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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AcoI | YGGCCR | 1 cut(s) | 98 |
| AgsI | TTSAA | 1 cut(s) | 11 |
| AluBI | AGCT | 2 cut(s) | 46, 215 |
| AluI | AGCT | 2 cut(s) | 46, 215 |
| AoxI | GGCC | 1 cut(s) | 98 |
| ApeKI | GCWGC | 2 cut(s) | 212, 215 |
| AsuHPI | GGTGA | 4 cut(s) | 68, 148, 191, 268 |
| BalI | TGGCCA | 1 cut(s) | 100 |
| BarI | GAAGNNNNNNTAC | 2 cut(s) | 72, 104 |
| BbvI | GCAGC | 2 cut(s) | 202, 224 |
| BccI | CCATC | 8 cut(s) | 16, 28, 47, 113, 133, 176, 185, 340 |
| BciVI | GTATCC | 1 cut(s) | 331 |
| BfuI | GTATCC | 1 cut(s) | 331 |
| BisI | GCNGC | 2 cut(s) | 213, 216 |
| BlsI | GCNGC | 2 cut(s) | 214, 217 |
| BmsI | GCATC | 1 cut(s) | 310 |
| BsaXI | ACNNNNNCTCC | 8 cut(s) | 114, 134, 144, 164, 180, 210, 294, 324 |
| BseGI | GGATG | 3 cut(s) | 39, 43, 325 |
| BseRI | GAGGAG | 3 cut(s) | 138, 201, 222 |
| BseXI | GCAGC | 2 cut(s) | 202, 224 |
| BshFI | GGCC | 1 cut(s) | 100 |
| BsnI | GGCC | 1 cut(s) | 100 |
| Bsp143I | GATC | 1 cut(s) | 3 |
| BspANI | GGCC | 1 cut(s) | 100 |
| BssMI | GATC | 1 cut(s) | 3 |
| Bst6I | CTCTTC | 2 cut(s) | 197, 246 |
| BstEII | GGTNACC | 1 cut(s) | 274 |
| BstF5I | GGATG | 3 cut(s) | 39, 43, 325 |
| BstKTI | GATC | 1 cut(s) | 6 |
| BstMBI | GATC | 1 cut(s) | 3 |
| BstPI | GGTNACC | 1 cut(s) | 274 |
| BstV1I | GCAGC | 2 cut(s) | 202, 224 |
| BsuI | GTATCC | 1 cut(s) | 331 |
| BsuRI | GGCC | 1 cut(s) | 100 |
| BtsCI | GGATG | 3 cut(s) | 39, 43, 325 |
| CviAII | CATG | 2 cut(s) | 233, 242 |
| CviJI | RGCY | 3 cut(s) | 46, 100, 215 |
| CviKI_1 | RGCY | 3 cut(s) | 46, 100, 215 |
| DpnI | GATC | 1 cut(s) | 5 |
| DpnII | GATC | 1 cut(s) | 3 |
| EaeI | YGGCCR | 1 cut(s) | 98 |
| Eam1104I | CTCTTC | 2 cut(s) | 197, 246 |
| EarI | CTCTTC | 2 cut(s) | 197, 246 |
| Eco91I | GGTNACC | 1 cut(s) | 274 |
| EcoO65I | GGTNACC | 1 cut(s) | 274 |
| FaeI | CATG | 2 cut(s) | 236, 245 |
| FaiI | YATR | 6 cut(s) | 86, 162, 234, 243, 315, 344 |
| FatI | CATG | 2 cut(s) | 232, 241 |
| Fnu4HI | GCNGC | 2 cut(s) | 213, 216 |
| FokI | GGATG | 3 cut(s) | 46, 50, 332 |
| Fsp4HI | GCNGC | 2 cut(s) | 213, 216 |
| GluI | GCNGC | 2 cut(s) | 213, 216 |
| HaeIII | GGCC | 1 cut(s) | 100 |
| Hin1II | CATG | 2 cut(s) | 236, 245 |
| HindIII | AAGCTT | 1 cut(s) | 44 |
| HphI | GGTGA | 4 cut(s) | 68, 148, 191, 268 |
| Hpy188III | TCNNGA | 1 cut(s) | 50 |
| HpyCH4V | TGCA | 2 cut(s) | 232, 313 |
| Hsp92II | CATG | 2 cut(s) | 236, 245 |
| Kzo9I | GATC | 1 cut(s) | 3 |
| LmnI | GCTCC | 1 cut(s) | 209 |
| Lsp1109I | GCAGC | 2 cut(s) | 202, 224 |
| LweI | GCATC | 1 cut(s) | 310 |
| MaeIII | GTNAC | 2 cut(s) | 274, 289 |
| MalI | GATC | 1 cut(s) | 5 |
| MboI | GATC | 1 cut(s) | 3 |
| MboII | GAAGA | 3 cut(s) | 92, 214, 263 |
| MlsI | TGGCCA | 1 cut(s) | 100 |
| MluCI | AATT | 1 cut(s) | 166 |
| MluNI | TGGCCA | 1 cut(s) | 100 |
| MnlI | CCTC | 4 cut(s) | 116, 127, 179, 200 |
| Mox20I | TGGCCA | 1 cut(s) | 100 |
| MscI | TGGCCA | 1 cut(s) | 100 |
| MslI | CAYNNNNRTG | 2 cut(s) | 246, 318 |
| Msp20I | TGGCCA | 1 cut(s) | 100 |
| MspA1I | CMGCKG | 1 cut(s) | 215 |
| NdeII | GATC | 1 cut(s) | 3 |
| NlaIII | CATG | 2 cut(s) | 236, 245 |
| NmuCI | GTSAC | 2 cut(s) | 274, 289 |
| PkrI | GCNGC | 2 cut(s) | 214, 217 |
| PspEI | GGTNACC | 1 cut(s) | 274 |
| PvuII | CAGCTG | 1 cut(s) | 215 |
| RseI | CAYNNNNRTG | 2 cut(s) | 246, 318 |
| SatI | GCNGC | 2 cut(s) | 213, 216 |
| Sau3AI | GATC | 1 cut(s) | 3 |
| SetI | ASST | 4 cut(s) | 48, 138, 217, 312 |
| SfaNI | GCATC | 1 cut(s) | 310 |
| SgeI | CNNG | 5 cut(s) | 20, 31, 62, 245, 254 |
| SmiMI | CAYNNNNRTG | 2 cut(s) | 246, 318 |
| Sse9I | AATT | 1 cut(s) | 166 |
| SspI | AATATT | 1 cut(s) | 14 |
| TasI | AATT | 1 cut(s) | 166 |
| TseFI | GTSAC | 2 cut(s) | 274, 289 |
| TseI | GCWGC | 2 cut(s) | 212, 215 |
| Tsp45I | GTSAC | 2 cut(s) | 274, 289 |
| TspDTI | ATGAA | 4 cut(s) | 78, 93, 258, 264 |