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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AccIII | TCCGGA | 1 cut(s) | 70 |
| AciI | CCGC | 3 cut(s) | 176, 320, 331 |
| AclWI | GGATC | 1 cut(s) | 90 |
| AcsI | RAATTY | 1 cut(s) | 208 |
| AfiI | CCNNNNNNNGG | 1 cut(s) | 337 |
| AflIII | ACRYGT | 1 cut(s) | 439 |
| AgsI | TTSAA | 1 cut(s) | 253 |
| AjiI | CACGTC | 1 cut(s) | 398 |
| AloI | GAACNNNNNNTCC | 2 cut(s) | 368, 400 |
| AluBI | AGCT | 1 cut(s) | 302 |
| AluI | AGCT | 1 cut(s) | 302 |
| AlwI | GGATC | 1 cut(s) | 90 |
| Aor13HI | TCCGGA | 1 cut(s) | 70 |
| ApeKI | GCWGC | 1 cut(s) | 299 |
| ApoI | RAATTY | 1 cut(s) | 208 |
| AsuHPI | GGTGA | 3 cut(s) | 181, 241, 320 |
| BanII | GRGCYC | 2 cut(s) | 278, 394 |
| BarI | GAAGNNNNNNTAC | 2 cut(s) | 96, 128 |
| BbvI | GCAGC | 1 cut(s) | 311 |
| BccI | CCATC | 1 cut(s) | 373 |
| BceAI | ACGGC | 1 cut(s) | 328 |
| BfmI | CTRYAG | 1 cut(s) | 463 |
| BisI | GCNGC | 1 cut(s) | 300 |
| BlsI | GCNGC | 1 cut(s) | 301 |
| BmgBI | CACGTC | 1 cut(s) | 398 |
| BmiI | GGNNCC | 1 cut(s) | 316 |
| BmsI | GCATC | 1 cut(s) | 230 |
| BsaJI | CCNNGG | 1 cut(s) | 409 |
| BsaWI | WCCGGW | 1 cut(s) | 70 |
| Bsc4I | CCNNNNNNNGG | 1 cut(s) | 337 |
| BseAI | TCCGGA | 1 cut(s) | 70 |
| BseDI | CCNNGG | 1 cut(s) | 409 |
| BseLI | CCNNNNNNNGG | 1 cut(s) | 337 |
| BseRI | GAGGAG | 1 cut(s) | 20 |
| BseXI | GCAGC | 1 cut(s) | 311 |
| BsiSI | CCGG | 1 cut(s) | 71 |
| BslI | CCNNNNNNNGG | 1 cut(s) | 337 |
| BsmI | GAATGC | 1 cut(s) | 178 |
| Bsp1286I | GDGCHC | 2 cut(s) | 278, 394 |
| Bsp13I | TCCGGA | 1 cut(s) | 70 |
| Bsp143I | GATC | 1 cut(s) | 82 |
| BspACI | CCGC | 3 cut(s) | 176, 320, 331 |
| BspEI | TCCGGA | 1 cut(s) | 70 |
| BspLI | GGNNCC | 1 cut(s) | 316 |
| BspPI | GGATC | 1 cut(s) | 90 |
| BssECI | CCNNGG | 1 cut(s) | 409 |
| BssMI | GATC | 1 cut(s) | 82 |
| Bst4CI | ACNGT | 4 cut(s) | 67, 337, 384, 413 |
| Bst6I | CTCTTC | 2 cut(s) | 30, 72 |
| BstDEI | CTNAG | 1 cut(s) | 146 |
| BstDSI | CCRYGG | 1 cut(s) | 409 |
| BstKTI | GATC | 1 cut(s) | 85 |
| BstMBI | GATC | 1 cut(s) | 82 |
| BstNSI | RCATGY | 2 cut(s) | 407, 443 |
| BstSFI | CTRYAG | 1 cut(s) | 463 |
| BstV1I | GCAGC | 1 cut(s) | 311 |
| BtgI | CCRYGG | 1 cut(s) | 409 |
| BtrI | CACGTC | 1 cut(s) | 398 |
| CviAII | CATG | 3 cut(s) | 166, 404, 440 |
| CviJI | RGCY | 5 cut(s) | 276, 302, 315, 392, 435 |
| CviKI_1 | RGCY | 5 cut(s) | 276, 302, 315, 392, 435 |
| DdeI | CTNAG | 1 cut(s) | 146 |
| DpnI | GATC | 1 cut(s) | 84 |
| DpnII | GATC | 1 cut(s) | 82 |
| Eam1104I | CTCTTC | 2 cut(s) | 30, 72 |
| EarI | CTCTTC | 2 cut(s) | 30, 72 |
| Eco24I | GRGCYC | 2 cut(s) | 278, 394 |
| EcoT38I | GRGCYC | 2 cut(s) | 278, 394 |
| FaeI | CATG | 3 cut(s) | 169, 407, 443 |
| FaiI | YATR | 5 cut(s) | 167, 372, 405, 441, 465 |
| FatI | CATG | 3 cut(s) | 165, 403, 439 |
| FauI | CCCGC | 1 cut(s) | 327 |
