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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AciI | CCGC | 3 cut(s) | 31, 58, 611 |
| AclWI | GGATC | 3 cut(s) | 97, 99, 160 |
| AcsI | RAATTY | 1 cut(s) | 433 |
| AfiI | CCNNNNNNNGG | 5 cut(s) | 34, 350, 528, 553, 554 |
| AflIII | ACRYGT | 1 cut(s) | 565 |
| AgeI | ACCGGT | 1 cut(s) | 410 |
| AjnI | CCWGG | 2 cut(s) | 337, 642 |
| AluBI | AGCT | 2 cut(s) | 110, 189 |
| AluI | AGCT | 2 cut(s) | 110, 189 |
| Alw21I | GWGCWC | 1 cut(s) | 78 |
| Alw26I | GTCTC | 2 cut(s) | 529, 619 |
| AlwI | GGATC | 3 cut(s) | 97, 99, 160 |
| AoxI | GGCC | 2 cut(s) | 36, 571 |
| ApeKI | GCWGC | 1 cut(s) | 115 |
| ApoI | RAATTY | 1 cut(s) | 433 |
| AsiGI | ACCGGT | 1 cut(s) | 410 |
| AspLEI | GCGC | 1 cut(s) | 239 |
| AspS9I | GGNCC | 6 cut(s) | 36, 63, 200, 341, 541, 571 |
| AsuC2I | CCSGG | 2 cut(s) | 523, 631 |
| AsuHPI | GGTGA | 3 cut(s) | 157, 397, 544 |
| AsuII | TTCGAA | 1 cut(s) | 392 |
| AsuNHI | GCTAGC | 1 cut(s) | 517 |
| AvaII | GGWCC | 4 cut(s) | 63, 200, 341, 541 |
| BanII | GRGCYC | 2 cut(s) | 129, 610 |
| BbsI | GAAGAC | 2 cut(s) | 104, 236 |
| Bbv12I | GWGCWC | 1 cut(s) | 78 |
| BbvI | GCAGC | 1 cut(s) | 102 |
| BccI | CCATC | 3 cut(s) | 276, 304, 507 |
| BciT130I | CCWGG | 2 cut(s) | 339, 644 |
| BcnI | CCSGG | 2 cut(s) | 523, 631 |
| BcoDI | GTCTC | 2 cut(s) | 529, 619 |
| BfaI | CTAG | 3 cut(s) | 375, 456, 518 |
| BfoI | RGCGCY | 1 cut(s) | 240 |
| BisI | GCNGC | 1 cut(s) | 116 |
| BlsI | GCNGC | 1 cut(s) | 117 |
| Bme1390I | CCNGG | 4 cut(s) | 339, 523, 631, 644 |
| Bme18I | GGWCC | 4 cut(s) | 63, 200, 341, 541 |
| BmgT120I | GGNCC | 6 cut(s) | 36, 63, 200, 341, 541, 571 |
| BmiI | GGNNCC | 4 cut(s) | 9, 256, 276, 609 |
| BmrFI | CCNGG | 4 cut(s) | 339, 523, 631, 644 |
| BmtI | GCTAGC | 1 cut(s) | 521 |
| BpiI | GAAGAC | 2 cut(s) | 104, 236 |
| BpmI | CTGGAG | 1 cut(s) | 165 |
| Bpu14I | TTCGAA | 1 cut(s) | 392 |
| BpuEI | CTTGAG | 1 cut(s) | 448 |
| BpuMI | CCSGG | 2 cut(s) | 523, 631 |
| BsaBI | GATNNNNATC | 1 cut(s) | 368 |
| BsaI | GGTCTC | 1 cut(s) | 619 |
| BsaJI | CCNNGG | 1 cut(s) | 629 |
| BsaWI | WCCGGW | 2 cut(s) | 149, 410 |
| BsaXI | ACNNNNNCTCC | 2 cut(s) | 528, 558 |
| Bsc4I | CCNNNNNNNGG | 5 cut(s) | 34, 350, 528, 553, 554 |
| Bse118I | RCCGGY | 1 cut(s) | 410 |
| Bse1I | ACTGG | 2 cut(s) | 258, 543 |
| Bse3DI | GCAATG | 2 cut(s) | 309, 417 |
| Bse8I | GATNNNNATC | 1 cut(s) | 368 |
| BseBI | CCWGG | 2 cut(s) | 339, 644 |
| BseDI | CCNNGG | 1 cut(s) | 629 |
| BseJI | GATNNNNATC | 1 cut(s) | 368 |
| BseLI | CCNNNNNNNGG | 5 cut(s) | 34, 350, 528, 553, 554 |
| BseMI | GCAATG | 2 cut(s) | 309, 417 |
