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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AcoI | YGGCCR | 1 cut(s) | 39 |
| AfaI | GTAC | 1 cut(s) | 29 |
| AfiI | CCNNNNNNNGG | 2 cut(s) | 191, 226 |
| AgsI | TTSAA | 1 cut(s) | 81 |
| AjnI | CCWGG | 1 cut(s) | 73 |
| AluBI | AGCT | 4 cut(s) | 37, 45, 152, 293 |
| AluI | AGCT | 4 cut(s) | 37, 45, 152, 293 |
| Ama87I | CYCGRG | 1 cut(s) | 226 |
| AoxI | GGCC | 4 cut(s) | 39, 182, 217, 229 |
| ApeKI | GCWGC | 1 cut(s) | 177 |
| AspS9I | GGNCC | 2 cut(s) | 217, 229 |
| AsuC2I | CCSGG | 2 cut(s) | 227, 228 |
| AvaI | CYCGRG | 1 cut(s) | 226 |
| BalI | TGGCCA | 1 cut(s) | 41 |
| BbvCI | CCTCAGC | 1 cut(s) | 294 |
| BbvI | GCAGC | 1 cut(s) | 164 |
| BccI | CCATC | 3 cut(s) | 163, 167, 194 |
| BciT130I | CCWGG | 1 cut(s) | 75 |
| BcnI | CCSGG | 2 cut(s) | 227, 228 |
| BfmI | CTRYAG | 1 cut(s) | 178 |
| BisI | GCNGC | 1 cut(s) | 178 |
| BlsI | GCNGC | 1 cut(s) | 179 |
| Bme1390I | CCNGG | 3 cut(s) | 75, 227, 228 |
| BmeT110I | CYCGRG | 1 cut(s) | 226 |
| BmgT120I | GGNCC | 2 cut(s) | 217, 229 |
| BmrFI | CCNGG | 3 cut(s) | 75, 227, 228 |
| BmsI | GCATC | 1 cut(s) | 247 |
| Bpu10I | CCTNAGC | 1 cut(s) | 294 |
| BpuMI | CCSGG | 2 cut(s) | 227, 228 |
| BsaJI | CCNNGG | 2 cut(s) | 73, 226 |
| Bsc4I | CCNNNNNNNGG | 2 cut(s) | 191, 226 |
| Bse3DI | GCAATG | 1 cut(s) | 279 |
| BseBI | CCWGG | 1 cut(s) | 75 |
| BseDI | CCNNGG | 2 cut(s) | 73, 226 |
| BseGI | GGATG | 4 cut(s) | 174, 178, 205, 276 |
| BseLI | CCNNNNNNNGG | 2 cut(s) | 191, 226 |
| BseMI | GCAATG | 1 cut(s) | 279 |
| BseMII | CTCAG | 2 cut(s) | 53, 285 |
| BseXI | GCAGC | 1 cut(s) | 164 |
| BshFI | GGCC | 4 cut(s) | 41, 184, 219, 231 |
| BsiHKCI | CYCGRG | 1 cut(s) | 226 |
| BsiSI | CCGG | 1 cut(s) | 227 |
| BslFI | GGGAC | 1 cut(s) | 24 |
| BslI | CCNNNNNNNGG | 2 cut(s) | 191, 226 |
| BsmFI | GGGAC | 1 cut(s) | 24 |
| BsnI | GGCC | 4 cut(s) | 41, 184, 219, 231 |
| BsoBI | CYCGRG | 1 cut(s) | 226 |
| Bsp143I | GATC | 1 cut(s) | 90 |
| BspANI | GGCC | 4 cut(s) | 41, 184, 219, 231 |
| BspCNI | CTCAG | 2 cut(s) | 54, 286 |
| BspMAI | CTGCAG | 1 cut(s) | 182 |
| BsrDI | GCAATG | 1 cut(s) | 279 |
| BssECI | CCNNGG | 2 cut(s) | 73, 226 |
| BssMI | GATC | 1 cut(s) | 90 |
| Bst2UI | CCWGG | 1 cut(s) | 75 |
| Bst4CI | ACNGT | 1 cut(s) | 85 |
| BstC8I | GCNNGC | 3 cut(s) | 39, 43, 182 |
| BstDEI | CTNAG | 2 cut(s) | 62, 294 |
| BstF5I | GGATG | 4 cut(s) | 174, 178, 205, 276 |
| BstKTI | GATC | 1 cut(s) | 93 |
| BstMBI | GATC | 1 cut(s) | 90 |
| BstMWI | GCNNNNNNNGC | 1 cut(s) | 290 |
| BstNI | CCWGG | 1 cut(s) | 75 |
| BstSCI | CCNGG | 3 cut(s) | 73, 225, 226 |
| BstSFI | CTRYAG | 1 cut(s) | 178 |
| BstV1I | GCAGC | 1 cut(s) | 164 |
| BsuRI | GGCC | 4 cut(s) | 41, 184, 219, 231 |
| BtsCI | GGATG | 4 cut(s) | 174, 178, 205, 276 |
| BtsIMutI | CAGTG | 1 cut(s) | 90 |
| Cac8I | GCNNGC | 3 cut(s) | 39, 43, 182 |
| Cfr13I | GGNCC | 2 cut(s) | 217, 229 |
| Cfr9I | CCCGGG | 1 cut(s) | 226 |
| Csp6I | GTAC | 1 cut(s) | 28 |
| CviQI | GTAC | 1 cut(s) | 28 |
| DdeI | CTNAG | 2 cut(s) | 62, 294 |
