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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AcoI | YGGCCR | 3 cut(s) | 225, 244, 322 |
| AfiI | CCNNNNNNNGG | 2 cut(s) | 289, 331 |
| AgeI | ACCGGT | 1 cut(s) | 8 |
| AgsI | TTSAA | 1 cut(s) | 274 |
| AluBI | AGCT | 1 cut(s) | 42 |
| AluI | AGCT | 1 cut(s) | 42 |
| Alw26I | GTCTC | 1 cut(s) | 17 |
| Ama87I | CYCGRG | 2 cut(s) | 89, 176 |
| AoxI | GGCC | 4 cut(s) | 215, 225, 244, 322 |
| AsiGI | ACCGGT | 1 cut(s) | 8 |
| AspS9I | GGNCC | 1 cut(s) | 52 |
| AsuHPI | GGTGA | 2 cut(s) | 20, 120 |
| AvaI | CYCGRG | 2 cut(s) | 89, 176 |
| AvaII | GGWCC | 1 cut(s) | 52 |
| BbvCI | CCTCAGC | 1 cut(s) | 119 |
| BccI | CCATC | 2 cut(s) | 120, 139 |
| BceAI | ACGGC | 2 cut(s) | 221, 318 |
| BcoDI | GTCTC | 1 cut(s) | 17 |
| Bme18I | GGWCC | 1 cut(s) | 52 |
| BmeT110I | CYCGRG | 2 cut(s) | 89, 176 |
| BmgT120I | GGNCC | 1 cut(s) | 52 |
| BmrI | ACTGGG | 1 cut(s) | 277 |
| BmuI | ACTGGG | 1 cut(s) | 277 |
| Bpu10I | CCTNAGC | 1 cut(s) | 119 |
| BsaI | GGTCTC | 1 cut(s) | 17 |
| BsaJI | CCNNGG | 1 cut(s) | 330 |
| BsaWI | WCCGGW | 1 cut(s) | 8 |
| Bsc4I | CCNNNNNNNGG | 2 cut(s) | 289, 331 |
| Bse118I | RCCGGY | 2 cut(s) | 8, 246 |
| Bse1I | ACTGG | 2 cut(s) | 239, 283 |
| BseDI | CCNNGG | 1 cut(s) | 330 |
| BseLI | CCNNNNNNNGG | 2 cut(s) | 289, 331 |
| BseMII | CTCAG | 2 cut(s) | 110, 116 |
| BseNI | ACTGG | 2 cut(s) | 239, 283 |
| BshFI | GGCC | 4 cut(s) | 217, 227, 246, 324 |
| BshTI | ACCGGT | 1 cut(s) | 8 |
| BsiHKCI | CYCGRG | 2 cut(s) | 89, 176 |
| BsiSI | CCGG | 6 cut(s) | 9, 193, 224, 247, 290, 321 |
| BslFI | GGGAC | 1 cut(s) | 129 |
| BslI | CCNNNNNNNGG | 2 cut(s) | 289, 331 |
| BsmAI | GTCTC | 1 cut(s) | 17 |
| BsmFI | GGGAC | 1 cut(s) | 129 |
| BsnI | GGCC | 4 cut(s) | 217, 227, 246, 324 |
| Bso31I | GGTCTC | 1 cut(s) | 17 |
| BsoBI | CYCGRG | 2 cut(s) | 89, 176 |
| BspANI | GGCC | 4 cut(s) | 217, 227, 246, 324 |
| BspCNI | CTCAG | 2 cut(s) | 111, 115 |
| BspTNI | GGTCTC | 1 cut(s) | 17 |
| BsrFI | RCCGGY | 2 cut(s) | 8, 246 |
| BsrI | ACTGG | 2 cut(s) | 239, 283 |
| BssAI | RCCGGY | 2 cut(s) | 8, 246 |
| BssECI | CCNNGG | 1 cut(s) | 330 |
| Bst6I | CTCTTC | 3 cut(s) | 24, 89, 159 |
| BstC8I | GCNNGC | 1 cut(s) | 248 |
| BstDEI | CTNAG | 2 cut(s) | 102, 119 |
| BstDSI | CCRYGG | 1 cut(s) | 330 |
| BstMAI | GTCTC | 1 cut(s) | 17 |