| Fnu4HI | GCNGC | 1 cut(s) | 300 |
| FriOI | GRGCYC | 2 cut(s) | 278, 394 |
| Fsp4HI | GCNGC | 1 cut(s) | 300 |
| GluI | GCNGC | 1 cut(s) | 300 |
| HapII | CCGG | 1 cut(s) | 71 |
| Hin1II | CATG | 3 cut(s) | 169, 407, 443 |
| HinfI | GANTC | 4 cut(s) | 20, 26, 283, 377 |
| HpaII | CCGG | 1 cut(s) | 71 |
| HphI | GGTGA | 3 cut(s) | 181, 241, 320 |
| Hpy166II | GTNNAC | 1 cut(s) | 401 |
| Hpy188I | TCNGA | 5 cut(s) | 25, 31, 87, 389, 448 |
| Hpy188III | TCNNGA | 1 cut(s) | 71 |
| Hpy8I | GTNNAC | 1 cut(s) | 401 |
| HpyAV | CCTTC | 1 cut(s) | 247 |
| HpyCH4III | ACNGT | 4 cut(s) | 67, 337, 384, 413 |
| HpyCH4IV | ACGT | 1 cut(s) | 397 |
| HpyCH4V | TGCA | 1 cut(s) | 221 |
| HpyF3I | CTNAG | 1 cut(s) | 146 |
| HpySE526I | ACGT | 1 cut(s) | 397 |
| Hsp92II | CATG | 3 cut(s) | 169, 407, 443 |
| Kpn2I | TCCGGA | 1 cut(s) | 70 |
| Kzo9I | GATC | 1 cut(s) | 82 |
| LmnI | GCTCC | 2 cut(s) | 262, 320 |
| LpnPI | CCDG | 2 cut(s) | 84, 125 |
| Lsp1109I | GCAGC | 1 cut(s) | 311 |
| LweI | GCATC | 1 cut(s) | 230 |
| MaeII | ACGT | 1 cut(s) | 397 |
| MaeIII | GTNAC | 1 cut(s) | 199 |
| MalI | GATC | 1 cut(s) | 84 |
| MboI | GATC | 1 cut(s) | 82 |
| MboII | GAAGA | 7 cut(s) | 47, 86, 89, 113, 116, 353, 356 |
| MhlI | GDGCHC | 2 cut(s) | 278, 394 |
| MluCI | AATT | 4 cut(s) | 88, 208, 248, 257 |
| MlyI | GAGTC | 2 cut(s) | 277, 371 |
| MroI | TCCGGA | 1 cut(s) | 70 |
| MspI | CCGG | 1 cut(s) | 71 |
| Mva1269I | GAATGC | 1 cut(s) | 178 |
| NdeII | GATC | 1 cut(s) | 82 |
| NlaIII | CATG | 3 cut(s) | 169, 407, 443 |
| NlaIV | GGNNCC | 1 cut(s) | 316 |
| NmeAIII | GCCGAG | 1 cut(s) | 283 |
| NmuCI | GTSAC | 1 cut(s) | 199 |
| NspI | RCATGY | 2 cut(s) | 407, 443 |
| PciI | ACATGT | 1 cut(s) | 439 |
| PctI | GAATGC | 1 cut(s) | 178 |
| PfeI | GAWTC | 2 cut(s) | 20, 26 |
| PkrI | GCNGC | 1 cut(s) | 301 |
| PleI | GAGTC | 2 cut(s) | 277, 371 |
| PpsI | GAGTC | 2 cut(s) | 277, 371 |
| PscI | ACATGT | 1 cut(s) | 439 |
| PspN4I | GGNNCC | 1 cut(s) | 316 |
| SatI | GCNGC | 1 cut(s) | 300 |
| Sau3AI | GATC | 1 cut(s) | 82 |
| SchI | GAGTC | 2 cut(s) | 277, 371 |
| SduI | GDGCHC | 2 cut(s) | 278, 394 |
| SetI | ASST | 5 cut(s) | 246, 293, 304, 328, 400 |
| SfaNI | GCATC | 1 cut(s) | 230 |
| SfcI | CTRYAG | 1 cut(s) | 463 |
| Sse9I | AATT | 4 cut(s) | 88, 208, 248, 257 |
| SsiI | CCGC | 3 cut(s) | 176, 320, 331 |
| SspI | AATATT | 1 cut(s) | 270 |
| TaaI | ACNGT | 4 cut(s) | 67, 337, 384, 413 |
| TaiI | ACGT | 1 cut(s) | 400 |
| TaqI | TCGA | 1 cut(s) | 356 |
| TaqII | GACCGA | 1 cut(s) | 218 |
| TasI | AATT | 4 cut(s) | 88, 208, 248, 257 |
| TfiI | GAWTC | 2 cut(s) | 20, 26 |
| TseFI | GTSAC | 1 cut(s) | 199 |
| TseI | GCWGC | 1 cut(s) | 299 |
| Tsp45I | GTSAC | 1 cut(s) | 199 |
| TspDTI | ATGAA | 2 cut(s) | 69, 114 |
| XapI | RAATTY | 1 cut(s) | 208 |
| XceI | RCATGY | 2 cut(s) | 407, 443 |