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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AccI | GTMKAC | 1 cut(s) | 493 |
| AcsI | RAATTY | 2 cut(s) | 452, 512 |
| AfaI | GTAC | 1 cut(s) | 69 |
| AflII | CTTAAG | 1 cut(s) | 311 |
| AgsI | TTSAA | 3 cut(s) | 56, 382, 407 |
| AluBI | AGCT | 5 cut(s) | 50, 116, 134, 218, 349 |
| AluI | AGCT | 5 cut(s) | 50, 116, 134, 218, 349 |
| Alw26I | GTCTC | 1 cut(s) | 407 |
| AoxI | GGCC | 1 cut(s) | 267 |
| ApeKI | GCWGC | 5 cut(s) | 101, 116, 236, 389, 447 |
| ApoI | RAATTY | 2 cut(s) | 452, 512 |
| AspS9I | GGNCC | 1 cut(s) | 268 |
| BbvI | GCAGC | 5 cut(s) | 103, 113, 248, 376, 459 |
| BccI | CCATC | 1 cut(s) | 316 |
| BceAI | ACGGC | 1 cut(s) | 409 |
| BciVI | GTATCC | 1 cut(s) | 217 |
| BcoDI | GTCTC | 1 cut(s) | 407 |
| BfaI | CTAG | 2 cut(s) | 354, 517 |
| BfmI | CTRYAG | 1 cut(s) | 302 |
| BfrI | CTTAAG | 1 cut(s) | 311 |
| BfuI | GTATCC | 1 cut(s) | 217 |
| BisI | GCNGC | 5 cut(s) | 102, 117, 237, 390, 448 |
| BlpI | GCTNAGC | 1 cut(s) | 90 |
| BlsI | GCNGC | 5 cut(s) | 103, 118, 238, 391, 449 |
| BmgT120I | GGNCC | 1 cut(s) | 268 |
| BmiI | GGNNCC | 1 cut(s) | 270 |
| BmsI | GCATC | 3 cut(s) | 88, 197, 467 |
| Bpu1102I | GCTNAGC | 1 cut(s) | 90 |
| BpuEI | CTTGAG | 1 cut(s) | 120 |
| BsaAI | YACGTR | 1 cut(s) | 248 |
| Bse1I | ACTGG | 1 cut(s) | 298 |
| BseGI | GGATG | 4 cut(s) | 188, 327, 406, 478 |
| BseMII | CTCAG | 2 cut(s) | 104, 336 |
| BseNI | ACTGG | 1 cut(s) | 298 |
| BseRI | GAGGAG | 1 cut(s) | 425 |
| BseXI | GCAGC | 5 cut(s) | 103, 113, 248, 376, 459 |
| BsgI | GTGCAG | 1 cut(s) | 375 |
| BshFI | GGCC | 1 cut(s) | 269 |
| BsmAI | GTCTC | 1 cut(s) | 407 |
| BsnI | GGCC | 1 cut(s) | 269 |
| Bsp143I | GATC | 1 cut(s) | 33 |
| Bsp1720I | GCTNAGC | 1 cut(s) | 90 |
| BspANI | GGCC | 1 cut(s) | 269 |
| BspCNI | CTCAG | 2 cut(s) | 103, 337 |
| BspLI | GGNNCC | 1 cut(s) | 270 |
| BspTI | CTTAAG | 1 cut(s) | 311 |
| BsrI | ACTGG | 1 cut(s) | 298 |
| BssMI | GATC | 1 cut(s) | 33 |
| Bst4CI | ACNGT | 1 cut(s) | 306 |
| Bst6I | CTCTTC | 3 cut(s) | 51, 273, 402 |
| BstAFI | CTTAAG | 1 cut(s) | 311 |
| BstAPI | GCANNNNNTGC | 1 cut(s) | 242 |
