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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AcsI | RAATTY | 2 cut(s) | 18, 470 |
| AcuI | CTGAAG | 2 cut(s) | 477, 516 |
| AfaI | GTAC | 2 cut(s) | 368, 383 |
| AfiI | CCNNNNNNNGG | 3 cut(s) | 64, 427, 521 |
| AgsI | TTSAA | 3 cut(s) | 132, 266, 377 |
| AjuI | GAANNNNNNNTTGG | 2 cut(s) | 489, 521 |
| AluBI | AGCT | 4 cut(s) | 109, 220, 262, 337 |
| AluI | AGCT | 4 cut(s) | 109, 220, 262, 337 |
| Alw21I | GWGCWC | 1 cut(s) | 490 |
| Alw44I | GTGCAC | 1 cut(s) | 486 |
| ApaLI | GTGCAC | 1 cut(s) | 486 |
| ApeKI | GCWGC | 1 cut(s) | 543 |
| ApoI | RAATTY | 2 cut(s) | 18, 470 |
| AspS9I | GGNCC | 2 cut(s) | 8, 344 |
| AvaII | GGWCC | 2 cut(s) | 8, 344 |
| AxyI | CCTNAGG | 1 cut(s) | 59 |
| BaeGI | GKGCMC | 1 cut(s) | 490 |
| BanII | GRGCYC | 1 cut(s) | 75 |
| BarI | GAAGNNNNNNTAC | 1 cut(s) | 28 |
| BbsI | GAAGAC | 1 cut(s) | 243 |
| Bbv12I | GWGCWC | 1 cut(s) | 490 |
| BbvI | GCAGC | 1 cut(s) | 555 |
| BccI | CCATC | 2 cut(s) | 429, 523 |
| BceAI | ACGGC | 1 cut(s) | 449 |
| BfaI | CTAG | 1 cut(s) | 242 |
| BisI | GCNGC | 1 cut(s) | 544 |
| BlsI | GCNGC | 1 cut(s) | 545 |
| Bme18I | GGWCC | 2 cut(s) | 8, 344 |
| BmgT120I | GGNCC | 2 cut(s) | 8, 344 |
| BmiI | GGNNCC | 1 cut(s) | 9 |
| BmsI | GCATC | 1 cut(s) | 519 |
| BpiI | GAAGAC | 1 cut(s) | 243 |
| BsaJI | CCNNGG | 2 cut(s) | 48, 465 |
| BsaWI | WCCGGW | 1 cut(s) | 150 |
| Bsc4I | CCNNNNNNNGG | 3 cut(s) | 64, 427, 521 |
| Bse1I | ACTGG | 2 cut(s) | 146, 347 |
| Bse21I | CCTNAGG | 1 cut(s) | 59 |
| Bse3DI | GCAATG | 1 cut(s) | 435 |
| BseDI | CCNNGG | 2 cut(s) | 48, 465 |
| BseGI | GGATG | 4 cut(s) | 58, 369, 421, 510 |
| BseLI | CCNNNNNNNGG | 3 cut(s) | 64, 427, 521 |
| BseMI | GCAATG | 1 cut(s) | 435 |
| BseMII | CTCAG | 2 cut(s) | 432, 492 |
| BseNI | ACTGG | 2 cut(s) | 146, 347 |
| BseSI | GKGCMC | 1 cut(s) | 490 |
| BseXI | GCAGC | 1 cut(s) | 555 |
| BsiHKAI | GWGCWC | 1 cut(s) | 490 |
| BsiSI | CCGG | 1 cut(s) | 151 |
| BslI | CCNNNNNNNGG | 3 cut(s) | 64, 427, 521 |
| Bsp1286I | GDGCHC | 2 cut(s) | 75, 490 |
| BspCNI | CTCAG | 2 cut(s) | 433, 491 |
| BspHI | TCATGA | 1 cut(s) | 297 |
| BspLI | GGNNCC | 1 cut(s) | 9 |
