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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AccII | CGCG | 1 cut(s) | 75 |
| AciI | CCGC | 4 cut(s) | 59, 73, 105, 130 |
| AcoI | YGGCCR | 2 cut(s) | 41, 246 |
| AcuI | CTGAAG | 1 cut(s) | 41 |
| AfiI | CCNNNNNNNGG | 1 cut(s) | 241 |
| AjnI | CCWGG | 2 cut(s) | 240, 332 |
| AleI | CACNNNNGTG | 1 cut(s) | 254 |
| AluBI | AGCT | 3 cut(s) | 166, 176, 342 |
| AluI | AGCT | 3 cut(s) | 166, 176, 342 |
| Alw21I | GWGCWC | 1 cut(s) | 332 |
| Alw26I | GTCTC | 1 cut(s) | 104 |
| Ama87I | CYCGRG | 1 cut(s) | 118 |
| AoxI | GGCC | 4 cut(s) | 41, 139, 231, 246 |
| ApeKI | GCWGC | 1 cut(s) | 126 |
| AspLEI | GCGC | 1 cut(s) | 77 |
| AspS9I | GGNCC | 1 cut(s) | 232 |
| AsuC2I | CCSGG | 1 cut(s) | 92 |
| AsuHPI | GGTGA | 1 cut(s) | 119 |
| AvaI | CYCGRG | 1 cut(s) | 118 |
| BalI | TGGCCA | 1 cut(s) | 248 |
| Bbv12I | GWGCWC | 1 cut(s) | 332 |
| BbvI | GCAGC | 1 cut(s) | 138 |
| BcgI | CGANNNNNNTGC | 2 cut(s) | 20, 54 |
| BciT130I | CCWGG | 2 cut(s) | 242, 334 |
| BcnI | CCSGG | 1 cut(s) | 92 |
| BcoDI | GTCTC | 1 cut(s) | 104 |
| BfaI | CTAG | 1 cut(s) | 173 |
| BglI | GCCNNNNNGGC | 1 cut(s) | 138 |
| BisI | GCNGC | 2 cut(s) | 127, 130 |
| BlsI | GCNGC | 2 cut(s) | 128, 131 |
| Bme1390I | CCNGG | 3 cut(s) | 92, 242, 334 |
| BmeT110I | CYCGRG | 1 cut(s) | 118 |
| BmgT120I | GGNCC | 1 cut(s) | 232 |
| BmrFI | CCNGG | 3 cut(s) | 92, 242, 334 |
| BpmI | CTGGAG | 1 cut(s) | 308 |
| BpuMI | CCSGG | 1 cut(s) | 92 |
| BsaJI | CCNNGG | 2 cut(s) | 90, 228 |
| Bsc4I | CCNNNNNNNGG | 1 cut(s) | 241 |
| Bse1I | ACTGG | 1 cut(s) | 36 |
| BseBI | CCWGG | 2 cut(s) | 242, 334 |
| BseDI | CCNNGG | 2 cut(s) | 90, 228 |
| BseLI | CCNNNNNNNGG | 1 cut(s) | 241 |
| BseNI | ACTGG | 1 cut(s) | 36 |
| BseXI | GCAGC | 1 cut(s) | 138 |
| BseYI | CCCAGC | 2 cut(s) | 55, 101 |
| Bsh1236I | CGCG | 1 cut(s) | 75 |
| BshFI | GGCC | 4 cut(s) | 43, 141, 233, 248 |
| BsiHKAI | GWGCWC | 1 cut(s) | 332 |
| BsiHKCI | CYCGRG | 1 cut(s) | 118 |
| BsiSI | CCGG | 1 cut(s) | 92 |
| BslI | CCNNNNNNNGG | 1 cut(s) | 241 |
| BsmAI | GTCTC | 1 cut(s) | 104 |
| BsnI | GGCC | 4 cut(s) | 43, 141, 233, 248 |
| BsoBI | CYCGRG | 1 cut(s) | 118 |
