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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AanI | TTATAA | 1 cut(s) | 395 |
| Acc36I | ACCTGC | 1 cut(s) | 1189 |
| AccB1I | GGYRCC | 1 cut(s) | 2573 |
| AccB7I | CCANNNNNTGG | 2 cut(s) | 2060, 2373 |
| AccIII | TCCGGA | 1 cut(s) | 1884 |
| AciI | CCGC | 3 cut(s) | 317, 1586, 2485 |
| AclWI | GGATC | 7 cut(s) | 95, 817, 1688, 1701, 1845, 2617, 2630 |
| AcoI | YGGCCR | 2 cut(s) | 2201, 2264 |
| AcuI | CTGAAG | 1 cut(s) | 201 |
| AcvI | CACGTG | 3 cut(s) | 2189, 2587, 2659 |
| AfaI | GTAC | 5 cut(s) | 546, 1225, 1486, 1534, 2512 |
| AfiI | CCNNNNNNNGG | 7 cut(s) | 1684, 2060, 2091, 2199, 2373, 2564, 2569 |
| AflII | CTTAAG | 2 cut(s) | 1207, 1657 |
| AflIII | ACRYGT | 4 cut(s) | 767, 866, 1903, 2609 |
| AhlI | ACTAGT | 2 cut(s) | 1153, 1912 |
| AjnI | CCWGG | 2 cut(s) | 2181, 2491 |
| AleI | CACNNNNGTG | 1 cut(s) | 2544 |
| AloI | GAACNNNNNNTCC | 2 cut(s) | 1055, 1087 |
| AluBI | AGCT | 9 cut(s) | 329, 825, 1070, 1088, 1124, 1383, 1895, 2330, 2527 |
| AluI | AGCT | 9 cut(s) | 329, 825, 1070, 1088, 1124, 1383, 1895, 2330, 2527 |
| Alw21I | GWGCWC | 2 cut(s) | 2529, 2557 |
| Alw26I | GTCTC | 2 cut(s) | 2299, 2331 |
| AlwI | GGATC | 7 cut(s) | 95, 817, 1688, 1701, 1845, 2617, 2630 |
| AlwNI | CAGNNNCTG | 1 cut(s) | 2060 |
| Ama87I | CYCGRG | 3 cut(s) | 1528, 1798, 2341 |
| Aor13HI | TCCGGA | 1 cut(s) | 1884 |
| AoxI | GGCC | 3 cut(s) | 1795, 2201, 2264 |
| ApeKI | GCWGC | 3 cut(s) | 1124, 1283, 2482 |
| AseI | ATTAAT | 1 cut(s) | 1326 |
| Asp700I | GAANNNNTTC | 1 cut(s) | 2049 |
| AspA2I | CCTAGG | 1 cut(s) | 8 |
| AspLEI | GCGC | 1 cut(s) | 2084 |
| AspS9I | GGNCC | 2 cut(s) | 1255, 1796 |
| AsuHPI | GGTGA | 6 cut(s) | 257, 292, 2075, 2518, 2587, 2607 |
| AvaI | CYCGRG | 3 cut(s) | 1528, 1798, 2341 |
| AvaII | GGWCC | 1 cut(s) | 1255 |
| AvrII | CCTAGG | 1 cut(s) | 8 |
| BaeGI | GKGCMC | 2 cut(s) | 1151, 2576 |
| BalI | TGGCCA | 1 cut(s) | 2266 |
| BamHI | GGATCC | 2 cut(s) | 1693, 2622 |
| BanI | GGYRCC | 1 cut(s) | 2573 |
| BanII | GRGCYC | 1 cut(s) | 2529 |
| BbrPI | CACGTG | 3 cut(s) | 2189, 2587, 2659 |
| BbsI | GAAGAC | 2 cut(s) | 192, 598 |
| Bbv12I | GWGCWC | 2 cut(s) | 2529, 2557 |
| BbvI | GCAGC | 3 cut(s) | 1111, 1270, 2469 |
| BccI | CCATC | 3 cut(s) | 905, 2108, 2265 |