| BsrDI | GCAATG | 1 cut(s) | 435 |
| BsrI | ACTGG | 2 cut(s) | 146, 347 |
| BssECI | CCNNGG | 2 cut(s) | 48, 465 |
| BssT1I | CCWWGG | 1 cut(s) | 48 |
| Bst4CI | ACNGT | 4 cut(s) | 253, 313, 381, 505 |
| BstDEI | CTNAG | 3 cut(s) | 59, 441, 478 |
| BstDSI | CCRYGG | 1 cut(s) | 465 |
| BstF5I | GGATG | 4 cut(s) | 58, 369, 421, 510 |
| BstMWI | GCNNNNNNNGC | 2 cut(s) | 70, 461 |
| BstSLI | GKGCMC | 1 cut(s) | 490 |
| BstV1I | GCAGC | 1 cut(s) | 555 |
| BstV2I | GAAGAC | 1 cut(s) | 243 |
| Bsu36I | CCTNAGG | 1 cut(s) | 59 |
| BtgI | CCRYGG | 1 cut(s) | 465 |
| BtsCI | GGATG | 4 cut(s) | 58, 369, 421, 510 |
| CciI | TCATGA | 1 cut(s) | 297 |
| Cfr13I | GGNCC | 2 cut(s) | 8, 344 |
| Csp6I | GTAC | 2 cut(s) | 367, 382 |
| CviAII | CATG | 4 cut(s) | 83, 100, 298, 385 |
| CviQI | GTAC | 2 cut(s) | 367, 382 |
| DdeI | CTNAG | 3 cut(s) | 59, 441, 478 |
| Eco130I | CCWWGG | 1 cut(s) | 48 |
| Eco24I | GRGCYC | 1 cut(s) | 75 |
| Eco47I | GGWCC | 2 cut(s) | 8, 344 |
| Eco57I | CTGAAG | 2 cut(s) | 477, 516 |
| Eco81I | CCTNAGG | 1 cut(s) | 59 |
| EcoO109I | RGGNCCY | 1 cut(s) | 8 |
| EcoT14I | CCWWGG | 1 cut(s) | 48 |
| EcoT38I | GRGCYC | 1 cut(s) | 75 |
| ErhI | CCWWGG | 1 cut(s) | 48 |
| FaeI | CATG | 4 cut(s) | 86, 103, 301, 388 |
| FalI | AAGNNNNNCTT | 2 cut(s) | 321, 353 |
| FatI | CATG | 4 cut(s) | 82, 99, 297, 384 |
| FauNDI | CATATG | 1 cut(s) | 93 |
| Fnu4HI | GCNGC | 1 cut(s) | 544 |
| FokI | GGATG | 4 cut(s) | 65, 376, 408, 497 |
| FriOI | GRGCYC | 1 cut(s) | 75 |
| Fsp4HI | GCNGC | 1 cut(s) | 544 |
| FspBI | CTAG | 1 cut(s) | 242 |
| GluI | GCNGC | 1 cut(s) | 544 |
| HapII | CCGG | 1 cut(s) | 151 |
| Hin1II | CATG | 4 cut(s) | 86, 103, 301, 388 |
| HinfI | GANTC | 3 cut(s) | 37, 301, 443 |
| HpaII | CCGG | 1 cut(s) | 151 |
| Hpy166II | GTNNAC | 2 cut(s) | 344, 488 |
| Hpy188I | TCNGA | 3 cut(s) | 326, 481, 496 |
| Hpy188III | TCNNGA | 2 cut(s) | 298, 425 |
| Hpy8I | GTNNAC | 2 cut(s) | 344, 488 |
| HpyAV | CCTTC | 1 cut(s) | 291 |
| HpyCH4III | ACNGT | 4 cut(s) | 253, 313, 381, 505 |
| HpyCH4IV | ACGT | 2 cut(s) | 127, 484 |
| HpyCH4V | TGCA | 7 cut(s) | 103, 158, 195, 232, 435, 488, 543 |
