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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AcsI | RAATTY | 4 cut(s) | 536, 587, 672, 801 |
| AcuI | CTGAAG | 2 cut(s) | 357, 618 |
| AfaI | GTAC | 1 cut(s) | 301 |
| AfeI | AGCGCT | 1 cut(s) | 649 |
| AfiI | CCNNNNNNNGG | 1 cut(s) | 743 |
| AflII | CTTAAG | 1 cut(s) | 29 |
| AflIII | ACRYGT | 2 cut(s) | 302, 740 |
| AgsI | TTSAA | 7 cut(s) | 92, 264, 276, 515, 529, 567, 781 |
| AloI | GAACNNNNNNTCC | 1 cut(s) | 28 |
| AluBI | AGCT | 3 cut(s) | 213, 272, 341 |
| AluI | AGCT | 3 cut(s) | 213, 272, 341 |
| Aor51HI | AGCGCT | 1 cut(s) | 649 |
| ApeKI | GCWGC | 1 cut(s) | 684 |
| ApoI | RAATTY | 4 cut(s) | 536, 587, 672, 801 |
| AspLEI | GCGC | 1 cut(s) | 650 |
| AspS9I | GGNCC | 1 cut(s) | 4 |
| AvaII | GGWCC | 1 cut(s) | 4 |
| BauI | CACGAG | 1 cut(s) | 288 |
| BbsI | GAAGAC | 1 cut(s) | 465 |
| BbvI | GCAGC | 1 cut(s) | 671 |
| BccI | CCATC | 2 cut(s) | 28, 767 |
| BciVI | GTATCC | 2 cut(s) | 483, 603 |
| BfaI | CTAG | 2 cut(s) | 123, 753 |
| BfoI | RGCGCY | 1 cut(s) | 651 |
| BfrI | CTTAAG | 1 cut(s) | 29 |
| BfuI | GTATCC | 2 cut(s) | 483, 603 |
| BisI | GCNGC | 1 cut(s) | 685 |
| BlsI | GCNGC | 1 cut(s) | 686 |
| Bme18I | GGWCC | 1 cut(s) | 4 |
| BmgT120I | GGNCC | 1 cut(s) | 4 |
| BmsI | GCATC | 2 cut(s) | 39, 712 |
| BpiI | GAAGAC | 1 cut(s) | 465 |
| BpuEI | CTTGAG | 1 cut(s) | 74 |
| BsaAI | YACGTR | 1 cut(s) | 305 |
| Bsc4I | CCNNNNNNNGG | 1 cut(s) | 743 |
| Bse3DI | GCAATG | 1 cut(s) | 694 |
| BseGI | GGATG | 4 cut(s) | 54, 400, 549, 778 |
| BseLI | CCNNNNNNNGG | 1 cut(s) | 743 |
| BseMI | GCAATG | 1 cut(s) | 694 |
| BseXI | GCAGC | 1 cut(s) | 671 |
| BseYI | CCCAGC | 1 cut(s) | 153 |
| BslI | CCNNNNNNNGG | 1 cut(s) | 743 |
| BsmI | GAATGC | 1 cut(s) | 521 |
| Bsp143I | GATC | 1 cut(s) | 65 |
| BspTI | CTTAAG | 1 cut(s) | 29 |
| BsrDI | GCAATG | 1 cut(s) | 694 |
| BssMI | GATC | 1 cut(s) | 65 |
| BssSI | CACGAG | 1 cut(s) | 288 |
| Bst2BI | CACGAG | 1 cut(s) | 288 |
| Bst4CI | ACNGT | 1 cut(s) | 482 |
| BstAFI | CTTAAG | 1 cut(s) | 29 |
| BstBAI | YACGTR | 1 cut(s) | 305 |
| BstC8I | GCNNGC | 1 cut(s) | 682 |
| BstF5I | GGATG | 4 cut(s) | 54, 400, 549, 778 |
| BstH2I | RGCGCY | 1 cut(s) | 651 |
| BstHHI | GCGC | 1 cut(s) | 650 |
| BstKTI | GATC | 1 cut(s) | 68 |