| BseMII | CTCAG | 1 cut(s) | 63 |
| BseNI | ACTGG | 2 cut(s) | 258, 543 |
| BseRI | GAGGAG | 1 cut(s) | 168 |
| BseXI | GCAGC | 1 cut(s) | 102 |
| BseYI | CCCAGC | 1 cut(s) | 106 |
| BshFI | GGCC | 2 cut(s) | 38, 573 |
| BshTI | ACCGGT | 1 cut(s) | 410 |
| BsiHKAI | GWGCWC | 1 cut(s) | 78 |
| BsiSI | CCGG | 6 cut(s) | 61, 150, 163, 411, 522, 631 |
| BslFI | GGGAC | 1 cut(s) | 392 |
| BslI | CCNNNNNNNGG | 5 cut(s) | 34, 350, 528, 553, 554 |
| BsmAI | GTCTC | 2 cut(s) | 529, 619 |
| BsmFI | GGGAC | 1 cut(s) | 392 |
| BsnI | GGCC | 2 cut(s) | 38, 573 |
| Bso31I | GGTCTC | 1 cut(s) | 619 |
| Bsp119I | TTCGAA | 1 cut(s) | 392 |
| Bsp1286I | GDGCHC | 3 cut(s) | 78, 129, 610 |
| Bsp143I | GATC | 3 cut(s) | 91, 102, 152 |
| BspACI | CCGC | 3 cut(s) | 31, 58, 611 |
| BspANI | GGCC | 2 cut(s) | 38, 573 |
| BspCNI | CTCAG | 1 cut(s) | 64 |
| BspLI | GGNNCC | 4 cut(s) | 9, 256, 276, 609 |
| BspOI | GCTAGC | 1 cut(s) | 521 |
| BspPI | GGATC | 3 cut(s) | 97, 99, 160 |
| BspT104I | TTCGAA | 1 cut(s) | 392 |
| BspTNI | GGTCTC | 1 cut(s) | 619 |
| BsrDI | GCAATG | 2 cut(s) | 309, 417 |
| BsrFI | RCCGGY | 1 cut(s) | 410 |
| BsrI | ACTGG | 2 cut(s) | 258, 543 |
| BssAI | RCCGGY | 1 cut(s) | 410 |
| BssECI | CCNNGG | 1 cut(s) | 629 |
| BssMI | GATC | 3 cut(s) | 91, 102, 152 |
| Bst2UI | CCWGG | 2 cut(s) | 339, 644 |
| Bst6I | CTCTTC | 1 cut(s) | 521 |
| BstAPI | GCANNNNNTGC | 1 cut(s) | 592 |
| BstBI | TTCGAA | 1 cut(s) | 392 |
| BstC8I | GCNNGC | 2 cut(s) | 442, 519 |
| BstDEI | CTNAG | 1 cut(s) | 72 |
| BstEII | GGTNACC | 1 cut(s) | 145 |
| BstH2I | RGCGCY | 1 cut(s) | 240 |
| BstHHI | GCGC | 1 cut(s) | 239 |
| BstKTI | GATC | 3 cut(s) | 94, 105, 155 |
| BstMAI | GTCTC | 2 cut(s) | 529, 619 |
| BstMBI | GATC | 3 cut(s) | 91, 102, 152 |
| BstMWI | GCNNNNNNNGC | 3 cut(s) | 124, 292, 592 |
| BstNI | CCWGG | 2 cut(s) | 339, 644 |
| BstNSI | RCATGY | 1 cut(s) | 569 |
| BstPI | GGTNACC | 1 cut(s) | 145 |
| BstSCI | CCNGG | 4 cut(s) | 337, 521, 629, 642 |
| BstV1I | GCAGC | 1 cut(s) | 102 |
| BstV2I | GAAGAC | 2 cut(s) | 104, 236 |
| BstX2I | RGATCY | 1 cut(s) | 152 |
| BstYI | RGATCY | 1 cut(s) | 152 |
| BsuRI | GGCC | 2 cut(s) | 38, 573 |
| BtsIMutI | CAGTG | 2 cut(s) | 69, 265 |
| Cac8I | GCNNGC | 2 cut(s) | 442, 519 |
| CfoI | GCGC | 1 cut(s) | 239 |
| Cfr10I | RCCGGY | 1 cut(s) | 410 |
| Cfr13I | GGNCC | 6 cut(s) | 36, 63, 200, 341, 541, 571 |
| CsiI | ACCWGGT | 1 cut(s) | 642 |
| CspAI | ACCGGT | 1 cut(s) | 410 |
| CviAII | CATG | 6 cut(s) | 142, 251, 265, 328, 566, 654 |
| DdeI | CTNAG | 1 cut(s) | 72 |
| DpnI | GATC | 3 cut(s) | 93, 104, 154 |
| DpnII | GATC | 3 cut(s) | 91, 102, 152 |
