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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AciI | CCGC | 2 cut(s) | 79, 361 |
| AclWI | GGATC | 1 cut(s) | 293 |
| AfaI | GTAC | 1 cut(s) | 248 |
| AflIII | ACRYGT | 1 cut(s) | 60 |
| AgsI | TTSAA | 1 cut(s) | 376 |
| AjiI | CACGTC | 1 cut(s) | 136 |
| AjnI | CCWGG | 2 cut(s) | 105, 129 |
| AjuI | GAANNNNNNNTTGG | 2 cut(s) | 288, 320 |
| AluBI | AGCT | 1 cut(s) | 155 |
| AluI | AGCT | 1 cut(s) | 155 |
| AlwI | GGATC | 1 cut(s) | 293 |
| AoxI | GGCC | 3 cut(s) | 93, 426, 459 |
| AspS9I | GGNCC | 2 cut(s) | 427, 460 |
| BccI | CCATC | 1 cut(s) | 342 |
| BciT130I | CCWGG | 2 cut(s) | 107, 131 |
| BciVI | GTATCC | 1 cut(s) | 103 |
| BfaI | CTAG | 3 cut(s) | 20, 126, 338 |
| BfuI | GTATCC | 1 cut(s) | 103 |
| Bme1390I | CCNGG | 2 cut(s) | 107, 131 |
| BmgBI | CACGTC | 1 cut(s) | 136 |
| BmgT120I | GGNCC | 2 cut(s) | 427, 460 |
| BmrFI | CCNGG | 2 cut(s) | 107, 131 |
| BmsI | GCATC | 1 cut(s) | 94 |
| BpmI | CTGGAG | 1 cut(s) | 227 |
| Bpu10I | CCTNAGC | 1 cut(s) | 423 |
| BpuEI | CTTGAG | 3 cut(s) | 74, 140, 141 |
| BsaJI | CCNNGG | 1 cut(s) | 183 |
| Bse1I | ACTGG | 2 cut(s) | 49, 244 |
| BseBI | CCWGG | 2 cut(s) | 107, 131 |
| BseDI | CCNNGG | 1 cut(s) | 183 |
| BseGI | GGATG | 2 cut(s) | 210, 238 |
| BseMII | CTCAG | 1 cut(s) | 437 |
| BseNI | ACTGG | 2 cut(s) | 49, 244 |
| BshFI | GGCC | 3 cut(s) | 95, 428, 461 |
| BsnI | GGCC | 3 cut(s) | 95, 428, 461 |
| Bsp143I | GATC | 1 cut(s) | 285 |
| BspACI | CCGC | 2 cut(s) | 79, 361 |
| BspANI | GGCC | 3 cut(s) | 95, 428, 461 |
| BspCNI | CTCAG | 1 cut(s) | 436 |
| BspPI | GGATC | 1 cut(s) | 293 |
| BsrI | ACTGG | 2 cut(s) | 49, 244 |
| BssECI | CCNNGG | 1 cut(s) | 183 |
| BssMI | GATC | 1 cut(s) | 285 |
| BssT1I | CCWWGG | 1 cut(s) | 183 |
| Bst2UI | CCWGG | 2 cut(s) | 107, 131 |
| BstC8I | GCNNGC | 2 cut(s) | 83, 153 |
| BstDEI | CTNAG | 2 cut(s) | 423, 456 |
| BstF5I | GGATG | 2 cut(s) | 210, 238 |
| BstKTI | GATC | 1 cut(s) | 288 |
| BstMBI | GATC | 1 cut(s) | 285 |
| BstMWI | GCNNNNNNNGC | 2 cut(s) | 176, 458 |
| BstNI | CCWGG | 2 cut(s) | 107, 131 |
| BstNSI | RCATGY | 1 cut(s) | 64 |
| BstSCI | CCNGG | 2 cut(s) | 105, 129 |
| BstX2I | RGATCY | 1 cut(s) | 285 |
| BstYI | RGATCY | 1 cut(s) | 285 |
| BsuI | GTATCC | 1 cut(s) | 103 |
| BsuRI | GGCC | 3 cut(s) | 95, 428, 461 |
| BtrI | CACGTC | 1 cut(s) | 136 |
| BtsCI | GGATG | 2 cut(s) | 210, 238 |
| Cac8I | GCNNGC | 2 cut(s) | 83, 153 |
| Cfr13I | GGNCC | 2 cut(s) | 427, 460 |
| CseI | GACGC | 1 cut(s) | 428 |
| Csp6I | GTAC | 1 cut(s) | 247 |
| CviAII | CATG | 1 cut(s) | 61 |
| CviJI | RGCY | 7 cut(s) | 48, 95, 124, 129, 155, 428, 461 |
| CviKI_1 | RGCY | 7 cut(s) | 48, 95, 124, 129, 155, 428, 461 |
| CviQI | GTAC | 1 cut(s) | 247 |
| DdeI | CTNAG | 2 cut(s) | 423, 456 |
| DpnI | GATC | 1 cut(s) | 287 |
| DpnII | GATC | 1 cut(s) | 285 |
| EciI | GGCGGA | 1 cut(s) | 68 |
| Eco130I | CCWWGG | 1 cut(s) | 183 |
| Eco32I | GATATC | 1 cut(s) | 56 |
| EcoO109I | RGGNCCY | 1 cut(s) | 460 |
| EcoRII | CCWGG | 2 cut(s) | 105, 129 |
| EcoRV | GATATC | 1 cut(s) | 56 |
