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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AfaI | GTAC | 1 cut(s) | 362 |
| AflIII | ACRYGT | 1 cut(s) | 260 |
| AgsI | TTSAA | 1 cut(s) | 88 |
| AjiI | CACGTC | 1 cut(s) | 263 |
| AjnI | CCWGG | 1 cut(s) | 265 |
| AjuI | GAANNNNNNNTTGG | 2 cut(s) | 102, 134 |
| AluBI | AGCT | 2 cut(s) | 55, 76 |
| AluI | AGCT | 2 cut(s) | 55, 76 |
| Alw26I | GTCTC | 1 cut(s) | 14 |
| AoxI | GGCC | 1 cut(s) | 330 |
| AspS9I | GGNCC | 1 cut(s) | 331 |
| AsuHPI | GGTGA | 1 cut(s) | 281 |
| AxyI | CCTNAGG | 1 cut(s) | 336 |
| BciT130I | CCWGG | 1 cut(s) | 267 |
| BcoDI | GTCTC | 1 cut(s) | 14 |
| BfaI | CTAG | 1 cut(s) | 306 |
| BmcAI | AGTACT | 1 cut(s) | 362 |
| Bme1390I | CCNGG | 1 cut(s) | 267 |
| BmgBI | CACGTC | 1 cut(s) | 263 |
| BmgT120I | GGNCC | 1 cut(s) | 331 |
| BmiI | GGNNCC | 1 cut(s) | 333 |
| BmrFI | CCNGG | 1 cut(s) | 267 |
| BplI | GAGNNNNNCTC | 2 cut(s) | 170, 202 |
| BpuEI | CTTGAG | 1 cut(s) | 77 |
| BsaI | GGTCTC | 1 cut(s) | 14 |
| BsaXI | ACNNNNNCTCC | 4 cut(s) | 134, 164, 277, 307 |
| Bse21I | CCTNAGG | 1 cut(s) | 336 |
| BseBI | CCWGG | 1 cut(s) | 267 |
| BseMII | CTCAG | 2 cut(s) | 228, 350 |
| BseRI | GAGGAG | 3 cut(s) | 116, 279, 282 |
| BshFI | GGCC | 1 cut(s) | 332 |
| BsmAI | GTCTC | 1 cut(s) | 14 |
| BsnI | GGCC | 1 cut(s) | 332 |
| Bso31I | GGTCTC | 1 cut(s) | 14 |
| BspANI | GGCC | 1 cut(s) | 332 |
| BspCNI | CTCAG | 2 cut(s) | 229, 349 |
| BspLI | GGNNCC | 1 cut(s) | 333 |
| BspQI | GCTCTTC | 1 cut(s) | 66 |
| BspTNI | GGTCTC | 1 cut(s) | 14 |
| Bst2UI | CCWGG | 1 cut(s) | 267 |
| Bst6I | CTCTTC | 3 cut(s) | 24, 66, 129 |
| BstDEI | CTNAG | 3 cut(s) | 77, 237, 336 |
| BstMAI | GTCTC | 1 cut(s) | 14 |
| BstNI | CCWGG | 1 cut(s) | 267 |
| BstSCI | CCNGG | 1 cut(s) | 265 |
| Bsu36I | CCTNAGG | 1 cut(s) | 336 |
| BsuRI | GGCC | 1 cut(s) | 332 |
| BtrI | CACGTC | 1 cut(s) | 263 |
| BtsIMutI | CAGTG | 1 cut(s) | 188 |
| Cfr13I | GGNCC | 1 cut(s) | 331 |
| Csp6I | GTAC | 1 cut(s) | 361 |
| CviJI | RGCY | 5 cut(s) | 55, 76, 185, 332, 346 |
| CviKI_1 | RGCY | 5 cut(s) | 55, 76, 185, 332, 346 |
| CviQI | GTAC | 1 cut(s) | 361 |
| DdeI | CTNAG | 3 cut(s) | 77, 237, 336 |
| Eam1104I | CTCTTC | 3 cut(s) | 24, 66, 129 |
| EarI | CTCTTC | 3 cut(s) | 24, 66, 129 |
| Eco31I | GGTCTC | 1 cut(s) | 14 |
| Eco81I | CCTNAGG | 1 cut(s) | 336 |
