HincII | GTYRAC | 1 cut(s) | 214 |
| HindII | GTYRAC | 1 cut(s) | 214 |
| HinfI | GANTC | 1 cut(s) | 143 |
| HpaII | CCGG | 4 cut(s) | 12, 151, 186, 242 |
| HphI | GGTGA | 2 cut(s) | 127, 227 |
| Hpy166II | GTNNAC | 1 cut(s) | 214 |
| Hpy188III | TCNNGA | 1 cut(s) | 20 |
| Hpy8I | GTNNAC | 1 cut(s) | 214 |
| Hpy99I | CGWCG | 1 cut(s) | 167 |
| HpyCH4III | ACNGT | 1 cut(s) | 218 |
| HpyF10VI | GCNNNNNNNGC | 1 cut(s) | 96 |
| HspAI | GCGC | 1 cut(s) | 90 |
| LmnI | GCTCC | 1 cut(s) | 107 |
| LpnPI | CCDG | 3 cut(s) | 25, 164, 199 |
| Lsp1109I | GCAGC | 1 cut(s) | 37 |
| LweI | GCATC | 1 cut(s) | 34 |
| MaeI | CTAG | 3 cut(s) | 30, 54, 96 |
| MboII | GAAGA | 1 cut(s) | 146 |
| MlyI | GAGTC | 1 cut(s) | 152 |
| MnlI | CCTC | 6 cut(s) | 34, 61, 115, 130, 175, 182 |
| MspA1I | CMGCKG | 1 cut(s) | 50 |
| MspI | CCGG | 4 cut(s) | 12, 151, 186, 242 |
| MspR9I | CCNGG | 1 cut(s) | 152 |
| MwoI | GCNNNNNNNGC | 1 cut(s) | 96 |
| NciI | CCSGG | 1 cut(s) | 152 |
| NheI | GCTAGC | 1 cut(s) | 95 |
| NlaIV | GGNNCC | 1 cut(s) | 103 |
| PcsI | WCGNNNNNNNCGW | 1 cut(s) | 13 |
| PkrI | GCNGC | 5 cut(s) | 49, 52, 94, 101, 208 |
| PleI | GAGTC | 1 cut(s) | 151 |
| PpsI | GAGTC | 1 cut(s) | 151 |
| PshAI | GACNNNNGTC | 1 cut(s) | 196 |
| PspN4I | GGNNCC | 1 cut(s) | 103 |
| PspPI | GGNCC | 1 cut(s) | 191 |
| SatI | GCNGC | 5 cut(s) | 48, 51, 93, 100, 207 |
| Sau96I | GGNCC | 1 cut(s) | 191 |
| SchI | GAGTC | 1 cut(s) | 152 |
| ScrFI | CCNGG | 1 cut(s) | 152 |
| SetI | ASST | 1 cut(s) | 141 |
| SfaNI | GCATC | 1 cut(s) | 34 |
| SgrAI | CRCCGGYG | 1 cut(s) | 241 |
| SinI | GGWCC | 1 cut(s) | 191 |
| SsiI | CCGC | 9 cut(s) | 48, 64, 93, 99, 105, 173, 207, 226, 239 |
| SspMI | CTAG | 3 cut(s) | 30, 54, 96 |
| StyD4I | CCNGG | 1 cut(s) | 150 |
| TaaI | ACNGT | 1 cut(s) | 218 |
| TaqII | GACCGA | 1 cut(s) | 208 |
| TauI | GCSGC | 4 cut(s) | 50, 95, 102, 209 |
| TseI | GCWGC | 1 cut(s) | 50 |
| VpaK11BI | GGWCC | 1 cut(s) | 191 |
| XspI | CTAG | 3 cut(s) | 30, 54, 96 |