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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AciI | CCGC | 2 cut(s) | 114, 150 |
| AfaI | GTAC | 1 cut(s) | 8 |
| AluBI | AGCT | 1 cut(s) | 68 |
| AluI | AGCT | 1 cut(s) | 68 |
| Alw26I | GTCTC | 2 cut(s) | 67, 80 |
| AspS9I | GGNCC | 1 cut(s) | 437 |
| AvaII | GGWCC | 1 cut(s) | 437 |
| BbvCI | CCTCAGC | 1 cut(s) | 57 |
| BccI | CCATC | 1 cut(s) | 101 |
| BceAI | ACGGC | 2 cut(s) | 23, 163 |
| BciVI | GTATCC | 3 cut(s) | 167, 221, 296 |
| BcoDI | GTCTC | 2 cut(s) | 67, 80 |
| BfaI | CTAG | 1 cut(s) | 454 |
| BfuI | GTATCC | 3 cut(s) | 167, 221, 296 |
| Bme18I | GGWCC | 1 cut(s) | 437 |
| BmgT120I | GGNCC | 1 cut(s) | 437 |
| BmiI | GGNNCC | 1 cut(s) | 439 |
| Bpu10I | CCTNAGC | 1 cut(s) | 57 |
| BsaI | GGTCTC | 1 cut(s) | 67 |
| BsaXI | ACNNNNNCTCC | 2 cut(s) | 79, 109 |
| Bse3DI | GCAATG | 3 cut(s) | 142, 196, 376 |
| BseMI | GCAATG | 3 cut(s) | 142, 196, 376 |
| BseMII | CTCAG | 3 cut(s) | 48, 75, 78 |
| BseRI | GAGGAG | 9 cut(s) | 35, 144, 195, 219, 249, 294, 324, 369, 390 |
| BsmAI | GTCTC | 2 cut(s) | 67, 80 |
| Bso31I | GGTCTC | 1 cut(s) | 67 |
| BspACI | CCGC | 2 cut(s) | 114, 150 |
| BspCNI | CTCAG | 3 cut(s) | 49, 76, 77 |
| BspLI | GGNNCC | 1 cut(s) | 439 |
| BspTNI | GGTCTC | 1 cut(s) | 67 |
| BsrDI | GCAATG | 3 cut(s) | 142, 196, 376 |
| BstDEI | CTNAG | 3 cut(s) | 57, 64, 84 |
| BstMAI | GTCTC | 2 cut(s) | 67, 80 |
| BstMWI | GCNNNNNNNGC | 1 cut(s) | 366 |
| BsuI | GTATCC | 3 cut(s) | 167, 221, 296 |
| BtsI | GCAGTG | 1 cut(s) | 51 |
| BtsIMutI | CAGTG | 1 cut(s) | 51 |
| Cfr13I | GGNCC | 1 cut(s) | 437 |
| Csp6I | GTAC | 1 cut(s) | 7 |
| CviAII | CATG | 1 cut(s) | 434 |
| CviJI | RGCY | 1 cut(s) | 68 |
| CviKI_1 | RGCY | 1 cut(s) | 68 |
| CviQI | GTAC | 1 cut(s) | 7 |
| DdeI | CTNAG | 3 cut(s) | 57, 64, 84 |
| EciI | GGCGGA | 1 cut(s) | 165 |
| Eco31I | GGTCTC | 1 cut(s) | 67 |
| Eco47I | GGWCC | 1 cut(s) | 437 |
| FaeI | CATG | 1 cut(s) | 437 |
| FaiI | YATR | 2 cut(s) | 121, 435 |
| FatI | CATG | 1 cut(s) | 433 |
| FauI | CCCGC | 1 cut(s) | 107 |
| FspBI | CTAG | 1 cut(s) | 454 |
| Hin1II | CATG | 1 cut(s) | 437 |
| Hpy188III | TCNNGA | 1 cut(s) | 74 |
| HpyF10VI | GCNNNNNNNGC | 1 cut(s) | 366 |
| HpyF3I | CTNAG | 3 cut(s) | 57, 64, 84 |
| Hsp92II | CATG | 1 cut(s) | 437 |
| MaeI | CTAG | 1 cut(s) | 454 |
| MaeIII | GTNAC | 1 cut(s) | 74 |
| MboII | GAAGA | 1 cut(s) | 14 |
| MmeI | TCCRAC | 1 cut(s) | 122 |
| MwoI | GCNNNNNNNGC | 1 cut(s) | 366 |
| NlaIII | CATG | 1 cut(s) | 437 |
| NlaIV | GGNNCC | 1 cut(s) | 439 |
| NmuCI | GTSAC | 1 cut(s) | 74 |
| PspN4I | GGNNCC | 1 cut(s) | 439 |
| PspPI | GGNCC | 1 cut(s) | 437 |
| RsaI | GTAC | 1 cut(s) | 8 |
| RsaNI | GTAC | 1 cut(s) | 7 |
| Sau96I | GGNCC | 1 cut(s) | 437 |
| SetI | ASST | 5 cut(s) | 63, 70, 81, 262, 337 |
| SgeI | CNNG | 9 cut(s) | 38, 86, 127, 169, 223, 298, 373, 394, 446 |
| SinI | GGWCC | 1 cut(s) | 437 |
| SsiI | CCGC | 2 cut(s) | 114, 150 |
| SspMI | CTAG | 1 cut(s) | 454 |
| TscAI | CASTG | 1 cut(s) | 58 |
| TseFI | GTSAC | 1 cut(s) | 74 |
| Tsp45I | GTSAC | 1 cut(s) | 74 |
| TspGWI | ACGGA | 9 cut(s) | 183, 192, 216, 246, 270, 291, 321, 345, 366 |
| TspRI | CASTG | 1 cut(s) | 58 |
| VpaK11BI | GGWCC | 1 cut(s) | 437 |
| XspI | CTAG | 1 cut(s) | 454 |