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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AasI | GACNNNNNNGTC | 1 cut(s) | 198 |
| AciI | CCGC | 2 cut(s) | 98, 428 |
| AclI | AACGTT | 2 cut(s) | 150, 228 |
| AcsI | RAATTY | 2 cut(s) | 264, 406 |
| AcuI | CTGAAG | 1 cut(s) | 71 |
| AfaI | GTAC | 1 cut(s) | 102 |
| AfiI | CCNNNNNNNGG | 1 cut(s) | 506 |
| AflIII | ACRYGT | 1 cut(s) | 247 |
| AgsI | TTSAA | 1 cut(s) | 405 |
| AluBI | AGCT | 1 cut(s) | 122 |
| AluI | AGCT | 1 cut(s) | 122 |
| Alw26I | GTCTC | 1 cut(s) | 9 |
| ApoI | RAATTY | 2 cut(s) | 264, 406 |
| AsuHPI | GGTGA | 1 cut(s) | 488 |
| BcoDI | GTCTC | 1 cut(s) | 9 |
| BisI | GCNGC | 1 cut(s) | 428 |
| BlsI | GCNGC | 1 cut(s) | 429 |
| BmsI | GCATC | 3 cut(s) | 60, 189, 267 |
| Bpu10I | CCTNAGC | 1 cut(s) | 521 |
| Bsc4I | CCNNNNNNNGG | 1 cut(s) | 506 |
| BseGI | GGATG | 1 cut(s) | 361 |
| BseLI | CCNNNNNNNGG | 1 cut(s) | 506 |
| BseMII | CTCAG | 2 cut(s) | 20, 512 |
| BseRI | GAGGAG | 1 cut(s) | 311 |
| Bsh1285I | CGRYCG | 2 cut(s) | 112, 178 |
| BsiEI | CGRYCG | 2 cut(s) | 112, 178 |
| BslI | CCNNNNNNNGG | 1 cut(s) | 506 |
| BsmAI | GTCTC | 1 cut(s) | 9 |
| Bsp143I | GATC | 4 cut(s) | 109, 175, 310, 531 |
| BspACI | CCGC | 2 cut(s) | 98, 428 |
| BspCNI | CTCAG | 2 cut(s) | 19, 513 |
| BspHI | TCATGA | 1 cut(s) | 534 |
| BssMI | GATC | 4 cut(s) | 109, 175, 310, 531 |
| BstDEI | CTNAG | 2 cut(s) | 6, 521 |
| BstF5I | GGATG | 1 cut(s) | 361 |
| BstKTI | GATC | 4 cut(s) | 112, 178, 313, 534 |
| BstMAI | GTCTC | 1 cut(s) | 9 |
| BstMBI | GATC | 4 cut(s) | 109, 175, 310, 531 |
| BstMCI | CGRYCG | 2 cut(s) | 112, 178 |
| BtgZI | GCGATG | 1 cut(s) | 480 |
| BtsCI | GGATG | 1 cut(s) | 361 |
| CciI | TCATGA | 1 cut(s) | 534 |
| CseI | GACGC | 1 cut(s) | 91 |
| Csp6I | GTAC | 1 cut(s) | 101 |
| CviAII | CATG | 5 cut(s) | 47, 64, 393, 501, 535 |
| CviJI | RGCY | 3 cut(s) | 68, 122, 494 |
| CviKI_1 | RGCY | 3 cut(s) | 68, 122, 494 |
| CviQI | GTAC | 1 cut(s) | 101 |
| DdeI | CTNAG | 2 cut(s) | 6, 521 |
| DpnI | GATC | 4 cut(s) | 111, 177, 312, 533 |
| DpnII | GATC | 4 cut(s) | 109, 175, 310, 531 |
| DrdI | GACNNNNNNGTC | 1 cut(s) | 198 |
| DseDI | GACNNNNNNGTC | 1 cut(s) | 198 |
| Eco57I | CTGAAG | 1 cut(s) | 71 |
| FaeI | CATG | 5 cut(s) | 50, 67, 396, 504, 538 |
| FatI | CATG | 5 cut(s) | 46, 63, 392, 500, 534 |
| Fnu4HI | GCNGC | 1 cut(s) | 428 |
| FokI | GGATG | 1 cut(s) | 368 |
| Fsp4HI | GCNGC | 1 cut(s) | 428 |
| GluI | GCNGC | 1 cut(s) | 428 |
| HgaI | GACGC | 1 cut(s) | 91 |
| Hin1II | CATG | 5 cut(s) | 50, 67, 396, 504, 538 |
| HinfI | GANTC | 1 cut(s) | 341 |
| HphI | GGTGA | 1 cut(s) | 488 |
| Hpy188I | TCNGA | 4 cut(s) | 35, 129, 214, 346 |
