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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AciI | CCGC | 2 cut(s) | 262, 528 |
| AcsI | RAATTY | 2 cut(s) | 23, 543 |
| AcuI | CTGAAG | 2 cut(s) | 143, 378 |
| AfaI | GTAC | 2 cut(s) | 56, 155 |
| AfiI | CCNNNNNNNGG | 2 cut(s) | 64, 238 |
| AflII | CTTAAG | 1 cut(s) | 194 |
| AflIII | ACRYGT | 1 cut(s) | 303 |
| AgsI | TTSAA | 4 cut(s) | 166, 295, 328, 511 |
| AluBI | AGCT | 1 cut(s) | 463 |
| AluI | AGCT | 1 cut(s) | 463 |
| Ama87I | CYCGRG | 1 cut(s) | 548 |
| AoxI | GGCC | 1 cut(s) | 524 |
| ApoI | RAATTY | 2 cut(s) | 23, 543 |
| AspLEI | GCGC | 1 cut(s) | 312 |
| AspS9I | GGNCC | 1 cut(s) | 525 |
| AvaI | CYCGRG | 1 cut(s) | 548 |
| BaeI | ACNNNNGTAYC | 2 cut(s) | 38, 71 |
| BbsI | GAAGAC | 1 cut(s) | 173 |
| BccI | CCATC | 1 cut(s) | 66 |
| BciVI | GTATCC | 1 cut(s) | 181 |
| BclI | TGATCA | 1 cut(s) | 465 |
| BfaI | CTAG | 1 cut(s) | 407 |
| BfrI | CTTAAG | 1 cut(s) | 194 |
| BfuI | GTATCC | 1 cut(s) | 181 |
| BmeT110I | CYCGRG | 1 cut(s) | 548 |
| BmgT120I | GGNCC | 1 cut(s) | 525 |
| BpiI | GAAGAC | 1 cut(s) | 173 |
| BpmI | CTGGAG | 1 cut(s) | 446 |
| BpuEI | CTTGAG | 1 cut(s) | 71 |
| Bsc4I | CCNNNNNNNGG | 2 cut(s) | 64, 238 |
| Bse1I | ACTGG | 2 cut(s) | 243, 415 |
| BseLI | CCNNNNNNNGG | 2 cut(s) | 64, 238 |
| BseMII | CTCAG | 1 cut(s) | 54 |
| BseNI | ACTGG | 2 cut(s) | 243, 415 |
| BseYI | CCCAGC | 1 cut(s) | 530 |
| BshFI | GGCC | 1 cut(s) | 526 |
| BsiHKCI | CYCGRG | 1 cut(s) | 548 |
| BslFI | GGGAC | 2 cut(s) | 213, 547 |
| BslI | CCNNNNNNNGG | 2 cut(s) | 64, 238 |
| BsmFI | GGGAC | 2 cut(s) | 213, 547 |
| BsnI | GGCC | 1 cut(s) | 526 |
| BsoBI | CYCGRG | 1 cut(s) | 548 |
| Bsp143I | GATC | 3 cut(s) | 7, 363, 465 |
| BspACI | CCGC | 2 cut(s) | 262, 528 |
| BspANI | GGCC | 1 cut(s) | 526 |
| BspCNI | CTCAG | 1 cut(s) | 53 |
| BspHI | TCATGA | 1 cut(s) | 217 |
| BspTI | CTTAAG | 1 cut(s) | 194 |
| BsrI | ACTGG | 2 cut(s) | 243, 415 |
| BssMI | GATC | 3 cut(s) | 7, 363, 465 |
| Bst4CI | ACNGT | 1 cut(s) | 183 |
| BstAFI | CTTAAG | 1 cut(s) | 194 |
| BstC8I | GCNNGC | 2 cut(s) | 266, 528 |
| BstDEI | CTNAG | 2 cut(s) | 40, 486 |