| HpyF10VI | GCNNNNNNNGC | 2 cut(s) | 70, 461 |
| HpyF3I | CTNAG | 3 cut(s) | 59, 441, 478 |
| HpySE526I | ACGT | 2 cut(s) | 127, 484 |
| Hsp92II | CATG | 4 cut(s) | 86, 103, 301, 388 |
| LpnPI | CCDG | 5 cut(s) | 50, 159, 164, 360, 438 |
| Lsp1109I | GCAGC | 1 cut(s) | 555 |
| LweI | GCATC | 1 cut(s) | 519 |
| MaeI | CTAG | 1 cut(s) | 242 |
| MaeII | ACGT | 2 cut(s) | 127, 484 |
| MaeIII | GTNAC | 1 cut(s) | 535 |
| MboII | GAAGA | 3 cut(s) | 248, 470, 509 |
| MhlI | GDGCHC | 2 cut(s) | 75, 490 |
| MluCI | AATT | 2 cut(s) | 18, 470 |
| MlyI | GAGTC | 1 cut(s) | 452 |
| MnlI | CCTC | 4 cut(s) | 34, 404, 421, 562 |
| MseI | TTAA | 1 cut(s) | 183 |
| MspI | CCGG | 1 cut(s) | 151 |
| MwoI | GCNNNNNNNGC | 2 cut(s) | 70, 461 |
| NdeI | CATATG | 1 cut(s) | 93 |
| NlaIII | CATG | 4 cut(s) | 86, 103, 301, 388 |
| NlaIV | GGNNCC | 1 cut(s) | 9 |
| PagI | TCATGA | 1 cut(s) | 297 |
| PfeI | GAWTC | 2 cut(s) | 37, 301 |
| PkrI | GCNGC | 1 cut(s) | 545 |
| PleI | GAGTC | 1 cut(s) | 451 |
| PpsI | GAGTC | 1 cut(s) | 451 |
| PpuMI | RGGWCCY | 1 cut(s) | 8 |
| Psp5II | RGGWCCY | 1 cut(s) | 8 |
| PspN4I | GGNNCC | 1 cut(s) | 9 |
| PspPI | GGNCC | 2 cut(s) | 8, 344 |
| PspPPI | RGGWCCY | 1 cut(s) | 8 |
| RsaI | GTAC | 2 cut(s) | 368, 383 |
| RsaNI | GTAC | 2 cut(s) | 367, 382 |
| SaqAI | TTAA | 1 cut(s) | 183 |
| SatI | GCNGC | 1 cut(s) | 544 |
| Sau96I | GGNCC | 2 cut(s) | 8, 344 |
| SchI | GAGTC | 1 cut(s) | 452 |
| SduI | GDGCHC | 2 cut(s) | 75, 490 |
| SfaNI | GCATC | 1 cut(s) | 519 |
| SinI | GGWCC | 2 cut(s) | 8, 344 |
| Sse9I | AATT | 2 cut(s) | 18, 470 |
| SspMI | CTAG | 1 cut(s) | 242 |
| StyI | CCWWGG | 1 cut(s) | 48 |
| TaaI | ACNGT | 4 cut(s) | 253, 313, 381, 505 |
| TaiI | ACGT | 2 cut(s) | 130, 487 |
| TaqI | TCGA | 2 cut(s) | 291, 415 |
| TasI | AATT | 2 cut(s) | 18, 470 |
| TfiI | GAWTC | 2 cut(s) | 37, 301 |
| Tru1I | TTAA | 1 cut(s) | 183 |
| Tru9I | TTAA | 1 cut(s) | 183 |
| TseI | GCWGC | 1 cut(s) | 543 |
| TspDTI | ATGAA | 4 cut(s) | 17, 293, 305, 401 |
| TspGWI | ACGGA | 1 cut(s) | 30 |
| VneI | GTGCAC | 1 cut(s) | 486 |
| VpaK11BI | GGWCC | 2 cut(s) | 8, 344 |
| XapI | RAATTY | 2 cut(s) | 18, 470 |
| XspI | CTAG | 1 cut(s) | 242 |