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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AciI | CCGC | 1 cut(s) | 129 |
| AcsI | RAATTY | 4 cut(s) | 167, 259, 293, 351 |
| AcuI | CTGAAG | 1 cut(s) | 66 |
| AgsI | TTSAA | 2 cut(s) | 356, 375 |
| ApoI | RAATTY | 4 cut(s) | 167, 259, 293, 351 |
| ArsI | GACNNNNNNTTYG | 2 cut(s) | 266, 298 |
| Asp700I | GAANNNNTTC | 1 cut(s) | 90 |
| AspS9I | GGNCC | 1 cut(s) | 70 |
| AvaII | GGWCC | 1 cut(s) | 70 |
| BbsI | GAAGAC | 1 cut(s) | 120 |
| BccI | CCATC | 2 cut(s) | 50, 242 |
| BfaI | CTAG | 1 cut(s) | 96 |
| BglII | AGATCT | 1 cut(s) | 382 |
| BisI | GCNGC | 1 cut(s) | 129 |
| BlsI | GCNGC | 1 cut(s) | 130 |
| Bme18I | GGWCC | 1 cut(s) | 70 |
| BmgT120I | GGNCC | 1 cut(s) | 70 |
| BpiI | GAAGAC | 1 cut(s) | 120 |
| BsmI | GAATGC | 1 cut(s) | 194 |
| Bsp143I | GATC | 1 cut(s) | 382 |
| BspACI | CCGC | 1 cut(s) | 129 |
| BssMI | GATC | 1 cut(s) | 382 |
| Bst6I | CTCTTC | 1 cut(s) | 281 |
| BstKTI | GATC | 1 cut(s) | 385 |
| BstMBI | GATC | 1 cut(s) | 382 |
| BstV2I | GAAGAC | 1 cut(s) | 120 |
| BstX2I | RGATCY | 1 cut(s) | 382 |
| BstYI | RGATCY | 1 cut(s) | 382 |
| Cfr13I | GGNCC | 1 cut(s) | 70 |
| CviJI | RGCY | 1 cut(s) | 128 |
| CviKI_1 | RGCY | 1 cut(s) | 128 |
| DpnI | GATC | 1 cut(s) | 384 |
| DpnII | GATC | 1 cut(s) | 382 |
| Eam1104I | CTCTTC | 1 cut(s) | 281 |
| EarI | CTCTTC | 1 cut(s) | 281 |
| Eco47I | GGWCC | 1 cut(s) | 70 |
| Eco57I | CTGAAG | 1 cut(s) | 66 |
| EcoRI | GAATTC | 1 cut(s) | 351 |
| EcoT22I | ATGCAT | 2 cut(s) | 196, 207 |
| FaiI | YATR | 7 cut(s) | 14, 27, 36, 165, 203, 207, 299 |
| Fnu4HI | GCNGC | 1 cut(s) | 129 |
| Fsp4HI | GCNGC | 1 cut(s) | 129 |
| FspBI | CTAG | 1 cut(s) | 96 |
| GluI | GCNGC | 1 cut(s) | 129 |
| HinfI | GANTC | 1 cut(s) | 41 |
| Hpy188I | TCNGA | 2 cut(s) | 46, 387 |
| HpyCH4V | TGCA | 2 cut(s) | 194, 205 |
| Kzo9I | GATC | 1 cut(s) | 382 |
| MaeI | CTAG | 1 cut(s) | 96 |
| MaeIII | GTNAC | 1 cut(s) | 232 |
| MalI | GATC | 1 cut(s) | 384 |
| MboI | GATC | 1 cut(s) | 382 |
| MboII | GAAGA | 5 cut(s) | 50, 91, 125, 298, 360 |
| MflI | RGATCY | 1 cut(s) | 382 |
| MluCI | AATT | 8 cut(s) | 86, 100, 167, 218, 259, 293, 351, 356 |
| MmeI | TCCRAC | 1 cut(s) | 163 |
| MnlI | CCTC | 1 cut(s) | 61 |
| Mph1103I | ATGCAT | 2 cut(s) | 196, 207 |
| MroXI | GAANNNNTTC | 1 cut(s) | 90 |
| MseI | TTAA | 5 cut(s) | 189, 225, 278, 311, 366 |
| Mva1269I | GAATGC | 1 cut(s) | 194 |
| NdeII | GATC | 1 cut(s) | 382 |
| NmuCI | GTSAC | 1 cut(s) | 232 |
| NsiI | ATGCAT | 2 cut(s) | 196, 207 |
| PctI | GAATGC | 1 cut(s) | 194 |
| PdmI | GAANNNNTTC | 1 cut(s) | 90 |
| PfeI | GAWTC | 1 cut(s) | 41 |
| PkrI | GCNGC | 1 cut(s) | 130 |
| PspPI | GGNCC | 1 cut(s) | 70 |
| PsuI | RGATCY | 1 cut(s) | 382 |
| SaqAI | TTAA | 5 cut(s) | 189, 225, 278, 311, 366 |
| SatI | GCNGC | 1 cut(s) | 129 |
| Sau3AI | GATC | 1 cut(s) | 382 |
| Sau96I | GGNCC | 1 cut(s) | 70 |
| SetI | ASST | 2 cut(s) | 311, 373 |
| SgeI | CNNG | 6 cut(s) | 108, 148, 242, 265, 318, 374 |
| SinI | GGWCC | 1 cut(s) | 70 |
| Sse9I | AATT | 8 cut(s) | 86, 100, 167, 218, 259, 293, 351, 356 |
| SsiI | CCGC | 1 cut(s) | 129 |
| SspI | AATATT | 1 cut(s) | 144 |
| SspMI | CTAG | 1 cut(s) | 96 |
| TaqI | TCGA | 1 cut(s) | 284 |
| TasI | AATT | 8 cut(s) | 86, 100, 167, 218, 259, 293, 351, 356 |
| TauI | GCSGC | 1 cut(s) | 131 |
| TfiI | GAWTC | 1 cut(s) | 41 |
| Tru1I | TTAA | 5 cut(s) | 189, 225, 278, 311, 366 |
| Tru9I | TTAA | 5 cut(s) | 189, 225, 278, 311, 366 |
| TseFI | GTSAC | 1 cut(s) | 232 |
| Tsp45I | GTSAC | 1 cut(s) | 232 |
| TspDTI | ATGAA | 4 cut(s) | 51, 99, 126, 187 |
| VpaK11BI | GGWCC | 1 cut(s) | 70 |
| XapI | RAATTY | 4 cut(s) | 167, 259, 293, 351 |
| XmnI | GAANNNNTTC | 1 cut(s) | 90 |
| XspI | CTAG | 1 cut(s) | 96 |
| Zsp2I | ATGCAT | 2 cut(s) | 196, 207 |