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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AciI | CCGC | 3 cut(s) | 154, 384, 400 |
| AclWI | GGATC | 1 cut(s) | 259 |
| AcsI | RAATTY | 1 cut(s) | 404 |
| AfaI | GTAC | 2 cut(s) | 255, 431 |
| AgsI | TTSAA | 1 cut(s) | 409 |
| AhdI | GACNNNNNGTC | 1 cut(s) | 138 |
| AluBI | AGCT | 2 cut(s) | 71, 460 |
| AluI | AGCT | 2 cut(s) | 71, 460 |
| Alw21I | GWGCWC | 1 cut(s) | 58 |
| AlwI | GGATC | 1 cut(s) | 259 |
| ApeKI | GCWGC | 4 cut(s) | 65, 68, 112, 386 |
| ApoI | RAATTY | 1 cut(s) | 404 |
| AspS9I | GGNCC | 1 cut(s) | 298 |
| AsuC2I | CCSGG | 1 cut(s) | 302 |
| AsuHPI | GGTGA | 3 cut(s) | 142, 293, 385 |
| AvaII | GGWCC | 1 cut(s) | 298 |
| Bbv12I | GWGCWC | 1 cut(s) | 58 |
| BbvI | GCAGC | 4 cut(s) | 77, 80, 99, 373 |
| BclI | TGATCA | 1 cut(s) | 159 |
| BcnI | CCSGG | 1 cut(s) | 302 |
| BfaI | CTAG | 1 cut(s) | 72 |
| BisI | GCNGC | 5 cut(s) | 66, 69, 113, 155, 387 |
| BlsI | GCNGC | 5 cut(s) | 67, 70, 114, 156, 388 |
| Bme1390I | CCNGG | 1 cut(s) | 302 |
| Bme18I | GGWCC | 1 cut(s) | 298 |
| BmeRI | GACNNNNNGTC | 1 cut(s) | 138 |
| BmgT120I | GGNCC | 1 cut(s) | 298 |
| BmiI | GGNNCC | 1 cut(s) | 300 |
| BmrFI | CCNGG | 1 cut(s) | 302 |
| BmsI | GCATC | 3 cut(s) | 479, 529, 551 |
| BpmI | CTGGAG | 1 cut(s) | 459 |
| Bpu10I | CCTNAGC | 1 cut(s) | 456 |
| BpuMI | CCSGG | 1 cut(s) | 302 |
| Bsa29I | ATCGAT | 3 cut(s) | 329, 447, 487 |
| BsaBI | GATNNNNATC | 1 cut(s) | 483 |
| Bse8I | GATNNNNATC | 1 cut(s) | 483 |
| BseCI | ATCGAT | 3 cut(s) | 329, 447, 487 |
| BseGI | GGATG | 2 cut(s) | 13, 310 |
| BseJI | GATNNNNATC | 1 cut(s) | 483 |
| BseMII | CTCAG | 2 cut(s) | 447, 560 |
| BseXI | GCAGC | 4 cut(s) | 77, 80, 99, 373 |
| BshVI | ATCGAT | 3 cut(s) | 329, 447, 487 |
| BsiHKAI | GWGCWC | 1 cut(s) | 58 |
| BsiSI | CCGG | 1 cut(s) | 302 |
| Bsp1286I | GDGCHC | 1 cut(s) | 58 |
| Bsp143I | GATC | 2 cut(s) | 159, 264 |
| BspACI | CCGC | 3 cut(s) | 154, 384, 400 |
| BspCNI | CTCAG | 2 cut(s) | 448, 559 |
| BspDI | ATCGAT | 3 cut(s) | 329, 447, 487 |
| BspLI | GGNNCC | 1 cut(s) | 300 |
| BspPI | GGATC | 1 cut(s) | 259 |
| BssMI | GATC | 2 cut(s) | 159, 264 |
| Bst4CI | ACNGT | 1 cut(s) | 181 |
| BstDEI | CTNAG | 4 cut(s) | 48, 250, 456, 546 |
| BstF5I | GGATG | 2 cut(s) | 13, 310 |
| BstKTI | GATC | 2 cut(s) | 162, 267 |
