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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AcuI | CTGAAG | 2 cut(s) | 147, 399 |
| AfaI | GTAC | 1 cut(s) | 214 |
| AgsI | TTSAA | 2 cut(s) | 52, 447 |
| AloI | GAACNNNNNNTCC | 2 cut(s) | 144, 176 |
| AluBI | AGCT | 1 cut(s) | 394 |
| AluI | AGCT | 1 cut(s) | 394 |
| ApeKI | GCWGC | 3 cut(s) | 324, 394, 397 |
| Asp700I | GAANNNNTTC | 1 cut(s) | 159 |
| AsuC2I | CCSGG | 1 cut(s) | 79 |
| BbsI | GAAGAC | 2 cut(s) | 94, 203 |
| BbvI | GCAGC | 3 cut(s) | 311, 381, 384 |
| BccI | CCATC | 1 cut(s) | 143 |
| BcnI | CCSGG | 1 cut(s) | 79 |
| BfmI | CTRYAG | 1 cut(s) | 398 |
| BisI | GCNGC | 3 cut(s) | 325, 395, 398 |
| BlsI | GCNGC | 3 cut(s) | 326, 396, 399 |
| Bme1390I | CCNGG | 1 cut(s) | 79 |
| BmrFI | CCNGG | 1 cut(s) | 79 |
| BmsI | GCATC | 2 cut(s) | 418, 451 |
| BpiI | GAAGAC | 2 cut(s) | 94, 203 |
| BpuMI | CCSGG | 1 cut(s) | 79 |
| BsaJI | CCNNGG | 3 cut(s) | 78, 278, 436 |
| BsaXI | ACNNNNNCTCC | 2 cut(s) | 144, 174 |
| BseDI | CCNNGG | 3 cut(s) | 78, 278, 436 |
| BseGI | GGATG | 2 cut(s) | 262, 466 |
| BseXI | GCAGC | 3 cut(s) | 311, 381, 384 |
| BsgI | GTGCAG | 1 cut(s) | 310 |
| BsiSI | CCGG | 1 cut(s) | 78 |
| BslFI | GGGAC | 2 cut(s) | 260, 397 |
| BsmFI | GGGAC | 2 cut(s) | 260, 397 |
| BsmI | GAATGC | 1 cut(s) | 431 |
| Bsp19I | CCATGG | 1 cut(s) | 436 |
| BspMAI | CTGCAG | 1 cut(s) | 402 |
| BssECI | CCNNGG | 3 cut(s) | 78, 278, 436 |
| BssT1I | CCWWGG | 2 cut(s) | 278, 436 |
| Bst4CI | ACNGT | 1 cut(s) | 212 |
| BstDSI | CCRYGG | 1 cut(s) | 436 |
| BstF5I | GGATG | 2 cut(s) | 262, 466 |
| BstMWI | GCNNNNNNNGC | 1 cut(s) | 313 |
| BstSCI | CCNGG | 1 cut(s) | 77 |
| BstSFI | CTRYAG | 1 cut(s) | 398 |
| BstV1I | GCAGC | 3 cut(s) | 311, 381, 384 |
| BstV2I | GAAGAC | 2 cut(s) | 94, 203 |
| BtgI | CCRYGG | 1 cut(s) | 436 |
| BtsCI | GGATG | 2 cut(s) | 262, 466 |
| Csp6I | GTAC | 1 cut(s) | 213 |
| CviAII | CATG | 3 cut(s) | 115, 164, 437 |
| CviJI | RGCY | 1 cut(s) | 394 |
| CviKI_1 | RGCY | 1 cut(s) | 394 |
| CviQI | GTAC | 1 cut(s) | 213 |
| Eco130I | CCWWGG | 2 cut(s) | 278, 436 |
| Eco57I | CTGAAG | 2 cut(s) | 147, 399 |
| EcoT14I | CCWWGG | 2 cut(s) | 278, 436 |
| EcoT22I | ATGCAT | 1 cut(s) | 433 |
| ErhI | CCWWGG | 2 cut(s) | 278, 436 |
| FaeI | CATG | 3 cut(s) | 118, 167, 440 |
| FaiI | YATR | 6 cut(s) | 116, 165, 297, 312, 438, 505 |
| FaqI | GGGAC | 2 cut(s) | 260, 397 |
