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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AclWI | GGATC | 3 cut(s) | 454, 467, 555 |
| AfaI | GTAC | 2 cut(s) | 69, 454 |
| AfiI | CCNNNNNNNGG | 1 cut(s) | 438 |
| AflII | CTTAAG | 1 cut(s) | 311 |
| AgeI | ACCGGT | 1 cut(s) | 293 |
| AgsI | TTSAA | 2 cut(s) | 56, 345 |
| AluBI | AGCT | 5 cut(s) | 50, 116, 134, 218, 416 |
| AluI | AGCT | 5 cut(s) | 50, 116, 134, 218, 416 |
| Alw26I | GTCTC | 1 cut(s) | 53 |
| AlwI | GGATC | 3 cut(s) | 454, 467, 555 |
| AoxI | GGCC | 1 cut(s) | 267 |
| ApeKI | GCWGC | 4 cut(s) | 101, 116, 236, 413 |
| AseI | ATTAAT | 1 cut(s) | 537 |
| AsiGI | ACCGGT | 1 cut(s) | 293 |
| AspS9I | GGNCC | 1 cut(s) | 268 |
| BaeI | ACNNNNGTAYC | 2 cut(s) | 51, 84 |
| BamHI | GGATCC | 1 cut(s) | 459 |
| BarI | GAAGNNNNNNTAC | 2 cut(s) | 525, 557 |
| BbvI | GCAGC | 4 cut(s) | 103, 113, 248, 425 |
| BccI | CCATC | 1 cut(s) | 316 |
| BcgI | CGANNNNNNTGC | 2 cut(s) | 338, 372 |
| BciVI | GTATCC | 1 cut(s) | 217 |
| BcoDI | GTCTC | 1 cut(s) | 53 |
| BfmI | CTRYAG | 1 cut(s) | 302 |
| BfrI | CTTAAG | 1 cut(s) | 311 |
| BfuI | GTATCC | 1 cut(s) | 217 |
| BisI | GCNGC | 4 cut(s) | 102, 117, 237, 414 |
| BlsI | GCNGC | 4 cut(s) | 103, 118, 238, 415 |
| BmgT120I | GGNCC | 1 cut(s) | 268 |
| BmiI | GGNNCC | 2 cut(s) | 270, 461 |
| BmsI | GCATC | 3 cut(s) | 88, 197, 414 |
| Bpu10I | CCTNAGC | 1 cut(s) | 417 |
| BpuEI | CTTGAG | 2 cut(s) | 120, 375 |
| BsaAI | YACGTR | 1 cut(s) | 452 |
| BsaWI | WCCGGW | 1 cut(s) | 293 |
| BsaXI | ACNNNNNCTCC | 2 cut(s) | 413, 443 |
| Bsc4I | CCNNNNNNNGG | 1 cut(s) | 438 |
| Bse118I | RCCGGY | 1 cut(s) | 293 |
| Bse3DI | GCAATG | 1 cut(s) | 8 |
| BseGI | GGATG | 1 cut(s) | 188 |
| BseLI | CCNNNNNNNGG | 1 cut(s) | 438 |
| BseMI | GCAATG | 1 cut(s) | 8 |
| BseXI | GCAGC | 4 cut(s) | 103, 113, 248, 425 |
| BshFI | GGCC | 1 cut(s) | 269 |
| BshTI | ACCGGT | 1 cut(s) | 293 |
| BsiSI | CCGG | 1 cut(s) | 294 |
| BslI | CCNNNNNNNGG | 1 cut(s) | 438 |
| BsmAI | GTCTC | 1 cut(s) | 53 |
| BsnI | GGCC | 1 cut(s) | 269 |
| Bsp143I | GATC | 3 cut(s) | 33, 459, 547 |
| BspANI | GGCC | 1 cut(s) | 269 |
| BspLI | GGNNCC | 2 cut(s) | 270, 461 |
| BspPI | GGATC | 3 cut(s) | 454, 467, 555 |
| BspTI | CTTAAG | 1 cut(s) | 311 |
| BsrDI | GCAATG | 1 cut(s) | 8 |