| BstHHI | GCGC | 1 cut(s) | 312 |
| BstKTI | GATC | 3 cut(s) | 10, 366, 468 |
| BstMBI | GATC | 3 cut(s) | 7, 363, 465 |
| BstMWI | GCNNNNNNNGC | 1 cut(s) | 92 |
| BstNSI | RCATGY | 1 cut(s) | 307 |
| BstV2I | GAAGAC | 1 cut(s) | 173 |
| BsuI | GTATCC | 1 cut(s) | 181 |
| BsuRI | GGCC | 1 cut(s) | 526 |
| BtsI | GCAGTG | 1 cut(s) | 105 |
| BtsIMutI | CAGTG | 2 cut(s) | 105, 254 |
| Cac8I | GCNNGC | 2 cut(s) | 266, 528 |
| CciI | TCATGA | 1 cut(s) | 217 |
| CfoI | GCGC | 1 cut(s) | 312 |
| Cfr13I | GGNCC | 1 cut(s) | 525 |
| Csp6I | GTAC | 2 cut(s) | 55, 154 |
| CviAII | CATG | 2 cut(s) | 218, 304 |
| CviJI | RGCY | 5 cut(s) | 242, 424, 463, 485, 526 |
| CviKI_1 | RGCY | 5 cut(s) | 242, 424, 463, 485, 526 |
| CviQI | GTAC | 2 cut(s) | 55, 154 |
| DdeI | CTNAG | 2 cut(s) | 40, 486 |
| DpnI | GATC | 3 cut(s) | 9, 365, 467 |
| DpnII | GATC | 3 cut(s) | 7, 363, 465 |
| Eco57I | CTGAAG | 2 cut(s) | 143, 378 |
| Eco88I | CYCGRG | 1 cut(s) | 548 |
| EcoT22I | ATGCAT | 1 cut(s) | 595 |
| FaeI | CATG | 2 cut(s) | 221, 307 |
| FaqI | GGGAC | 2 cut(s) | 213, 547 |
| FatI | CATG | 2 cut(s) | 217, 303 |
| FauI | CCCGC | 1 cut(s) | 535 |
| FbaI | TGATCA | 1 cut(s) | 465 |
| FspBI | CTAG | 1 cut(s) | 407 |
| GlaI | GCGC | 1 cut(s) | 311 |
| GsaI | CCCAGC | 1 cut(s) | 534 |
| GsuI | CTGGAG | 1 cut(s) | 446 |
| HaeIII | GGCC | 1 cut(s) | 526 |
| HhaI | GCGC | 1 cut(s) | 312 |
| Hin1II | CATG | 2 cut(s) | 221, 307 |
| Hin6I | GCGC | 1 cut(s) | 310 |
| HinP1I | GCGC | 1 cut(s) | 310 |
| HinfI | GANTC | 6 cut(s) | 38, 122, 258, 373, 444, 551 |
| Hpy188I | TCNGA | 2 cut(s) | 43, 73 |
| Hpy188III | TCNNGA | 3 cut(s) | 218, 508, 548 |
| HpyAV | CCTTC | 2 cut(s) | 38, 167 |
| HpyCH4III | ACNGT | 1 cut(s) | 183 |
| HpyCH4IV | ACGT | 2 cut(s) | 202, 322 |
| HpyCH4V | TGCA | 3 cut(s) | 86, 478, 593 |
| HpyF10VI | GCNNNNNNNGC | 1 cut(s) | 92 |
| HpyF3I | CTNAG | 2 cut(s) | 40, 486 |
| HpySE526I | ACGT | 2 cut(s) | 202, 322 |
| Hsp92II | CATG | 2 cut(s) | 221, 307 |
| HspAI | GCGC | 1 cut(s) | 310 |
| Ksp22I | TGATCA | 1 cut(s) | 465 |
| Kzo9I | GATC | 3 cut(s) | 7, 363, 465 |
| LmnI | GCTCC | 1 cut(s) | 234 |
