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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AcyI | GRCGYC | 1 cut(s) | 7 |
| AfaI | GTAC | 1 cut(s) | 307 |
| AfeI | AGCGCT | 2 cut(s) | 75, 86 |
| AgsI | TTSAA | 3 cut(s) | 124, 131, 160 |
| AhdI | GACNNNNNGTC | 2 cut(s) | 160, 227 |
| AjuI | GAANNNNNNNTTGG | 2 cut(s) | 72, 104 |
| AluBI | AGCT | 2 cut(s) | 64, 244 |
| AluI | AGCT | 2 cut(s) | 64, 244 |
| Aor51HI | AGCGCT | 2 cut(s) | 75, 86 |
| AspLEI | GCGC | 3 cut(s) | 76, 87, 147 |
| BbsI | GAAGAC | 1 cut(s) | 260 |
| BfaI | CTAG | 1 cut(s) | 77 |
| BfoI | RGCGCY | 2 cut(s) | 77, 88 |
| BmeRI | GACNNNNNGTC | 2 cut(s) | 160, 227 |
| BmsI | GCATC | 1 cut(s) | 43 |
| BpiI | GAAGAC | 1 cut(s) | 260 |
| BsaHI | GRCGYC | 1 cut(s) | 7 |
| BsaXI | ACNNNNNCTCC | 2 cut(s) | 26, 56 |
| Bse3DI | GCAATG | 1 cut(s) | 100 |
| BseGI | GGATG | 1 cut(s) | 58 |
| BseMI | GCAATG | 1 cut(s) | 100 |
| BseMII | CTCAG | 1 cut(s) | 40 |
| BseRI | GAGGAG | 1 cut(s) | 101 |
| Bsp143I | GATC | 1 cut(s) | 45 |
| BspCNI | CTCAG | 1 cut(s) | 39 |
| BspQI | GCTCTTC | 2 cut(s) | 75, 195 |
| BsrDI | GCAATG | 1 cut(s) | 100 |
| BssMI | GATC | 1 cut(s) | 45 |
| BssNI | GRCGYC | 1 cut(s) | 7 |
| Bst4CI | ACNGT | 1 cut(s) | 305 |
| Bst6I | CTCTTC | 2 cut(s) | 75, 195 |
| BstACI | GRCGYC | 1 cut(s) | 7 |
| BstDEI | CTNAG | 1 cut(s) | 26 |
| BstF5I | GGATG | 1 cut(s) | 58 |
| BstH2I | RGCGCY | 2 cut(s) | 77, 88 |
| BstHHI | GCGC | 3 cut(s) | 76, 87, 147 |
| BstKTI | GATC | 1 cut(s) | 48 |
| BstMBI | GATC | 1 cut(s) | 45 |
| BstMWI | GCNNNNNNNGC | 1 cut(s) | 82 |
| BstV2I | GAAGAC | 1 cut(s) | 260 |
| BtsCI | GGATG | 1 cut(s) | 58 |
| CfoI | GCGC | 3 cut(s) | 76, 87, 147 |
| CseI | GACGC | 1 cut(s) | 15 |
| Csp6I | GTAC | 1 cut(s) | 306 |
| CviAII | CATG | 1 cut(s) | 205 |
| CviJI | RGCY | 4 cut(s) | 64, 188, 244, 281 |
| CviKI_1 | RGCY | 4 cut(s) | 64, 188, 244, 281 |
| CviQI | GTAC | 1 cut(s) | 306 |
| DdeI | CTNAG | 1 cut(s) | 26 |
| DpnI | GATC | 1 cut(s) | 47 |
| DpnII | GATC | 1 cut(s) | 45 |
| DriI | GACNNNNNGTC | 2 cut(s) | 160, 227 |
| Eam1104I | CTCTTC | 2 cut(s) | 75, 195 |
| Eam1105I | GACNNNNNGTC | 2 cut(s) | 160, 227 |
| EarI | CTCTTC | 2 cut(s) | 75, 195 |
| Eco47III | AGCGCT | 2 cut(s) | 75, 86 |
| FaeI | CATG | 1 cut(s) | 208 |
| FaiI | YATR | 7 cut(s) | 12, 14, 39, 41, 67, 177, 206 |