| BceAI | ACGGC | 2 cut(s) | 587, 1810 |
| BciT130I | CCWGG | 2 cut(s) | 2183, 2493 |
| BcoDI | GTCTC | 2 cut(s) | 2299, 2331 |
| BcuI | ACTAGT | 2 cut(s) | 1153, 1912 |
| BfmI | CTRYAG | 1 cut(s) | 843 |
| BfoI | RGCGCY | 1 cut(s) | 2085 |
| BfrI | CTTAAG | 2 cut(s) | 1207, 1657 |
| BfuAI | ACCTGC | 1 cut(s) | 1189 |
| BisI | GCNGC | 4 cut(s) | 1125, 1284, 1587, 2483 |
| BlnI | CCTAGG | 1 cut(s) | 8 |
| BlsI | GCNGC | 4 cut(s) | 1126, 1285, 1588, 2484 |
| BmcAI | AGTACT | 2 cut(s) | 1486, 2512 |
| Bme1390I | CCNGG | 2 cut(s) | 2183, 2493 |
| Bme18I | GGWCC | 1 cut(s) | 1255 |
| BmeT110I | CYCGRG | 3 cut(s) | 1528, 1798, 2341 |
| BmgT120I | GGNCC | 2 cut(s) | 1255, 1796 |
| BmiI | GGNNCC | 5 cut(s) | 6, 1257, 1695, 2575, 2624 |
| BmrFI | CCNGG | 2 cut(s) | 2183, 2493 |
| BmsI | GCATC | 5 cut(s) | 61, 501, 1345, 2056, 2478 |
| BoxI | GACNNNNGTC | 1 cut(s) | 674 |
| BpiI | GAAGAC | 2 cut(s) | 192, 598 |
| BpuEI | CTTGAG | 6 cut(s) | 208, 494, 519, 1475, 1830, 2693 |
| BsaAI | YACGTR | 4 cut(s) | 1536, 2189, 2587, 2659 |
| BsaJI | CCNNGG | 5 cut(s) | 8, 1978, 2542, 2563, 2618 |
| BsaWI | WCCGGW | 1 cut(s) | 1884 |
| BsaXI | ACNNNNNCTCC | 2 cut(s) | 1734, 1764 |
| Bsc4I | CCNNNNNNNGG | 7 cut(s) | 1684, 2060, 2091, 2199, 2373, 2564, 2569 |
| Bse118I | RCCGGY | 2 cut(s) | 1970, 2203 |
| Bse1I | ACTGG | 4 cut(s) | 510, 620, 2065, 2367 |
| Bse3DI | GCAATG | 1 cut(s) | 1477 |
| BseAI | TCCGGA | 1 cut(s) | 1884 |
| BseBI | CCWGG | 2 cut(s) | 2183, 2493 |
| BseDI | CCNNGG | 5 cut(s) | 8, 1978, 2542, 2563, 2618 |
| BseGI | GGATG | 3 cut(s) | 893, 1937, 2493 |
| BseLI | CCNNNNNNNGG | 7 cut(s) | 1684, 2060, 2091, 2199, 2373, 2564, 2569 |
| BseMI | GCAATG | 1 cut(s) | 1477 |
| BseMII | CTCAG | 1 cut(s) | 344 |
| BseNI | ACTGG | 4 cut(s) | 510, 620, 2065, 2367 |
| BseSI | GKGCMC | 2 cut(s) | 1151, 2576 |
| BseXI | GCAGC | 3 cut(s) | 1111, 1270, 2469 |
| BsgI | GTGCAG | 2 cut(s) | 1110, 2522 |
| BshFI | GGCC | 3 cut(s) | 1797, 2203, 2266 |
| BshNI | GGYRCC | 1 cut(s) | 2573 |
| BsiHKAI | GWGCWC | 2 cut(s) | 2529, 2557 |
| BsiHKCI | CYCGRG | 3 cut(s) | 1528, 1798, 2341 |
| BsiSI | CCGG | 5 cut(s) | 30, 1885, 1971, 2092, 2204 |
| BslFI | GGGAC | 3 cut(s) | 682, 1241, 1486 |
| BslI | CCNNNNNNNGG | 7 cut(s) | 1684, 2060, 2091, 2199, 2373, 2564, 2569 |
