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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AcsI | RAATTY | 2 cut(s) | 47, 332 |
| AdeI | CACNNNGTG | 1 cut(s) | 704 |
| AfaI | GTAC | 1 cut(s) | 419 |
| AgsI | TTSAA | 7 cut(s) | 44, 166, 218, 260, 476, 541, 556 |
| AjnI | CCWGG | 1 cut(s) | 373 |
| AjuI | GAANNNNNNNTTGG | 2 cut(s) | 440, 472 |
| AluBI | AGCT | 1 cut(s) | 505 |
| AluI | AGCT | 1 cut(s) | 505 |
| Alw21I | GWGCWC | 1 cut(s) | 304 |
| Alw26I | GTCTC | 1 cut(s) | 272 |
| Alw44I | GTGCAC | 1 cut(s) | 300 |
| ApaLI | GTGCAC | 1 cut(s) | 300 |
| ApoI | RAATTY | 2 cut(s) | 47, 332 |
| Asp700I | GAANNNNTTC | 1 cut(s) | 48 |
| AspLEI | GCGC | 1 cut(s) | 90 |
| BaeGI | GKGCMC | 1 cut(s) | 304 |
| BbsI | GAAGAC | 2 cut(s) | 539, 572 |
| Bbv12I | GWGCWC | 1 cut(s) | 304 |
| BciT130I | CCWGG | 1 cut(s) | 375 |
| BclI | TGATCA | 1 cut(s) | 79 |
| BcoDI | GTCTC | 1 cut(s) | 272 |
| Bme1390I | CCNGG | 1 cut(s) | 375 |
| BmrFI | CCNGG | 1 cut(s) | 375 |
| BpiI | GAAGAC | 2 cut(s) | 539, 572 |
| BplI | GAGNNNNNCTC | 2 cut(s) | 494, 526 |
| BsaJI | CCNNGG | 2 cut(s) | 374, 546 |
| BsaXI | ACNNNNNCTCC | 2 cut(s) | 143, 173 |
| Bse3DI | GCAATG | 1 cut(s) | 635 |
| BseBI | CCWGG | 1 cut(s) | 375 |
| BseDI | CCNNGG | 2 cut(s) | 374, 546 |
| BseGI | GGATG | 1 cut(s) | 280 |
| BseMI | GCAATG | 1 cut(s) | 635 |
| BseMII | CTCAG | 1 cut(s) | 692 |
| BseSI | GKGCMC | 1 cut(s) | 304 |
| BsiHKAI | GWGCWC | 1 cut(s) | 304 |
| BsmAI | GTCTC | 1 cut(s) | 272 |
| BsmI | GAATGC | 2 cut(s) | 90, 547 |
| Bsp1286I | GDGCHC | 1 cut(s) | 304 |
| Bsp1407I | TGTACA | 1 cut(s) | 417 |
| Bsp143I | GATC | 1 cut(s) | 79 |
| BspCNI | CTCAG | 1 cut(s) | 693 |
| BspHI | TCATGA | 1 cut(s) | 613 |
| BsrDI | GCAATG | 1 cut(s) | 635 |
| BsrGI | TGTACA | 1 cut(s) | 417 |
| BssECI | CCNNGG | 2 cut(s) | 374, 546 |
| BssMI | GATC | 1 cut(s) | 79 |
| BssT1I | CCWWGG | 1 cut(s) | 546 |
| Bst2UI | CCWGG | 1 cut(s) | 375 |
| BstAUI | TGTACA | 1 cut(s) | 417 |
| BstC8I | GCNNGC | 2 cut(s) | 577, 692 |
| BstDEI | CTNAG | 2 cut(s) | 53, 701 |
| BstF5I | GGATG | 1 cut(s) | 280 |
| BstHHI | GCGC | 1 cut(s) | 90 |