| Bsp1286I | GDGCHC | 1 cut(s) | 332 |
| Bsp143I | GATC | 1 cut(s) | 178 |
| BspACI | CCGC | 4 cut(s) | 59, 73, 105, 130 |
| BspANI | GGCC | 4 cut(s) | 43, 141, 233, 248 |
| BspFNI | CGCG | 1 cut(s) | 75 |
| BspQI | GCTCTTC | 1 cut(s) | 17 |
| BsrI | ACTGG | 1 cut(s) | 36 |
| BssECI | CCNNGG | 2 cut(s) | 90, 228 |
| BssMI | GATC | 1 cut(s) | 178 |
| Bst2UI | CCWGG | 2 cut(s) | 242, 334 |
| Bst6I | CTCTTC | 1 cut(s) | 17 |
| BstC8I | GCNNGC | 2 cut(s) | 29, 168 |
| BstFNI | CGCG | 1 cut(s) | 75 |
| BstHHI | GCGC | 1 cut(s) | 77 |
| BstKTI | GATC | 1 cut(s) | 181 |
| BstMAI | GTCTC | 1 cut(s) | 104 |
| BstMBI | GATC | 1 cut(s) | 178 |
| BstMWI | GCNNNNNNNGC | 1 cut(s) | 138 |
| BstNI | CCWGG | 2 cut(s) | 242, 334 |
| BstSCI | CCNGG | 3 cut(s) | 90, 240, 332 |
| BstUI | CGCG | 1 cut(s) | 75 |
| BstV1I | GCAGC | 1 cut(s) | 138 |
| BsuRI | GGCC | 4 cut(s) | 43, 141, 233, 248 |
| Cac8I | GCNNGC | 2 cut(s) | 29, 168 |
| CfoI | GCGC | 1 cut(s) | 77 |
| Cfr13I | GGNCC | 1 cut(s) | 232 |
| CsiI | ACCWGGT | 1 cut(s) | 240 |
| DpnI | GATC | 1 cut(s) | 180 |
| DpnII | GATC | 1 cut(s) | 178 |
| EaeI | YGGCCR | 2 cut(s) | 41, 246 |
| Eam1104I | CTCTTC | 1 cut(s) | 17 |
| EarI | CTCTTC | 1 cut(s) | 17 |
| Eco57I | CTGAAG | 1 cut(s) | 41 |
| Eco88I | CYCGRG | 1 cut(s) | 118 |
| EcoRII | CCWGG | 2 cut(s) | 240, 332 |
| FaiI | YATR | 2 cut(s) | 160, 162 |
| Fnu4HI | GCNGC | 2 cut(s) | 127, 130 |
| Fsp4HI | GCNGC | 2 cut(s) | 127, 130 |
| FspBI | CTAG | 1 cut(s) | 173 |
| GlaI | GCGC | 1 cut(s) | 76 |
| GluI | GCNGC | 2 cut(s) | 127, 130 |
| GsaI | CCCAGC | 2 cut(s) | 59, 105 |
| GsuI | CTGGAG | 1 cut(s) | 308 |
| HaeIII | GGCC | 4 cut(s) | 43, 141, 233, 248 |
| HapII | CCGG | 1 cut(s) | 92 |
| HhaI | GCGC | 1 cut(s) | 77 |
| Hin6I | GCGC | 1 cut(s) | 75 |
| HinP1I | GCGC | 1 cut(s) | 75 |
| HpaII | CCGG | 1 cut(s) | 92 |
| HphI | GGTGA | 1 cut(s) | 119 |
| Hpy166II | GTNNAC | 3 cut(s) | 64, 97, 206 |
| Hpy188III | TCNNGA | 1 cut(s) | 287 |
| Hpy8I | GTNNAC | 3 cut(s) | 64, 97, 206 |
| HpyCH4IV | ACGT | 2 cut(s) | 202, 262 |
| HpyCH4V | TGCA | 1 cut(s) | 216 |
| HpyF10VI | GCNNNNNNNGC | 1 cut(s) | 138 |
| HpySE526I | ACGT | 2 cut(s) | 202, 262 |
| HspAI | GCGC | 1 cut(s) | 75 |