| BsmAI | GTCTC | 2 cut(s) | 2299, 2331 |
| BsmBI | CGTCTC | 1 cut(s) | 2299 |
| BsmFI | GGGAC | 3 cut(s) | 682, 1241, 1486 |
| BsnI | GGCC | 3 cut(s) | 1797, 2203, 2266 |
| BsoBI | CYCGRG | 3 cut(s) | 1528, 1798, 2341 |
| Bsp1286I | GDGCHC | 4 cut(s) | 1151, 2529, 2557, 2576 |
| Bsp13I | TCCGGA | 1 cut(s) | 1884 |
| Bsp143I | GATC | 6 cut(s) | 87, 809, 1693, 1837, 2622, 2661 |
| BspACI | CCGC | 3 cut(s) | 317, 1586, 2485 |
| BspANI | GGCC | 3 cut(s) | 1797, 2203, 2266 |
| BspCNI | CTCAG | 1 cut(s) | 343 |
| BspEI | TCCGGA | 1 cut(s) | 1884 |
| BspHI | TCATGA | 1 cut(s) | 157 |
| BspLI | GGNNCC | 5 cut(s) | 6, 1257, 1695, 2575, 2624 |
| BspMI | ACCTGC | 1 cut(s) | 1189 |
| BspPI | GGATC | 7 cut(s) | 95, 817, 1688, 1701, 1845, 2617, 2630 |
| BspQI | GCTCTTC | 1 cut(s) | 1885 |
| BspT107I | GGYRCC | 1 cut(s) | 2573 |
| BspTI | CTTAAG | 2 cut(s) | 1207, 1657 |
| BsrDI | GCAATG | 1 cut(s) | 1477 |
| BsrFI | RCCGGY | 2 cut(s) | 1970, 2203 |
| BsrI | ACTGG | 4 cut(s) | 510, 620, 2065, 2367 |
| BssAI | RCCGGY | 2 cut(s) | 1970, 2203 |
| BssECI | CCNNGG | 5 cut(s) | 8, 1978, 2542, 2563, 2618 |
| BssMI | GATC | 6 cut(s) | 87, 809, 1693, 1837, 2622, 2661 |
| BssT1I | CCWWGG | 2 cut(s) | 8, 2618 |
| Bst2UI | CCWGG | 2 cut(s) | 2183, 2493 |
| Bst4CI | ACNGT | 2 cut(s) | 949, 2578 |
| Bst6I | CTCTTC | 3 cut(s) | 1040, 1233, 1885 |
| BstAFI | CTTAAG | 2 cut(s) | 1207, 1657 |
| BstAPI | GCANNNNNTGC | 2 cut(s) | 271, 1488 |
| BstBAI | YACGTR | 4 cut(s) | 1536, 2189, 2587, 2659 |
| BstC8I | GCNNGC | 4 cut(s) | 317, 363, 2205, 2428 |
| BstDEI | CTNAG | 6 cut(s) | 330, 799, 1039, 1066, 1379, 1639 |
| BstDSI | CCRYGG | 1 cut(s) | 2563 |
| BstF5I | GGATG | 3 cut(s) | 893, 1937, 2493 |
| BstH2I | RGCGCY | 1 cut(s) | 2085 |
| BstHHI | GCGC | 1 cut(s) | 2084 |
| BstKTI | GATC | 6 cut(s) | 90, 812, 1696, 1840, 2625, 2664 |
| BstMAI | GTCTC | 2 cut(s) | 2299, 2331 |
| BstMBI | GATC | 6 cut(s) | 87, 809, 1693, 1837, 2622, 2661 |
| BstMWI | GCNNNNNNNGC | 8 cut(s) | 271, 1130, 1488, 1967, 2081, 2204, 2488, 2524 |
| BstNI | CCWGG | 2 cut(s) | 2183, 2493 |
| BstNSI | RCATGY | 7 cut(s) | 17, 365, 771, 870, 1471, 1907, 2522 |
| BstPAI | GACNNNNGTC | 1 cut(s) | 674 |
| BstSCI | CCNGG | 2 cut(s) | 2181, 2491 |
| BstSFI | CTRYAG | 1 cut(s) | 843 |
| BstSLI | GKGCMC | 2 cut(s) | 1151, 2576 |