| BstKTI | GATC | 1 cut(s) | 82 |
| BstMAI | GTCTC | 1 cut(s) | 272 |
| BstMBI | GATC | 1 cut(s) | 79 |
| BstNI | CCWGG | 1 cut(s) | 375 |
| BstNSI | RCATGY | 2 cut(s) | 575, 579 |
| BstSCI | CCNGG | 1 cut(s) | 373 |
| BstSLI | GKGCMC | 1 cut(s) | 304 |
| BstV2I | GAAGAC | 2 cut(s) | 539, 572 |
| BstXI | CCANNNNNNTGG | 2 cut(s) | 113, 400 |
| BtsCI | GGATG | 1 cut(s) | 280 |
| BtsIMutI | CAGTG | 1 cut(s) | 698 |
| Cac8I | GCNNGC | 2 cut(s) | 577, 692 |
| CciI | TCATGA | 1 cut(s) | 613 |
| CfoI | GCGC | 1 cut(s) | 90 |
| Csp6I | GTAC | 1 cut(s) | 418 |
| CviJI | RGCY | 1 cut(s) | 505 |
| CviKI_1 | RGCY | 1 cut(s) | 505 |
| CviQI | GTAC | 1 cut(s) | 418 |
| DdeI | CTNAG | 2 cut(s) | 53, 701 |
| DpnI | GATC | 1 cut(s) | 81 |
| DpnII | GATC | 1 cut(s) | 79 |
| DraIII | CACNNNGTG | 1 cut(s) | 704 |
| Eco130I | CCWWGG | 1 cut(s) | 546 |
| EcoRII | CCWGG | 1 cut(s) | 373 |
| EcoT14I | CCWWGG | 1 cut(s) | 546 |
| EcoT22I | ATGCAT | 2 cut(s) | 6, 577 |
| ErhI | CCWWGG | 1 cut(s) | 546 |
| FbaI | TGATCA | 1 cut(s) | 79 |
| FokI | GGATG | 1 cut(s) | 287 |
| GlaI | GCGC | 1 cut(s) | 89 |
| HhaI | GCGC | 1 cut(s) | 90 |
| Hin6I | GCGC | 1 cut(s) | 88 |
| HinP1I | GCGC | 1 cut(s) | 88 |
| HincII | GTYRAC | 1 cut(s) | 175 |
| HindII | GTYRAC | 1 cut(s) | 175 |
| HinfI | GANTC | 2 cut(s) | 218, 629 |
| Hpy166II | GTNNAC | 3 cut(s) | 132, 175, 302 |
| Hpy188I | TCNGA | 1 cut(s) | 463 |
| Hpy188III | TCNNGA | 4 cut(s) | 245, 257, 500, 614 |
| Hpy8I | GTNNAC | 3 cut(s) | 132, 175, 302 |
| HpyAV | CCTTC | 1 cut(s) | 290 |
| HpyCH4IV | ACGT | 2 cut(s) | 262, 267 |
| HpyCH4V | TGCA | 4 cut(s) | 4, 302, 575, 591 |
| HpyF3I | CTNAG | 2 cut(s) | 53, 701 |
| HpySE526I | ACGT | 2 cut(s) | 262, 267 |
| HspAI | GCGC | 1 cut(s) | 88 |
| Ksp22I | TGATCA | 1 cut(s) | 79 |
| Kzo9I | GATC | 1 cut(s) | 79 |
| LmnI | GCTCC | 1 cut(s) | 151 |
| LpnPI | CCDG | 4 cut(s) | 119, 339, 360, 387 |
| MaeII | ACGT | 2 cut(s) | 262, 267 |
| MaeIII | GTNAC | 1 cut(s) | 263 |
| MalI | GATC | 1 cut(s) | 81 |
| MboI | GATC | 1 cut(s) | 79 |
| MboII | GAAGA | 5 cut(s) | 27, 56, 362, 544, 577 |
| MfeI | CAATTG | 3 cut(s) | 282, 451, 492 |