| BstBAI | YACGTR | 1 cut(s) | 248 |
| BstC8I | GCNNGC | 2 cut(s) | 216, 351 |
| BstDEI | CTNAG | 2 cut(s) | 90, 345 |
| BstF5I | GGATG | 4 cut(s) | 188, 327, 406, 478 |
| BstKTI | GATC | 1 cut(s) | 36 |
| BstMAI | GTCTC | 1 cut(s) | 407 |
| BstMBI | GATC | 1 cut(s) | 33 |
| BstMWI | GCNNNNNNNGC | 1 cut(s) | 242 |
| BstSFI | CTRYAG | 1 cut(s) | 302 |
| BstV1I | GCAGC | 5 cut(s) | 103, 113, 248, 376, 459 |
| BsuI | GTATCC | 1 cut(s) | 217 |
| BsuRI | GGCC | 1 cut(s) | 269 |
| BtsCI | GGATG | 4 cut(s) | 188, 327, 406, 478 |
| Cac8I | GCNNGC | 2 cut(s) | 216, 351 |
| Cfr13I | GGNCC | 1 cut(s) | 268 |
| Csp6I | GTAC | 1 cut(s) | 68 |
| CviAII | CATG | 1 cut(s) | 421 |
| CviJI | RGCY | 7 cut(s) | 50, 104, 116, 134, 218, 269, 349 |
| CviKI_1 | RGCY | 7 cut(s) | 50, 104, 116, 134, 218, 269, 349 |
| CviQI | GTAC | 1 cut(s) | 68 |
| DdeI | CTNAG | 2 cut(s) | 90, 345 |
| DpnI | GATC | 1 cut(s) | 35 |
| DpnII | GATC | 1 cut(s) | 33 |
| Eam1104I | CTCTTC | 3 cut(s) | 51, 273, 402 |
| EarI | CTCTTC | 3 cut(s) | 51, 273, 402 |
| EcoO109I | RGGNCCY | 1 cut(s) | 268 |
| EcoT22I | ATGCAT | 1 cut(s) | 190 |
| FaeI | CATG | 1 cut(s) | 424 |
| FaiI | YATR | 5 cut(s) | 186, 241, 243, 329, 422 |
| FalI | AAGNNNNNCTT | 2 cut(s) | 362, 394 |
| FatI | CATG | 1 cut(s) | 420 |
| FauNDI | CATATG | 1 cut(s) | 241 |
| FblI | GTMKAC | 1 cut(s) | 493 |
| Fnu4HI | GCNGC | 5 cut(s) | 102, 117, 237, 390, 448 |
| FokI | GGATG | 4 cut(s) | 175, 334, 413, 485 |
| Fsp4HI | GCNGC | 5 cut(s) | 102, 117, 237, 390, 448 |
| FspBI | CTAG | 2 cut(s) | 354, 517 |
| GluI | GCNGC | 5 cut(s) | 102, 117, 237, 390, 448 |
| HaeIII | GGCC | 1 cut(s) | 269 |
| Hin1II | CATG | 1 cut(s) | 424 |
| Hpy166II | GTNNAC | 2 cut(s) | 299, 494 |
| Hpy188I | TCNGA | 1 cut(s) | 164 |
| Hpy188III | TCNNGA | 5 cut(s) | 147, 364, 379, 431, 505 |
| Hpy8I | GTNNAC | 2 cut(s) | 299, 494 |
| HpyAV | CCTTC | 2 cut(s) | 226, 325 |
| HpyCH4III | ACNGT | 1 cut(s) | 306 |
| HpyCH4IV | ACGT | 1 cut(s) | 247 |
| HpyCH4V | TGCA | 6 cut(s) | 101, 119, 188, 245, 392, 458 |
| HpyF10VI | GCNNNNNNNGC | 1 cut(s) | 242 |
| HpyF3I | CTNAG | 2 cut(s) | 90, 345 |
| HpySE526I | ACGT | 1 cut(s) | 247 |