| DpnI | GATC | 1 cut(s) | 92 |
| DpnII | GATC | 1 cut(s) | 90 |
| EaeI | YGGCCR | 1 cut(s) | 39 |
| Eco147I | AGGCCT | 1 cut(s) | 184 |
| Eco88I | CYCGRG | 1 cut(s) | 226 |
| EcoRII | CCWGG | 1 cut(s) | 73 |
| FaiI | YATR | 7 cut(s) | 18, 48, 138, 241, 243, 288, 316 |
| FaqI | GGGAC | 1 cut(s) | 24 |
| Fnu4HI | GCNGC | 1 cut(s) | 178 |
| FokI | GGATG | 4 cut(s) | 181, 185, 212, 283 |
| Fsp4HI | GCNGC | 1 cut(s) | 178 |
| GluI | GCNGC | 1 cut(s) | 178 |
| HaeIII | GGCC | 4 cut(s) | 41, 184, 219, 231 |
| HapII | CCGG | 1 cut(s) | 227 |
| HpaII | CCGG | 1 cut(s) | 227 |
| Hpy188III | TCNNGA | 1 cut(s) | 94 |
| HpyAV | CCTTC | 1 cut(s) | 154 |
| HpyCH4III | ACNGT | 1 cut(s) | 85 |
| HpyCH4V | TGCA | 2 cut(s) | 180, 260 |
| HpyF10VI | GCNNNNNNNGC | 1 cut(s) | 290 |
| HpyF3I | CTNAG | 2 cut(s) | 62, 294 |
| Kzo9I | GATC | 1 cut(s) | 90 |
| LpnPI | CCDG | 7 cut(s) | 23, 55, 60, 87, 151, 166, 240 |
| Lsp1109I | GCAGC | 1 cut(s) | 164 |
| LweI | GCATC | 1 cut(s) | 247 |
| MaeIII | GTNAC | 1 cut(s) | 206 |
| MalI | GATC | 1 cut(s) | 92 |
| MboI | GATC | 1 cut(s) | 90 |
| MfeI | CAATTG | 1 cut(s) | 233 |
| MlsI | TGGCCA | 1 cut(s) | 41 |
| MluCI | AATT | 4 cut(s) | 56, 189, 233, 310 |
| MluNI | TGGCCA | 1 cut(s) | 41 |
| MmeI | TCCRAC | 1 cut(s) | 177 |
| MnlI | CCTC | 2 cut(s) | 114, 289 |
| Mox20I | TGGCCA | 1 cut(s) | 41 |
| MscI | TGGCCA | 1 cut(s) | 41 |
| MseI | TTAA | 3 cut(s) | 188, 213, 300 |
| Msp20I | TGGCCA | 1 cut(s) | 41 |
| MspI | CCGG | 1 cut(s) | 227 |
| MspR9I | CCNGG | 3 cut(s) | 75, 227, 228 |
| MunI | CAATTG | 1 cut(s) | 233 |
| MvaI | CCWGG | 1 cut(s) | 75 |
| MwoI | GCNNNNNNNGC | 1 cut(s) | 290 |
| NciI | CCSGG | 2 cut(s) | 227, 228 |
| NdeII | GATC | 1 cut(s) | 90 |
| NmuCI | GTSAC | 1 cut(s) | 206 |
| PceI | AGGCCT | 1 cut(s) | 184 |
| PkrI | GCNGC | 1 cut(s) | 179 |
| Psp6I | CCWGG | 1 cut(s) | 73 |
| PspGI | CCWGG | 1 cut(s) | 73 |
| PspPI | GGNCC | 2 cut(s) | 217, 229 |
| PstI | CTGCAG | 1 cut(s) | 182 |
| RsaI | GTAC | 1 cut(s) | 29 |
| RsaNI | GTAC | 1 cut(s) | 28 |
| SaqAI | TTAA | 3 cut(s) | 188, 213, 300 |
| SatI | GCNGC | 1 cut(s) | 178 |
| Sau3AI | GATC | 1 cut(s) | 90 |
| Sau96I | GGNCC | 2 cut(s) | 217, 229 |
| ScrFI | CCNGG | 3 cut(s) | 75, 227, 228 |
| SetI | ASST | 7 cut(s) | 39, 47, 79, 125, 154, 295, 300 |
| SfaNI | GCATC | 1 cut(s) | 247 |
| SfcI | CTRYAG | 1 cut(s) | 178 |
| SmaI | CCCGGG | 1 cut(s) | 228 |
| Sse9I | AATT | 4 cut(s) | 56, 189, 233, 310 |
| SseBI | AGGCCT | 1 cut(s) | 184 |
| StuI | AGGCCT | 1 cut(s) | 184 |
| StyD4I | CCNGG | 3 cut(s) | 73, 225, 226 |
| TaaI | ACNGT | 1 cut(s) | 85 |
| TasI | AATT | 4 cut(s) | 56, 189, 233, 310 |
| TatI | WGTACW | 1 cut(s) | 27 |
| Tru1I | TTAA | 3 cut(s) | 188, 213, 300 |
| Tru9I | TTAA | 3 cut(s) | 188, 213, 300 |
| TscAI | CASTG | 1 cut(s) | 90 |
| TseFI | GTSAC | 1 cut(s) | 206 |
| TseI | GCWGC | 1 cut(s) | 177 |
| Tsp45I | GTSAC | 1 cut(s) | 206 |
| TspDTI | ATGAA | 3 cut(s) | 17, 69, 303 |
| TspMI | CCCGGG | 1 cut(s) | 226 |
| TspRI | CASTG | 1 cut(s) | 90 |
| XmaI | CCCGGG | 1 cut(s) | 226 |