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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AarI | CACCTGC | 9 cut(s) | 44, 54, 97, 107, 117, 127, 137, 190, 200 |
| AclWI | GGATC | 1 cut(s) | 238 |
| AfiI | CCNNNNNNNGG | 2 cut(s) | 32, 313 |
| AjnI | CCWGG | 1 cut(s) | 246 |
| AluBI | AGCT | 4 cut(s) | 76, 169, 222, 293 |
| AluI | AGCT | 4 cut(s) | 76, 169, 222, 293 |
| Alw26I | GTCTC | 1 cut(s) | 165 |
| AlwI | GGATC | 1 cut(s) | 238 |
| AoxI | GGCC | 2 cut(s) | 249, 315 |
| ApeKI | GCWGC | 6 cut(s) | 73, 76, 166, 169, 219, 222 |
| AspS9I | GGNCC | 1 cut(s) | 316 |
| AsuHPI | GGTGA | 1 cut(s) | 68 |
| BaeGI | GKGCMC | 1 cut(s) | 307 |
| BanII | GRGCYC | 2 cut(s) | 39, 92 |
| BauI | CACGAG | 1 cut(s) | 271 |
| BbvI | GCAGC | 6 cut(s) | 63, 85, 156, 178, 209, 231 |
| BcgI | CGANNNNNNTGC | 3 cut(s) | 8, 30, 42 |
| BciT130I | CCWGG | 1 cut(s) | 248 |
| BcoDI | GTCTC | 1 cut(s) | 165 |
| BfaI | CTAG | 3 cut(s) | 267, 278, 296 |
| BfmI | CTRYAG | 1 cut(s) | 61 |
| BisI | GCNGC | 6 cut(s) | 74, 77, 167, 170, 220, 223 |
| BlpI | GCTNAGC | 1 cut(s) | 226 |
| BlsI | GCNGC | 6 cut(s) | 75, 78, 168, 171, 221, 224 |
| Bme1390I | CCNGG | 1 cut(s) | 248 |
| BmgT120I | GGNCC | 1 cut(s) | 316 |
| BmiI | GGNNCC | 1 cut(s) | 24 |
| BmrFI | CCNGG | 1 cut(s) | 248 |
| BmsI | GCATC | 3 cut(s) | 35, 88, 181 |
| Bpu1102I | GCTNAGC | 1 cut(s) | 226 |
| BsaI | GGTCTC | 1 cut(s) | 165 |
| BsaJI | CCNNGG | 1 cut(s) | 26 |
| Bsc4I | CCNNNNNNNGG | 2 cut(s) | 32, 313 |
| BseBI | CCWGG | 1 cut(s) | 248 |
| BseDI | CCNNGG | 1 cut(s) | 26 |
| BseLI | CCNNNNNNNGG | 2 cut(s) | 32, 313 |
| BseMII | CTCAG | 1 cut(s) | 240 |
| BseSI | GKGCMC | 1 cut(s) | 307 |
| BseXI | GCAGC | 6 cut(s) | 63, 85, 156, 178, 209, 231 |
| BshFI | GGCC | 2 cut(s) | 251, 317 |
| BslI | CCNNNNNNNGG | 2 cut(s) | 32, 313 |
| BsmAI | GTCTC | 1 cut(s) | 165 |
| BsnI | GGCC | 2 cut(s) | 251, 317 |
| Bso31I | GGTCTC | 1 cut(s) | 165 |
| Bsp1286I | GDGCHC | 3 cut(s) | 39, 92, 307 |
| Bsp143I | GATC | 2 cut(s) | 243, 280 |
| Bsp1720I | GCTNAGC | 1 cut(s) | 226 |
| BspANI | GGCC | 2 cut(s) | 251, 317 |
| BspCNI | CTCAG | 1 cut(s) | 239 |
| BspLI | GGNNCC | 1 cut(s) | 24 |
| BspMAI | CTGCAG | 1 cut(s) | 65 |
| BspPI | GGATC | 1 cut(s) | 238 |
| BspTNI | GGTCTC | 1 cut(s) | 165 |
| BssECI | CCNNGG | 1 cut(s) | 26 |
| BssMI | GATC | 2 cut(s) | 243, 280 |
| BssSI | CACGAG | 1 cut(s) | 271 |
| Bst2BI | CACGAG | 1 cut(s) | 271 |
| Bst2UI | CCWGG | 1 cut(s) | 248 |
| Bst4CI | ACNGT | 1 cut(s) | 302 |
| BstDEI | CTNAG | 1 cut(s) | 226 |
| BstKTI | GATC | 2 cut(s) | 246, 283 |
| BstMAI | GTCTC | 1 cut(s) | 165 |
| BstMBI | GATC | 2 cut(s) | 243, 280 |
| BstNI | CCWGG | 1 cut(s) | 248 |
| BstSCI | CCNGG | 1 cut(s) | 246 |
| BstSFI | CTRYAG | 1 cut(s) | 61 |
