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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AciI | CCGC | 3 cut(s) | 133, 185, 332 |
| AclWI | GGATC | 2 cut(s) | 63, 224 |
| AfaI | GTAC | 1 cut(s) | 336 |
| AfiI | CCNNNNNNNGG | 1 cut(s) | 139 |
| AgsI | TTSAA | 1 cut(s) | 368 |
| AjiI | CACGTC | 1 cut(s) | 353 |
| AjnI | CCWGG | 1 cut(s) | 203 |
| AluBI | AGCT | 1 cut(s) | 115 |
| AluI | AGCT | 1 cut(s) | 115 |
| Alw26I | GTCTC | 2 cut(s) | 48, 194 |
| AlwI | GGATC | 2 cut(s) | 63, 224 |
| AoxI | GGCC | 1 cut(s) | 130 |
| ApeKI | GCWGC | 2 cut(s) | 187, 329 |
| AspS9I | GGNCC | 1 cut(s) | 16 |
| AvaII | GGWCC | 1 cut(s) | 16 |
| BaeI | ACNNNNGTAYC | 2 cut(s) | 326, 359 |
| BbsI | GAAGAC | 1 cut(s) | 264 |
| BbvI | GCAGC | 2 cut(s) | 174, 341 |
| BccI | CCATC | 2 cut(s) | 187, 271 |
| BceAI | ACGGC | 1 cut(s) | 175 |
| BciT130I | CCWGG | 1 cut(s) | 205 |
| BcoDI | GTCTC | 2 cut(s) | 48, 194 |
| BfaI | CTAG | 3 cut(s) | 32, 146, 373 |
| BfmI | CTRYAG | 1 cut(s) | 188 |
| BisI | GCNGC | 4 cut(s) | 133, 185, 188, 330 |
| BlsI | GCNGC | 4 cut(s) | 134, 186, 189, 331 |
| Bme1390I | CCNGG | 1 cut(s) | 205 |
| Bme18I | GGWCC | 1 cut(s) | 16 |
| BmgBI | CACGTC | 1 cut(s) | 353 |
| BmgT120I | GGNCC | 1 cut(s) | 16 |
| BmiI | GGNNCC | 1 cut(s) | 17 |
| BmrFI | CCNGG | 1 cut(s) | 205 |
| BpiI | GAAGAC | 1 cut(s) | 264 |
| BpuEI | CTTGAG | 2 cut(s) | 184, 310 |
| BsaI | GGTCTC | 1 cut(s) | 194 |
| Bsc4I | CCNNNNNNNGG | 1 cut(s) | 139 |
| BseBI | CCWGG | 1 cut(s) | 205 |
| BseLI | CCNNNNNNNGG | 1 cut(s) | 139 |
| BseMII | CTCAG | 3 cut(s) | 59, 230, 237 |
| BseRI | GAGGAG | 1 cut(s) | 101 |
| BseXI | GCAGC | 2 cut(s) | 174, 341 |
| BshFI | GGCC | 1 cut(s) | 132 |
| BslI | CCNNNNNNNGG | 1 cut(s) | 139 |
| BsmAI | GTCTC | 2 cut(s) | 48, 194 |
| BsmBI | CGTCTC | 1 cut(s) | 48 |
| BsnI | GGCC | 1 cut(s) | 132 |
| Bso31I | GGTCTC | 1 cut(s) | 194 |
| Bsp143I | GATC | 2 cut(s) | 55, 216 |
| BspACI | CCGC | 3 cut(s) | 133, 185, 332 |
| BspANI | GGCC | 1 cut(s) | 132 |
| BspCNI | CTCAG | 3 cut(s) | 58, 231, 238 |
| BspLI | GGNNCC | 1 cut(s) | 17 |
| BspMAI | CTGCAG | 1 cut(s) | 192 |
| BspPI | GGATC | 2 cut(s) | 63, 224 |
| BspTNI | GGTCTC | 1 cut(s) | 194 |
