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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AciI | CCGC | 3 cut(s) | 266, 410, 421 |
| AcsI | RAATTY | 1 cut(s) | 298 |
| AfiI | CCNNNNNNNGG | 1 cut(s) | 427 |
| AflIII | ACRYGT | 1 cut(s) | 529 |
| AgsI | TTSAA | 3 cut(s) | 52, 205, 343 |
| AloI | GAACNNNNNNTCC | 2 cut(s) | 457, 489 |
| AluBI | AGCT | 2 cut(s) | 151, 392 |
| AluI | AGCT | 2 cut(s) | 151, 392 |
| ApeKI | GCWGC | 3 cut(s) | 72, 96, 389 |
| ApoI | RAATTY | 1 cut(s) | 298 |
| AspS9I | GGNCC | 1 cut(s) | 488 |
| AsuHPI | GGTGA | 3 cut(s) | 271, 331, 410 |
| AvaII | GGWCC | 1 cut(s) | 488 |
| BanII | GRGCYC | 2 cut(s) | 368, 483 |
| BbvI | GCAGC | 3 cut(s) | 83, 84, 401 |
| BccI | CCATC | 1 cut(s) | 462 |
| BceAI | ACGGC | 1 cut(s) | 418 |
| BfmI | CTRYAG | 1 cut(s) | 553 |
| BisI | GCNGC | 3 cut(s) | 73, 97, 390 |
| BlpI | GCTNAGC | 1 cut(s) | 393 |
| BlsI | GCNGC | 3 cut(s) | 74, 98, 391 |
| Bme18I | GGWCC | 1 cut(s) | 488 |
| BmgT120I | GGNCC | 1 cut(s) | 488 |
| BmiI | GGNNCC | 2 cut(s) | 406, 475 |
| BmsI | GCATC | 1 cut(s) | 320 |
| Bpu1102I | GCTNAGC | 1 cut(s) | 393 |
| BsaJI | CCNNGG | 2 cut(s) | 484, 499 |
| BsaWI | WCCGGW | 1 cut(s) | 112 |
| Bsc4I | CCNNNNNNNGG | 1 cut(s) | 427 |
| BseDI | CCNNGG | 2 cut(s) | 484, 499 |
| BseLI | CCNNNNNNNGG | 1 cut(s) | 427 |
| BseMII | CTCAG | 1 cut(s) | 407 |
| BseRI | GAGGAG | 2 cut(s) | 179, 182 |
| BseXI | GCAGC | 3 cut(s) | 83, 84, 401 |
| BsiSI | CCGG | 1 cut(s) | 113 |
| BslI | CCNNNNNNNGG | 1 cut(s) | 427 |
| BsmI | GAATGC | 1 cut(s) | 268 |
| Bsp1286I | GDGCHC | 2 cut(s) | 368, 483 |
| Bsp143I | GATC | 1 cut(s) | 3 |
| Bsp1720I | GCTNAGC | 1 cut(s) | 393 |
| BspACI | CCGC | 3 cut(s) | 266, 410, 421 |
| BspCNI | CTCAG | 1 cut(s) | 406 |
| BspLI | GGNNCC | 2 cut(s) | 406, 475 |
| BssECI | CCNNGG | 2 cut(s) | 484, 499 |
| BssMI | GATC | 1 cut(s) | 3 |
| Bst4CI | ACNGT | 5 cut(s) | 187, 427, 473, 488, 503 |
| BstDEI | CTNAG | 2 cut(s) | 236, 393 |
| BstDSI | CCRYGG | 2 cut(s) | 484, 499 |
| BstKTI | GATC | 1 cut(s) | 6 |
| BstMBI | GATC | 1 cut(s) | 3 |
| BstNSI | RCATGY | 2 cut(s) | 497, 533 |
| BstSFI | CTRYAG | 1 cut(s) | 553 |
| BstV1I | GCAGC | 3 cut(s) | 83, 84, 401 |
| BtgI | CCRYGG | 2 cut(s) | 484, 499 |
| Cfr13I | GGNCC | 1 cut(s) | 488 |
| CviAII | CATG | 3 cut(s) | 256, 494, 530 |
| CviJI | RGCY | 7 cut(s) | 75, 96, 151, 366, 392, 405, 481 |
| CviKI_1 | RGCY | 7 cut(s) | 75, 96, 151, 366, 392, 405, 481 |
| DdeI | CTNAG | 2 cut(s) | 236, 393 |
| DpnI | GATC | 1 cut(s) | 5 |
| DpnII | GATC | 1 cut(s) | 3 |
| Eco24I | GRGCYC | 2 cut(s) | 368, 483 |
| Eco47I | GGWCC | 1 cut(s) | 488 |
| EcoT38I | GRGCYC | 2 cut(s) | 368, 483 |
| FaeI | CATG | 3 cut(s) | 259, 497, 533 |
| FatI | CATG | 3 cut(s) | 255, 493, 529 |
| FauI | CCCGC | 1 cut(s) | 417 |
| FauNDI | CATATG | 1 cut(s) | 79 |
| Fnu4HI | GCNGC | 3 cut(s) | 73, 97, 390 |
