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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AclI | AACGTT | 1 cut(s) | 624 |
| AgsI | TTSAA | 2 cut(s) | 335, 638 |
| AluBI | AGCT | 1 cut(s) | 365 |
| AluI | AGCT | 1 cut(s) | 365 |
| AoxI | GGCC | 1 cut(s) | 25 |
| AspS9I | GGNCC | 1 cut(s) | 25 |
| AsuHPI | GGTGA | 2 cut(s) | 426, 568 |
| BccI | CCATC | 2 cut(s) | 132, 382 |
| BfaI | CTAG | 3 cut(s) | 29, 68, 362 |
| BmgT120I | GGNCC | 1 cut(s) | 25 |
| BmsI | GCATC | 1 cut(s) | 116 |
| Bpu10I | CCTNAGC | 1 cut(s) | 86 |
| BsaXI | ACNNNNNCTCC | 2 cut(s) | 430, 460 |
| Bse3DI | GCAATG | 3 cut(s) | 168, 276, 318 |
| BseGI | GGATG | 2 cut(s) | 385, 561 |
| BseMI | GCAATG | 3 cut(s) | 168, 276, 318 |
| BseRI | GAGGAG | 1 cut(s) | 548 |
| BshFI | GGCC | 1 cut(s) | 27 |
| BsmI | GAATGC | 3 cut(s) | 97, 343, 473 |
| BsnI | GGCC | 1 cut(s) | 27 |
| BspANI | GGCC | 1 cut(s) | 27 |
| BsrDI | GCAATG | 3 cut(s) | 168, 276, 318 |
| Bst6I | CTCTTC | 2 cut(s) | 601, 606 |
| BstDEI | CTNAG | 2 cut(s) | 86, 580 |
| BstF5I | GGATG | 2 cut(s) | 385, 561 |
| BstNSI | RCATGY | 9 cut(s) | 97, 107, 153, 195, 237, 261, 303, 343, 395 |
| BsuRI | GGCC | 1 cut(s) | 27 |
| BtsCI | GGATG | 2 cut(s) | 385, 561 |
| Cfr13I | GGNCC | 1 cut(s) | 25 |
| CviJI | RGCY | 6 cut(s) | 27, 32, 54, 71, 90, 365 |
| CviKI_1 | RGCY | 6 cut(s) | 27, 32, 54, 71, 90, 365 |
| DdeI | CTNAG | 2 cut(s) | 86, 580 |
| Eam1104I | CTCTTC | 2 cut(s) | 601, 606 |
| EarI | CTCTTC | 2 cut(s) | 601, 606 |
| EcoO109I | RGGNCCY | 1 cut(s) | 25 |
| EcoT22I | ATGCAT | 4 cut(s) | 99, 109, 345, 475 |
| FokI | GGATG | 2 cut(s) | 372, 548 |
| FspBI | CTAG | 3 cut(s) | 29, 68, 362 |
| HaeIII | GGCC | 1 cut(s) | 27 |
| HphI | GGTGA | 2 cut(s) | 426, 568 |
| Hpy188III | TCNNGA | 1 cut(s) | 128 |
| HpyAV | CCTTC | 1 cut(s) | 539 |
| HpyCH4IV | ACGT | 1 cut(s) | 624 |
| HpyF3I | CTNAG | 2 cut(s) | 86, 580 |
| HpySE526I | ACGT | 1 cut(s) | 624 |
| LweI | GCATC | 1 cut(s) | 116 |
| MaeI | CTAG | 3 cut(s) | 29, 68, 362 |
| MaeII | ACGT | 1 cut(s) | 624 |
| MboII | GAAGA | 3 cut(s) | 615, 618, 623 |
| MluCI | AATT | 2 cut(s) | 330, 633 |
| MmeI | TCCRAC | 2 cut(s) | 565, 574 |
| MnlI | CCTC | 2 cut(s) | 75, 569 |
| Mph1103I | ATGCAT | 4 cut(s) | 99, 109, 345, 475 |
| MseI | TTAA | 1 cut(s) | 426 |
| MslI | CAYNNNNRTG | 7 cut(s) | 102, 148, 190, 232, 256, 298, 390 |
| Mva1269I | GAATGC | 3 cut(s) | 97, 343, 473 |
| NsiI | ATGCAT | 4 cut(s) | 99, 109, 345, 475 |
| NspI | RCATGY | 9 cut(s) | 97, 107, 153, 195, 237, 261, 303, 343, 395 |
| PctI | GAATGC | 3 cut(s) | 97, 343, 473 |
| Psp1406I | AACGTT | 1 cut(s) | 624 |
| PspPI | GGNCC | 1 cut(s) | 25 |
| RseI | CAYNNNNRTG | 7 cut(s) | 102, 148, 190, 232, 256, 298, 390 |
| SaqAI | TTAA | 1 cut(s) | 426 |
| Sau96I | GGNCC | 1 cut(s) | 25 |
| SetI | ASST | 6 cut(s) | 67, 363, 367, 581, 588, 627 |
| SfaNI | GCATC | 1 cut(s) | 116 |
| SmiMI | CAYNNNNRTG | 7 cut(s) | 102, 148, 190, 232, 256, 298, 390 |
| Sse9I | AATT | 2 cut(s) | 330, 633 |
| SspMI | CTAG | 3 cut(s) | 29, 68, 362 |
| TaiI | ACGT | 1 cut(s) | 627 |
| TasI | AATT | 2 cut(s) | 330, 633 |
| Tru1I | TTAA | 1 cut(s) | 426 |
| Tru9I | TTAA | 1 cut(s) | 426 |
| TspDTI | ATGAA | 9 cut(s) | 154, 196, 262, 304, 374, 466, 493, 521, 617 |
| XceI | RCATGY | 9 cut(s) | 97, 107, 153, 195, 237, 261, 303, 343, 395 |
| XspI | CTAG | 3 cut(s) | 29, 68, 362 |
| Zsp2I | ATGCAT | 4 cut(s) | 99, 109, 345, 475 |