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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AcoI | YGGCCR | 2 cut(s) | 76, 304 |
| AfiI | CCNNNNNNNGG | 1 cut(s) | 172 |
| AgsI | TTSAA | 1 cut(s) | 181 |
| AjnI | CCWGG | 2 cut(s) | 301, 306 |
| AleI | CACNNNNGTG | 2 cut(s) | 231, 241 |
| AluBI | AGCT | 3 cut(s) | 95, 266, 278 |
| AluI | AGCT | 3 cut(s) | 95, 266, 278 |
| Alw21I | GWGCWC | 2 cut(s) | 238, 268 |
| Alw44I | GTGCAC | 1 cut(s) | 234 |
| AoxI | GGCC | 3 cut(s) | 15, 76, 304 |
| ApaLI | GTGCAC | 1 cut(s) | 234 |
| AspS9I | GGNCC | 1 cut(s) | 15 |
| AsuHPI | GGTGA | 1 cut(s) | 34 |
| BaeGI | GKGCMC | 1 cut(s) | 238 |
| BalI | TGGCCA | 1 cut(s) | 306 |
| BanII | GRGCYC | 1 cut(s) | 268 |
| Bbv12I | GWGCWC | 2 cut(s) | 238, 268 |
| BccI | CCATC | 3 cut(s) | 29, 53, 87 |
| BceAI | ACGGC | 1 cut(s) | 163 |
| BciT130I | CCWGG | 2 cut(s) | 303, 308 |
| BclI | TGATCA | 1 cut(s) | 223 |
| BfaI | CTAG | 2 cut(s) | 275, 317 |
| BglII | AGATCT | 1 cut(s) | 67 |
| Bme1390I | CCNGG | 2 cut(s) | 303, 308 |
| BmgT120I | GGNCC | 1 cut(s) | 15 |
| BmrFI | CCNGG | 2 cut(s) | 303, 308 |
| BmsI | GCATC | 1 cut(s) | 183 |
| Bsc4I | CCNNNNNNNGG | 1 cut(s) | 172 |
| Bse1I | ACTGG | 1 cut(s) | 235 |
| BseBI | CCWGG | 2 cut(s) | 303, 308 |
| BseGI | GGATG | 4 cut(s) | 40, 45, 79, 115 |
| BseLI | CCNNNNNNNGG | 1 cut(s) | 172 |
| BseNI | ACTGG | 1 cut(s) | 235 |
| BseSI | GKGCMC | 1 cut(s) | 238 |
| BshFI | GGCC | 3 cut(s) | 17, 78, 306 |
| BsiHKAI | GWGCWC | 2 cut(s) | 238, 268 |
| BslI | CCNNNNNNNGG | 1 cut(s) | 172 |
| BsnI | GGCC | 3 cut(s) | 17, 78, 306 |
| Bsp1286I | GDGCHC | 2 cut(s) | 238, 268 |
| Bsp143I | GATC | 4 cut(s) | 67, 159, 204, 223 |
| BspANI | GGCC | 3 cut(s) | 17, 78, 306 |
| BsrI | ACTGG | 1 cut(s) | 235 |
| BssMI | GATC | 4 cut(s) | 67, 159, 204, 223 |
| Bst2UI | CCWGG | 2 cut(s) | 303, 308 |
| BstDEI | CTNAG | 1 cut(s) | 331 |
| BstENI | CCTNNNNNAGG | 1 cut(s) | 170 |
| BstF5I | GGATG | 4 cut(s) | 40, 45, 79, 115 |
| BstKTI | GATC | 4 cut(s) | 70, 162, 207, 226 |
| BstMBI | GATC | 4 cut(s) | 67, 159, 204, 223 |
| BstNI | CCWGG | 2 cut(s) | 303, 308 |
| BstSCI | CCNGG | 2 cut(s) | 301, 306 |
| BstSLI | GKGCMC | 1 cut(s) | 238 |
| BstX2I | RGATCY | 1 cut(s) | 67 |
| BstYI | RGATCY | 1 cut(s) | 67 |
| BsuRI | GGCC | 3 cut(s) | 17, 78, 306 |
| BtsCI | GGATG | 4 cut(s) | 40, 45, 79, 115 |
| BtsIMutI | CAGTG | 1 cut(s) | 228 |
| Cfr13I | GGNCC | 1 cut(s) | 15 |
| CviAII | CATG | 1 cut(s) | 121 |
| CviJI | RGCY | 8 cut(s) | 17, 78, 95, 150, 266, 278, 301, 306 |
| CviKI_1 | RGCY | 8 cut(s) | 17, 78, 95, 150, 266, 278, 301, 306 |
| DdeI | CTNAG | 1 cut(s) | 331 |
| DpnI | GATC | 4 cut(s) | 69, 161, 206, 225 |
| DpnII | GATC | 4 cut(s) | 67, 159, 204, 223 |
| EaeI | YGGCCR | 2 cut(s) | 76, 304 |
| Ecl136II | GAGCTC | 1 cut(s) | 266 |
| Eco24I | GRGCYC | 1 cut(s) | 268 |
| Eco32I | GATATC | 1 cut(s) | 141 |