| FatI | CATG | 1 cut(s) | 204 |
| FauNDI | CATATG | 1 cut(s) | 12 |
| FokI | GGATG | 1 cut(s) | 65 |
| FspBI | CTAG | 1 cut(s) | 77 |
| GlaI | GCGC | 3 cut(s) | 75, 86, 146 |
| HaeII | RGCGCY | 2 cut(s) | 77, 88 |
| HgaI | GACGC | 1 cut(s) | 15 |
| HhaI | GCGC | 3 cut(s) | 76, 87, 147 |
| Hin1I | GRCGYC | 1 cut(s) | 7 |
| Hin1II | CATG | 1 cut(s) | 208 |
| Hin6I | GCGC | 3 cut(s) | 74, 85, 145 |
| HinP1I | GCGC | 3 cut(s) | 74, 85, 145 |
| HinfI | GANTC | 3 cut(s) | 104, 213, 256 |
| Hpy166II | GTNNAC | 1 cut(s) | 221 |
| Hpy188I | TCNGA | 2 cut(s) | 29, 184 |
| Hpy8I | GTNNAC | 1 cut(s) | 221 |
| HpyAV | CCTTC | 2 cut(s) | 118, 277 |
| HpyCH4III | ACNGT | 1 cut(s) | 305 |
| HpyCH4V | TGCA | 1 cut(s) | 56 |
| HpyF10VI | GCNNNNNNNGC | 1 cut(s) | 82 |
| HpyF3I | CTNAG | 1 cut(s) | 26 |
| Hsp92I | GRCGYC | 1 cut(s) | 7 |
| Hsp92II | CATG | 1 cut(s) | 208 |
| HspAI | GCGC | 3 cut(s) | 74, 85, 145 |
| Kzo9I | GATC | 1 cut(s) | 45 |
| LguI | GCTCTTC | 2 cut(s) | 75, 195 |
| LpnPI | CCDG | 1 cut(s) | 129 |
| LweI | GCATC | 1 cut(s) | 43 |
| MaeI | CTAG | 1 cut(s) | 77 |
| MaeIII | GTNAC | 1 cut(s) | 229 |
| MalI | GATC | 1 cut(s) | 47 |
| MboI | GATC | 1 cut(s) | 45 |
| MboII | GAAGA | 3 cut(s) | 92, 182, 265 |
| MluCI | AATT | 2 cut(s) | 178, 246 |
| MlyI | GAGTC | 1 cut(s) | 250 |
| MnlI | CCTC | 3 cut(s) | 119, 122, 178 |
| MwoI | GCNNNNNNNGC | 1 cut(s) | 82 |
| NdeI | CATATG | 1 cut(s) | 12 |
| NdeII | GATC | 1 cut(s) | 45 |
| NlaIII | CATG | 1 cut(s) | 208 |
| NmuCI | GTSAC | 1 cut(s) | 229 |
| PciSI | GCTCTTC | 2 cut(s) | 75, 195 |
| PfeI | GAWTC | 2 cut(s) | 104, 213 |
| PleI | GAGTC | 1 cut(s) | 250 |
| PpsI | GAGTC | 1 cut(s) | 250 |
| RsaI | GTAC | 1 cut(s) | 307 |
| RsaNI | GTAC | 1 cut(s) | 306 |
| SapI | GCTCTTC | 2 cut(s) | 75, 195 |
| Sau3AI | GATC | 1 cut(s) | 45 |
| SchI | GAGTC | 1 cut(s) | 250 |
| SetI | ASST | 4 cut(s) | 66, 129, 246, 269 |
| SfaNI | GCATC | 1 cut(s) | 43 |
| SgeI | CNNG | 9 cut(s) | 61, 69, 89, 113, 128, 133, 172, 217, 284 |
| Sse9I | AATT | 2 cut(s) | 178, 246 |
| SspMI | CTAG | 1 cut(s) | 77 |
| TaaI | ACNGT | 1 cut(s) | 305 |
| TaqI | TCGA | 1 cut(s) | 44 |
| TasI | AATT | 2 cut(s) | 178, 246 |
| TfiI | GAWTC | 2 cut(s) | 104, 213 |
| TseFI | GTSAC | 1 cut(s) | 229 |
| Tsp45I | GTSAC | 1 cut(s) | 229 |
| XspI | CTAG | 1 cut(s) | 77 |