| Eam1104I | CTCTTC | 1 cut(s) | 521 |
| EarI | CTCTTC | 1 cut(s) | 521 |
| EciI | GGCGGA | 1 cut(s) | 600 |
| Eco24I | GRGCYC | 2 cut(s) | 129, 610 |
| Eco31I | GGTCTC | 1 cut(s) | 619 |
| Eco47I | GGWCC | 4 cut(s) | 63, 200, 341, 541 |
| Eco91I | GGTNACC | 1 cut(s) | 145 |
| EcoO109I | RGGNCCY | 1 cut(s) | 36 |
| EcoO65I | GGTNACC | 1 cut(s) | 145 |
| EcoRII | CCWGG | 2 cut(s) | 337, 642 |
| EcoT38I | GRGCYC | 2 cut(s) | 129, 610 |
| FaeI | CATG | 6 cut(s) | 145, 254, 268, 331, 569, 657 |
| FaiI | YATR | 9 cut(s) | 143, 252, 266, 329, 485, 487, 501, 567, 655 |
| FalI | AAGNNNNNCTT | 2 cut(s) | 457, 489 |
| FaqI | GGGAC | 1 cut(s) | 392 |
| FatI | CATG | 6 cut(s) | 141, 250, 264, 327, 565, 653 |
| FauI | CCCGC | 1 cut(s) | 65 |
| FauNDI | CATATG | 1 cut(s) | 485 |
| Fnu4HI | GCNGC | 1 cut(s) | 116 |
| FriOI | GRGCYC | 2 cut(s) | 129, 610 |
| Fsp4HI | GCNGC | 1 cut(s) | 116 |
| FspBI | CTAG | 3 cut(s) | 375, 456, 518 |
| GlaI | GCGC | 1 cut(s) | 238 |
| GluI | GCNGC | 1 cut(s) | 116 |
| GsaI | CCCAGC | 1 cut(s) | 110 |
| GsuI | CTGGAG | 1 cut(s) | 165 |
| HaeII | RGCGCY | 1 cut(s) | 240 |
| HaeIII | GGCC | 2 cut(s) | 38, 573 |
| HapII | CCGG | 6 cut(s) | 61, 150, 163, 411, 522, 631 |
| HhaI | GCGC | 1 cut(s) | 239 |
| Hin1II | CATG | 6 cut(s) | 145, 254, 268, 331, 569, 657 |
| Hin6I | GCGC | 1 cut(s) | 237 |
| HinP1I | GCGC | 1 cut(s) | 237 |
| HincII | GTYRAC | 1 cut(s) | 636 |
| HindII | GTYRAC | 1 cut(s) | 636 |
| HinfI | GANTC | 4 cut(s) | 194, 212, 268, 425 |
| HpaII | CCGG | 6 cut(s) | 61, 150, 163, 411, 522, 631 |
| HphI | GGTGA | 3 cut(s) | 157, 397, 544 |
| Hpy166II | GTNNAC | 1 cut(s) | 636 |
| Hpy188I | TCNGA | 6 cut(s) | 12, 19, 96, 193, 432, 621 |
| Hpy188III | TCNNGA | 3 cut(s) | 182, 198, 272 |
| Hpy8I | GTNNAC | 1 cut(s) | 636 |
| Hpy99I | CGWCG | 1 cut(s) | 137 |
| HpyAV | CCTTC | 3 cut(s) | 49, 76, 584 |
| HpyCH4IV | ACGT | 1 cut(s) | 135 |
| HpyF10VI | GCNNNNNNNGC | 3 cut(s) | 124, 292, 592 |
| HpyF3I | CTNAG | 1 cut(s) | 72 |
| HpySE526I | ACGT | 1 cut(s) | 135 |
| Hsp92II | CATG | 6 cut(s) | 145, 254, 268, 331, 569, 657 |
| HspAI | GCGC | 1 cut(s) | 237 |
| Kzo9I | GATC | 3 cut(s) | 91, 102, 152 |
| LmnI | GCTCC | 3 cut(s) | 13, 254, 613 |
| Lsp1109I | GCAGC | 1 cut(s) | 102 |
| MabI | ACCWGGT | 1 cut(s) | 642 |
| MaeI | CTAG | 3 cut(s) | 375, 456, 518 |
| MaeII | ACGT | 1 cut(s) | 135 |
| MaeIII | GTNAC | 2 cut(s) | 145, 413 |
| MalI | GATC | 3 cut(s) | 93, 104, 154 |
| MboI | GATC | 3 cut(s) | 91, 102, 152 |
| MboII | GAAGA | 6 cut(s) | 109, 147, 235, 239, 241, 538 |
| MflI | RGATCY | 1 cut(s) | 152 |
| MhlI | GDGCHC | 3 cut(s) | 78, 129, 610 |
| MluCI | AATT | 2 cut(s) | 395, 433 |