| BstMBI | GATC | 2 cut(s) | 159, 264 |
| BstMWI | GCNNNNNNNGC | 2 cut(s) | 62, 118 |
| BstSCI | CCNGG | 1 cut(s) | 300 |
| BstV1I | GCAGC | 4 cut(s) | 77, 80, 99, 373 |
| BstX2I | RGATCY | 1 cut(s) | 264 |
| BstYI | RGATCY | 1 cut(s) | 264 |
| Bsu15I | ATCGAT | 3 cut(s) | 329, 447, 487 |
| BsuTUI | ATCGAT | 3 cut(s) | 329, 447, 487 |
| BtsCI | GGATG | 2 cut(s) | 13, 310 |
| Cfr13I | GGNCC | 1 cut(s) | 298 |
| ClaI | ATCGAT | 3 cut(s) | 329, 447, 487 |
| Csp6I | GTAC | 2 cut(s) | 254, 430 |
| CviJI | RGCY | 6 cut(s) | 71, 112, 157, 175, 218, 460 |
| CviKI_1 | RGCY | 6 cut(s) | 71, 112, 157, 175, 218, 460 |
| CviQI | GTAC | 2 cut(s) | 254, 430 |
| DdeI | CTNAG | 4 cut(s) | 48, 250, 456, 546 |
| DpnI | GATC | 2 cut(s) | 161, 266 |
| DpnII | GATC | 2 cut(s) | 159, 264 |
| DriI | GACNNNNNGTC | 1 cut(s) | 138 |
| Eam1105I | GACNNNNNGTC | 1 cut(s) | 138 |
| Eco32I | GATATC | 2 cut(s) | 88, 378 |
| Eco47I | GGWCC | 1 cut(s) | 298 |
| EcoRI | GAATTC | 1 cut(s) | 404 |
| EcoRV | GATATC | 2 cut(s) | 88, 378 |
| EcoT22I | ATGCAT | 2 cut(s) | 494, 544 |
| FaiI | YATR | 3 cut(s) | 258, 322, 437 |
| FauI | CCCGC | 1 cut(s) | 393 |
| FbaI | TGATCA | 1 cut(s) | 159 |
| Fnu4HI | GCNGC | 5 cut(s) | 66, 69, 113, 155, 387 |
| FokI | GGATG | 2 cut(s) | 20, 317 |
| Fsp4HI | GCNGC | 5 cut(s) | 66, 69, 113, 155, 387 |
| FspBI | CTAG | 1 cut(s) | 72 |
| GluI | GCNGC | 5 cut(s) | 66, 69, 113, 155, 387 |
| GsuI | CTGGAG | 1 cut(s) | 459 |
| HapII | CCGG | 1 cut(s) | 302 |
| HinfI | GANTC | 3 cut(s) | 139, 326, 349 |
| HpaII | CCGG | 1 cut(s) | 302 |
| HphI | GGTGA | 3 cut(s) | 142, 293, 385 |
| Hpy166II | GTNNAC | 2 cut(s) | 45, 298 |
| Hpy188I | TCNGA | 1 cut(s) | 164 |
| Hpy188III | TCNNGA | 2 cut(s) | 27, 476 |
| Hpy8I | GTNNAC | 2 cut(s) | 45, 298 |
| HpyCH4III | ACNGT | 1 cut(s) | 181 |
| HpyCH4V | TGCA | 4 cut(s) | 232, 389, 492, 542 |
| HpyF10VI | GCNNNNNNNGC | 2 cut(s) | 62, 118 |
| HpyF3I | CTNAG | 4 cut(s) | 48, 250, 456, 546 |
| Ksp22I | TGATCA | 1 cut(s) | 159 |
| Kzo9I | GATC | 2 cut(s) | 159, 264 |
| LpnPI | CCDG | 5 cut(s) | 12, 315, 468, 489, 533 |
| Lsp1109I | GCAGC | 4 cut(s) | 77, 80, 99, 373 |
| LweI | GCATC | 3 cut(s) | 479, 529, 551 |
| MaeI | CTAG | 1 cut(s) | 72 |
| MaeIII | GTNAC | 2 cut(s) | 130, 140 |
| MalI | GATC | 2 cut(s) | 161, 266 |
| MboI | GATC | 2 cut(s) | 159, 264 |
