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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AccII | CGCG | 1 cut(s) | 338 |
| AciI | CCGC | 2 cut(s) | 284, 336 |
| AcoI | YGGCCR | 2 cut(s) | 61, 121 |
| AfaI | GTAC | 2 cut(s) | 117, 280 |
| AfiI | CCNNNNNNNGG | 7 cut(s) | 59, 94, 192, 232, 259, 283, 349 |
| AgsI | TTSAA | 1 cut(s) | 362 |
| AluBI | AGCT | 2 cut(s) | 133, 304 |
| AluI | AGCT | 2 cut(s) | 133, 304 |
| Alw26I | GTCTC | 2 cut(s) | 365, 383 |
| AoxI | GGCC | 2 cut(s) | 61, 121 |
| Asp700I | GAANNNNTTC | 1 cut(s) | 178 |
| AspS9I | GGNCC | 1 cut(s) | 274 |
| AsuC2I | CCSGG | 1 cut(s) | 187 |
| AsuHPI | GGTGA | 2 cut(s) | 41, 234 |
| AvaII | GGWCC | 1 cut(s) | 274 |
| BanII | GRGCYC | 1 cut(s) | 344 |
| BccI | CCATC | 1 cut(s) | 65 |
| BceAI | ACGGC | 1 cut(s) | 297 |
| BcnI | CCSGG | 1 cut(s) | 187 |
| BcoDI | GTCTC | 2 cut(s) | 365, 383 |
| BfaI | CTAG | 2 cut(s) | 317, 326 |
| Bme1390I | CCNGG | 1 cut(s) | 187 |
| Bme18I | GGWCC | 1 cut(s) | 274 |
| BmgT120I | GGNCC | 1 cut(s) | 274 |
| BmrFI | CCNGG | 1 cut(s) | 187 |
| BmsI | GCATC | 1 cut(s) | 405 |
| BpuEI | CTTGAG | 1 cut(s) | 407 |
| BpuMI | CCSGG | 1 cut(s) | 187 |
| BsaI | GGTCTC | 1 cut(s) | 365 |
| BsaJI | CCNNGG | 2 cut(s) | 93, 270 |
| BsaXI | ACNNNNNCTCC | 4 cut(s) | 207, 234, 237, 264 |
| Bsc4I | CCNNNNNNNGG | 7 cut(s) | 59, 94, 192, 232, 259, 283, 349 |
| BseDI | CCNNGG | 2 cut(s) | 93, 270 |
| BseGI | GGATG | 1 cut(s) | 103 |
| BseLI | CCNNNNNNNGG | 7 cut(s) | 59, 94, 192, 232, 259, 283, 349 |
| BseRI | GAGGAG | 1 cut(s) | 239 |
| Bsh1236I | CGCG | 1 cut(s) | 338 |
| BshFI | GGCC | 2 cut(s) | 63, 123 |
| BsiSI | CCGG | 1 cut(s) | 187 |
| BsiWI | CGTACG | 1 cut(s) | 278 |
| BslFI | GGGAC | 1 cut(s) | 252 |
| BslI | CCNNNNNNNGG | 7 cut(s) | 59, 94, 192, 232, 259, 283, 349 |
| BsmAI | GTCTC | 2 cut(s) | 365, 383 |
| BsmBI | CGTCTC | 1 cut(s) | 383 |
| BsmFI | GGGAC | 1 cut(s) | 252 |
| BsnI | GGCC | 2 cut(s) | 63, 123 |
| Bso31I | GGTCTC | 1 cut(s) | 365 |
| Bsp1286I | GDGCHC | 1 cut(s) | 344 |
| Bsp143I | GATC | 1 cut(s) | 289 |
| BspACI | CCGC | 2 cut(s) | 284, 336 |
| BspANI | GGCC | 2 cut(s) | 63, 123 |
| BspFNI | CGCG | 1 cut(s) | 338 |
| BspQI | GCTCTTC | 2 cut(s) | 123, 203 |