| BsrFI | RCCGGY | 1 cut(s) | 293 |
| BssAI | RCCGGY | 1 cut(s) | 293 |
| BssMI | GATC | 3 cut(s) | 33, 459, 547 |
| Bst4CI | ACNGT | 1 cut(s) | 306 |
| Bst6I | CTCTTC | 2 cut(s) | 51, 273 |
| BstAFI | CTTAAG | 1 cut(s) | 311 |
| BstAPI | GCANNNNNTGC | 1 cut(s) | 242 |
| BstBAI | YACGTR | 1 cut(s) | 452 |
| BstC8I | GCNNGC | 1 cut(s) | 216 |
| BstDEI | CTNAG | 1 cut(s) | 417 |
| BstF5I | GGATG | 1 cut(s) | 188 |
| BstKTI | GATC | 3 cut(s) | 36, 462, 550 |
| BstMAI | GTCTC | 1 cut(s) | 53 |
| BstMBI | GATC | 3 cut(s) | 33, 459, 547 |
| BstMWI | GCNNNNNNNGC | 1 cut(s) | 242 |
| BstSFI | CTRYAG | 1 cut(s) | 302 |
| BstV1I | GCAGC | 4 cut(s) | 103, 113, 248, 425 |
| BstX2I | RGATCY | 1 cut(s) | 459 |
| BstYI | RGATCY | 1 cut(s) | 459 |
| BsuI | GTATCC | 1 cut(s) | 217 |
| BsuRI | GGCC | 1 cut(s) | 269 |
| BtsCI | GGATG | 1 cut(s) | 188 |
| Cac8I | GCNNGC | 1 cut(s) | 216 |
| Cfr10I | RCCGGY | 1 cut(s) | 293 |
| Cfr13I | GGNCC | 1 cut(s) | 268 |
| Csp6I | GTAC | 2 cut(s) | 68, 453 |
| CspAI | ACCGGT | 1 cut(s) | 293 |
| CviJI | RGCY | 7 cut(s) | 50, 104, 116, 134, 218, 269, 416 |
| CviKI_1 | RGCY | 7 cut(s) | 50, 104, 116, 134, 218, 269, 416 |
| CviQI | GTAC | 2 cut(s) | 68, 453 |
| DdeI | CTNAG | 1 cut(s) | 417 |
| DpnI | GATC | 3 cut(s) | 35, 461, 549 |
| DpnII | GATC | 3 cut(s) | 33, 459, 547 |
| Eam1104I | CTCTTC | 2 cut(s) | 51, 273 |
| EarI | CTCTTC | 2 cut(s) | 51, 273 |
| Eco32I | GATATC | 1 cut(s) | 468 |
| EcoO109I | RGGNCCY | 1 cut(s) | 268 |
| EcoRV | GATATC | 1 cut(s) | 468 |
| FaiI | YATR | 4 cut(s) | 241, 243, 435, 473 |
| FauNDI | CATATG | 1 cut(s) | 241 |
| Fnu4HI | GCNGC | 4 cut(s) | 102, 117, 237, 414 |
| FokI | GGATG | 1 cut(s) | 175 |
| Fsp4HI | GCNGC | 4 cut(s) | 102, 117, 237, 414 |
| GluI | GCNGC | 4 cut(s) | 102, 117, 237, 414 |
| HaeIII | GGCC | 1 cut(s) | 269 |
| HapII | CCGG | 1 cut(s) | 294 |
| HinfI | GANTC | 1 cut(s) | 334 |
| HpaII | CCGG | 1 cut(s) | 294 |
| Hpy166II | GTNNAC | 1 cut(s) | 299 |
| Hpy188I | TCNGA | 2 cut(s) | 164, 552 |
| Hpy188III | TCNNGA | 3 cut(s) | 147, 463, 545 |
| Hpy8I | GTNNAC | 1 cut(s) | 299 |
| HpyAV | CCTTC | 1 cut(s) | 226 |
| HpyCH4III | ACNGT | 1 cut(s) | 306 |
| HpyCH4IV | ACGT | 1 cut(s) | 451 |
| HpyCH4V | TGCA | 6 cut(s) | 13, 101, 119, 188, 245, 427 |
