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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AccI | GTMKAC | 2 cut(s) | 109, 385 |
| AcoI | YGGCCR | 1 cut(s) | 435 |
| AcuI | CTGAAG | 2 cut(s) | 201, 468 |
| AfiI | CCNNNNNNNGG | 2 cut(s) | 121, 147 |
| AgsI | TTSAA | 1 cut(s) | 56 |
| AjnI | CCWGG | 1 cut(s) | 13 |
| AluBI | AGCT | 1 cut(s) | 32 |
| AluI | AGCT | 1 cut(s) | 32 |
| Alw26I | GTCTC | 1 cut(s) | 179 |
| AoxI | GGCC | 1 cut(s) | 435 |
| Asp700I | GAANNNNTTC | 1 cut(s) | 51 |
| AspS9I | GGNCC | 2 cut(s) | 206, 301 |
| AvaII | GGWCC | 2 cut(s) | 206, 301 |
| BalI | TGGCCA | 1 cut(s) | 437 |
| BarI | GAAGNNNNNNTAC | 1 cut(s) | 447 |
| BccI | CCATC | 2 cut(s) | 197, 312 |
| BciT130I | CCWGG | 1 cut(s) | 15 |
| BcoDI | GTCTC | 1 cut(s) | 179 |
| BfaI | CTAG | 1 cut(s) | 309 |
| Bme1390I | CCNGG | 1 cut(s) | 15 |
| Bme18I | GGWCC | 2 cut(s) | 206, 301 |
| BmgT120I | GGNCC | 2 cut(s) | 206, 301 |
| BmrFI | CCNGG | 1 cut(s) | 15 |
| BpuEI | CTTGAG | 1 cut(s) | 377 |
| BsaI | GGTCTC | 1 cut(s) | 179 |
| BsaJI | CCNNGG | 3 cut(s) | 73, 91, 265 |
| BsaWI | WCCGGW | 1 cut(s) | 114 |
| Bsc4I | CCNNNNNNNGG | 2 cut(s) | 121, 147 |
| BseBI | CCWGG | 1 cut(s) | 15 |
| BseDI | CCNNGG | 3 cut(s) | 73, 91, 265 |
| BseGI | GGATG | 1 cut(s) | 304 |
| BseLI | CCNNNNNNNGG | 2 cut(s) | 121, 147 |
| BseRI | GAGGAG | 2 cut(s) | 137, 437 |
| BshFI | GGCC | 1 cut(s) | 437 |
| BsiSI | CCGG | 1 cut(s) | 115 |
| BslI | CCNNNNNNNGG | 2 cut(s) | 121, 147 |
| BsmAI | GTCTC | 1 cut(s) | 179 |
| BsnI | GGCC | 1 cut(s) | 437 |
| Bso31I | GGTCTC | 1 cut(s) | 179 |
| Bsp19I | CCATGG | 2 cut(s) | 73, 91 |
| BspANI | GGCC | 1 cut(s) | 437 |
| BspTNI | GGTCTC | 1 cut(s) | 179 |
| BssECI | CCNNGG | 3 cut(s) | 73, 91, 265 |
| BssT1I | CCWWGG | 3 cut(s) | 73, 91, 265 |
| Bst2UI | CCWGG | 1 cut(s) | 15 |
| Bst6I | CTCTTC | 2 cut(s) | 220, 400 |
| BstDSI | CCRYGG | 2 cut(s) | 73, 91 |
| BstF5I | GGATG | 1 cut(s) | 304 |
| BstMAI | GTCTC | 1 cut(s) | 179 |
| BstNI | CCWGG | 1 cut(s) | 15 |
| BstSCI | CCNGG | 1 cut(s) | 13 |
| BstXI | CCANNNNNNTGG | 1 cut(s) | 43 |
| BsuRI | GGCC | 1 cut(s) | 437 |
| BtgI | CCRYGG | 2 cut(s) | 73, 91 |
| BtsCI | GGATG | 1 cut(s) | 304 |
| Cfr13I | GGNCC | 2 cut(s) | 206, 301 |
| CviAII | CATG | 4 cut(s) | 43, 74, 92, 191 |
| CviJI | RGCY | 3 cut(s) | 32, 85, 437 |
| CviKI_1 | RGCY | 3 cut(s) | 32, 85, 437 |
| EaeI | YGGCCR | 1 cut(s) | 435 |
| Eam1104I | CTCTTC | 2 cut(s) | 220, 400 |
| EarI | CTCTTC | 2 cut(s) | 220, 400 |
| Eco130I | CCWWGG | 3 cut(s) | 73, 91, 265 |
| Eco31I | GGTCTC | 1 cut(s) | 179 |
| Eco47I | GGWCC | 2 cut(s) | 206, 301 |
| Eco57I | CTGAAG | 2 cut(s) | 201, 468 |
| EcoRII | CCWGG | 1 cut(s) | 13 |
| EcoT14I | CCWWGG | 3 cut(s) | 73, 91, 265 |
| ErhI | CCWWGG | 3 cut(s) | 73, 91, 265 |
| FaeI | CATG | 4 cut(s) | 46, 77, 95, 194 |
| FaiI | YATR | 8 cut(s) | 44, 66, 75, 93, 132, 192, 374, 440 |
| FatI | CATG | 4 cut(s) | 42, 73, 91, 190 |
| FblI | GTMKAC | 2 cut(s) | 109, 385 |