| BstMBI | GATC | 1 cut(s) | 65 |
| BstMWI | GCNNNNNNNGC | 4 cut(s) | 638, 647, 654, 774 |
| BstNSI | RCATGY | 2 cut(s) | 684, 744 |
| BstV1I | GCAGC | 1 cut(s) | 671 |
| BstV2I | GAAGAC | 1 cut(s) | 465 |
| BsuI | GTATCC | 2 cut(s) | 483, 603 |
| BtsCI | GGATG | 4 cut(s) | 54, 400, 549, 778 |
| Cac8I | GCNNGC | 1 cut(s) | 682 |
| CfoI | GCGC | 1 cut(s) | 650 |
| Cfr13I | GGNCC | 1 cut(s) | 4 |
| Csp6I | GTAC | 1 cut(s) | 300 |
| CviJI | RGCY | 6 cut(s) | 213, 272, 341, 466, 641, 777 |
| CviKI_1 | RGCY | 6 cut(s) | 213, 272, 341, 466, 641, 777 |
| CviQI | GTAC | 1 cut(s) | 300 |
| DpnI | GATC | 1 cut(s) | 67 |
| DpnII | GATC | 1 cut(s) | 65 |
| DraI | TTTAAA | 1 cut(s) | 718 |
| Eco47I | GGWCC | 1 cut(s) | 4 |
| Eco47III | AGCGCT | 1 cut(s) | 649 |
| Eco57I | CTGAAG | 2 cut(s) | 357, 618 |
| EcoT22I | ATGCAT | 2 cut(s) | 408, 682 |
| FalI | AAGNNNNNCTT | 2 cut(s) | 761, 793 |
| FauNDI | CATATG | 1 cut(s) | 390 |
| Fnu4HI | GCNGC | 1 cut(s) | 685 |
| FokI | GGATG | 4 cut(s) | 61, 407, 556, 785 |
| Fsp4HI | GCNGC | 1 cut(s) | 685 |
| FspBI | CTAG | 2 cut(s) | 123, 753 |
| GlaI | GCGC | 1 cut(s) | 649 |
| GluI | GCNGC | 1 cut(s) | 685 |
| GsaI | CCCAGC | 1 cut(s) | 157 |
| HaeII | RGCGCY | 1 cut(s) | 651 |
| HhaI | GCGC | 1 cut(s) | 650 |
| Hin6I | GCGC | 1 cut(s) | 648 |
| HinP1I | GCGC | 1 cut(s) | 648 |
| HinfI | GANTC | 5 cut(s) | 139, 284, 374, 380, 413 |
| Hpy166II | GTNNAC | 3 cut(s) | 302, 308, 438 |
| Hpy188I | TCNGA | 4 cut(s) | 237, 379, 418, 707 |
| Hpy188III | TCNNGA | 1 cut(s) | 476 |
| Hpy8I | GTNNAC | 3 cut(s) | 302, 308, 438 |
| HpyAV | CCTTC | 4 cut(s) | 270, 593, 624, 631 |
| HpyCH4III | ACNGT | 1 cut(s) | 482 |
| HpyCH4IV | ACGT | 2 cut(s) | 304, 310 |
| HpyCH4V | TGCA | 6 cut(s) | 110, 388, 406, 680, 687, 725 |
| HpyF10VI | GCNNNNNNNGC | 4 cut(s) | 638, 647, 654, 774 |
| HpySE526I | ACGT | 2 cut(s) | 304, 310 |
| HspAI | GCGC | 1 cut(s) | 648 |
| Kzo9I | GATC | 1 cut(s) | 65 |
| LpnPI | CCDG | 7 cut(s) | 29, 139, 348, 378, 476, 489, 609 |
| Lsp1109I | GCAGC | 1 cut(s) | 671 |
| LweI | GCATC | 2 cut(s) | 39, 712 |
| MaeI | CTAG | 2 cut(s) | 123, 753 |
| MaeII | ACGT | 2 cut(s) | 304, 310 |
| MaeIII | GTNAC | 1 cut(s) | 320 |
| MalI | GATC | 1 cut(s) | 67 |
| MboI | GATC | 1 cut(s) | 65 |
| MboII | GAAGA | 3 cut(s) | 75, 470, 609 |
