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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AciI | CCGC | 2 cut(s) | 314, 509 |
| AclWI | GGATC | 1 cut(s) | 117 |
| AcoI | YGGCCR | 1 cut(s) | 3 |
| AcsI | RAATTY | 1 cut(s) | 346 |
| AcuI | CTGAAG | 1 cut(s) | 185 |
| AgsI | TTSAA | 4 cut(s) | 158, 253, 452, 499 |
| AjuI | GAANNNNNNNTTGG | 1 cut(s) | 31 |
| AluBI | AGCT | 2 cut(s) | 199, 532 |
| AluI | AGCT | 2 cut(s) | 199, 532 |
| AlwI | GGATC | 1 cut(s) | 117 |
| AoxI | GGCC | 3 cut(s) | 3, 27, 501 |
| ApoI | RAATTY | 1 cut(s) | 346 |
| AsuHPI | GGTGA | 3 cut(s) | 15, 319, 498 |
| BalI | TGGCCA | 1 cut(s) | 5 |
| BarI | GAAGNNNNNNTAC | 2 cut(s) | 123, 155 |
| BauI | CACGAG | 1 cut(s) | 380 |
| BccI | CCATC | 2 cut(s) | 535, 595 |
| BmsI | GCATC | 4 cut(s) | 367, 457, 505, 598 |
| BsaJI | CCNNGG | 1 cut(s) | 57 |
| Bse118I | RCCGGY | 1 cut(s) | 25 |
| BseDI | CCNNGG | 1 cut(s) | 57 |
| BseGI | GGATG | 3 cut(s) | 361, 546, 583 |
| BseRI | GAGGAG | 2 cut(s) | 227, 230 |
| BshFI | GGCC | 3 cut(s) | 5, 29, 503 |
| BsiSI | CCGG | 1 cut(s) | 26 |
| BsmI | GAATGC | 1 cut(s) | 316 |
| BsnI | GGCC | 3 cut(s) | 5, 29, 503 |
| Bsp143I | GATC | 1 cut(s) | 109 |
| BspACI | CCGC | 2 cut(s) | 314, 509 |
| BspANI | GGCC | 3 cut(s) | 5, 29, 503 |
| BspPI | GGATC | 1 cut(s) | 117 |
| BsrFI | RCCGGY | 1 cut(s) | 25 |
| BssAI | RCCGGY | 1 cut(s) | 25 |
| BssECI | CCNNGG | 1 cut(s) | 57 |
| BssMI | GATC | 1 cut(s) | 109 |
| BssSI | CACGAG | 1 cut(s) | 380 |
| Bst2BI | CACGAG | 1 cut(s) | 380 |
| Bst4CI | ACNGT | 1 cut(s) | 235 |
| Bst6I | CTCTTC | 3 cut(s) | 57, 99, 447 |
| BstAPI | GCANNNNNTGC | 1 cut(s) | 617 |
| BstC8I | GCNNGC | 1 cut(s) | 588 |
| BstDEI | CTNAG | 1 cut(s) | 284 |
| BstF5I | GGATG | 3 cut(s) | 361, 546, 583 |
| BstKTI | GATC | 1 cut(s) | 112 |
| BstMBI | GATC | 1 cut(s) | 109 |
| BstMWI | GCNNNNNNNGC | 1 cut(s) | 617 |
| BsuRI | GGCC | 3 cut(s) | 5, 29, 503 |
| BtsCI | GGATG | 3 cut(s) | 361, 546, 583 |
| Cac8I | GCNNGC | 1 cut(s) | 588 |
| Cfr10I | RCCGGY | 1 cut(s) | 25 |
| CviAII | CATG | 3 cut(s) | 19, 278, 304 |
| CviJI | RGCY | 6 cut(s) | 5, 29, 199, 503, 532, 637 |
| CviKI_1 | RGCY | 6 cut(s) | 5, 29, 199, 503, 532, 637 |
| DdeI | CTNAG | 1 cut(s) | 284 |
| DpnI | GATC | 1 cut(s) | 111 |
| DpnII | GATC | 1 cut(s) | 109 |
| EaeI | YGGCCR | 1 cut(s) | 3 |
| Eam1104I | CTCTTC | 3 cut(s) | 57, 99, 447 |
| EarI | CTCTTC | 3 cut(s) | 57, 99, 447 |
| Eco147I | AGGCCT | 1 cut(s) | 503 |
| Eco57I | CTGAAG | 1 cut(s) | 185 |
| FaeI | CATG | 3 cut(s) | 22, 281, 307 |
| FaiI | YATR | 7 cut(s) | 20, 35, 228, 230, 279, 305, 416 |