| Eco53kI | GAGCTC | 1 cut(s) | 266 |
| EcoICRI | GAGCTC | 1 cut(s) | 266 |
| EcoNI | CCTNNNNNAGG | 1 cut(s) | 170 |
| EcoRII | CCWGG | 2 cut(s) | 301, 306 |
| EcoRV | GATATC | 1 cut(s) | 141 |
| EcoT38I | GRGCYC | 1 cut(s) | 268 |
| FaeI | CATG | 1 cut(s) | 124 |
| FaiI | YATR | 6 cut(s) | 117, 122, 131, 215, 288, 327 |
| FatI | CATG | 1 cut(s) | 120 |
| FbaI | TGATCA | 1 cut(s) | 223 |
| FokI | GGATG | 4 cut(s) | 32, 47, 66, 122 |
| FriOI | GRGCYC | 1 cut(s) | 268 |
| FspBI | CTAG | 2 cut(s) | 275, 317 |
| HaeIII | GGCC | 3 cut(s) | 17, 78, 306 |
| Hin1II | CATG | 1 cut(s) | 124 |
| HphI | GGTGA | 1 cut(s) | 34 |
| Hpy166II | GTNNAC | 2 cut(s) | 42, 236 |
| Hpy8I | GTNNAC | 2 cut(s) | 42, 236 |
| HpyAV | CCTTC | 3 cut(s) | 82, 127, 220 |
| HpyCH4V | TGCA | 1 cut(s) | 236 |
| HpyF3I | CTNAG | 1 cut(s) | 331 |
| Hsp92II | CATG | 1 cut(s) | 124 |
| Ksp22I | TGATCA | 1 cut(s) | 223 |
| Kzo9I | GATC | 4 cut(s) | 67, 159, 204, 223 |
| LpnPI | CCDG | 9 cut(s) | 158, 182, 216, 234, 288, 293, 315, 318, 320 |
| LweI | GCATC | 1 cut(s) | 183 |
| MaeI | CTAG | 2 cut(s) | 275, 317 |
| MalI | GATC | 4 cut(s) | 69, 161, 206, 225 |
| MboI | GATC | 4 cut(s) | 67, 159, 204, 223 |
| MboII | GAAGA | 2 cut(s) | 77, 193 |
| MflI | RGATCY | 1 cut(s) | 67 |
| MhlI | GDGCHC | 2 cut(s) | 238, 268 |
| MlsI | TGGCCA | 1 cut(s) | 306 |
| MluNI | TGGCCA | 1 cut(s) | 306 |
| MmeI | TCCRAC | 1 cut(s) | 278 |
| MnlI | CCTC | 2 cut(s) | 99, 176 |
| Mox20I | TGGCCA | 1 cut(s) | 306 |
| MscI | TGGCCA | 1 cut(s) | 306 |
| MseI | TTAA | 1 cut(s) | 29 |
| MslI | CAYNNNNRTG | 2 cut(s) | 231, 241 |
| Msp20I | TGGCCA | 1 cut(s) | 306 |
| MspR9I | CCNGG | 2 cut(s) | 303, 308 |
| MvaI | CCWGG | 2 cut(s) | 303, 308 |
| NdeII | GATC | 4 cut(s) | 67, 159, 204, 223 |
| NlaIII | CATG | 1 cut(s) | 124 |
| OliI | CACNNNNGTG | 2 cut(s) | 231, 241 |
| Psp124BI | GAGCTC | 1 cut(s) | 268 |
| Psp6I | CCWGG | 2 cut(s) | 301, 306 |
| PspGI | CCWGG | 2 cut(s) | 301, 306 |
| PspPI | GGNCC | 1 cut(s) | 15 |
| PsuI | RGATCY | 1 cut(s) | 67 |
| RseI | CAYNNNNRTG | 2 cut(s) | 231, 241 |
| SacI | GAGCTC | 1 cut(s) | 268 |
| SaqAI | TTAA | 1 cut(s) | 29 |
| Sau3AI | GATC | 4 cut(s) | 67, 159, 204, 223 |
| Sau96I | GGNCC | 1 cut(s) | 15 |
| ScrFI | CCNGG | 2 cut(s) | 303, 308 |
| SduI | GDGCHC | 2 cut(s) | 238, 268 |
| SetI | ASST | 7 cut(s) | 93, 97, 168, 177, 268, 280, 312 |
| SfaNI | GCATC | 1 cut(s) | 183 |
| SmiMI | CAYNNNNRTG | 2 cut(s) | 231, 241 |
| SspMI | CTAG | 2 cut(s) | 275, 317 |
| SstI | GAGCTC | 1 cut(s) | 268 |
| StyD4I | CCNGG | 2 cut(s) | 301, 306 |
| TaqI | TCGA | 1 cut(s) | 143 |
| Tru1I | TTAA | 1 cut(s) | 29 |
| Tru9I | TTAA | 1 cut(s) | 29 |
| TscAI | CASTG | 1 cut(s) | 235 |
| TspDTI | ATGAA | 2 cut(s) | 146, 202 |
| TspRI | CASTG | 1 cut(s) | 235 |
| VneI | GTGCAC | 1 cut(s) | 234 |
| XagI | CCTNNNNNAGG | 1 cut(s) | 170 |
| XspI | CTAG | 2 cut(s) | 275, 317 |