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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AfaI | GTAC | 1 cut(s) | 369 |
| AluBI | AGCT | 1 cut(s) | 71 |
| AluI | AGCT | 1 cut(s) | 71 |
| Alw26I | GTCTC | 1 cut(s) | 106 |
| AoxI | GGCC | 1 cut(s) | 265 |
| ApeKI | GCWGC | 1 cut(s) | 314 |
| AsuHPI | GGTGA | 1 cut(s) | 38 |
| BbvI | GCAGC | 1 cut(s) | 326 |
| BccI | CCATC | 1 cut(s) | 236 |
| BcoDI | GTCTC | 1 cut(s) | 106 |
| BisI | GCNGC | 1 cut(s) | 315 |
| BlsI | GCNGC | 1 cut(s) | 316 |
| Bse1I | ACTGG | 1 cut(s) | 56 |
| Bse3DI | GCAATG | 1 cut(s) | 346 |
| BseGI | GGATG | 2 cut(s) | 163, 187 |
| BseMI | GCAATG | 1 cut(s) | 346 |
| BseNI | ACTGG | 1 cut(s) | 56 |
| BseRI | GAGGAG | 1 cut(s) | 167 |
| BseXI | GCAGC | 1 cut(s) | 326 |
| BsgI | GTGCAG | 2 cut(s) | 333, 370 |
| BshFI | GGCC | 1 cut(s) | 267 |
| BsiSI | CCGG | 1 cut(s) | 74 |
| BsmAI | GTCTC | 1 cut(s) | 106 |
| BsnI | GGCC | 1 cut(s) | 267 |
| BspANI | GGCC | 1 cut(s) | 267 |
| BsrDI | GCAATG | 1 cut(s) | 346 |
| BsrI | ACTGG | 1 cut(s) | 56 |
| Bst6I | CTCTTC | 3 cut(s) | 144, 210, 228 |
| BstDEI | CTNAG | 1 cut(s) | 80 |
| BstF5I | GGATG | 2 cut(s) | 163, 187 |
| BstMAI | GTCTC | 1 cut(s) | 106 |
| BstV1I | GCAGC | 1 cut(s) | 326 |
| BsuRI | GGCC | 1 cut(s) | 267 |
| BtsCI | GGATG | 2 cut(s) | 163, 187 |
| BtsIMutI | CAGTG | 1 cut(s) | 63 |
| Csp6I | GTAC | 1 cut(s) | 368 |
| CviJI | RGCY | 2 cut(s) | 71, 267 |
| CviKI_1 | RGCY | 2 cut(s) | 71, 267 |
| CviQI | GTAC | 1 cut(s) | 368 |
| DdeI | CTNAG | 1 cut(s) | 80 |
| Eam1104I | CTCTTC | 3 cut(s) | 144, 210, 228 |
| EarI | CTCTTC | 3 cut(s) | 144, 210, 228 |
| FaiI | YATR | 5 cut(s) | 123, 192, 280, 302, 308 |
| Fnu4HI | GCNGC | 1 cut(s) | 315 |
| FokI | GGATG | 2 cut(s) | 170, 194 |
| Fsp4HI | GCNGC | 1 cut(s) | 315 |
| GluI | GCNGC | 1 cut(s) | 315 |
| HaeIII | GGCC | 1 cut(s) | 267 |
| HapII | CCGG | 1 cut(s) | 74 |
| HpaII | CCGG | 1 cut(s) | 74 |
| HphI | GGTGA | 1 cut(s) | 38 |
| HpyAV | CCTTC | 1 cut(s) | 190 |
| HpyCH4V | TGCA | 5 cut(s) | 19, 297, 314, 351, 376 |
| HpyF3I | CTNAG | 1 cut(s) | 80 |
| LmnI | GCTCC | 2 cut(s) | 76, 245 |
| LpnPI | CCDG | 3 cut(s) | 69, 87, 281 |
| Lsp1109I | GCAGC | 1 cut(s) | 326 |
| MboII | GAAGA | 8 cut(s) | 75, 161, 173, 185, 227, 239, 242, 245 |
| MluCI | AATT | 1 cut(s) | 303 |
| MnlI | CCTC | 5 cut(s) | 139, 145, 148, 163, 211 |
| MspI | CCGG | 1 cut(s) | 74 |
| PkrI | GCNGC | 1 cut(s) | 316 |
| RsaI | GTAC | 1 cut(s) | 369 |
| RsaNI | GTAC | 1 cut(s) | 368 |
| SatI | GCNGC | 1 cut(s) | 315 |
| SetI | ASST | 4 cut(s) | 9, 18, 28, 73 |
| Sse9I | AATT | 1 cut(s) | 303 |
| TaqI | TCGA | 3 cut(s) | 9, 46, 345 |
| TasI | AATT | 1 cut(s) | 303 |
| TatI | WGTACW | 1 cut(s) | 367 |
| TscAI | CASTG | 1 cut(s) | 63 |
| TseI | GCWGC | 1 cut(s) | 314 |
| TspDTI | ATGAA | 3 cut(s) | 174, 198, 240 |
| TspRI | CASTG | 1 cut(s) | 63 |