| MluCI | AATT | 8 cut(s) | 189, 238, 536, 573, 587, 672, 787, 801 |
| MlyI | GAGTC | 3 cut(s) | 278, 368, 374 |
| MnlI | CCTC | 2 cut(s) | 17, 49 |
| Mph1103I | ATGCAT | 2 cut(s) | 408, 682 |
| MseI | TTAA | 5 cut(s) | 30, 101, 572, 717, 786 |
| MslI | CAYNNNNRTG | 2 cut(s) | 393, 429 |
| MspCI | CTTAAG | 1 cut(s) | 29 |
| Mva1269I | GAATGC | 1 cut(s) | 521 |
| MwoI | GCNNNNNNNGC | 4 cut(s) | 638, 647, 654, 774 |
| NdeI | CATATG | 1 cut(s) | 390 |
| NdeII | GATC | 1 cut(s) | 65 |
| NsiI | ATGCAT | 2 cut(s) | 408, 682 |
| NspI | RCATGY | 2 cut(s) | 684, 744 |
| PaeI | GCATGC | 1 cut(s) | 684 |
| PciI | ACATGT | 1 cut(s) | 740 |
| PctI | GAATGC | 1 cut(s) | 521 |
| PfeI | GAWTC | 2 cut(s) | 139, 413 |
| PkrI | GCNGC | 1 cut(s) | 686 |
| PleI | GAGTC | 3 cut(s) | 278, 368, 374 |
| PpsI | GAGTC | 3 cut(s) | 278, 368, 374 |
| Ppu21I | YACGTR | 1 cut(s) | 305 |
| PscI | ACATGT | 1 cut(s) | 740 |
| PspFI | CCCAGC | 1 cut(s) | 153 |
| PspPI | GGNCC | 1 cut(s) | 4 |
| RsaI | GTAC | 1 cut(s) | 301 |
| RsaNI | GTAC | 1 cut(s) | 300 |
| RseI | CAYNNNNRTG | 2 cut(s) | 393, 429 |
| SaqAI | TTAA | 5 cut(s) | 30, 101, 572, 717, 786 |
| SatI | GCNGC | 1 cut(s) | 685 |
| Sau3AI | GATC | 1 cut(s) | 65 |
| Sau96I | GGNCC | 1 cut(s) | 4 |
| SchI | GAGTC | 3 cut(s) | 278, 368, 374 |
| SfaNI | GCATC | 2 cut(s) | 39, 712 |
| SinI | GGWCC | 1 cut(s) | 4 |
| SmiMI | CAYNNNNRTG | 2 cut(s) | 393, 429 |
| SmlI | CTYRAG | 2 cut(s) | 29, 53 |
| SmoI | CTYRAG | 2 cut(s) | 29, 53 |
| SphI | GCATGC | 1 cut(s) | 684 |
| Sse9I | AATT | 8 cut(s) | 189, 238, 536, 573, 587, 672, 787, 801 |
| SspMI | CTAG | 2 cut(s) | 123, 753 |
| TaaI | ACNGT | 1 cut(s) | 482 |
| TaiI | ACGT | 2 cut(s) | 307, 313 |
| TasI | AATT | 8 cut(s) | 189, 238, 536, 573, 587, 672, 787, 801 |
| TatI | WGTACW | 1 cut(s) | 299 |
| TfiI | GAWTC | 2 cut(s) | 139, 413 |
| Tru1I | TTAA | 5 cut(s) | 30, 101, 572, 717, 786 |
| Tru9I | TTAA | 5 cut(s) | 30, 101, 572, 717, 786 |
| TseI | GCWGC | 1 cut(s) | 684 |
| TspDTI | ATGAA | 6 cut(s) | 93, 345, 369, 375, 471, 665 |
| Vha464I | CTTAAG | 1 cut(s) | 29 |
| VpaK11BI | GGWCC | 1 cut(s) | 4 |
| XapI | RAATTY | 4 cut(s) | 536, 587, 672, 801 |
| XceI | RCATGY | 2 cut(s) | 684, 744 |
| XspI | CTAG | 2 cut(s) | 123, 753 |
| Zsp2I | ATGCAT | 2 cut(s) | 408, 682 |