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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| Acc65I | GGTACC | 1 cut(s) | 295 |
| AccB1I | GGYRCC | 1 cut(s) | 295 |
| AciI | CCGC | 2 cut(s) | 32, 375 |
| AclWI | GGATC | 2 cut(s) | 318, 372 |
| AfaI | GTAC | 4 cut(s) | 172, 275, 297, 469 |
| AfiI | CCNNNNNNNGG | 4 cut(s) | 283, 312, 422, 506 |
| AgsI | TTSAA | 2 cut(s) | 395, 476 |
| AjuI | GAANNNNNNNTTGG | 4 cut(s) | 387, 419, 505, 537 |
| AluBI | AGCT | 1 cut(s) | 390 |
| AluI | AGCT | 1 cut(s) | 390 |
| AlwI | GGATC | 2 cut(s) | 318, 372 |
| ApeKI | GCWGC | 1 cut(s) | 378 |
| Asp700I | GAANNNNTTC | 2 cut(s) | 117, 480 |
| Asp718I | GGTACC | 1 cut(s) | 295 |
| AsuC2I | CCSGG | 1 cut(s) | 285 |
| BanI | GGYRCC | 1 cut(s) | 295 |
| BauI | CACGAG | 1 cut(s) | 541 |
| BbsI | GAAGAC | 1 cut(s) | 161 |
| BbvI | GCAGC | 1 cut(s) | 365 |
| BcnI | CCSGG | 1 cut(s) | 285 |
| BfmI | CTRYAG | 1 cut(s) | 379 |
| BisI | GCNGC | 2 cut(s) | 376, 379 |
| BlsI | GCNGC | 2 cut(s) | 377, 380 |
| BmcAI | AGTACT | 1 cut(s) | 469 |
| Bme1390I | CCNGG | 1 cut(s) | 285 |
| BmiI | GGNNCC | 1 cut(s) | 297 |
| BmrFI | CCNGG | 1 cut(s) | 285 |
| BpiI | GAAGAC | 1 cut(s) | 161 |
| BpuMI | CCSGG | 1 cut(s) | 285 |
| BsaWI | WCCGGW | 1 cut(s) | 276 |
| Bsc4I | CCNNNNNNNGG | 4 cut(s) | 283, 312, 422, 506 |
| BseGI | GGATG | 1 cut(s) | 220 |
| BseLI | CCNNNNNNNGG | 4 cut(s) | 283, 312, 422, 506 |
| BseXI | GCAGC | 1 cut(s) | 365 |
| BseYI | CCCAGC | 1 cut(s) | 235 |
| BshNI | GGYRCC | 1 cut(s) | 295 |
| BsiSI | CCGG | 2 cut(s) | 277, 284 |
| BslFI | GGGAC | 2 cut(s) | 218, 458 |
| BslI | CCNNNNNNNGG | 4 cut(s) | 283, 312, 422, 506 |
| BsmFI | GGGAC | 2 cut(s) | 218, 458 |
| Bsp143I | GATC | 2 cut(s) | 323, 364 |
| BspACI | CCGC | 2 cut(s) | 32, 375 |
| BspLI | GGNNCC | 1 cut(s) | 297 |
| BspMAI | CTGCAG | 1 cut(s) | 383 |
| BspPI | GGATC | 2 cut(s) | 318, 372 |
| BspT107I | GGYRCC | 1 cut(s) | 295 |
| BssMI | GATC | 2 cut(s) | 323, 364 |
| BssSI | CACGAG | 1 cut(s) | 541 |
| Bst2BI | CACGAG | 1 cut(s) | 541 |
| Bst6I | CTCTTC | 2 cut(s) | 216, 236 |
| BstDEI | CTNAG | 1 cut(s) | 126 |
| BstF5I | GGATG | 1 cut(s) | 220 |
| BstKTI | GATC | 2 cut(s) | 326, 367 |
| BstMBI | GATC | 2 cut(s) | 323, 364 |
| BstMWI | GCNNNNNNNGC | 1 cut(s) | 387 |
| BstSCI | CCNGG | 1 cut(s) | 283 |
| BstSFI | CTRYAG | 1 cut(s) | 379 |
| BstV1I | GCAGC | 1 cut(s) | 365 |
| BstV2I | GAAGAC | 1 cut(s) | 161 |
| BstX2I | RGATCY | 1 cut(s) | 323 |
| BstYI | RGATCY | 1 cut(s) | 323 |
| BtsCI | GGATG | 1 cut(s) | 220 |
| Csp6I | GTAC | 4 cut(s) | 171, 274, 296, 468 |
| CviJI | RGCY | 2 cut(s) | 378, 390 |
| CviKI_1 | RGCY | 2 cut(s) | 378, 390 |
| CviQI | GTAC | 4 cut(s) | 171, 274, 296, 468 |
| DdeI | CTNAG | 1 cut(s) | 126 |
| DpnI | GATC | 2 cut(s) | 325, 366 |