| Hpy188III | TCNNGA | 2 cut(s) | 520, 535 |
| Hpy99I | CGWCG | 3 cut(s) | 129, 195, 198 |
| HpyAV | CCTTC | 3 cut(s) | 15, 20, 353 |
| HpyCH4IV | ACGT | 4 cut(s) | 150, 169, 228, 247 |
| HpyCH4V | TGCA | 1 cut(s) | 504 |
| HpyF3I | CTNAG | 2 cut(s) | 6, 521 |
| HpySE526I | ACGT | 4 cut(s) | 150, 169, 228, 247 |
| Hsp92II | CATG | 5 cut(s) | 50, 67, 396, 504, 538 |
| Kzo9I | GATC | 4 cut(s) | 109, 175, 310, 531 |
| LmnI | GCTCC | 1 cut(s) | 298 |
| LpnPI | CCDG | 2 cut(s) | 202, 533 |
| LweI | GCATC | 3 cut(s) | 60, 189, 267 |
| MaeII | ACGT | 4 cut(s) | 150, 169, 228, 247 |
| MaeIII | GTNAC | 3 cut(s) | 151, 170, 229 |
| MalI | GATC | 4 cut(s) | 111, 177, 312, 533 |
| MboI | GATC | 4 cut(s) | 109, 175, 310, 531 |
| MboII | GAAGA | 6 cut(s) | 30, 390, 393, 467, 505, 508 |
| MluCI | AATT | 4 cut(s) | 72, 264, 406, 472 |
| MlyI | GAGTC | 1 cut(s) | 350 |
| MmeI | TCCRAC | 3 cut(s) | 107, 159, 237 |
| MnlI | CCTC | 2 cut(s) | 34, 289 |
| MseI | TTAA | 1 cut(s) | 75 |
| MslI | CAYNNNNRTG | 3 cut(s) | 168, 246, 324 |
| NdeII | GATC | 4 cut(s) | 109, 175, 310, 531 |
| NlaIII | CATG | 5 cut(s) | 50, 67, 396, 504, 538 |
| NmuCI | GTSAC | 1 cut(s) | 170 |
| PagI | TCATGA | 1 cut(s) | 534 |
| PcsI | WCGNNNNNNNCGW | 2 cut(s) | 180, 199 |
| PflFI | GACNNNGTC | 1 cut(s) | 198 |
| PkrI | GCNGC | 1 cut(s) | 429 |
| Ple19I | CGATCG | 2 cut(s) | 112, 178 |
| PleI | GAGTC | 1 cut(s) | 349 |
| PpsI | GAGTC | 1 cut(s) | 349 |
| Psp1406I | AACGTT | 2 cut(s) | 150, 228 |
| PsrI | GAACNNNNNNTAC | 2 cut(s) | 379, 411 |
| PsyI | GACNNNGTC | 1 cut(s) | 198 |
| PvuI | CGATCG | 2 cut(s) | 112, 178 |
| RsaI | GTAC | 1 cut(s) | 102 |
| RsaNI | GTAC | 1 cut(s) | 101 |
| RseI | CAYNNNNRTG | 3 cut(s) | 168, 246, 324 |
| SaqAI | TTAA | 1 cut(s) | 75 |
| SatI | GCNGC | 1 cut(s) | 428 |
| Sau3AI | GATC | 4 cut(s) | 109, 175, 310, 531 |
| SchI | GAGTC | 1 cut(s) | 350 |
| SetI | ASST | 9 cut(s) | 12, 31, 124, 153, 172, 231, 250, 364, 511 |
| SfaNI | GCATC | 3 cut(s) | 60, 189, 267 |
| SmiMI | CAYNNNNRTG | 3 cut(s) | 168, 246, 324 |
| Sse9I | AATT | 4 cut(s) | 72, 264, 406, 472 |
| SsiI | CCGC | 2 cut(s) | 98, 428 |
| SspI | AATATT | 2 cut(s) | 289, 461 |
| TaiI | ACGT | 4 cut(s) | 153, 172, 231, 250 |
| TaqI | TCGA | 5 cut(s) | 108, 183, 190, 261, 413 |
| TasI | AATT | 4 cut(s) | 72, 264, 406, 472 |
| TauI | GCSGC | 1 cut(s) | 430 |
| Tru1I | TTAA | 1 cut(s) | 75 |
| Tru9I | TTAA | 1 cut(s) | 75 |
| TseFI | GTSAC | 1 cut(s) | 170 |
| Tsp45I | GTSAC | 1 cut(s) | 170 |
| TspDTI | ATGAA | 6 cut(s) | 308, 372, 380, 399, 468, 483 |
| Tth111I | GACNNNGTC | 1 cut(s) | 198 |
| XapI | RAATTY | 2 cut(s) | 264, 406 |