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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AccIII | TCCGGA | 1 cut(s) | 70 |
| AciI | CCGC | 1 cut(s) | 418 |
| AclWI | GGATC | 1 cut(s) | 90 |
| AcsI | RAATTY | 1 cut(s) | 307 |
| AgsI | TTSAA | 2 cut(s) | 214, 352 |
| AluBI | AGCT | 2 cut(s) | 159, 401 |
| AluI | AGCT | 2 cut(s) | 159, 401 |
| AlwI | GGATC | 1 cut(s) | 90 |
| Aor13HI | TCCGGA | 1 cut(s) | 70 |
| ApeKI | GCWGC | 1 cut(s) | 398 |
| ApoI | RAATTY | 1 cut(s) | 307 |
| AsuHPI | GGTGA | 2 cut(s) | 280, 340 |
| BanII | GRGCYC | 1 cut(s) | 377 |
| BarI | GAAGNNNNNNTAC | 2 cut(s) | 95, 127 |
| BbvI | GCAGC | 1 cut(s) | 410 |
| BccI | CCATC | 1 cut(s) | 470 |
| BceAI | ACGGC | 1 cut(s) | 427 |
| BisI | GCNGC | 1 cut(s) | 399 |
| BlpI | GCTNAGC | 1 cut(s) | 402 |
| BlsI | GCNGC | 1 cut(s) | 400 |
| BmiI | GGNNCC | 1 cut(s) | 415 |
| BmsI | GCATC | 1 cut(s) | 329 |
| Bpu1102I | GCTNAGC | 1 cut(s) | 402 |
| BsaWI | WCCGGW | 1 cut(s) | 70 |
| BseAI | TCCGGA | 1 cut(s) | 70 |
| BseMII | CTCAG | 1 cut(s) | 416 |
| BseRI | GAGGAG | 3 cut(s) | 20, 188, 191 |
| BseXI | GCAGC | 1 cut(s) | 410 |
| BsgI | GTGCAG | 1 cut(s) | 414 |
| BsiSI | CCGG | 1 cut(s) | 71 |
| Bsp1286I | GDGCHC | 1 cut(s) | 377 |
| Bsp13I | TCCGGA | 1 cut(s) | 70 |
| Bsp143I | GATC | 1 cut(s) | 82 |
| Bsp1720I | GCTNAGC | 1 cut(s) | 402 |
| BspACI | CCGC | 1 cut(s) | 418 |
| BspCNI | CTCAG | 1 cut(s) | 415 |
| BspEI | TCCGGA | 1 cut(s) | 70 |
| BspLI | GGNNCC | 1 cut(s) | 415 |
| BspPI | GGATC | 1 cut(s) | 90 |
| BssMI | GATC | 1 cut(s) | 82 |
| Bst4CI | ACNGT | 3 cut(s) | 67, 196, 435 |
| Bst6I | CTCTTC | 2 cut(s) | 30, 72 |
| BstDEI | CTNAG | 2 cut(s) | 245, 402 |
| BstKTI | GATC | 1 cut(s) | 85 |
| BstMBI | GATC | 1 cut(s) | 82 |
| BstV1I | GCAGC | 1 cut(s) | 410 |
| BtsI | GCAGTG | 1 cut(s) | 426 |
| BtsIMutI | CAGTG | 1 cut(s) | 426 |
| CviAII | CATG | 1 cut(s) | 265 |
| CviJI | RGCY | 4 cut(s) | 159, 375, 401, 414 |
| CviKI_1 | RGCY | 4 cut(s) | 159, 375, 401, 414 |
| DdeI | CTNAG | 2 cut(s) | 245, 402 |
| DpnI | GATC | 1 cut(s) | 84 |
| DpnII | GATC | 1 cut(s) | 82 |
| Eam1104I | CTCTTC | 2 cut(s) | 30, 72 |
| EarI | CTCTTC | 2 cut(s) | 30, 72 |
| Eco24I | GRGCYC | 1 cut(s) | 377 |
| EcoT38I | GRGCYC | 1 cut(s) | 377 |
| FaeI | CATG | 1 cut(s) | 268 |
| FaiI | YATR | 4 cut(s) | 189, 191, 266, 469 |
| FatI | CATG | 1 cut(s) | 264 |
| FauI | CCCGC | 1 cut(s) | 425 |
| Fnu4HI | GCNGC | 1 cut(s) | 399 |
