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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AfaI | GTAC | 3 cut(s) | 321, 539, 581 |
| AfiI | CCNNNNNNNGG | 2 cut(s) | 65, 242 |
| AgsI | TTSAA | 2 cut(s) | 179, 509 |
| AluBI | AGCT | 3 cut(s) | 221, 425, 529 |
| AluI | AGCT | 3 cut(s) | 221, 425, 529 |
| Alw26I | GTCTC | 2 cut(s) | 138, 308 |
| AoxI | GGCC | 1 cut(s) | 277 |
| ApeKI | GCWGC | 1 cut(s) | 433 |
| ArsI | GACNNNNNNTTYG | 2 cut(s) | 495, 527 |
| AsuC2I | CCSGG | 1 cut(s) | 66 |
| AsuHPI | GGTGA | 3 cut(s) | 141, 220, 257 |
| BbvI | GCAGC | 1 cut(s) | 445 |
| BciVI | GTATCC | 1 cut(s) | 66 |
| BcnI | CCSGG | 1 cut(s) | 66 |
| BcoDI | GTCTC | 2 cut(s) | 138, 308 |
| BfuI | GTATCC | 1 cut(s) | 66 |
| BisI | GCNGC | 1 cut(s) | 434 |
| BlsI | GCNGC | 1 cut(s) | 435 |
| BmcAI | AGTACT | 1 cut(s) | 581 |
| Bme1390I | CCNGG | 1 cut(s) | 66 |
| BmrFI | CCNGG | 1 cut(s) | 66 |
| BpuMI | CCSGG | 1 cut(s) | 66 |
| BsaXI | ACNNNNNCTCC | 2 cut(s) | 70, 100 |
| Bsc4I | CCNNNNNNNGG | 2 cut(s) | 65, 242 |
| Bse1I | ACTGG | 1 cut(s) | 587 |
| Bse3DI | GCAATG | 1 cut(s) | 51 |
| BseGI | GGATG | 2 cut(s) | 481, 552 |
| BseLI | CCNNNNNNNGG | 2 cut(s) | 65, 242 |
| BseMI | GCAATG | 1 cut(s) | 51 |
| BseMII | CTCAG | 3 cut(s) | 149, 213, 279 |
| BseNI | ACTGG | 1 cut(s) | 587 |
| BseXI | GCAGC | 1 cut(s) | 445 |
| BshFI | GGCC | 1 cut(s) | 279 |
| BsiSI | CCGG | 1 cut(s) | 65 |
| BslFI | GGGAC | 1 cut(s) | 362 |
| BslI | CCNNNNNNNGG | 2 cut(s) | 65, 242 |
| BsmAI | GTCTC | 2 cut(s) | 138, 308 |
| BsmFI | GGGAC | 1 cut(s) | 362 |
| BsnI | GGCC | 1 cut(s) | 279 |
| Bsp1407I | TGTACA | 1 cut(s) | 537 |
| Bsp143I | GATC | 1 cut(s) | 138 |
| BspANI | GGCC | 1 cut(s) | 279 |
| BspCNI | CTCAG | 3 cut(s) | 148, 214, 278 |
| BsrDI | GCAATG | 1 cut(s) | 51 |
| BsrGI | TGTACA | 1 cut(s) | 537 |
| BsrI | ACTGG | 1 cut(s) | 587 |
| BssMI | GATC | 1 cut(s) | 138 |
| Bst4CI | ACNGT | 2 cut(s) | 319, 537 |
| Bst6I | CTCTTC | 1 cut(s) | 299 |
| BstAUI | TGTACA | 1 cut(s) | 537 |
| BstC8I | GCNNGC | 1 cut(s) | 16 |
| BstDEI | CTNAG | 3 cut(s) | 135, 222, 265 |
| BstF5I | GGATG | 2 cut(s) | 481, 552 |
| BstKTI | GATC | 1 cut(s) | 141 |
| BstMAI | GTCTC | 2 cut(s) | 138, 308 |
| BstMBI | GATC | 1 cut(s) | 138 |
| BstSCI | CCNGG | 1 cut(s) | 64 |
| BstV1I | GCAGC | 1 cut(s) | 445 |
| BstXI | CCANNNNNNTGG | 1 cut(s) | 472 |
| BsuI | GTATCC | 1 cut(s) | 66 |
| BsuRI | GGCC | 1 cut(s) | 279 |
| BtsCI | GGATG | 2 cut(s) | 481, 552 |
| BtsIMutI | CAGTG | 1 cut(s) | 398 |
| Cac8I | GCNNGC | 1 cut(s) | 16 |
| Csp6I | GTAC | 3 cut(s) | 320, 538, 580 |
| CviAII | CATG | 2 cut(s) | 455, 470 |
| CviJI | RGCY | 8 cut(s) | 124, 163, 221, 235, 279, 425, 436, 529 |
| CviKI_1 | RGCY | 8 cut(s) | 124, 163, 221, 235, 279, 425, 436, 529 |
| CviQI | GTAC | 3 cut(s) | 320, 538, 580 |
| DdeI | CTNAG | 3 cut(s) | 135, 222, 265 |
| DpnI | GATC | 1 cut(s) | 140 |
| DpnII | GATC | 1 cut(s) | 138 |
| Eam1104I | CTCTTC | 1 cut(s) | 299 |
