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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AciI | CCGC | 2 cut(s) | 111, 498 |
| AclWI | GGATC | 1 cut(s) | 108 |
| AcsI | RAATTY | 1 cut(s) | 438 |
| AfaI | GTAC | 2 cut(s) | 34, 202 |
| AfiI | CCNNNNNNNGG | 5 cut(s) | 23, 49, 157, 239, 280 |
| AgsI | TTSAA | 3 cut(s) | 131, 209, 541 |
| AjuI | GAANNNNNNNTTGG | 2 cut(s) | 238, 270 |
| AluBI | AGCT | 3 cut(s) | 126, 306, 434 |
| AluI | AGCT | 3 cut(s) | 126, 306, 434 |
| AlwI | GGATC | 1 cut(s) | 108 |
| AoxI | GGCC | 1 cut(s) | 379 |
| ApeKI | GCWGC | 1 cut(s) | 114 |
| ApoI | RAATTY | 1 cut(s) | 438 |
| Asp700I | GAANNNNTTC | 2 cut(s) | 213, 361 |
| AspLEI | GCGC | 1 cut(s) | 482 |
| AspS9I | GGNCC | 1 cut(s) | 380 |
| AsuC2I | CCSGG | 1 cut(s) | 294 |
| AsuHPI | GGTGA | 1 cut(s) | 524 |
| BbvI | GCAGC | 1 cut(s) | 101 |
| BceAI | ACGGC | 1 cut(s) | 177 |
| BcgI | CGANNNNNNTGC | 2 cut(s) | 366, 400 |
| BcnI | CCSGG | 1 cut(s) | 294 |
| BfmI | CTRYAG | 1 cut(s) | 115 |
| BglII | AGATCT | 1 cut(s) | 59 |
| BisI | GCNGC | 2 cut(s) | 112, 115 |
| BlsI | GCNGC | 2 cut(s) | 113, 116 |
| BmcAI | AGTACT | 1 cut(s) | 202 |
| Bme1390I | CCNGG | 1 cut(s) | 294 |
| BmgT120I | GGNCC | 1 cut(s) | 380 |
| BmiI | GGNNCC | 1 cut(s) | 382 |
| BmrFI | CCNGG | 1 cut(s) | 294 |
| BmsI | GCATC | 1 cut(s) | 491 |
| BoxI | GACNNNNGTC | 1 cut(s) | 528 |
| BpuEI | CTTGAG | 1 cut(s) | 414 |
| BpuMI | CCSGG | 1 cut(s) | 294 |
| BsaJI | CCNNGG | 2 cut(s) | 384, 519 |
| BsaWI | WCCGGW | 1 cut(s) | 23 |
| Bsc4I | CCNNNNNNNGG | 5 cut(s) | 23, 49, 157, 239, 280 |
| Bse3DI | GCAATG | 1 cut(s) | 138 |
| BseDI | CCNNGG | 2 cut(s) | 384, 519 |
| BseGI | GGATG | 2 cut(s) | 482, 494 |
| BseLI | CCNNNNNNNGG | 5 cut(s) | 23, 49, 157, 239, 280 |
| BseMI | GCAATG | 1 cut(s) | 138 |
| BseMII | CTCAG | 1 cut(s) | 54 |
| BseXI | GCAGC | 1 cut(s) | 101 |
| BseYI | CCCAGC | 1 cut(s) | 306 |
| BshFI | GGCC | 1 cut(s) | 381 |
| BsiSI | CCGG | 3 cut(s) | 17, 24, 293 |
| BslFI | GGGAC | 2 cut(s) | 192, 338 |
| BslI | CCNNNNNNNGG | 5 cut(s) | 23, 49, 157, 239, 280 |
| BsmFI | GGGAC | 2 cut(s) | 192, 338 |
| BsmI | GAATGC | 1 cut(s) | 547 |
| BsnI | GGCC | 1 cut(s) | 381 |
| Bsp143I | GATC | 2 cut(s) | 59, 100 |
| BspACI | CCGC | 2 cut(s) | 111, 498 |
| BspANI | GGCC | 1 cut(s) | 381 |
| BspCNI | CTCAG | 1 cut(s) | 55 |
| BspLI | GGNNCC | 1 cut(s) | 382 |
| BspMAI | CTGCAG | 1 cut(s) | 119 |
| BspPI | GGATC | 1 cut(s) | 108 |
| BsrDI | GCAATG | 1 cut(s) | 138 |
| BssECI | CCNNGG | 2 cut(s) | 384, 519 |