| FokI | GGATG | 1 cut(s) | 291 |
| FspBI | CTAG | 1 cut(s) | 309 |
| HaeIII | GGCC | 1 cut(s) | 437 |
| HapII | CCGG | 1 cut(s) | 115 |
| Hin1II | CATG | 4 cut(s) | 46, 77, 95, 194 |
| HincII | GTYRAC | 1 cut(s) | 386 |
| HindII | GTYRAC | 1 cut(s) | 386 |
| HindIII | AAGCTT | 1 cut(s) | 30 |
| HinfI | GANTC | 2 cut(s) | 4, 111 |
| HpaII | CCGG | 1 cut(s) | 115 |
| Hpy166II | GTNNAC | 3 cut(s) | 110, 248, 386 |
| Hpy188I | TCNGA | 2 cut(s) | 220, 448 |
| Hpy188III | TCNNGA | 1 cut(s) | 394 |
| Hpy8I | GTNNAC | 3 cut(s) | 110, 248, 386 |
| HpyAV | CCTTC | 2 cut(s) | 75, 219 |
| Hsp92II | CATG | 4 cut(s) | 46, 77, 95, 194 |
| LpnPI | CCDG | 2 cut(s) | 27, 128 |
| MaeI | CTAG | 1 cut(s) | 309 |
| MaeIII | GTNAC | 3 cut(s) | 136, 353, 365 |
| MboII | GAAGA | 5 cut(s) | 207, 340, 343, 388, 417 |
| MfeI | CAATTG | 1 cut(s) | 99 |
| MlsI | TGGCCA | 1 cut(s) | 437 |
| MluCI | AATT | 5 cut(s) | 99, 198, 226, 335, 379 |
| MluNI | TGGCCA | 1 cut(s) | 437 |
| MlyI | GAGTC | 1 cut(s) | 105 |
| MmeI | TCCRAC | 1 cut(s) | 132 |
| MnlI | CCTC | 5 cut(s) | 115, 118, 223, 236, 415 |
| Mox20I | TGGCCA | 1 cut(s) | 437 |
| MroXI | GAANNNNTTC | 1 cut(s) | 51 |
| MscI | TGGCCA | 1 cut(s) | 437 |
| MseI | TTAA | 1 cut(s) | 165 |
| MslI | CAYNNNNRTG | 1 cut(s) | 41 |
| Msp20I | TGGCCA | 1 cut(s) | 437 |
| MspI | CCGG | 1 cut(s) | 115 |
| MspR9I | CCNGG | 1 cut(s) | 15 |
| MunI | CAATTG | 1 cut(s) | 99 |
| MvaI | CCWGG | 1 cut(s) | 15 |
| NcoI | CCATGG | 2 cut(s) | 73, 91 |
| NlaIII | CATG | 4 cut(s) | 46, 77, 95, 194 |
| NmuCI | GTSAC | 1 cut(s) | 365 |
| PdmI | GAANNNNTTC | 1 cut(s) | 51 |
| PfeI | GAWTC | 1 cut(s) | 4 |
| PleI | GAGTC | 1 cut(s) | 105 |
| PpsI | GAGTC | 1 cut(s) | 105 |
| Psp6I | CCWGG | 1 cut(s) | 13 |
| PspGI | CCWGG | 1 cut(s) | 13 |
| PspPI | GGNCC | 2 cut(s) | 206, 301 |
| RseI | CAYNNNNRTG | 1 cut(s) | 41 |
| SalI | GTCGAC | 1 cut(s) | 384 |
| SaqAI | TTAA | 1 cut(s) | 165 |
| Sau96I | GGNCC | 2 cut(s) | 206, 301 |
| SchI | GAGTC | 1 cut(s) | 105 |
| ScrFI | CCNGG | 1 cut(s) | 15 |
| SetI | ASST | 5 cut(s) | 34, 152, 211, 247, 271 |
| SinI | GGWCC | 2 cut(s) | 206, 301 |
| SmiMI | CAYNNNNRTG | 1 cut(s) | 41 |
| SmlI | CTYRAG | 1 cut(s) | 392 |
| SmoI | CTYRAG | 1 cut(s) | 392 |
| Sse9I | AATT | 5 cut(s) | 99, 198, 226, 335, 379 |
| SspMI | CTAG | 1 cut(s) | 309 |
| StyD4I | CCNGG | 1 cut(s) | 13 |
| StyI | CCWWGG | 3 cut(s) | 73, 91, 265 |
| TaqI | TCGA | 4 cut(s) | 293, 385, 403, 420 |
| TaqII | GACCGA | 1 cut(s) | 353 |
| TasI | AATT | 5 cut(s) | 99, 198, 226, 335, 379 |
| TfiI | GAWTC | 1 cut(s) | 4 |
| Tru1I | TTAA | 1 cut(s) | 165 |
| Tru9I | TTAA | 1 cut(s) | 165 |
| TseFI | GTSAC | 1 cut(s) | 365 |
| Tsp45I | GTSAC | 1 cut(s) | 365 |
| TspDTI | ATGAA | 3 cut(s) | 17, 31, 389 |
| TspGWI | ACGGA | 1 cut(s) | 295 |
| VpaK11BI | GGWCC | 2 cut(s) | 206, 301 |
| XcmI | CCANNNNNNNNNTGG | 2 cut(s) | 98, 148 |
| XmiI | GTMKAC | 2 cut(s) | 109, 385 |
| XmnI | GAANNNNTTC | 1 cut(s) | 51 |
| XspI | CTAG | 1 cut(s) | 309 |