| FalI | AAGNNNNNCTT | 1 cut(s) | 31 |
| FatI | CATG | 3 cut(s) | 18, 277, 303 |
| FokI | GGATG | 3 cut(s) | 348, 553, 590 |
| HaeIII | GGCC | 3 cut(s) | 5, 29, 503 |
| HapII | CCGG | 1 cut(s) | 26 |
| Hin1II | CATG | 3 cut(s) | 22, 281, 307 |
| HinfI | GANTC | 2 cut(s) | 48, 53 |
| HpaII | CCGG | 1 cut(s) | 26 |
| HphI | GGTGA | 3 cut(s) | 15, 319, 498 |
| Hpy188I | TCNGA | 3 cut(s) | 58, 100, 114 |
| Hpy188III | TCNNGA | 2 cut(s) | 174, 657 |
| Hpy99I | CGWCG | 1 cut(s) | 432 |
| HpyAV | CCTTC | 2 cut(s) | 40, 493 |
| HpyCH4III | ACNGT | 1 cut(s) | 235 |
| HpyCH4IV | ACGT | 1 cut(s) | 523 |
| HpyCH4V | TGCA | 4 cut(s) | 358, 586, 611, 620 |
| HpyF10VI | GCNNNNNNNGC | 1 cut(s) | 617 |
| HpyF3I | CTNAG | 1 cut(s) | 284 |
| HpySE526I | ACGT | 1 cut(s) | 523 |
| Hsp92II | CATG | 3 cut(s) | 22, 281, 307 |
| Kzo9I | GATC | 1 cut(s) | 109 |
| LpnPI | CCDG | 1 cut(s) | 39 |
| LweI | GCATC | 4 cut(s) | 367, 457, 505, 598 |
| MaeII | ACGT | 1 cut(s) | 523 |
| MaeIII | GTNAC | 3 cut(s) | 9, 21, 337 |
| MalI | GATC | 1 cut(s) | 111 |
| MboI | GATC | 1 cut(s) | 109 |
| MboII | GAAGA | 7 cut(s) | 74, 113, 116, 140, 143, 265, 464 |
| MlsI | TGGCCA | 1 cut(s) | 5 |
| MluCI | AATT | 3 cut(s) | 115, 247, 346 |
| MluNI | TGGCCA | 1 cut(s) | 5 |
| MmeI | TCCRAC | 1 cut(s) | 539 |
| Mox20I | TGGCCA | 1 cut(s) | 5 |
| MscI | TGGCCA | 1 cut(s) | 5 |
| MseI | TTAA | 1 cut(s) | 461 |
| Msp20I | TGGCCA | 1 cut(s) | 5 |
| MspI | CCGG | 1 cut(s) | 26 |
| Mva1269I | GAATGC | 1 cut(s) | 316 |
| MwoI | GCNNNNNNNGC | 1 cut(s) | 617 |
| NdeII | GATC | 1 cut(s) | 109 |
| NlaIII | CATG | 3 cut(s) | 22, 281, 307 |
| NmuCI | GTSAC | 3 cut(s) | 9, 21, 337 |
| PceI | AGGCCT | 1 cut(s) | 503 |
| PctI | GAATGC | 1 cut(s) | 316 |
| PfeI | GAWTC | 2 cut(s) | 48, 53 |
| SaqAI | TTAA | 1 cut(s) | 461 |
| Sau3AI | GATC | 1 cut(s) | 109 |
| SetI | ASST | 5 cut(s) | 141, 201, 526, 534, 656 |
| SfaNI | GCATC | 4 cut(s) | 367, 457, 505, 598 |
| Sse9I | AATT | 3 cut(s) | 115, 247, 346 |
| SseBI | AGGCCT | 1 cut(s) | 503 |
| SsiI | CCGC | 2 cut(s) | 314, 509 |
| StuI | AGGCCT | 1 cut(s) | 503 |
| TaaI | ACNGT | 1 cut(s) | 235 |
| TaiI | ACGT | 1 cut(s) | 526 |
| TaqI | TCGA | 3 cut(s) | 51, 173, 534 |
| TaqII | GACCGA | 1 cut(s) | 356 |
| TasI | AATT | 3 cut(s) | 115, 247, 346 |
| TfiI | GAWTC | 2 cut(s) | 48, 53 |
| Tru1I | TTAA | 1 cut(s) | 461 |
| Tru9I | TTAA | 1 cut(s) | 461 |
| TseFI | GTSAC | 3 cut(s) | 9, 21, 337 |
| Tsp45I | GTSAC | 3 cut(s) | 9, 21, 337 |
| TspDTI | ATGAA | 6 cut(s) | 7, 22, 96, 141, 294, 431 |
| TspGWI | ACGGA | 1 cut(s) | 553 |
| XapI | RAATTY | 1 cut(s) | 346 |