| BssMI | GATC | 2 cut(s) | 59, 100 |
| Bst6I | CTCTTC | 1 cut(s) | 273 |
| BstC8I | GCNNGC | 2 cut(s) | 379, 407 |
| BstDEI | CTNAG | 1 cut(s) | 63 |
| BstF5I | GGATG | 2 cut(s) | 482, 494 |
| BstHHI | GCGC | 1 cut(s) | 482 |
| BstKTI | GATC | 2 cut(s) | 62, 103 |
| BstMBI | GATC | 2 cut(s) | 59, 100 |
| BstMWI | GCNNNNNNNGC | 1 cut(s) | 123 |
| BstPAI | GACNNNNGTC | 1 cut(s) | 528 |
| BstSCI | CCNGG | 1 cut(s) | 292 |
| BstSFI | CTRYAG | 1 cut(s) | 115 |
| BstV1I | GCAGC | 1 cut(s) | 101 |
| BstX2I | RGATCY | 1 cut(s) | 59 |
| BstYI | RGATCY | 1 cut(s) | 59 |
| BsuRI | GGCC | 1 cut(s) | 381 |
| BtsCI | GGATG | 2 cut(s) | 482, 494 |
| Cac8I | GCNNGC | 2 cut(s) | 379, 407 |
| CfoI | GCGC | 1 cut(s) | 482 |
| Cfr13I | GGNCC | 1 cut(s) | 380 |
| Csp6I | GTAC | 2 cut(s) | 33, 201 |
| CviAII | CATG | 1 cut(s) | 373 |
| CviJI | RGCY | 6 cut(s) | 114, 126, 306, 381, 394, 434 |
| CviKI_1 | RGCY | 6 cut(s) | 114, 126, 306, 381, 394, 434 |
| CviQI | GTAC | 2 cut(s) | 33, 201 |
| DdeI | CTNAG | 1 cut(s) | 63 |
| DpnI | GATC | 2 cut(s) | 61, 102 |
| DpnII | GATC | 2 cut(s) | 59, 100 |
| Eam1104I | CTCTTC | 1 cut(s) | 273 |
| EarI | CTCTTC | 1 cut(s) | 273 |
| EcoO109I | RGGNCCY | 1 cut(s) | 380 |
| FaeI | CATG | 1 cut(s) | 376 |
| FaiI | YATR | 5 cut(s) | 55, 264, 266, 303, 374 |
| FaqI | GGGAC | 2 cut(s) | 192, 338 |
| FatI | CATG | 1 cut(s) | 372 |
| Fnu4HI | GCNGC | 2 cut(s) | 112, 115 |
| FokI | GGATG | 2 cut(s) | 469, 481 |
| Fsp4HI | GCNGC | 2 cut(s) | 112, 115 |
| GlaI | GCGC | 1 cut(s) | 481 |
| GluI | GCNGC | 2 cut(s) | 112, 115 |
| GsaI | CCCAGC | 1 cut(s) | 310 |
| HaeIII | GGCC | 1 cut(s) | 381 |
| HapII | CCGG | 3 cut(s) | 17, 24, 293 |
| HhaI | GCGC | 1 cut(s) | 482 |
| Hin1II | CATG | 1 cut(s) | 376 |
| Hin6I | GCGC | 1 cut(s) | 480 |
| HinP1I | GCGC | 1 cut(s) | 480 |
| HindIII | AAGCTT | 1 cut(s) | 124 |
| HinfI | GANTC | 4 cut(s) | 20, 270, 362, 508 |
| HpaII | CCGG | 3 cut(s) | 17, 24, 293 |
| HphI | GGTGA | 1 cut(s) | 524 |
| Hpy188I | TCNGA | 6 cut(s) | 64, 152, 242, 388, 444, 487 |
| Hpy188III | TCNNGA | 2 cut(s) | 70, 206 |
| HpyAV | CCTTC | 2 cut(s) | 42, 128 |
| HpyCH4V | TGCA | 1 cut(s) | 117 |
| HpyF10VI | GCNNNNNNNGC | 1 cut(s) | 123 |
| HpyF3I | CTNAG | 1 cut(s) | 63 |
| Hsp92II | CATG | 1 cut(s) | 376 |
| HspAI | GCGC | 1 cut(s) | 480 |
| Kzo9I | GATC | 2 cut(s) | 59, 100 |
| LpnPI | CCDG | 7 cut(s) | 30, 37, 143, 240, 292, 306, 363 |
| Lsp1109I | GCAGC | 1 cut(s) | 101 |
| LweI | GCATC | 1 cut(s) | 491 |
| MaeIII | GTNAC | 2 cut(s) | 70, 530 |