| HpyF10VI | GCNNNNNNNGC | 1 cut(s) | 242 |
| HpyF3I | CTNAG | 1 cut(s) | 417 |
| HpySE526I | ACGT | 1 cut(s) | 451 |
| Kzo9I | GATC | 3 cut(s) | 33, 459, 547 |
| LpnPI | CCDG | 5 cut(s) | 60, 204, 307, 502, 530 |
| Lsp1109I | GCAGC | 4 cut(s) | 103, 113, 248, 425 |
| LweI | GCATC | 3 cut(s) | 88, 197, 414 |
| MaeII | ACGT | 1 cut(s) | 451 |
| MaeIII | GTNAC | 2 cut(s) | 306, 325 |
| MalI | GATC | 3 cut(s) | 35, 461, 549 |
| MboI | GATC | 3 cut(s) | 33, 459, 547 |
| MboII | GAAGA | 3 cut(s) | 68, 290, 533 |
| MfeI | CAATTG | 1 cut(s) | 402 |
| MflI | RGATCY | 1 cut(s) | 459 |
| MluCI | AATT | 4 cut(s) | 15, 402, 494, 534 |
| MmeI | TCCRAC | 1 cut(s) | 235 |
| MnlI | CCTC | 3 cut(s) | 17, 274, 523 |
| MseI | TTAA | 5 cut(s) | 18, 108, 249, 312, 537 |
| MspA1I | CMGCKG | 1 cut(s) | 50 |
| MspCI | CTTAAG | 1 cut(s) | 311 |
| MspI | CCGG | 1 cut(s) | 294 |
| MunI | CAATTG | 1 cut(s) | 402 |
| MwoI | GCNNNNNNNGC | 1 cut(s) | 242 |
| NdeI | CATATG | 1 cut(s) | 241 |
| NdeII | GATC | 3 cut(s) | 33, 459, 547 |
| NlaIV | GGNNCC | 2 cut(s) | 270, 461 |
| PfeI | GAWTC | 1 cut(s) | 334 |
| PinAI | ACCGGT | 1 cut(s) | 293 |
| PkrI | GCNGC | 4 cut(s) | 103, 118, 238, 415 |
| Ppu21I | YACGTR | 1 cut(s) | 452 |
| PshBI | ATTAAT | 1 cut(s) | 537 |
| PspN4I | GGNNCC | 2 cut(s) | 270, 461 |
| PspPI | GGNCC | 1 cut(s) | 268 |
| PsuI | RGATCY | 1 cut(s) | 459 |
| PvuII | CAGCTG | 1 cut(s) | 50 |
| RsaI | GTAC | 2 cut(s) | 69, 454 |
| RsaNI | GTAC | 2 cut(s) | 68, 453 |
| SaqAI | TTAA | 5 cut(s) | 18, 108, 249, 312, 537 |
| SatI | GCNGC | 4 cut(s) | 102, 117, 237, 414 |
| Sau3AI | GATC | 3 cut(s) | 33, 459, 547 |
| Sau96I | GGNCC | 1 cut(s) | 268 |
| SfaNI | GCATC | 3 cut(s) | 88, 197, 414 |
| SfcI | CTRYAG | 1 cut(s) | 302 |
| SmlI | CTYRAG | 3 cut(s) | 135, 311, 390 |
| SmoI | CTYRAG | 3 cut(s) | 135, 311, 390 |
| Sse9I | AATT | 4 cut(s) | 15, 402, 494, 534 |
| TaaI | ACNGT | 1 cut(s) | 306 |
| TaiI | ACGT | 1 cut(s) | 454 |
| TasI | AATT | 4 cut(s) | 15, 402, 494, 534 |
| TfiI | GAWTC | 1 cut(s) | 334 |
| Tru1I | TTAA | 5 cut(s) | 18, 108, 249, 312, 537 |
| Tru9I | TTAA | 5 cut(s) | 18, 108, 249, 312, 537 |
| TseI | GCWGC | 4 cut(s) | 101, 116, 236, 413 |
| TspDTI | ATGAA | 3 cut(s) | 17, 291, 347 |
| Vha464I | CTTAAG | 1 cut(s) | 311 |
| VspI | ATTAAT | 1 cut(s) | 537 |