| Kzo9I | GATC | 1 cut(s) | 178 |
| LguI | GCTCTTC | 1 cut(s) | 17 |
| LmnI | GCTCC | 2 cut(s) | 312, 327 |
| Lsp1109I | GCAGC | 1 cut(s) | 138 |
| MabI | ACCWGGT | 1 cut(s) | 240 |
| MaeI | CTAG | 1 cut(s) | 173 |
| MaeII | ACGT | 2 cut(s) | 202, 262 |
| MaeIII | GTNAC | 1 cut(s) | 258 |
| MalI | GATC | 1 cut(s) | 180 |
| MboI | GATC | 1 cut(s) | 178 |
| MboII | GAAGA | 1 cut(s) | 34 |
| MhlI | GDGCHC | 1 cut(s) | 332 |
| MlsI | TGGCCA | 1 cut(s) | 248 |
| MluNI | TGGCCA | 1 cut(s) | 248 |
| MnlI | CCTC | 3 cut(s) | 163, 223, 283 |
| Mox20I | TGGCCA | 1 cut(s) | 248 |
| MscI | TGGCCA | 1 cut(s) | 248 |
| MslI | CAYNNNNRTG | 1 cut(s) | 254 |
| Msp20I | TGGCCA | 1 cut(s) | 248 |
| MspA1I | CMGCKG | 3 cut(s) | 59, 105, 342 |
| MspI | CCGG | 1 cut(s) | 92 |
| MspR9I | CCNGG | 3 cut(s) | 92, 242, 334 |
| MvaI | CCWGG | 2 cut(s) | 242, 334 |
| MvnI | CGCG | 1 cut(s) | 75 |
| MwoI | GCNNNNNNNGC | 1 cut(s) | 138 |
| NciI | CCSGG | 1 cut(s) | 92 |
| NdeII | GATC | 1 cut(s) | 178 |
| NmeAIII | GCCGAG | 1 cut(s) | 253 |
| NmuCI | GTSAC | 1 cut(s) | 258 |
| OliI | CACNNNNGTG | 1 cut(s) | 254 |
| PciSI | GCTCTTC | 1 cut(s) | 17 |
| PkrI | GCNGC | 2 cut(s) | 128, 131 |
| Psp6I | CCWGG | 2 cut(s) | 240, 332 |
| PspFI | CCCAGC | 2 cut(s) | 55, 101 |
| PspGI | CCWGG | 2 cut(s) | 240, 332 |
| PspPI | GGNCC | 1 cut(s) | 232 |
| PvuII | CAGCTG | 1 cut(s) | 342 |
| RseI | CAYNNNNRTG | 1 cut(s) | 254 |
| SapI | GCTCTTC | 1 cut(s) | 17 |
| SatI | GCNGC | 2 cut(s) | 127, 130 |
| Sau3AI | GATC | 1 cut(s) | 178 |
| Sau96I | GGNCC | 1 cut(s) | 232 |
| ScrFI | CCNGG | 3 cut(s) | 92, 242, 334 |
| SduI | GDGCHC | 1 cut(s) | 332 |
| SetI | ASST | 8 cut(s) | 150, 155, 168, 178, 205, 246, 265, 344 |
| SexAI | ACCWGGT | 1 cut(s) | 240 |
| SmiMI | CAYNNNNRTG | 1 cut(s) | 254 |
| SsiI | CCGC | 4 cut(s) | 59, 73, 105, 130 |
| SspMI | CTAG | 1 cut(s) | 173 |
| StyD4I | CCNGG | 3 cut(s) | 90, 240, 332 |
| TaiI | ACGT | 2 cut(s) | 205, 265 |
| TauI | GCSGC | 1 cut(s) | 132 |
| TseFI | GTSAC | 1 cut(s) | 258 |
| TseI | GCWGC | 1 cut(s) | 126 |
| Tsp45I | GTSAC | 1 cut(s) | 258 |
| TspDTI | ATGAA | 1 cut(s) | 285 |
| TspGWI | ACGGA | 2 cut(s) | 325, 340 |
| XspI | CTAG | 1 cut(s) | 173 |