| FriOI | GRGCYC | 1 cut(s) | 377 |
| Fsp4HI | GCNGC | 1 cut(s) | 399 |
| GluI | GCNGC | 1 cut(s) | 399 |
| HapII | CCGG | 1 cut(s) | 71 |
| Hin1II | CATG | 1 cut(s) | 268 |
| HinfI | GANTC | 3 cut(s) | 20, 26, 382 |
| HpaII | CCGG | 1 cut(s) | 71 |
| HphI | GGTGA | 2 cut(s) | 280, 340 |
| Hpy188I | TCNGA | 2 cut(s) | 25, 31 |
| Hpy188III | TCNNGA | 3 cut(s) | 71, 121, 134 |
| HpyAV | CCTTC | 1 cut(s) | 346 |
| HpyCH4III | ACNGT | 3 cut(s) | 67, 196, 435 |
| HpyCH4V | TGCA | 2 cut(s) | 320, 431 |
| HpyF3I | CTNAG | 2 cut(s) | 245, 402 |
| Hsp92II | CATG | 1 cut(s) | 268 |
| Kpn2I | TCCGGA | 1 cut(s) | 70 |
| Kzo9I | GATC | 1 cut(s) | 82 |
| LmnI | GCTCC | 2 cut(s) | 361, 419 |
| LpnPI | CCDG | 1 cut(s) | 84 |
| Lsp1109I | GCAGC | 1 cut(s) | 410 |
| LweI | GCATC | 1 cut(s) | 329 |
| MaeIII | GTNAC | 1 cut(s) | 298 |
| MalI | GATC | 1 cut(s) | 84 |
| MboI | GATC | 1 cut(s) | 82 |
| MboII | GAAGA | 7 cut(s) | 47, 86, 89, 112, 115, 226, 453 |
| MhlI | GDGCHC | 1 cut(s) | 377 |
| MluCI | AATT | 5 cut(s) | 87, 208, 307, 347, 356 |
| MlyI | GAGTC | 1 cut(s) | 376 |
| MroI | TCCGGA | 1 cut(s) | 70 |
| MseI | TTAA | 1 cut(s) | 338 |
| MspI | CCGG | 1 cut(s) | 71 |
| NdeII | GATC | 1 cut(s) | 82 |
| NlaIII | CATG | 1 cut(s) | 268 |
| NlaIV | GGNNCC | 1 cut(s) | 415 |
| NmuCI | GTSAC | 1 cut(s) | 298 |
| PfeI | GAWTC | 2 cut(s) | 20, 26 |
| PkrI | GCNGC | 1 cut(s) | 400 |
| PleI | GAGTC | 1 cut(s) | 376 |
| PpsI | GAGTC | 1 cut(s) | 376 |
| PspN4I | GGNNCC | 1 cut(s) | 415 |
| SaqAI | TTAA | 1 cut(s) | 338 |
| SatI | GCNGC | 1 cut(s) | 399 |
| Sau3AI | GATC | 1 cut(s) | 82 |
| SchI | GAGTC | 1 cut(s) | 376 |
| SduI | GDGCHC | 1 cut(s) | 377 |
| SetI | ASST | 6 cut(s) | 113, 161, 345, 392, 403, 426 |
| SfaNI | GCATC | 1 cut(s) | 329 |
| Sse9I | AATT | 5 cut(s) | 87, 208, 307, 347, 356 |
| SsiI | CCGC | 1 cut(s) | 418 |
| SspI | AATATT | 1 cut(s) | 369 |
| TaaI | ACNGT | 3 cut(s) | 67, 196, 435 |
| TaqI | TCGA | 4 cut(s) | 85, 133, 162, 453 |
| TaqII | GACCGA | 1 cut(s) | 317 |
| TasI | AATT | 5 cut(s) | 87, 208, 307, 347, 356 |
| TfiI | GAWTC | 2 cut(s) | 20, 26 |
| Tru1I | TTAA | 1 cut(s) | 338 |
| Tru9I | TTAA | 1 cut(s) | 338 |
| TscAI | CASTG | 1 cut(s) | 433 |
| TseFI | GTSAC | 1 cut(s) | 298 |
| TseI | GCWGC | 1 cut(s) | 398 |
| Tsp45I | GTSAC | 1 cut(s) | 298 |
| TspDTI | ATGAA | 2 cut(s) | 69, 113 |
| TspGWI | ACGGA | 1 cut(s) | 290 |
| TspRI | CASTG | 1 cut(s) | 433 |
| XapI | RAATTY | 1 cut(s) | 307 |