| BssMI | GATC | 2 cut(s) | 55, 216 |
| Bst2UI | CCWGG | 1 cut(s) | 205 |
| Bst4CI | ACNGT | 1 cut(s) | 29 |
| BstC8I | GCNNGC | 1 cut(s) | 137 |
| BstDEI | CTNAG | 4 cut(s) | 45, 75, 239, 246 |
| BstKTI | GATC | 2 cut(s) | 58, 219 |
| BstMAI | GTCTC | 2 cut(s) | 48, 194 |
| BstMBI | GATC | 2 cut(s) | 55, 216 |
| BstMWI | GCNNNNNNNGC | 1 cut(s) | 112 |
| BstNI | CCWGG | 1 cut(s) | 205 |
| BstNSI | RCATGY | 1 cut(s) | 139 |
| BstSCI | CCNGG | 1 cut(s) | 203 |
| BstSFI | CTRYAG | 1 cut(s) | 188 |
| BstV1I | GCAGC | 2 cut(s) | 174, 341 |
| BstV2I | GAAGAC | 1 cut(s) | 264 |
| BsuRI | GGCC | 1 cut(s) | 132 |
| BtrI | CACGTC | 1 cut(s) | 353 |
| Cac8I | GCNNGC | 1 cut(s) | 137 |
| Cfr13I | GGNCC | 1 cut(s) | 16 |
| Csp6I | GTAC | 1 cut(s) | 335 |
| CviAII | CATG | 2 cut(s) | 107, 136 |
| CviJI | RGCY | 5 cut(s) | 115, 132, 162, 225, 372 |
| CviKI_1 | RGCY | 5 cut(s) | 115, 132, 162, 225, 372 |
| CviQI | GTAC | 1 cut(s) | 335 |
| DdeI | CTNAG | 4 cut(s) | 45, 75, 239, 246 |
| DpnI | GATC | 2 cut(s) | 57, 218 |
| DpnII | GATC | 2 cut(s) | 55, 216 |
| Eco31I | GGTCTC | 1 cut(s) | 194 |
| Eco47I | GGWCC | 1 cut(s) | 16 |
| EcoO109I | RGGNCCY | 1 cut(s) | 16 |
| EcoRII | CCWGG | 1 cut(s) | 203 |
| Esp3I | CGTCTC | 1 cut(s) | 48 |
| FaeI | CATG | 2 cut(s) | 110, 139 |
| FaiI | YATR | 5 cut(s) | 101, 108, 137, 311, 321 |
| FatI | CATG | 2 cut(s) | 106, 135 |
| Fnu4HI | GCNGC | 4 cut(s) | 133, 185, 188, 330 |
| Fsp4HI | GCNGC | 4 cut(s) | 133, 185, 188, 330 |
| FspBI | CTAG | 3 cut(s) | 32, 146, 373 |
| GluI | GCNGC | 4 cut(s) | 133, 185, 188, 330 |
| HaeIII | GGCC | 1 cut(s) | 132 |
| Hin1II | CATG | 2 cut(s) | 110, 139 |
| Hpy166II | GTNNAC | 2 cut(s) | 350, 361 |
| Hpy188I | TCNGA | 1 cut(s) | 240 |
| Hpy188III | TCNNGA | 2 cut(s) | 19, 289 |
| Hpy8I | GTNNAC | 2 cut(s) | 350, 361 |
| Hpy99I | CGWCG | 1 cut(s) | 161 |
| HpyAV | CCTTC | 2 cut(s) | 81, 240 |
| HpyCH4III | ACNGT | 1 cut(s) | 29 |
| HpyCH4IV | ACGT | 2 cut(s) | 41, 352 |
| HpyCH4V | TGCA | 2 cut(s) | 106, 190 |
| HpyF10VI | GCNNNNNNNGC | 1 cut(s) | 112 |
| HpyF3I | CTNAG | 4 cut(s) | 45, 75, 239, 246 |
| HpySE526I | ACGT | 2 cut(s) | 41, 352 |
| Hsp92II | CATG | 2 cut(s) | 110, 139 |
| Kzo9I | GATC | 2 cut(s) | 55, 216 |
