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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AluBI | AGCT | 2 cut(s) | 71, 176 |
| AluI | AGCT | 2 cut(s) | 71, 176 |
| Alw26I | GTCTC | 1 cut(s) | 106 |
| AsuHPI | GGTGA | 1 cut(s) | 38 |
| BbvCI | CCTCAGC | 1 cut(s) | 177 |
| BccI | CCATC | 1 cut(s) | 200 |
| BcoDI | GTCTC | 1 cut(s) | 106 |
| BfaI | CTAG | 1 cut(s) | 102 |
| Bpu10I | CCTNAGC | 1 cut(s) | 177 |
| Bse1I | ACTGG | 1 cut(s) | 56 |
| BseGI | GGATG | 2 cut(s) | 163, 187 |
| BseMII | CTCAG | 1 cut(s) | 168 |
| BseNI | ACTGG | 1 cut(s) | 56 |
| BseRI | GAGGAG | 1 cut(s) | 167 |
| BsmAI | GTCTC | 1 cut(s) | 106 |
| BspCNI | CTCAG | 1 cut(s) | 169 |
| BsrI | ACTGG | 1 cut(s) | 56 |
| Bst6I | CTCTTC | 1 cut(s) | 144 |
| BstDEI | CTNAG | 1 cut(s) | 177 |
| BstF5I | GGATG | 2 cut(s) | 163, 187 |
| BstMAI | GTCTC | 1 cut(s) | 106 |
| BstNSI | RCATGY | 1 cut(s) | 81 |
| BtsCI | GGATG | 2 cut(s) | 163, 187 |
| BtsIMutI | CAGTG | 1 cut(s) | 63 |
| CviAII | CATG | 1 cut(s) | 78 |
| CviJI | RGCY | 2 cut(s) | 71, 176 |
| CviKI_1 | RGCY | 2 cut(s) | 71, 176 |
| DdeI | CTNAG | 1 cut(s) | 177 |
| Eam1104I | CTCTTC | 1 cut(s) | 144 |
| EarI | CTCTTC | 1 cut(s) | 144 |
| FaeI | CATG | 1 cut(s) | 81 |
| FaiI | YATR | 3 cut(s) | 50, 79, 123 |
| FatI | CATG | 1 cut(s) | 77 |
| FokI | GGATG | 2 cut(s) | 170, 194 |
| FspBI | CTAG | 1 cut(s) | 102 |
| Hin1II | CATG | 1 cut(s) | 81 |
| HphI | GGTGA | 1 cut(s) | 38 |
| HpyCH4V | TGCA | 1 cut(s) | 19 |
| HpyF3I | CTNAG | 1 cut(s) | 177 |
| Hsp92II | CATG | 1 cut(s) | 81 |
| LpnPI | CCDG | 3 cut(s) | 59, 69, 203 |
| MaeI | CTAG | 1 cut(s) | 102 |
| MboII | GAAGA | 5 cut(s) | 75, 158, 161, 173, 209 |
| MnlI | CCTC | 4 cut(s) | 145, 148, 163, 172 |
| NlaIII | CATG | 1 cut(s) | 81 |
| NspI | RCATGY | 1 cut(s) | 81 |
| SetI | ASST | 4 cut(s) | 9, 18, 73, 178 |
| SspMI | CTAG | 1 cut(s) | 102 |
| TscAI | CASTG | 1 cut(s) | 63 |
| TspDTI | ATGAA | 2 cut(s) | 174, 198 |
| TspRI | CASTG | 1 cut(s) | 63 |
| XceI | RCATGY | 1 cut(s) | 81 |
| XspI | CTAG | 1 cut(s) | 102 |