| BspTNI | GGTCTC | 1 cut(s) | 365 |
| BssECI | CCNNGG | 2 cut(s) | 93, 270 |
| BssMI | GATC | 1 cut(s) | 289 |
| Bst4CI | ACNGT | 3 cut(s) | 278, 394, 402 |
| Bst6I | CTCTTC | 2 cut(s) | 123, 203 |
| BstC8I | GCNNGC | 2 cut(s) | 286, 340 |
| BstDEI | CTNAG | 2 cut(s) | 25, 79 |
| BstDSI | CCRYGG | 2 cut(s) | 93, 270 |
| BstF5I | GGATG | 1 cut(s) | 103 |
| BstFNI | CGCG | 1 cut(s) | 338 |
| BstKTI | GATC | 1 cut(s) | 292 |
| BstMAI | GTCTC | 2 cut(s) | 365, 383 |
| BstMBI | GATC | 1 cut(s) | 289 |
| BstSCI | CCNGG | 1 cut(s) | 185 |
| BstUI | CGCG | 1 cut(s) | 338 |
| BsuRI | GGCC | 2 cut(s) | 63, 123 |
| BtgI | CCRYGG | 2 cut(s) | 93, 270 |
| BtsCI | GGATG | 1 cut(s) | 103 |
| Cac8I | GCNNGC | 2 cut(s) | 286, 340 |
| Cfr13I | GGNCC | 1 cut(s) | 274 |
| CpoI | CGGWCCG | 1 cut(s) | 274 |
| Csp6I | GTAC | 2 cut(s) | 116, 279 |
| CspCI | CAANNNNNGTGG | 2 cut(s) | 82, 117 |
| CspI | CGGWCCG | 1 cut(s) | 274 |
| CviJI | RGCY | 6 cut(s) | 63, 123, 133, 196, 304, 342 |
| CviKI_1 | RGCY | 6 cut(s) | 63, 123, 133, 196, 304, 342 |
| CviQI | GTAC | 2 cut(s) | 116, 279 |
| DdeI | CTNAG | 2 cut(s) | 25, 79 |
| DpnI | GATC | 1 cut(s) | 291 |
| DpnII | GATC | 1 cut(s) | 289 |
| EaeI | YGGCCR | 2 cut(s) | 61, 121 |
| Eam1104I | CTCTTC | 2 cut(s) | 123, 203 |
| EarI | CTCTTC | 2 cut(s) | 123, 203 |
| Eco24I | GRGCYC | 1 cut(s) | 344 |
| Eco31I | GGTCTC | 1 cut(s) | 365 |
| Eco47I | GGWCC | 1 cut(s) | 274 |
| EcoT38I | GRGCYC | 1 cut(s) | 344 |
| Esp3I | CGTCTC | 1 cut(s) | 383 |
| FaiI | YATR | 2 cut(s) | 17, 136 |
| FaqI | GGGAC | 1 cut(s) | 252 |
| FauI | CCCGC | 1 cut(s) | 277 |
| FokI | GGATG | 1 cut(s) | 110 |
| FriOI | GRGCYC | 1 cut(s) | 344 |
| FspBI | CTAG | 2 cut(s) | 317, 326 |
| HaeIII | GGCC | 2 cut(s) | 63, 123 |
| HapII | CCGG | 1 cut(s) | 187 |
| HinfI | GANTC | 2 cut(s) | 40, 167 |
| HpaII | CCGG | 1 cut(s) | 187 |
| HphI | GGTGA | 2 cut(s) | 41, 234 |
| Hpy188I | TCNGA | 1 cut(s) | 235 |
| Hpy188III | TCNNGA | 3 cut(s) | 171, 317, 326 |
| HpyAV | CCTTC | 2 cut(s) | 99, 253 |
| HpyCH4III | ACNGT | 3 cut(s) | 278, 394, 402 |
| HpyCH4IV | ACGT | 1 cut(s) | 114 |
| HpyCH4V | TGCA | 1 cut(s) | 74 |
| HpyF3I | CTNAG | 2 cut(s) | 25, 79 |
| HpySE526I | ACGT | 1 cut(s) | 114 |
| Kzo9I | GATC | 1 cut(s) | 289 |