| MlyI | GAGTC | 1 cut(s) | 277 |
| MnlI | CCTC | 8 cut(s) | 189, 250, 354, 376, 463, 472, 522, 554 |
| MseI | TTAA | 1 cut(s) | 477 |
| MspI | CCGG | 6 cut(s) | 61, 150, 163, 411, 522, 631 |
| MspR9I | CCNGG | 4 cut(s) | 339, 523, 631, 644 |
| MvaI | CCWGG | 2 cut(s) | 339, 644 |
| MwoI | GCNNNNNNNGC | 3 cut(s) | 124, 292, 592 |
| NciI | CCSGG | 2 cut(s) | 523, 631 |
| NdeI | CATATG | 1 cut(s) | 485 |
| NdeII | GATC | 3 cut(s) | 91, 102, 152 |
| NheI | GCTAGC | 1 cut(s) | 517 |
| NlaIII | CATG | 6 cut(s) | 145, 254, 268, 331, 569, 657 |
| NlaIV | GGNNCC | 4 cut(s) | 9, 256, 276, 609 |
| NmuCI | GTSAC | 1 cut(s) | 145 |
| NspI | RCATGY | 1 cut(s) | 569 |
| NspV | TTCGAA | 1 cut(s) | 392 |
| PciI | ACATGT | 1 cut(s) | 565 |
| PfeI | GAWTC | 3 cut(s) | 194, 212, 425 |
| PinAI | ACCGGT | 1 cut(s) | 410 |
| PkrI | GCNGC | 1 cut(s) | 117 |
| PleI | GAGTC | 1 cut(s) | 276 |
| PpsI | GAGTC | 1 cut(s) | 276 |
| PscI | ACATGT | 1 cut(s) | 565 |
| Psp6I | CCWGG | 2 cut(s) | 337, 642 |
| PspEI | GGTNACC | 1 cut(s) | 145 |
| PspFI | CCCAGC | 1 cut(s) | 106 |
| PspGI | CCWGG | 2 cut(s) | 337, 642 |
| PspN4I | GGNNCC | 4 cut(s) | 9, 256, 276, 609 |
| PspPI | GGNCC | 6 cut(s) | 36, 63, 200, 341, 541, 571 |
| PsuI | RGATCY | 1 cut(s) | 152 |
| SaqAI | TTAA | 1 cut(s) | 477 |
| SatI | GCNGC | 1 cut(s) | 116 |
| Sau3AI | GATC | 3 cut(s) | 91, 102, 152 |
| Sau96I | GGNCC | 6 cut(s) | 36, 63, 200, 341, 541, 571 |
| SchI | GAGTC | 1 cut(s) | 277 |
| ScrFI | CCNGG | 4 cut(s) | 339, 523, 631, 644 |
| SduI | GDGCHC | 3 cut(s) | 78, 129, 610 |
| SetI | ASST | 8 cut(s) | 68, 112, 138, 191, 205, 387, 546, 645 |
| SexAI | ACCWGGT | 1 cut(s) | 642 |
| SfuI | TTCGAA | 1 cut(s) | 392 |
| SinI | GGWCC | 4 cut(s) | 63, 200, 341, 541 |
| SmlI | CTYRAG | 1 cut(s) | 463 |
| SmoI | CTYRAG | 1 cut(s) | 463 |
| Sse9I | AATT | 2 cut(s) | 395, 433 |
| SsiI | CCGC | 3 cut(s) | 31, 58, 611 |
| SspMI | CTAG | 3 cut(s) | 375, 456, 518 |
| StyD4I | CCNGG | 4 cut(s) | 337, 521, 629, 642 |
| TaiI | ACGT | 1 cut(s) | 138 |
| TaqI | TCGA | 3 cut(s) | 132, 170, 392 |
| TasI | AATT | 2 cut(s) | 395, 433 |
| TfiI | GAWTC | 3 cut(s) | 194, 212, 425 |
| Tru1I | TTAA | 1 cut(s) | 477 |
| Tru9I | TTAA | 1 cut(s) | 477 |
| TscAI | CASTG | 2 cut(s) | 76, 265 |
| TseFI | GTSAC | 1 cut(s) | 145 |
| TseI | GCWGC | 1 cut(s) | 115 |
| Tsp45I | GTSAC | 1 cut(s) | 145 |
| TspDTI | ATGAA | 5 cut(s) | 31, 239, 242, 278, 298 |
| TspRI | CASTG | 2 cut(s) | 76, 265 |
| VpaK11BI | GGWCC | 4 cut(s) | 63, 200, 341, 541 |
| XapI | RAATTY | 1 cut(s) | 433 |
| XceI | RCATGY | 1 cut(s) | 569 |
| XspI | CTAG | 3 cut(s) | 375, 456, 518 |