| BstSLI | GKGCMC | 1 cut(s) | 307 |
| BstV1I | GCAGC | 6 cut(s) | 63, 85, 156, 178, 209, 231 |
| BstX2I | RGATCY | 1 cut(s) | 243 |
| BstYI | RGATCY | 1 cut(s) | 243 |
| BsuRI | GGCC | 2 cut(s) | 251, 317 |
| Cfr13I | GGNCC | 1 cut(s) | 316 |
| DdeI | CTNAG | 1 cut(s) | 226 |
| DpnI | GATC | 2 cut(s) | 245, 282 |
| DpnII | GATC | 2 cut(s) | 243, 280 |
| Eco24I | GRGCYC | 2 cut(s) | 39, 92 |
| Eco31I | GGTCTC | 1 cut(s) | 165 |
| EcoRII | CCWGG | 1 cut(s) | 246 |
| EcoT38I | GRGCYC | 2 cut(s) | 39, 92 |
| Fnu4HI | GCNGC | 6 cut(s) | 74, 77, 167, 170, 220, 223 |
| FriOI | GRGCYC | 2 cut(s) | 39, 92 |
| Fsp4HI | GCNGC | 6 cut(s) | 74, 77, 167, 170, 220, 223 |
| FspBI | CTAG | 3 cut(s) | 267, 278, 296 |
| GluI | GCNGC | 6 cut(s) | 74, 77, 167, 170, 220, 223 |
| HaeIII | GGCC | 2 cut(s) | 251, 317 |
| HphI | GGTGA | 1 cut(s) | 68 |
| Hpy188III | TCNNGA | 1 cut(s) | 296 |
| HpyCH4III | ACNGT | 1 cut(s) | 302 |
| HpyCH4V | TGCA | 1 cut(s) | 63 |
| HpyF3I | CTNAG | 1 cut(s) | 226 |
| Kzo9I | GATC | 2 cut(s) | 243, 280 |
| LmnI | GCTCC | 2 cut(s) | 22, 332 |
| Lsp1109I | GCAGC | 6 cut(s) | 63, 85, 156, 178, 209, 231 |
| LweI | GCATC | 3 cut(s) | 35, 88, 181 |
| MaeI | CTAG | 3 cut(s) | 267, 278, 296 |
| MaeIII | GTNAC | 1 cut(s) | 56 |
| MalI | GATC | 2 cut(s) | 245, 282 |
| MboI | GATC | 2 cut(s) | 243, 280 |
| MflI | RGATCY | 1 cut(s) | 243 |
| MhlI | GDGCHC | 3 cut(s) | 39, 92, 307 |
| MnlI | CCTC | 2 cut(s) | 36, 267 |
| MspA1I | CMGCKG | 3 cut(s) | 76, 169, 222 |
| MspR9I | CCNGG | 1 cut(s) | 248 |
| MvaI | CCWGG | 1 cut(s) | 248 |
| NdeII | GATC | 2 cut(s) | 243, 280 |
| NlaIV | GGNNCC | 1 cut(s) | 24 |
| NmeAIII | GCCGAG | 8 cut(s) | 7, 18, 60, 71, 82, 142, 153, 175 |
| NmuCI | GTSAC | 1 cut(s) | 56 |
| PaqCI | CACCTGC | 9 cut(s) | 44, 54, 97, 107, 117, 127, 137, 190, 200 |
| PkrI | GCNGC | 6 cut(s) | 75, 78, 168, 171, 221, 224 |
| Psp6I | CCWGG | 1 cut(s) | 246 |
| PspGI | CCWGG | 1 cut(s) | 246 |
| PspN4I | GGNNCC | 1 cut(s) | 24 |
| PspPI | GGNCC | 1 cut(s) | 316 |
| PstI | CTGCAG | 1 cut(s) | 65 |
| PsuI | RGATCY | 1 cut(s) | 243 |
| PvuII | CAGCTG | 3 cut(s) | 76, 169, 222 |
| SatI | GCNGC | 6 cut(s) | 74, 77, 167, 170, 220, 223 |
| Sau3AI | GATC | 2 cut(s) | 243, 280 |
| Sau96I | GGNCC | 1 cut(s) | 316 |
| ScrFI | CCNGG | 1 cut(s) | 248 |
| SduI | GDGCHC | 3 cut(s) | 39, 92, 307 |
| SfaNI | GCATC | 3 cut(s) | 35, 88, 181 |
| SfcI | CTRYAG | 1 cut(s) | 61 |
| SspMI | CTAG | 3 cut(s) | 267, 278, 296 |
| StyD4I | CCNGG | 1 cut(s) | 246 |
| TaaI | ACNGT | 1 cut(s) | 302 |
| TseFI | GTSAC | 1 cut(s) | 56 |
| TseI | GCWGC | 6 cut(s) | 73, 76, 166, 169, 219, 222 |
| Tsp45I | GTSAC | 1 cut(s) | 56 |
| XbaI | TCTAGA | 1 cut(s) | 295 |
| XspI | CTAG | 3 cut(s) | 267, 278, 296 |