| Hsp92II | CATG | 1 cut(s) | 424 |
| Kzo9I | GATC | 1 cut(s) | 33 |
| LpnPI | CCDG | 5 cut(s) | 60, 204, 279, 285, 416 |
| Lsp1109I | GCAGC | 5 cut(s) | 103, 113, 248, 376, 459 |
| LweI | GCATC | 3 cut(s) | 88, 197, 467 |
| MaeI | CTAG | 2 cut(s) | 354, 517 |
| MaeII | ACGT | 1 cut(s) | 247 |
| MaeIII | GTNAC | 1 cut(s) | 306 |
| MalI | GATC | 1 cut(s) | 35 |
| MboI | GATC | 1 cut(s) | 33 |
| MboII | GAAGA | 4 cut(s) | 68, 290, 379, 419 |
| MluCI | AATT | 3 cut(s) | 440, 452, 512 |
| MmeI | TCCRAC | 1 cut(s) | 235 |
| MnlI | CCTC | 5 cut(s) | 17, 274, 403, 463, 507 |
| Mph1103I | ATGCAT | 1 cut(s) | 190 |
| MseI | TTAA | 2 cut(s) | 312, 374 |
| MspA1I | CMGCKG | 1 cut(s) | 50 |
| MspCI | CTTAAG | 1 cut(s) | 311 |
| MwoI | GCNNNNNNNGC | 1 cut(s) | 242 |
| NdeI | CATATG | 1 cut(s) | 241 |
| NdeII | GATC | 1 cut(s) | 33 |
| NlaIII | CATG | 1 cut(s) | 424 |
| NlaIV | GGNNCC | 1 cut(s) | 270 |
| NsiI | ATGCAT | 1 cut(s) | 190 |
| PkrI | GCNGC | 5 cut(s) | 103, 118, 238, 391, 449 |
| Ppu21I | YACGTR | 1 cut(s) | 248 |
| PspN4I | GGNNCC | 1 cut(s) | 270 |
| PspPI | GGNCC | 1 cut(s) | 268 |
| PvuII | CAGCTG | 1 cut(s) | 50 |
| RsaI | GTAC | 1 cut(s) | 69 |
| RsaNI | GTAC | 1 cut(s) | 68 |
| SaqAI | TTAA | 2 cut(s) | 312, 374 |
| SatI | GCNGC | 5 cut(s) | 102, 117, 237, 390, 448 |
| Sau3AI | GATC | 1 cut(s) | 33 |
| Sau96I | GGNCC | 1 cut(s) | 268 |
| SfaNI | GCATC | 3 cut(s) | 88, 197, 467 |
| SfcI | CTRYAG | 1 cut(s) | 302 |
| SmlI | CTYRAG | 2 cut(s) | 135, 311 |
| SmoI | CTYRAG | 2 cut(s) | 135, 311 |
| Sse9I | AATT | 3 cut(s) | 440, 452, 512 |
| SspMI | CTAG | 2 cut(s) | 354, 517 |
| TaaI | ACNGT | 1 cut(s) | 306 |
| TaiI | ACGT | 1 cut(s) | 250 |
| TasI | AATT | 3 cut(s) | 440, 452, 512 |
| Tru1I | TTAA | 2 cut(s) | 312, 374 |
| Tru9I | TTAA | 2 cut(s) | 312, 374 |
| TseI | GCWGC | 5 cut(s) | 101, 116, 236, 389, 447 |
| TspDTI | ATGAA | 4 cut(s) | 17, 32, 291, 344 |
| Vha464I | CTTAAG | 1 cut(s) | 311 |
| XapI | RAATTY | 2 cut(s) | 452, 512 |
| XcmI | CCANNNNNNNNNTGG | 1 cut(s) | 427 |
| XmiI | GTMKAC | 1 cut(s) | 493 |
| XspI | CTAG | 2 cut(s) | 354, 517 |
| Zsp2I | ATGCAT | 1 cut(s) | 190 |