| MhlI | GDGCHC | 1 cut(s) | 304 |
| MluCI | AATT | 8 cut(s) | 47, 282, 332, 404, 451, 477, 492, 685 |
| MmeI | TCCRAC | 1 cut(s) | 381 |
| MnlI | CCTC | 1 cut(s) | 520 |
| Mph1103I | ATGCAT | 2 cut(s) | 6, 577 |
| MroXI | GAANNNNTTC | 1 cut(s) | 48 |
| MseI | TTAA | 3 cut(s) | 411, 426, 675 |
| MslI | CAYNNNNRTG | 1 cut(s) | 574 |
| MspR9I | CCNGG | 1 cut(s) | 375 |
| MunI | CAATTG | 3 cut(s) | 282, 451, 492 |
| Mva1269I | GAATGC | 2 cut(s) | 90, 547 |
| MvaI | CCWGG | 1 cut(s) | 375 |
| NdeII | GATC | 1 cut(s) | 79 |
| NmuCI | GTSAC | 1 cut(s) | 263 |
| NsiI | ATGCAT | 2 cut(s) | 6, 577 |
| NspI | RCATGY | 2 cut(s) | 575, 579 |
| PaeI | GCATGC | 1 cut(s) | 579 |
| PagI | TCATGA | 1 cut(s) | 613 |
| PctI | GAATGC | 2 cut(s) | 90, 547 |
| PdmI | GAANNNNTTC | 1 cut(s) | 48 |
| PfeI | GAWTC | 2 cut(s) | 218, 629 |
| Psp6I | CCWGG | 1 cut(s) | 373 |
| PspGI | CCWGG | 1 cut(s) | 373 |
| RsaI | GTAC | 1 cut(s) | 419 |
| RsaNI | GTAC | 1 cut(s) | 418 |
| RseI | CAYNNNNRTG | 1 cut(s) | 574 |
| SaqAI | TTAA | 3 cut(s) | 411, 426, 675 |
| Sau3AI | GATC | 1 cut(s) | 79 |
| ScrFI | CCNGG | 1 cut(s) | 375 |
| SduI | GDGCHC | 1 cut(s) | 304 |
| SetI | ASST | 7 cut(s) | 185, 214, 265, 270, 301, 426, 507 |
| SmiMI | CAYNNNNRTG | 1 cut(s) | 574 |
| SphI | GCATGC | 1 cut(s) | 579 |
| Sse9I | AATT | 8 cut(s) | 47, 282, 332, 404, 451, 477, 492, 685 |
| StyD4I | CCNGG | 1 cut(s) | 373 |
| StyI | CCWWGG | 1 cut(s) | 546 |
| TaiI | ACGT | 2 cut(s) | 265, 270 |
| TasI | AATT | 8 cut(s) | 47, 282, 332, 404, 451, 477, 492, 685 |
| TatI | WGTACW | 1 cut(s) | 417 |
| TfiI | GAWTC | 2 cut(s) | 218, 629 |
| Tru1I | TTAA | 3 cut(s) | 411, 426, 675 |
| Tru9I | TTAA | 3 cut(s) | 411, 426, 675 |
| TscAI | CASTG | 1 cut(s) | 705 |
| TseFI | GTSAC | 1 cut(s) | 263 |
| Tsp45I | GTSAC | 1 cut(s) | 263 |
| TspDTI | ATGAA | 8 cut(s) | 21, 45, 83, 321, 537, 621, 640, 698 |
| TspRI | CASTG | 1 cut(s) | 705 |
| VneI | GTGCAC | 1 cut(s) | 300 |
| XapI | RAATTY | 2 cut(s) | 47, 332 |
| XceI | RCATGY | 2 cut(s) | 575, 579 |
| XmnI | GAANNNNTTC | 1 cut(s) | 48 |
| Zsp2I | ATGCAT | 2 cut(s) | 6, 577 |