| EcoT14I | CCWWGG | 1 cut(s) | 183 |
| ErhI | CCWWGG | 1 cut(s) | 183 |
| FaeI | CATG | 1 cut(s) | 64 |
| FaiI | YATR | 9 cut(s) | 62, 228, 230, 255, 257, 275, 354, 367, 478 |
| FatI | CATG | 1 cut(s) | 60 |
| FauNDI | CATATG | 1 cut(s) | 228 |
| FokI | GGATG | 2 cut(s) | 197, 245 |
| FspBI | CTAG | 3 cut(s) | 20, 126, 338 |
| GsuI | CTGGAG | 1 cut(s) | 227 |
| HaeIII | GGCC | 3 cut(s) | 95, 428, 461 |
| HgaI | GACGC | 1 cut(s) | 428 |
| Hin1II | CATG | 1 cut(s) | 64 |
| HinfI | GANTC | 6 cut(s) | 102, 115, 188, 220, 236, 320 |
| Hpy188I | TCNGA | 1 cut(s) | 418 |
| Hpy188III | TCNNGA | 4 cut(s) | 51, 119, 332, 386 |
| HpyAV | CCTTC | 1 cut(s) | 92 |
| HpyCH4IV | ACGT | 2 cut(s) | 135, 312 |
| HpyCH4V | TGCA | 1 cut(s) | 139 |
| HpyF10VI | GCNNNNNNNGC | 2 cut(s) | 176, 458 |
| HpyF3I | CTNAG | 2 cut(s) | 423, 456 |
| HpySE526I | ACGT | 2 cut(s) | 135, 312 |
| Hsp92II | CATG | 1 cut(s) | 64 |
| Kzo9I | GATC | 1 cut(s) | 285 |
| LmnI | GCTCC | 1 cut(s) | 246 |
| LweI | GCATC | 1 cut(s) | 94 |
| MaeI | CTAG | 3 cut(s) | 20, 126, 338 |
| MaeII | ACGT | 2 cut(s) | 135, 312 |
| MaeIII | GTNAC | 2 cut(s) | 5, 317 |
| MalI | GATC | 1 cut(s) | 287 |
| MboI | GATC | 1 cut(s) | 285 |
| MboII | GAAGA | 2 cut(s) | 275, 308 |
| MflI | RGATCY | 1 cut(s) | 285 |
| MlyI | GAGTC | 2 cut(s) | 214, 314 |
| MnlI | CCTC | 2 cut(s) | 368, 473 |
| MslI | CAYNNNNRTG | 2 cut(s) | 215, 231 |
| MspR9I | CCNGG | 2 cut(s) | 107, 131 |
| MvaI | CCWGG | 2 cut(s) | 107, 131 |
| MwoI | GCNNNNNNNGC | 2 cut(s) | 176, 458 |
| NdeI | CATATG | 1 cut(s) | 228 |
| NdeII | GATC | 1 cut(s) | 285 |
| NlaIII | CATG | 1 cut(s) | 64 |
| NmuCI | GTSAC | 1 cut(s) | 317 |
| NspI | RCATGY | 1 cut(s) | 64 |
| PciI | ACATGT | 1 cut(s) | 60 |
| PfeI | GAWTC | 4 cut(s) | 102, 115, 188, 236 |
| PfoI | TCCNGGA | 1 cut(s) | 105 |
| PleI | GAGTC | 2 cut(s) | 214, 314 |
| PpsI | GAGTC | 2 cut(s) | 214, 314 |
| PscI | ACATGT | 1 cut(s) | 60 |
| Psp6I | CCWGG | 2 cut(s) | 105, 129 |
| PspGI | CCWGG | 2 cut(s) | 105, 129 |
| PspPI | GGNCC | 2 cut(s) | 427, 460 |
| PsuI | RGATCY | 1 cut(s) | 285 |
| RsaI | GTAC | 1 cut(s) | 248 |
| RsaNI | GTAC | 1 cut(s) | 247 |
| RseI | CAYNNNNRTG | 2 cut(s) | 215, 231 |
| Sau3AI | GATC | 1 cut(s) | 285 |
| Sau96I | GGNCC | 2 cut(s) | 427, 460 |
| SchI | GAGTC | 2 cut(s) | 214, 314 |
| ScrFI | CCNGG | 2 cut(s) | 107, 131 |
| SetI | ASST | 8 cut(s) | 12, 138, 157, 163, 185, 315, 339, 360 |
| SfaNI | GCATC | 1 cut(s) | 94 |
| SmiMI | CAYNNNNRTG | 2 cut(s) | 215, 231 |
| SmlI | CTYRAG | 3 cut(s) | 89, 119, 156 |
| SmoI | CTYRAG | 3 cut(s) | 89, 119, 156 |
| SsiI | CCGC | 2 cut(s) | 79, 361 |
| SspMI | CTAG | 3 cut(s) | 20, 126, 338 |
| StyD4I | CCNGG | 2 cut(s) | 105, 129 |
| StyI | CCWWGG | 1 cut(s) | 183 |
| TaiI | ACGT | 2 cut(s) | 138, 315 |
| TaqI | TCGA | 2 cut(s) | 294, 398 |
| TfiI | GAWTC | 4 cut(s) | 102, 115, 188, 236 |
| TseFI | GTSAC | 1 cut(s) | 317 |
| Tsp45I | GTSAC | 1 cut(s) | 317 |
| TspDTI | ATGAA | 2 cut(s) | 272, 276 |
| TspGWI | ACGGA | 1 cut(s) | 305 |
| XceI | RCATGY | 1 cut(s) | 64 |
| XspI | CTAG | 3 cut(s) | 20, 126, 338 |