| EcoO109I | RGGNCCY | 1 cut(s) | 331 |
| EcoRII | CCWGG | 1 cut(s) | 265 |
| FaiI | YATR | 4 cut(s) | 48, 149, 221, 246 |
| FspBI | CTAG | 1 cut(s) | 306 |
| HaeIII | GGCC | 1 cut(s) | 332 |
| HindIII | AAGCTT | 1 cut(s) | 53 |
| HinfI | GANTC | 2 cut(s) | 248, 281 |
| HphI | GGTGA | 1 cut(s) | 281 |
| Hpy188III | TCNNGA | 1 cut(s) | 338 |
| HpyAV | CCTTC | 1 cut(s) | 133 |
| HpyCH4IV | ACGT | 1 cut(s) | 262 |
| HpyCH4V | TGCA | 1 cut(s) | 172 |
| HpyF3I | CTNAG | 3 cut(s) | 77, 237, 336 |
| HpySE526I | ACGT | 1 cut(s) | 262 |
| LguI | GCTCTTC | 1 cut(s) | 66 |
| LpnPI | CCDG | 3 cut(s) | 252, 279, 323 |
| MaeI | CTAG | 1 cut(s) | 306 |
| MaeII | ACGT | 1 cut(s) | 262 |
| MboII | GAAGA | 5 cut(s) | 41, 46, 80, 83, 146 |
| MfeI | CAATTG | 1 cut(s) | 209 |
| MluCI | AATT | 4 cut(s) | 41, 117, 174, 209 |
| MlyI | GAGTC | 2 cut(s) | 257, 275 |
| MseI | TTAA | 2 cut(s) | 195, 382 |
| MslI | CAYNNNNRTG | 1 cut(s) | 224 |
| MspR9I | CCNGG | 1 cut(s) | 267 |
| MunI | CAATTG | 1 cut(s) | 209 |
| MvaI | CCWGG | 1 cut(s) | 267 |
| NlaIV | GGNNCC | 1 cut(s) | 333 |
| PciSI | GCTCTTC | 1 cut(s) | 66 |
| PleI | GAGTC | 2 cut(s) | 256, 275 |
| PpsI | GAGTC | 2 cut(s) | 256, 275 |
| Psp6I | CCWGG | 1 cut(s) | 265 |
| PspGI | CCWGG | 1 cut(s) | 265 |
| PspN4I | GGNNCC | 1 cut(s) | 333 |
| PspPI | GGNCC | 1 cut(s) | 331 |
| RsaI | GTAC | 1 cut(s) | 362 |
| RsaNI | GTAC | 1 cut(s) | 361 |
| RseI | CAYNNNNRTG | 1 cut(s) | 224 |
| SapI | GCTCTTC | 1 cut(s) | 66 |
| SaqAI | TTAA | 2 cut(s) | 195, 382 |
| Sau96I | GGNCC | 1 cut(s) | 331 |
| ScaI | AGTACT | 1 cut(s) | 362 |
| SchI | GAGTC | 2 cut(s) | 257, 275 |
| ScrFI | CCNGG | 1 cut(s) | 267 |
| SetI | ASST | 6 cut(s) | 57, 78, 168, 265, 271, 307 |
| SgeI | CNNG | 8 cut(s) | 68, 273, 278, 279, 318, 350, 355, 370 |
| SmiMI | CAYNNNNRTG | 1 cut(s) | 224 |
| SmlI | CTYRAG | 1 cut(s) | 56 |
| SmoI | CTYRAG | 1 cut(s) | 56 |
| Sse9I | AATT | 4 cut(s) | 41, 117, 174, 209 |
| SspMI | CTAG | 1 cut(s) | 306 |
| StyD4I | CCNGG | 1 cut(s) | 265 |
| TaiI | ACGT | 1 cut(s) | 265 |
| TasI | AATT | 4 cut(s) | 41, 117, 174, 209 |
| TatI | WGTACW | 1 cut(s) | 360 |
| Tru1I | TTAA | 2 cut(s) | 195, 382 |
| Tru9I | TTAA | 2 cut(s) | 195, 382 |
| TscAI | CASTG | 1 cut(s) | 195 |
| TspDTI | ATGAA | 2 cut(s) | 42, 54 |
| TspRI | CASTG | 1 cut(s) | 195 |
| XspI | CTAG | 1 cut(s) | 306 |
| ZrmI | AGTACT | 1 cut(s) | 362 |