| LguI | GCTCTTC | 2 cut(s) | 123, 203 |
| LpnPI | CCDG | 1 cut(s) | 200 |
| LweI | GCATC | 1 cut(s) | 405 |
| MaeI | CTAG | 2 cut(s) | 317, 326 |
| MaeII | ACGT | 1 cut(s) | 114 |
| MaeIII | GTNAC | 1 cut(s) | 137 |
| MalI | GATC | 1 cut(s) | 291 |
| MboI | GATC | 1 cut(s) | 289 |
| MboII | GAAGA | 2 cut(s) | 140, 190 |
| MhlI | GDGCHC | 1 cut(s) | 344 |
| MluCI | AATT | 2 cut(s) | 69, 108 |
| MmeI | TCCRAC | 2 cut(s) | 170, 277 |
| MnlI | CCTC | 6 cut(s) | 97, 153, 233, 255, 260, 343 |
| MroXI | GAANNNNTTC | 1 cut(s) | 178 |
| MseI | TTAA | 1 cut(s) | 111 |
| MspI | CCGG | 1 cut(s) | 187 |
| MspR9I | CCNGG | 1 cut(s) | 187 |
| MvnI | CGCG | 1 cut(s) | 338 |
| NciI | CCSGG | 1 cut(s) | 187 |
| NdeII | GATC | 1 cut(s) | 289 |
| NmeAIII | GCCGAG | 1 cut(s) | 149 |
| PciSI | GCTCTTC | 2 cut(s) | 123, 203 |
| PdmI | GAANNNNTTC | 1 cut(s) | 178 |
| PfeI | GAWTC | 2 cut(s) | 40, 167 |
| Pfl23II | CGTACG | 1 cut(s) | 278 |
| PspLI | CGTACG | 1 cut(s) | 278 |
| PspPI | GGNCC | 1 cut(s) | 274 |
| RsaI | GTAC | 2 cut(s) | 117, 280 |
| RsaNI | GTAC | 2 cut(s) | 116, 279 |
| Rsr2I | CGGWCCG | 1 cut(s) | 274 |
| RsrII | CGGWCCG | 1 cut(s) | 274 |
| SapI | GCTCTTC | 2 cut(s) | 123, 203 |
| SaqAI | TTAA | 1 cut(s) | 111 |
| Sau3AI | GATC | 1 cut(s) | 289 |
| Sau96I | GGNCC | 1 cut(s) | 274 |
| ScrFI | CCNGG | 1 cut(s) | 187 |
| SduI | GDGCHC | 1 cut(s) | 344 |
| SetI | ASST | 6 cut(s) | 31, 55, 117, 135, 247, 306 |
| SfaNI | GCATC | 1 cut(s) | 405 |
| SinI | GGWCC | 1 cut(s) | 274 |
| SmlI | CTYRAG | 1 cut(s) | 386 |
| SmoI | CTYRAG | 1 cut(s) | 386 |
| Sse9I | AATT | 2 cut(s) | 69, 108 |
| SsiI | CCGC | 2 cut(s) | 284, 336 |
| SspMI | CTAG | 2 cut(s) | 317, 326 |
| StyD4I | CCNGG | 1 cut(s) | 185 |
| TaaI | ACNGT | 3 cut(s) | 278, 394, 402 |
| TaiI | ACGT | 1 cut(s) | 117 |
| TaqI | TCGA | 3 cut(s) | 172, 182, 212 |
| TasI | AATT | 2 cut(s) | 69, 108 |
| TfiI | GAWTC | 2 cut(s) | 40, 167 |
| Tru1I | TTAA | 1 cut(s) | 111 |
| Tru9I | TTAA | 1 cut(s) | 111 |
| TspDTI | ATGAA | 1 cut(s) | 299 |
| TspGWI | ACGGA | 2 cut(s) | 110, 287 |
| VpaK11BI | GGWCC | 1 cut(s) | 274 |
| XbaI | TCTAGA | 2 cut(s) | 316, 325 |
| XmnI | GAANNNNTTC | 1 cut(s) | 178 |
| XspI | CTAG | 2 cut(s) | 317, 326 |