| DpnII | GATC | 2 cut(s) | 323, 364 |
| Eam1104I | CTCTTC | 2 cut(s) | 216, 236 |
| EarI | CTCTTC | 2 cut(s) | 216, 236 |
| FaiI | YATR | 5 cut(s) | 255, 270, 319, 531, 533 |
| FaqI | GGGAC | 2 cut(s) | 218, 458 |
| Fnu4HI | GCNGC | 2 cut(s) | 376, 379 |
| FokI | GGATG | 1 cut(s) | 227 |
| Fsp4HI | GCNGC | 2 cut(s) | 376, 379 |
| GluI | GCNGC | 2 cut(s) | 376, 379 |
| GsaI | CCCAGC | 1 cut(s) | 239 |
| HapII | CCGG | 2 cut(s) | 277, 284 |
| HindIII | AAGCTT | 1 cut(s) | 388 |
| HinfI | GANTC | 3 cut(s) | 10, 280, 537 |
| HpaII | CCGG | 2 cut(s) | 277, 284 |
| Hpy188I | TCNGA | 3 cut(s) | 328, 417, 509 |
| Hpy188III | TCNNGA | 3 cut(s) | 334, 473, 543 |
| Hpy99I | CGWCG | 1 cut(s) | 197 |
| HpyAV | CCTTC | 3 cut(s) | 175, 305, 392 |
| HpyCH4V | TGCA | 1 cut(s) | 381 |
| HpyF10VI | GCNNNNNNNGC | 1 cut(s) | 387 |
| HpyF3I | CTNAG | 1 cut(s) | 126 |
| KpnI | GGTACC | 1 cut(s) | 299 |
| Kzo9I | GATC | 2 cut(s) | 323, 364 |
| LpnPI | CCDG | 5 cut(s) | 249, 290, 297, 408, 507 |
| Lsp1109I | GCAGC | 1 cut(s) | 365 |
| MaeIII | GTNAC | 1 cut(s) | 334 |
| MalI | GATC | 2 cut(s) | 325, 366 |
| MboI | GATC | 2 cut(s) | 323, 364 |
| MflI | RGATCY | 1 cut(s) | 323 |
| MlyI | GAGTC | 1 cut(s) | 546 |
| MnlI | CCTC | 6 cut(s) | 190, 217, 256, 355, 377, 503 |
| MroXI | GAANNNNTTC | 2 cut(s) | 117, 480 |
| MspA1I | CMGCKG | 1 cut(s) | 32 |
| MspI | CCGG | 2 cut(s) | 277, 284 |
| MspR9I | CCNGG | 1 cut(s) | 285 |
| MwoI | GCNNNNNNNGC | 1 cut(s) | 387 |
| NciI | CCSGG | 1 cut(s) | 285 |
| NdeII | GATC | 2 cut(s) | 323, 364 |
| NlaIV | GGNNCC | 1 cut(s) | 297 |
| NmuCI | GTSAC | 1 cut(s) | 334 |
| PdmI | GAANNNNTTC | 2 cut(s) | 117, 480 |
| PfeI | GAWTC | 2 cut(s) | 10, 280 |
| PkrI | GCNGC | 2 cut(s) | 377, 380 |
| PleI | GAGTC | 1 cut(s) | 545 |
| PpsI | GAGTC | 1 cut(s) | 545 |
| PspFI | CCCAGC | 1 cut(s) | 235 |
| PspN4I | GGNNCC | 1 cut(s) | 297 |
| PstI | CTGCAG | 1 cut(s) | 383 |
| PsuI | RGATCY | 1 cut(s) | 323 |
| RsaI | GTAC | 4 cut(s) | 172, 275, 297, 469 |
| RsaNI | GTAC | 4 cut(s) | 171, 274, 296, 468 |
| SatI | GCNGC | 2 cut(s) | 376, 379 |
| Sau3AI | GATC | 2 cut(s) | 323, 364 |
| ScaI | AGTACT | 1 cut(s) | 469 |
| SchI | GAGTC | 1 cut(s) | 546 |
| ScrFI | CCNGG | 1 cut(s) | 285 |
| SetI | ASST | 2 cut(s) | 392, 481 |
| SfcI | CTRYAG | 1 cut(s) | 379 |
| SsiI | CCGC | 2 cut(s) | 32, 375 |
| StyD4I | CCNGG | 1 cut(s) | 283 |
| TaqI | TCGA | 1 cut(s) | 192 |
| TatI | WGTACW | 2 cut(s) | 170, 467 |
| TauI | GCSGC | 1 cut(s) | 378 |
| TfiI | GAWTC | 2 cut(s) | 10, 280 |
| TseFI | GTSAC | 1 cut(s) | 334 |
| TseI | GCWGC | 1 cut(s) | 378 |
| Tsp45I | GTSAC | 1 cut(s) | 334 |
| TspDTI | ATGAA | 5 cut(s) | 17, 32, 123, 234, 473 |
| XmnI | GAANNNNTTC | 2 cut(s) | 117, 480 |
| ZrmI | AGTACT | 1 cut(s) | 469 |