| FatI | CATG | 3 cut(s) | 114, 163, 436 |
| Fnu4HI | GCNGC | 3 cut(s) | 325, 395, 398 |
| FokI | GGATG | 2 cut(s) | 269, 473 |
| Fsp4HI | GCNGC | 3 cut(s) | 325, 395, 398 |
| GluI | GCNGC | 3 cut(s) | 325, 395, 398 |
| HapII | CCGG | 1 cut(s) | 78 |
| Hin1II | CATG | 3 cut(s) | 118, 167, 440 |
| HinfI | GANTC | 3 cut(s) | 16, 58, 143 |
| HpaII | CCGG | 1 cut(s) | 78 |
| Hpy188I | TCNGA | 4 cut(s) | 148, 345, 475, 545 |
| HpyAV | CCTTC | 3 cut(s) | 90, 217, 374 |
| HpyCH4III | ACNGT | 1 cut(s) | 212 |
| HpyCH4V | TGCA | 7 cut(s) | 316, 327, 356, 400, 416, 431, 464 |
| HpyF10VI | GCNNNNNNNGC | 1 cut(s) | 313 |
| Hsp92II | CATG | 3 cut(s) | 118, 167, 440 |
| LpnPI | CCDG | 2 cut(s) | 91, 386 |
| Lsp1109I | GCAGC | 3 cut(s) | 311, 381, 384 |
| LweI | GCATC | 2 cut(s) | 418, 451 |
| MfeI | CAATTG | 1 cut(s) | 351 |
| MluCI | AATT | 3 cut(s) | 231, 351, 447 |
| MnlI | CCTC | 4 cut(s) | 24, 232, 259, 434 |
| Mph1103I | ATGCAT | 1 cut(s) | 433 |
| MroXI | GAANNNNTTC | 1 cut(s) | 159 |
| MseI | TTAA | 2 cut(s) | 450, 482 |
| MspI | CCGG | 1 cut(s) | 78 |
| MspR9I | CCNGG | 1 cut(s) | 79 |
| MunI | CAATTG | 1 cut(s) | 351 |
| Mva1269I | GAATGC | 1 cut(s) | 431 |
| MwoI | GCNNNNNNNGC | 1 cut(s) | 313 |
| NciI | CCSGG | 1 cut(s) | 79 |
| NcoI | CCATGG | 1 cut(s) | 436 |
| NlaIII | CATG | 3 cut(s) | 118, 167, 440 |
| NsiI | ATGCAT | 1 cut(s) | 433 |
| PctI | GAATGC | 1 cut(s) | 431 |
| PdmI | GAANNNNTTC | 1 cut(s) | 159 |
| PfeI | GAWTC | 3 cut(s) | 16, 58, 143 |
| PkrI | GCNGC | 3 cut(s) | 326, 396, 399 |
| PstI | CTGCAG | 1 cut(s) | 402 |
| RsaI | GTAC | 1 cut(s) | 214 |
| RsaNI | GTAC | 1 cut(s) | 213 |
| SaqAI | TTAA | 2 cut(s) | 450, 482 |
| SatI | GCNGC | 3 cut(s) | 325, 395, 398 |
| ScrFI | CCNGG | 1 cut(s) | 79 |
| SetI | ASST | 4 cut(s) | 375, 396, 445, 525 |
| SfaNI | GCATC | 2 cut(s) | 418, 451 |
| SfcI | CTRYAG | 1 cut(s) | 398 |
| Sse9I | AATT | 3 cut(s) | 231, 351, 447 |
| StyD4I | CCNGG | 1 cut(s) | 77 |
| StyI | CCWWGG | 2 cut(s) | 278, 436 |
| TaaI | ACNGT | 1 cut(s) | 212 |
| TasI | AATT | 3 cut(s) | 231, 351, 447 |
| TatI | WGTACW | 1 cut(s) | 212 |
| TfiI | GAWTC | 3 cut(s) | 16, 58, 143 |
| Tru1I | TTAA | 2 cut(s) | 450, 482 |
| Tru9I | TTAA | 2 cut(s) | 450, 482 |
| TseI | GCWGC | 3 cut(s) | 324, 394, 397 |
| TspDTI | ATGAA | 4 cut(s) | 17, 23, 80, 152 |
| XmnI | GAANNNNTTC | 1 cut(s) | 159 |
| Zsp2I | ATGCAT | 1 cut(s) | 433 |