| LpnPI | CCDG | 8 cut(s) | 33, 224, 246, 410, 428, 508, 516, 558 |
| MaeI | CTAG | 1 cut(s) | 407 |
| MaeII | ACGT | 2 cut(s) | 202, 322 |
| MalI | GATC | 3 cut(s) | 9, 365, 467 |
| MboI | GATC | 3 cut(s) | 7, 363, 465 |
| MboII | GAAGA | 2 cut(s) | 178, 365 |
| MluCI | AATT | 4 cut(s) | 23, 328, 543, 556 |
| MlyI | GAGTC | 4 cut(s) | 32, 116, 367, 560 |
| MnlI | CCTC | 2 cut(s) | 483, 493 |
| Mph1103I | ATGCAT | 1 cut(s) | 595 |
| MseI | TTAA | 3 cut(s) | 195, 314, 456 |
| MspA1I | CMGCKG | 1 cut(s) | 530 |
| MspCI | CTTAAG | 1 cut(s) | 194 |
| MwoI | GCNNNNNNNGC | 1 cut(s) | 92 |
| NdeII | GATC | 3 cut(s) | 7, 363, 465 |
| NlaIII | CATG | 2 cut(s) | 221, 307 |
| NsiI | ATGCAT | 1 cut(s) | 595 |
| NspI | RCATGY | 1 cut(s) | 307 |
| PagI | TCATGA | 1 cut(s) | 217 |
| PciI | ACATGT | 1 cut(s) | 303 |
| PfeI | GAWTC | 2 cut(s) | 258, 444 |
| PleI | GAGTC | 4 cut(s) | 32, 116, 367, 559 |
| PpsI | GAGTC | 4 cut(s) | 32, 116, 367, 559 |
| PscI | ACATGT | 1 cut(s) | 303 |
| PspFI | CCCAGC | 1 cut(s) | 530 |
| PspPI | GGNCC | 1 cut(s) | 525 |
| RsaI | GTAC | 2 cut(s) | 56, 155 |
| RsaNI | GTAC | 2 cut(s) | 55, 154 |
| SaqAI | TTAA | 3 cut(s) | 195, 314, 456 |
| Sau3AI | GATC | 3 cut(s) | 7, 363, 465 |
| Sau96I | GGNCC | 1 cut(s) | 525 |
| SchI | GAGTC | 4 cut(s) | 32, 116, 367, 560 |
| SetI | ASST | 9 cut(s) | 22, 159, 205, 325, 455, 465, 474, 504, 577 |
| SmlI | CTYRAG | 2 cut(s) | 50, 194 |
| SmoI | CTYRAG | 2 cut(s) | 50, 194 |
| Sse9I | AATT | 4 cut(s) | 23, 328, 543, 556 |
| SsiI | CCGC | 2 cut(s) | 262, 528 |
| SspMI | CTAG | 1 cut(s) | 407 |
| TaaI | ACNGT | 1 cut(s) | 183 |
| TaiI | ACGT | 2 cut(s) | 205, 325 |
| TaqI | TCGA | 1 cut(s) | 16 |
| TasI | AATT | 4 cut(s) | 23, 328, 543, 556 |
| TfiI | GAWTC | 2 cut(s) | 258, 444 |
| Tru1I | TTAA | 3 cut(s) | 195, 314, 456 |
| Tru9I | TTAA | 3 cut(s) | 195, 314, 456 |
| TscAI | CASTG | 2 cut(s) | 112, 254 |
| TspDTI | ATGAA | 2 cut(s) | 150, 206 |
| TspRI | CASTG | 2 cut(s) | 112, 254 |
| Vha464I | CTTAAG | 1 cut(s) | 194 |
| XapI | RAATTY | 2 cut(s) | 23, 543 |
| XceI | RCATGY | 1 cut(s) | 307 |
| XspI | CTAG | 1 cut(s) | 407 |
| Zsp2I | ATGCAT | 1 cut(s) | 595 |