| LmnI | GCTCC | 1 cut(s) | 112 |
| LpnPI | CCDG | 7 cut(s) | 32, 32, 125, 190, 217, 312, 330 |
| Lsp1109I | GCAGC | 2 cut(s) | 174, 341 |
| MaeI | CTAG | 3 cut(s) | 32, 146, 373 |
| MaeII | ACGT | 2 cut(s) | 41, 352 |
| MalI | GATC | 2 cut(s) | 57, 218 |
| MboI | GATC | 2 cut(s) | 55, 216 |
| MboII | GAAGA | 1 cut(s) | 264 |
| MluCI | AATT | 1 cut(s) | 59 |
| MnlI | CCTC | 8 cut(s) | 44, 79, 122, 163, 234, 241, 272, 333 |
| MslI | CAYNNNNRTG | 1 cut(s) | 140 |
| MspA1I | CMGCKG | 2 cut(s) | 187, 332 |
| MspR9I | CCNGG | 1 cut(s) | 205 |
| MvaI | CCWGG | 1 cut(s) | 205 |
| MwoI | GCNNNNNNNGC | 1 cut(s) | 112 |
| NdeII | GATC | 2 cut(s) | 55, 216 |
| NlaIII | CATG | 2 cut(s) | 110, 139 |
| NlaIV | GGNNCC | 1 cut(s) | 17 |
| NspI | RCATGY | 1 cut(s) | 139 |
| PaeI | GCATGC | 1 cut(s) | 139 |
| PcsI | WCGNNNNNNNCGW | 1 cut(s) | 165 |
| PkrI | GCNGC | 4 cut(s) | 134, 186, 189, 331 |
| PpuMI | RGGWCCY | 1 cut(s) | 16 |
| Psp5II | RGGWCCY | 1 cut(s) | 16 |
| Psp6I | CCWGG | 1 cut(s) | 203 |
| PspGI | CCWGG | 1 cut(s) | 203 |
| PspN4I | GGNNCC | 1 cut(s) | 17 |
| PspPI | GGNCC | 1 cut(s) | 16 |
| PspPPI | RGGWCCY | 1 cut(s) | 16 |
| PstI | CTGCAG | 1 cut(s) | 192 |
| RsaI | GTAC | 1 cut(s) | 336 |
| RsaNI | GTAC | 1 cut(s) | 335 |
| RseI | CAYNNNNRTG | 1 cut(s) | 140 |
| SatI | GCNGC | 4 cut(s) | 133, 185, 188, 330 |
| Sau3AI | GATC | 2 cut(s) | 55, 216 |
| Sau96I | GGNCC | 1 cut(s) | 16 |
| ScrFI | CCNGG | 1 cut(s) | 205 |
| SfcI | CTRYAG | 1 cut(s) | 188 |
| SinI | GGWCC | 1 cut(s) | 16 |
| SmiMI | CAYNNNNRTG | 1 cut(s) | 140 |
| SmlI | CTYRAG | 2 cut(s) | 163, 289 |
| SmoI | CTYRAG | 2 cut(s) | 163, 289 |
| SphI | GCATGC | 1 cut(s) | 139 |
| Sse9I | AATT | 1 cut(s) | 59 |
| SsiI | CCGC | 3 cut(s) | 133, 185, 332 |
| SspI | AATATT | 1 cut(s) | 211 |
| SspMI | CTAG | 3 cut(s) | 32, 146, 373 |
| StyD4I | CCNGG | 1 cut(s) | 203 |
| TaaI | ACNGT | 1 cut(s) | 29 |
| TaiI | ACGT | 2 cut(s) | 44, 355 |
| TaqI | TCGA | 1 cut(s) | 275 |
| TasI | AATT | 1 cut(s) | 59 |
| TauI | GCSGC | 2 cut(s) | 135, 187 |
| TseI | GCWGC | 2 cut(s) | 187, 329 |
| VpaK11BI | GGWCC | 1 cut(s) | 16 |
| XceI | RCATGY | 1 cut(s) | 139 |
| XspI | CTAG | 3 cut(s) | 32, 146, 373 |