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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AciI | CCGC | 3 cut(s) | 25, 56, 114 |
| AcuI | CTGAAG | 2 cut(s) | 19, 164 |
| AfiI | CCNNNNNNNGG | 1 cut(s) | 107 |
| AhlI | ACTAGT | 1 cut(s) | 248 |
| AluBI | AGCT | 2 cut(s) | 64, 199 |
| AluI | AGCT | 2 cut(s) | 64, 199 |
| AoxI | GGCC | 2 cut(s) | 147, 176 |
| ApeKI | GCWGC | 2 cut(s) | 111, 199 |
| AspS9I | GGNCC | 1 cut(s) | 148 |
| AsuHPI | GGTGA | 1 cut(s) | 90 |
| BbvI | GCAGC | 2 cut(s) | 123, 186 |
| BccI | CCATC | 2 cut(s) | 67, 203 |
| BceAI | ACGGC | 1 cut(s) | 69 |
| BcuI | ACTAGT | 1 cut(s) | 248 |
| BfaI | CTAG | 1 cut(s) | 249 |
| BglI | GCCNNNNNGGC | 1 cut(s) | 155 |
| BisI | GCNGC | 2 cut(s) | 112, 200 |
| BlsI | GCNGC | 2 cut(s) | 113, 201 |
| BmgT120I | GGNCC | 1 cut(s) | 148 |
| BmsI | GCATC | 2 cut(s) | 217, 245 |
| Bpu10I | CCTNAGC | 1 cut(s) | 20 |
| Bsc4I | CCNNNNNNNGG | 1 cut(s) | 107 |
| Bse1I | ACTGG | 1 cut(s) | 16 |
| BseGI | GGATG | 3 cut(s) | 75, 232, 239 |
| BseLI | CCNNNNNNNGG | 1 cut(s) | 107 |
| BseNI | ACTGG | 1 cut(s) | 16 |
| BseRI | GAGGAG | 1 cut(s) | 209 |
| BseXI | GCAGC | 2 cut(s) | 123, 186 |
| BshFI | GGCC | 2 cut(s) | 149, 178 |
| BslFI | GGGAC | 1 cut(s) | 22 |
| BslI | CCNNNNNNNGG | 1 cut(s) | 107 |
| BsmFI | GGGAC | 1 cut(s) | 22 |
| BsnI | GGCC | 2 cut(s) | 149, 178 |
| BspACI | CCGC | 3 cut(s) | 25, 56, 114 |
| BspANI | GGCC | 2 cut(s) | 149, 178 |
| BsrI | ACTGG | 1 cut(s) | 16 |
| Bst4CI | ACNGT | 3 cut(s) | 81, 106, 220 |
| BstDEI | CTNAG | 2 cut(s) | 20, 180 |
| BstF5I | GGATG | 3 cut(s) | 75, 232, 239 |
| BstMWI | GCNNNNNNNGC | 2 cut(s) | 120, 155 |
| BstNSI | RCATGY | 1 cut(s) | 49 |
| BstV1I | GCAGC | 2 cut(s) | 123, 186 |
| BsuRI | GGCC | 2 cut(s) | 149, 178 |
| BtsCI | GGATG | 3 cut(s) | 75, 232, 239 |
| BtsIMutI | CAGTG | 1 cut(s) | 43 |
| Cfr13I | GGNCC | 1 cut(s) | 148 |
| CseI | GACGC | 1 cut(s) | 118 |
| CviAII | CATG | 2 cut(s) | 46, 137 |
| CviJI | RGCY | 5 cut(s) | 33, 64, 149, 178, 199 |
| CviKI_1 | RGCY | 5 cut(s) | 33, 64, 149, 178, 199 |
| DdeI | CTNAG | 2 cut(s) | 20, 180 |
| EciI | GGCGGA | 1 cut(s) | 71 |
| Eco147I | AGGCCT | 1 cut(s) | 178 |
| Eco57I | CTGAAG | 2 cut(s) | 19, 164 |
| FaeI | CATG | 2 cut(s) | 49, 140 |
| FaiI | YATR | 5 cut(s) | 17, 47, 134, 138, 204 |
| FaqI | GGGAC | 1 cut(s) | 22 |