| MboII | GAAGA | 1 cut(s) | 95 |
| MfeI | CAATTG | 1 cut(s) | 207 |
| MflI | RGATCY | 1 cut(s) | 264 |
| MhlI | GDGCHC | 1 cut(s) | 58 |
| MluCI | AATT | 4 cut(s) | 207, 368, 404, 515 |
| MlyI | GAGTC | 2 cut(s) | 148, 358 |
| MmeI | TCCRAC | 1 cut(s) | 444 |
| MnlI | CCTC | 7 cut(s) | 73, 102, 116, 158, 331, 391, 483 |
| Mph1103I | ATGCAT | 2 cut(s) | 494, 544 |
| MseI | TTAA | 3 cut(s) | 39, 333, 495 |
| MspA1I | CMGCKG | 1 cut(s) | 386 |
| MspI | CCGG | 1 cut(s) | 302 |
| MspR9I | CCNGG | 1 cut(s) | 302 |
| MunI | CAATTG | 1 cut(s) | 207 |
| MwoI | GCNNNNNNNGC | 2 cut(s) | 62, 118 |
| NciI | CCSGG | 1 cut(s) | 302 |
| NdeII | GATC | 2 cut(s) | 159, 264 |
| NlaIV | GGNNCC | 1 cut(s) | 300 |
| NmuCI | GTSAC | 2 cut(s) | 130, 140 |
| NsiI | ATGCAT | 2 cut(s) | 494, 544 |
| PfeI | GAWTC | 1 cut(s) | 326 |
| PkrI | GCNGC | 5 cut(s) | 67, 70, 114, 156, 388 |
| PleI | GAGTC | 2 cut(s) | 147, 357 |
| PpsI | GAGTC | 2 cut(s) | 147, 357 |
| PspN4I | GGNNCC | 1 cut(s) | 300 |
| PspPI | GGNCC | 1 cut(s) | 298 |
| PsuI | RGATCY | 1 cut(s) | 264 |
| RsaI | GTAC | 2 cut(s) | 255, 431 |
| RsaNI | GTAC | 2 cut(s) | 254, 430 |
| SaqAI | TTAA | 3 cut(s) | 39, 333, 495 |
| SatI | GCNGC | 5 cut(s) | 66, 69, 113, 155, 387 |
| Sau3AI | GATC | 2 cut(s) | 159, 264 |
| Sau96I | GGNCC | 1 cut(s) | 298 |
| SchI | GAGTC | 2 cut(s) | 148, 358 |
| ScrFI | CCNGG | 1 cut(s) | 302 |
| SduI | GDGCHC | 1 cut(s) | 58 |
| SetI | ASST | 5 cut(s) | 73, 442, 457, 462, 552 |
| SfaNI | GCATC | 3 cut(s) | 479, 529, 551 |
| SinI | GGWCC | 1 cut(s) | 298 |
| Sse9I | AATT | 4 cut(s) | 207, 368, 404, 515 |
| SsiI | CCGC | 3 cut(s) | 154, 384, 400 |
| SspMI | CTAG | 1 cut(s) | 72 |
| StyD4I | CCNGG | 1 cut(s) | 300 |
| TaaI | ACNGT | 1 cut(s) | 181 |
| TaqI | TCGA | 3 cut(s) | 329, 447, 487 |
| TasI | AATT | 4 cut(s) | 207, 368, 404, 515 |
| TatI | WGTACW | 2 cut(s) | 253, 429 |
| TauI | GCSGC | 1 cut(s) | 157 |
| TfiI | GAWTC | 1 cut(s) | 326 |
| Tru1I | TTAA | 3 cut(s) | 39, 333, 495 |
| Tru9I | TTAA | 3 cut(s) | 39, 333, 495 |
| TseFI | GTSAC | 2 cut(s) | 130, 140 |
| TseI | GCWGC | 4 cut(s) | 65, 68, 112, 386 |
| Tsp45I | GTSAC | 2 cut(s) | 130, 140 |
| TspDTI | ATGAA | 3 cut(s) | 17, 216, 321 |
| VpaK11BI | GGWCC | 1 cut(s) | 298 |
| XapI | RAATTY | 1 cut(s) | 404 |
| XspI | CTAG | 1 cut(s) | 72 |
| Zsp2I | ATGCAT | 2 cut(s) | 494, 544 |