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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AciI | CCGC | 4 cut(s) | 174, 233, 318, 329 |
| AclWI | GGATC | 2 cut(s) | 89, 391 |
| AcsI | RAATTY | 1 cut(s) | 206 |
| AfaI | GTAC | 1 cut(s) | 490 |
| AfiI | CCNNNNNNNGG | 1 cut(s) | 335 |
| AflIII | ACRYGT | 1 cut(s) | 438 |
| AgsI | TTSAA | 2 cut(s) | 251, 470 |
| AloI | GAACNNNNNNTCC | 2 cut(s) | 365, 397 |
| AluBI | AGCT | 1 cut(s) | 300 |
| AluI | AGCT | 1 cut(s) | 300 |
| AlwI | GGATC | 2 cut(s) | 89, 391 |
| ApeKI | GCWGC | 1 cut(s) | 297 |
| ApoI | RAATTY | 1 cut(s) | 206 |
| Asp700I | GAANNNNTTC | 1 cut(s) | 477 |
| AsuHPI | GGTGA | 3 cut(s) | 179, 239, 318 |
| BanII | GRGCYC | 2 cut(s) | 276, 392 |
| BarI | GAAGNNNNNNTAC | 2 cut(s) | 95, 127 |
| BbsI | GAAGAC | 1 cut(s) | 521 |
| BbvI | GCAGC | 1 cut(s) | 309 |
| BccI | CCATC | 1 cut(s) | 370 |
| BceAI | ACGGC | 1 cut(s) | 326 |
| BcgI | CGANNNNNNTGC | 2 cut(s) | 385, 419 |
| BfmI | CTRYAG | 1 cut(s) | 462 |
| BisI | GCNGC | 1 cut(s) | 298 |
| BlpI | GCTNAGC | 1 cut(s) | 301 |
| BlsI | GCNGC | 1 cut(s) | 299 |
| BmiI | GGNNCC | 2 cut(s) | 314, 383 |
| BmsI | GCATC | 1 cut(s) | 228 |
| BpiI | GAAGAC | 1 cut(s) | 521 |
| Bpu1102I | GCTNAGC | 1 cut(s) | 301 |
| BsaJI | CCNNGG | 1 cut(s) | 408 |
| Bsc4I | CCNNNNNNNGG | 1 cut(s) | 335 |
| BseDI | CCNNGG | 1 cut(s) | 408 |
| BseLI | CCNNNNNNNGG | 1 cut(s) | 335 |
| BseMII | CTCAG | 1 cut(s) | 315 |
| BseRI | GAGGAG | 1 cut(s) | 20 |
| BseXI | GCAGC | 1 cut(s) | 309 |
| BslI | CCNNNNNNNGG | 1 cut(s) | 335 |
| BsmI | GAATGC | 1 cut(s) | 176 |
| Bsp1286I | GDGCHC | 2 cut(s) | 276, 392 |
| Bsp143I | GATC | 2 cut(s) | 81, 396 |
| Bsp1720I | GCTNAGC | 1 cut(s) | 301 |
| BspACI | CCGC | 4 cut(s) | 174, 233, 318, 329 |
| BspCNI | CTCAG | 1 cut(s) | 314 |
| BspLI | GGNNCC | 2 cut(s) | 314, 383 |
| BspPI | GGATC | 2 cut(s) | 89, 391 |
| BssECI | CCNNGG | 1 cut(s) | 408 |
| BssMI | GATC | 2 cut(s) | 81, 396 |
| Bst4CI | ACNGT | 4 cut(s) | 67, 335, 381, 412 |
| Bst6I | CTCTTC | 2 cut(s) | 30, 71 |
| BstDEI | CTNAG | 2 cut(s) | 144, 301 |
| BstDSI | CCRYGG | 1 cut(s) | 408 |
| BstKTI | GATC | 2 cut(s) | 84, 399 |
| BstMBI | GATC | 2 cut(s) | 81, 396 |
| BstMWI | GCNNNNNNNGC | 1 cut(s) | 538 |
| BstNSI | RCATGY | 2 cut(s) | 406, 442 |
| BstSFI | CTRYAG | 1 cut(s) | 462 |
| BstV1I | GCAGC | 1 cut(s) | 309 |
| BstV2I | GAAGAC | 1 cut(s) | 521 |
| BtgI | CCRYGG | 1 cut(s) | 408 |
| Csp6I | GTAC | 1 cut(s) | 489 |
| CviAII | CATG | 3 cut(s) | 164, 403, 439 |
| CviJI | RGCY | 4 cut(s) | 274, 300, 313, 390 |
| CviKI_1 | RGCY | 4 cut(s) | 274, 300, 313, 390 |
| CviQI | GTAC | 1 cut(s) | 489 |
| DdeI | CTNAG | 2 cut(s) | 144, 301 |
| DpnI | GATC | 2 cut(s) | 83, 398 |
| DpnII | GATC | 2 cut(s) | 81, 396 |
| Eam1104I | CTCTTC | 2 cut(s) | 30, 71 |
| EarI | CTCTTC | 2 cut(s) | 30, 71 |
| Eco24I | GRGCYC | 2 cut(s) | 276, 392 |
| EcoT38I | GRGCYC | 2 cut(s) | 276, 392 |
| FaeI | CATG | 3 cut(s) | 167, 406, 442 |