| BstMWI | GCNNNNNNNGC | 2 cut(s) | 214, 311 |
| BsuRI | GGCC | 4 cut(s) | 217, 227, 246, 324 |
| BtgI | CCRYGG | 1 cut(s) | 330 |
| BtsI | GCAGTG | 1 cut(s) | 233 |
| BtsIMutI | CAGTG | 1 cut(s) | 233 |
| Cac8I | GCNNGC | 1 cut(s) | 248 |
| Cfr10I | RCCGGY | 2 cut(s) | 8, 246 |
| Cfr13I | GGNCC | 1 cut(s) | 52 |
| CspAI | ACCGGT | 1 cut(s) | 8 |
| CviJI | RGCY | 8 cut(s) | 42, 106, 208, 217, 227, 246, 305, 324 |
| CviKI_1 | RGCY | 8 cut(s) | 42, 106, 208, 217, 227, 246, 305, 324 |
| DdeI | CTNAG | 2 cut(s) | 102, 119 |
| EaeI | YGGCCR | 3 cut(s) | 225, 244, 322 |
| Eam1104I | CTCTTC | 3 cut(s) | 24, 89, 159 |
| EarI | CTCTTC | 3 cut(s) | 24, 89, 159 |
| Eco31I | GGTCTC | 1 cut(s) | 17 |
| Eco47I | GGWCC | 1 cut(s) | 52 |
| Eco88I | CYCGRG | 2 cut(s) | 89, 176 |
| FaiI | YATR | 1 cut(s) | 264 |
| FaqI | GGGAC | 1 cut(s) | 129 |
| HaeIII | GGCC | 4 cut(s) | 217, 227, 246, 324 |
| HapII | CCGG | 6 cut(s) | 9, 193, 224, 247, 290, 321 |
| HinfI | GANTC | 4 cut(s) | 77, 198, 274, 295 |
| HpaII | CCGG | 6 cut(s) | 9, 193, 224, 247, 290, 321 |
| HphI | GGTGA | 2 cut(s) | 20, 120 |
| Hpy166II | GTNNAC | 1 cut(s) | 6 |
| Hpy188I | TCNGA | 3 cut(s) | 52, 203, 300 |
| Hpy8I | GTNNAC | 1 cut(s) | 6 |
| Hpy99I | CGWCG | 2 cut(s) | 207, 304 |
| HpyF10VI | GCNNNNNNNGC | 2 cut(s) | 214, 311 |
| HpyF3I | CTNAG | 2 cut(s) | 102, 119 |
| KroI | GCCGGC | 1 cut(s) | 246 |
| KroNI | GCCGGC | 1 cut(s) | 248 |
| LpnPI | CCDG | 8 cut(s) | 22, 206, 237, 252, 260, 296, 303, 334 |
| MboII | GAAGA | 3 cut(s) | 11, 76, 146 |
| MlyI | GAGTC | 3 cut(s) | 71, 207, 304 |
| MmeI | TCCRAC | 2 cut(s) | 226, 323 |
| MroNI | GCCGGC | 1 cut(s) | 246 |
| MspI | CCGG | 6 cut(s) | 9, 193, 224, 247, 290, 321 |
| MwoI | GCNNNNNNNGC | 2 cut(s) | 214, 311 |
| NaeI | GCCGGC | 1 cut(s) | 248 |
| NgoMIV | GCCGGC | 1 cut(s) | 246 |
| PdiI | GCCGGC | 1 cut(s) | 248 |
| PfeI | GAWTC | 1 cut(s) | 274 |
| PinAI | ACCGGT | 1 cut(s) | 8 |
| PleI | GAGTC | 3 cut(s) | 71, 206, 303 |
| PpsI | GAGTC | 3 cut(s) | 71, 206, 303 |
| PspPI | GGNCC | 1 cut(s) | 52 |
| Sau96I | GGNCC | 1 cut(s) | 52 |
| SchI | GAGTC | 3 cut(s) | 71, 207, 304 |
| SetI | ASST | 5 cut(s) | 33, 44, 57, 142, 192 |
| SinI | GGWCC | 1 cut(s) | 52 |
| TaqI | TCGA | 2 cut(s) | 212, 309 |
| TfiI | GAWTC | 1 cut(s) | 274 |
| TscAI | CASTG | 1 cut(s) | 240 |
| TspRI | CASTG | 1 cut(s) | 240 |
| VpaK11BI | GGWCC | 1 cut(s) | 52 |