| MalI | GATC | 2 cut(s) | 61, 102 |
| MboI | GATC | 2 cut(s) | 59, 100 |
| MboII | GAAGA | 3 cut(s) | 143, 175, 290 |
| MflI | RGATCY | 1 cut(s) | 59 |
| MluCI | AATT | 2 cut(s) | 342, 438 |
| MlyI | GAGTC | 2 cut(s) | 279, 502 |
| MnlI | CCTC | 7 cut(s) | 91, 113, 236, 274, 394, 470, 514 |
| MroXI | GAANNNNTTC | 2 cut(s) | 213, 361 |
| MseI | TTAA | 2 cut(s) | 333, 345 |
| MslI | CAYNNNNRTG | 1 cut(s) | 540 |
| MspI | CCGG | 3 cut(s) | 17, 24, 293 |
| MspR9I | CCNGG | 1 cut(s) | 294 |
| Mva1269I | GAATGC | 1 cut(s) | 547 |
| MwoI | GCNNNNNNNGC | 1 cut(s) | 123 |
| NciI | CCSGG | 1 cut(s) | 294 |
| NdeII | GATC | 2 cut(s) | 59, 100 |
| NlaIII | CATG | 1 cut(s) | 376 |
| NlaIV | GGNNCC | 1 cut(s) | 382 |
| NmuCI | GTSAC | 2 cut(s) | 70, 530 |
| PctI | GAATGC | 1 cut(s) | 547 |
| PdmI | GAANNNNTTC | 2 cut(s) | 213, 361 |
| PfeI | GAWTC | 2 cut(s) | 20, 362 |
| PfoI | TCCNGGA | 1 cut(s) | 292 |
| PkrI | GCNGC | 2 cut(s) | 113, 116 |
| PleI | GAGTC | 2 cut(s) | 278, 502 |
| PpsI | GAGTC | 2 cut(s) | 278, 502 |
| PshAI | GACNNNNGTC | 1 cut(s) | 528 |
| PspFI | CCCAGC | 1 cut(s) | 306 |
| PspN4I | GGNNCC | 1 cut(s) | 382 |
| PspPI | GGNCC | 1 cut(s) | 380 |
| PstI | CTGCAG | 1 cut(s) | 119 |
| PsuI | RGATCY | 1 cut(s) | 59 |
| RsaI | GTAC | 2 cut(s) | 34, 202 |
| RsaNI | GTAC | 2 cut(s) | 33, 201 |
| RseI | CAYNNNNRTG | 1 cut(s) | 540 |
| SaqAI | TTAA | 2 cut(s) | 333, 345 |
| SatI | GCNGC | 2 cut(s) | 112, 115 |
| Sau3AI | GATC | 2 cut(s) | 59, 100 |
| Sau96I | GGNCC | 1 cut(s) | 380 |
| ScaI | AGTACT | 1 cut(s) | 202 |
| SchI | GAGTC | 2 cut(s) | 279, 502 |
| ScrFI | CCNGG | 1 cut(s) | 294 |
| SetI | ASST | 6 cut(s) | 128, 214, 285, 308, 436, 462 |
| SfaNI | GCATC | 1 cut(s) | 491 |
| SfcI | CTRYAG | 1 cut(s) | 115 |
| SmiMI | CAYNNNNRTG | 1 cut(s) | 540 |
| SmlI | CTYRAG | 1 cut(s) | 429 |
| SmoI | CTYRAG | 1 cut(s) | 429 |
| Sse9I | AATT | 2 cut(s) | 342, 438 |
| SsiI | CCGC | 2 cut(s) | 111, 498 |
| StyD4I | CCNGG | 1 cut(s) | 292 |
| TasI | AATT | 2 cut(s) | 342, 438 |
| TatI | WGTACW | 1 cut(s) | 200 |
| TauI | GCSGC | 1 cut(s) | 114 |
| TfiI | GAWTC | 2 cut(s) | 20, 362 |
| Tru1I | TTAA | 2 cut(s) | 333, 345 |
| Tru9I | TTAA | 2 cut(s) | 333, 345 |
| TseFI | GTSAC | 2 cut(s) | 70, 530 |
| TseI | GCWGC | 1 cut(s) | 114 |
| Tsp45I | GTSAC | 2 cut(s) | 70, 530 |
| TspDTI | ATGAA | 1 cut(s) | 206 |
| TspGWI | ACGGA | 1 cut(s) | 263 |
| XapI | RAATTY | 1 cut(s) | 438 |
| XmnI | GAANNNNTTC | 2 cut(s) | 213, 361 |
| ZrmI | AGTACT | 1 cut(s) | 202 |