| FriOI | GRGCYC | 2 cut(s) | 368, 483 |
| Fsp4HI | GCNGC | 3 cut(s) | 73, 97, 390 |
| GluI | GCNGC | 3 cut(s) | 73, 97, 390 |
| HapII | CCGG | 1 cut(s) | 113 |
| Hin1II | CATG | 3 cut(s) | 259, 497, 533 |
| HinfI | GANTC | 4 cut(s) | 65, 322, 373, 466 |
| HpaII | CCGG | 1 cut(s) | 113 |
| HphI | GGTGA | 3 cut(s) | 271, 331, 410 |
| Hpy166II | GTNNAC | 1 cut(s) | 491 |
| Hpy188I | TCNGA | 3 cut(s) | 127, 478, 538 |
| Hpy8I | GTNNAC | 1 cut(s) | 491 |
| HpyAV | CCTTC | 1 cut(s) | 337 |
| HpyCH4III | ACNGT | 5 cut(s) | 187, 427, 473, 488, 503 |
| HpyCH4V | TGCA | 1 cut(s) | 311 |
| HpyF3I | CTNAG | 2 cut(s) | 236, 393 |
| Hsp92II | CATG | 3 cut(s) | 259, 497, 533 |
| Kzo9I | GATC | 1 cut(s) | 3 |
| LmnI | GCTCC | 2 cut(s) | 352, 410 |
| LpnPI | CCDG | 1 cut(s) | 126 |
| Lsp1109I | GCAGC | 3 cut(s) | 83, 84, 401 |
| LweI | GCATC | 1 cut(s) | 320 |
| MaeIII | GTNAC | 1 cut(s) | 289 |
| MalI | GATC | 1 cut(s) | 5 |
| MboI | GATC | 1 cut(s) | 3 |
| MboII | GAAGA | 2 cut(s) | 217, 445 |
| MhlI | GDGCHC | 2 cut(s) | 368, 483 |
| MluCI | AATT | 4 cut(s) | 199, 298, 338, 347 |
| MlyI | GAGTC | 3 cut(s) | 74, 367, 460 |
| MnlI | CCTC | 9 cut(s) | 5, 157, 160, 244, 262, 325, 391, 426, 500 |
| MseI | TTAA | 1 cut(s) | 30 |
| MspI | CCGG | 1 cut(s) | 113 |
| Mva1269I | GAATGC | 1 cut(s) | 268 |
| NdeI | CATATG | 1 cut(s) | 79 |
| NdeII | GATC | 1 cut(s) | 3 |
| NlaIII | CATG | 3 cut(s) | 259, 497, 533 |
| NlaIV | GGNNCC | 2 cut(s) | 406, 475 |
| NmuCI | GTSAC | 1 cut(s) | 289 |
| NspI | RCATGY | 2 cut(s) | 497, 533 |
| PciI | ACATGT | 1 cut(s) | 529 |
| PctI | GAATGC | 1 cut(s) | 268 |
| PfeI | GAWTC | 1 cut(s) | 322 |
| PkrI | GCNGC | 3 cut(s) | 74, 98, 391 |
| PleI | GAGTC | 3 cut(s) | 73, 367, 460 |
| PpsI | GAGTC | 3 cut(s) | 73, 367, 460 |
| PscI | ACATGT | 1 cut(s) | 529 |
| PspN4I | GGNNCC | 2 cut(s) | 406, 475 |
| PspPI | GGNCC | 1 cut(s) | 488 |
| SaqAI | TTAA | 1 cut(s) | 30 |
| SatI | GCNGC | 3 cut(s) | 73, 97, 390 |
| Sau3AI | GATC | 1 cut(s) | 3 |
| Sau96I | GGNCC | 1 cut(s) | 488 |
| SchI | GAGTC | 3 cut(s) | 74, 367, 460 |
| SduI | GDGCHC | 2 cut(s) | 368, 483 |
| SetI | ASST | 5 cut(s) | 153, 336, 383, 394, 418 |
| SfaNI | GCATC | 1 cut(s) | 320 |
| SfcI | CTRYAG | 1 cut(s) | 553 |
| SinI | GGWCC | 1 cut(s) | 488 |
| Sse9I | AATT | 4 cut(s) | 199, 298, 338, 347 |
| SsiI | CCGC | 3 cut(s) | 266, 410, 421 |
| SspI | AATATT | 1 cut(s) | 360 |
| TaaI | ACNGT | 5 cut(s) | 187, 427, 473, 488, 503 |
| TaqI | TCGA | 2 cut(s) | 154, 445 |
| TaqII | GACCGA | 1 cut(s) | 308 |
| TasI | AATT | 4 cut(s) | 199, 298, 338, 347 |
| TfiI | GAWTC | 1 cut(s) | 322 |
| Tru1I | TTAA | 1 cut(s) | 30 |
| Tru9I | TTAA | 1 cut(s) | 30 |
| TseFI | GTSAC | 1 cut(s) | 289 |
| TseI | GCWGC | 3 cut(s) | 72, 96, 389 |
| Tsp45I | GTSAC | 1 cut(s) | 289 |
| VpaK11BI | GGWCC | 1 cut(s) | 488 |
| XapI | RAATTY | 1 cut(s) | 298 |
| XceI | RCATGY | 2 cut(s) | 497, 533 |