| FaiI | YATR | 6 cut(s) | 165, 369, 404, 440, 464, 500 |
| FatI | CATG | 3 cut(s) | 163, 402, 438 |
| FauI | CCCGC | 1 cut(s) | 325 |
| Fnu4HI | GCNGC | 1 cut(s) | 298 |
| FriOI | GRGCYC | 2 cut(s) | 276, 392 |
| Fsp4HI | GCNGC | 1 cut(s) | 298 |
| GluI | GCNGC | 1 cut(s) | 298 |
| Hin1II | CATG | 3 cut(s) | 167, 406, 442 |
| HinfI | GANTC | 4 cut(s) | 20, 26, 281, 374 |
| HphI | GGTGA | 3 cut(s) | 179, 239, 318 |
| Hpy166II | GTNNAC | 1 cut(s) | 547 |
| Hpy188I | TCNGA | 4 cut(s) | 25, 31, 72, 447 |
| Hpy188III | TCNNGA | 1 cut(s) | 385 |
| Hpy8I | GTNNAC | 1 cut(s) | 547 |
| HpyAV | CCTTC | 1 cut(s) | 245 |
| HpyCH4III | ACNGT | 4 cut(s) | 67, 335, 381, 412 |
| HpyCH4V | TGCA | 2 cut(s) | 219, 554 |
| HpyF10VI | GCNNNNNNNGC | 1 cut(s) | 538 |
| HpyF3I | CTNAG | 2 cut(s) | 144, 301 |
| Hsp92II | CATG | 3 cut(s) | 167, 406, 442 |
| Kzo9I | GATC | 2 cut(s) | 81, 396 |
| LmnI | GCTCC | 2 cut(s) | 260, 318 |
| LpnPI | CCDG | 2 cut(s) | 123, 398 |
| Lsp1109I | GCAGC | 1 cut(s) | 309 |
| LweI | GCATC | 1 cut(s) | 228 |
| MaeIII | GTNAC | 1 cut(s) | 197 |
| MalI | GATC | 2 cut(s) | 83, 398 |
| MboI | GATC | 2 cut(s) | 81, 396 |
| MboII | GAAGA | 9 cut(s) | 47, 85, 88, 112, 115, 353, 482, 523, 526 |
| MhlI | GDGCHC | 2 cut(s) | 276, 392 |
| MluCI | AATT | 4 cut(s) | 87, 206, 246, 255 |
| MlyI | GAGTC | 2 cut(s) | 275, 368 |
| MroXI | GAANNNNTTC | 1 cut(s) | 477 |
| Mva1269I | GAATGC | 1 cut(s) | 176 |
| MwoI | GCNNNNNNNGC | 1 cut(s) | 538 |
| NdeII | GATC | 2 cut(s) | 81, 396 |
| NlaIII | CATG | 3 cut(s) | 167, 406, 442 |
| NlaIV | GGNNCC | 2 cut(s) | 314, 383 |
| NmuCI | GTSAC | 1 cut(s) | 197 |
| NspI | RCATGY | 2 cut(s) | 406, 442 |
| PciI | ACATGT | 1 cut(s) | 438 |
| PctI | GAATGC | 1 cut(s) | 176 |
| PdmI | GAANNNNTTC | 1 cut(s) | 477 |
| PfeI | GAWTC | 2 cut(s) | 20, 26 |
| PkrI | GCNGC | 1 cut(s) | 299 |
| PleI | GAGTC | 2 cut(s) | 275, 368 |
| PpsI | GAGTC | 2 cut(s) | 275, 368 |
| PscI | ACATGT | 1 cut(s) | 438 |
| PspN4I | GGNNCC | 2 cut(s) | 314, 383 |
| RsaI | GTAC | 1 cut(s) | 490 |
| RsaNI | GTAC | 1 cut(s) | 489 |
| SatI | GCNGC | 1 cut(s) | 298 |
| Sau3AI | GATC | 2 cut(s) | 81, 396 |
| SchI | GAGTC | 2 cut(s) | 275, 368 |
| SduI | GDGCHC | 2 cut(s) | 276, 392 |
| SetI | ASST | 5 cut(s) | 244, 291, 302, 326, 559 |
| SfaNI | GCATC | 1 cut(s) | 228 |
| SfcI | CTRYAG | 1 cut(s) | 462 |
| Sse9I | AATT | 4 cut(s) | 87, 206, 246, 255 |
| SsiI | CCGC | 4 cut(s) | 174, 233, 318, 329 |
| SspI | AATATT | 1 cut(s) | 268 |
| TaaI | ACNGT | 4 cut(s) | 67, 335, 381, 412 |
| TaqI | TCGA | 2 cut(s) | 84, 353 |
| TaqII | GACCGA | 1 cut(s) | 216 |
| TasI | AATT | 4 cut(s) | 87, 206, 246, 255 |
| TfiI | GAWTC | 2 cut(s) | 20, 26 |
| TseFI | GTSAC | 1 cut(s) | 197 |
| TseI | GCWGC | 1 cut(s) | 297 |
| Tsp45I | GTSAC | 1 cut(s) | 197 |
| TspDTI | ATGAA | 2 cut(s) | 69, 113 |
| XapI | RAATTY | 1 cut(s) | 206 |
| XceI | RCATGY | 2 cut(s) | 406, 442 |
| XmnI | GAANNNNTTC | 1 cut(s) | 477 |