| FatI | CATG | 2 cut(s) | 45, 136 |
| Fnu4HI | GCNGC | 2 cut(s) | 112, 200 |
| FokI | GGATG | 3 cut(s) | 82, 226, 239 |
| Fsp4HI | GCNGC | 2 cut(s) | 112, 200 |
| FspBI | CTAG | 1 cut(s) | 249 |
| GluI | GCNGC | 2 cut(s) | 112, 200 |
| HaeIII | GGCC | 2 cut(s) | 149, 178 |
| HgaI | GACGC | 1 cut(s) | 118 |
| Hin1II | CATG | 2 cut(s) | 49, 140 |
| HphI | GGTGA | 1 cut(s) | 90 |
| Hpy188I | TCNGA | 1 cut(s) | 144 |
| Hpy188III | TCNNGA | 1 cut(s) | 67 |
| HpyAV | CCTTC | 1 cut(s) | 139 |
| HpyCH4III | ACNGT | 3 cut(s) | 81, 106, 220 |
| HpyCH4V | TGCA | 2 cut(s) | 202, 236 |
| HpyF10VI | GCNNNNNNNGC | 2 cut(s) | 120, 155 |
| HpyF3I | CTNAG | 2 cut(s) | 20, 180 |
| Hsp92II | CATG | 2 cut(s) | 49, 140 |
| LmnI | GCTCC | 1 cut(s) | 196 |
| LpnPI | CCDG | 2 cut(s) | 52, 216 |
| Lsp1109I | GCAGC | 2 cut(s) | 123, 186 |
| LweI | GCATC | 2 cut(s) | 217, 245 |
| MaeI | CTAG | 1 cut(s) | 249 |
| MaeIII | GTNAC | 1 cut(s) | 96 |
| MluCI | AATT | 1 cut(s) | 159 |
| MnlI | CCTC | 2 cut(s) | 187, 253 |
| MseI | TTAA | 1 cut(s) | 259 |
| MslI | CAYNNNNRTG | 1 cut(s) | 207 |
| MspA1I | CMGCKG | 1 cut(s) | 114 |
| MwoI | GCNNNNNNNGC | 2 cut(s) | 120, 155 |
| NlaIII | CATG | 2 cut(s) | 49, 140 |
| NmuCI | GTSAC | 1 cut(s) | 96 |
| NspI | RCATGY | 1 cut(s) | 49 |
| PceI | AGGCCT | 1 cut(s) | 178 |
| PkrI | GCNGC | 2 cut(s) | 113, 201 |
| PspPI | GGNCC | 1 cut(s) | 148 |
| RseI | CAYNNNNRTG | 1 cut(s) | 207 |
| SaqAI | TTAA | 1 cut(s) | 259 |
| SatI | GCNGC | 2 cut(s) | 112, 200 |
| Sau96I | GGNCC | 1 cut(s) | 148 |
| SetI | ASST | 3 cut(s) | 66, 88, 201 |
| SfaNI | GCATC | 2 cut(s) | 217, 245 |
| SgeI | CNNG | 6 cut(s) | 18, 24, 58, 79, 149, 243 |
| SmiMI | CAYNNNNRTG | 1 cut(s) | 207 |
| SpeI | ACTAGT | 1 cut(s) | 248 |
| Sse9I | AATT | 1 cut(s) | 159 |
| SseBI | AGGCCT | 1 cut(s) | 178 |
| SsiI | CCGC | 3 cut(s) | 25, 56, 114 |
| SspMI | CTAG | 1 cut(s) | 249 |
| StuI | AGGCCT | 1 cut(s) | 178 |
| TaaI | ACNGT | 3 cut(s) | 81, 106, 220 |
| TasI | AATT | 1 cut(s) | 159 |
| Tru1I | TTAA | 1 cut(s) | 259 |
| Tru9I | TTAA | 1 cut(s) | 259 |
| TscAI | CASTG | 1 cut(s) | 43 |
| TseFI | GTSAC | 1 cut(s) | 96 |
| TseI | GCWGC | 2 cut(s) | 111, 199 |
| Tsp45I | GTSAC | 1 cut(s) | 96 |
| TspRI | CASTG | 1 cut(s) | 43 |
| XceI | RCATGY | 1 cut(s) | 49 |
| XspI | CTAG | 1 cut(s) | 249 |