| EarI | CTCTTC | 1 cut(s) | 299 |
| FaeI | CATG | 2 cut(s) | 458, 473 |
| FaiI | YATR | 8 cut(s) | 113, 201, 251, 291, 336, 456, 471, 515 |
| FaqI | GGGAC | 1 cut(s) | 362 |
| FatI | CATG | 2 cut(s) | 454, 469 |
| Fnu4HI | GCNGC | 1 cut(s) | 434 |
| FokI | GGATG | 2 cut(s) | 488, 539 |
| Fsp4HI | GCNGC | 1 cut(s) | 434 |
| GluI | GCNGC | 1 cut(s) | 434 |
| HaeIII | GGCC | 1 cut(s) | 279 |
| HapII | CCGG | 1 cut(s) | 65 |
| Hin1II | CATG | 2 cut(s) | 458, 473 |
| HinfI | GANTC | 3 cut(s) | 263, 269, 390 |
| HpaII | CCGG | 1 cut(s) | 65 |
| HphI | GGTGA | 3 cut(s) | 141, 220, 257 |
| Hpy166II | GTNNAC | 1 cut(s) | 228 |
| Hpy188I | TCNGA | 2 cut(s) | 138, 268 |
| Hpy8I | GTNNAC | 1 cut(s) | 228 |
| HpyAV | CCTTC | 1 cut(s) | 436 |
| HpyCH4III | ACNGT | 2 cut(s) | 319, 537 |
| HpyCH4V | TGCA | 2 cut(s) | 18, 44 |
| HpyF3I | CTNAG | 3 cut(s) | 135, 222, 265 |
| Hsp92II | CATG | 2 cut(s) | 458, 473 |
| Kzo9I | GATC | 1 cut(s) | 138 |
| LpnPI | CCDG | 9 cut(s) | 78, 165, 177, 240, 245, 328, 400, 450, 568 |
| Lsp1109I | GCAGC | 1 cut(s) | 445 |
| MaeIII | GTNAC | 2 cut(s) | 72, 245 |
| MalI | GATC | 1 cut(s) | 140 |
| MboI | GATC | 1 cut(s) | 138 |
| MboII | GAAGA | 3 cut(s) | 20, 119, 316 |
| MfeI | CAATTG | 1 cut(s) | 187 |
| MluCI | AATT | 4 cut(s) | 187, 237, 504, 569 |
| MlyI | GAGTC | 1 cut(s) | 257 |
| MnlI | CCTC | 4 cut(s) | 72, 96, 207, 366 |
| MseI | TTAA | 1 cut(s) | 39 |
| MslI | CAYNNNNRTG | 2 cut(s) | 470, 474 |
| MspA1I | CMGCKG | 1 cut(s) | 425 |
| MspI | CCGG | 1 cut(s) | 65 |
| MspR9I | CCNGG | 1 cut(s) | 66 |
| MunI | CAATTG | 1 cut(s) | 187 |
| NciI | CCSGG | 1 cut(s) | 66 |
| NdeII | GATC | 1 cut(s) | 138 |
| NlaIII | CATG | 2 cut(s) | 458, 473 |
| NmuCI | GTSAC | 1 cut(s) | 245 |
| PfeI | GAWTC | 2 cut(s) | 269, 390 |
| PkrI | GCNGC | 1 cut(s) | 435 |
| PleI | GAGTC | 1 cut(s) | 257 |
| PpsI | GAGTC | 1 cut(s) | 257 |
| PvuII | CAGCTG | 1 cut(s) | 425 |
| RsaI | GTAC | 3 cut(s) | 321, 539, 581 |
| RsaNI | GTAC | 3 cut(s) | 320, 538, 580 |
| RseI | CAYNNNNRTG | 2 cut(s) | 470, 474 |
| SaqAI | TTAA | 1 cut(s) | 39 |
| SatI | GCNGC | 1 cut(s) | 434 |
| Sau3AI | GATC | 1 cut(s) | 138 |
| ScaI | AGTACT | 1 cut(s) | 581 |
| SchI | GAGTC | 1 cut(s) | 257 |
| ScrFI | CCNGG | 1 cut(s) | 66 |
| SetI | ASST | 8 cut(s) | 64, 88, 223, 247, 427, 531, 546, 605 |
| SmiMI | CAYNNNNRTG | 2 cut(s) | 470, 474 |
| Sse9I | AATT | 4 cut(s) | 187, 237, 504, 569 |
| StyD4I | CCNGG | 1 cut(s) | 64 |
| TaaI | ACNGT | 2 cut(s) | 319, 537 |
| TasI | AATT | 4 cut(s) | 187, 237, 504, 569 |
| TatI | WGTACW | 3 cut(s) | 319, 537, 579 |
| TfiI | GAWTC | 2 cut(s) | 269, 390 |
| Tru1I | TTAA | 1 cut(s) | 39 |
| Tru9I | TTAA | 1 cut(s) | 39 |
| TscAI | CASTG | 1 cut(s) | 405 |
| TseFI | GTSAC | 1 cut(s) | 245 |
| TseI | GCWGC | 1 cut(s) | 433 |
| Tsp45I | GTSAC | 1 cut(s) | 245 |
| TspDTI | ATGAA | 1 cut(s) | 458 |
| TspGWI | ACGGA | 1 cut(s) | 218 |
| TspRI | CASTG | 1 cut(s) | 405 |
| ZrmI | AGTACT | 1 cut(s) | 581 |