| BstSNI | TACGTA | 1 cut(s) | 1536 |
| BstV1I | GCAGC | 3 cut(s) | 1111, 1270, 2469 |
| BstV2I | GAAGAC | 2 cut(s) | 192, 598 |
| BstX2I | RGATCY | 4 cut(s) | 87, 809, 1693, 2622 |
| BstYI | RGATCY | 4 cut(s) | 87, 809, 1693, 2622 |
| BsuRI | GGCC | 3 cut(s) | 1797, 2203, 2266 |
| BtgI | CCRYGG | 1 cut(s) | 2563 |
| BtsCI | GGATG | 3 cut(s) | 893, 1937, 2493 |
| BtsIMutI | CAGTG | 3 cut(s) | 338, 613, 2374 |
| BveI | ACCTGC | 1 cut(s) | 1189 |
| Cac8I | GCNNGC | 4 cut(s) | 317, 363, 2205, 2428 |
| CaiI | CAGNNNCTG | 1 cut(s) | 2060 |
| CciI | TCATGA | 1 cut(s) | 157 |
| CfoI | GCGC | 1 cut(s) | 2084 |
| Cfr10I | RCCGGY | 2 cut(s) | 1970, 2203 |
| Cfr13I | GGNCC | 2 cut(s) | 1255, 1796 |
| CseI | GACGC | 1 cut(s) | 2488 |
| Csp6I | GTAC | 5 cut(s) | 545, 1224, 1485, 1533, 2511 |
| CspCI | CAANNNNNGTGG | 4 cut(s) | 65, 100, 314, 349 |
| CviQI | GTAC | 5 cut(s) | 545, 1224, 1485, 1533, 2511 |
| DdeI | CTNAG | 6 cut(s) | 330, 799, 1039, 1066, 1379, 1639 |
| DpnI | GATC | 6 cut(s) | 89, 811, 1695, 1839, 2624, 2663 |
| DpnII | GATC | 6 cut(s) | 87, 809, 1693, 1837, 2622, 2661 |
| DraI | TTTAAA | 2 cut(s) | 777, 1548 |
| EaeI | YGGCCR | 2 cut(s) | 2201, 2264 |
| Eam1104I | CTCTTC | 3 cut(s) | 1040, 1233, 1885 |
| EarI | CTCTTC | 3 cut(s) | 1040, 1233, 1885 |
| Ecl136II | GAGCTC | 1 cut(s) | 2527 |
| Eco105I | TACGTA | 1 cut(s) | 1536 |
| Eco130I | CCWWGG | 2 cut(s) | 8, 2618 |
| Eco24I | GRGCYC | 1 cut(s) | 2529 |
| Eco47I | GGWCC | 1 cut(s) | 1255 |
| Eco53kI | GAGCTC | 1 cut(s) | 2527 |
| Eco57I | CTGAAG | 1 cut(s) | 201 |
| Eco72I | CACGTG | 3 cut(s) | 2189, 2587, 2659 |
| Eco88I | CYCGRG | 3 cut(s) | 1528, 1798, 2341 |
| EcoICRI | GAGCTC | 1 cut(s) | 2527 |
| EcoRII | CCWGG | 2 cut(s) | 2181, 2491 |
| EcoT14I | CCWWGG | 2 cut(s) | 8, 2618 |
| EcoT22I | ATGCAT | 2 cut(s) | 641, 2451 |
| EcoT38I | GRGCYC | 1 cut(s) | 2529 |
| ErhI | CCWWGG | 2 cut(s) | 8, 2618 |
| Esp3I | CGTCTC | 1 cut(s) | 2299 |
| FaqI | GGGAC | 3 cut(s) | 682, 1241, 1486 |
| FauI | CCCGC | 1 cut(s) | 324 |
| FauNDI | CATATG | 2 cut(s) | 446, 1732 |
| Fnu4HI | GCNGC | 4 cut(s) | 1125, 1284, 1587, 2483 |
| FokI | GGATG | 3 cut(s) | 880, 1944, 2500 |
| FriOI | GRGCYC | 1 cut(s) | 2529 |
| Fsp4HI | GCNGC | 4 cut(s) | 1125, 1284, 1587, 2483 |
| GlaI | GCGC | 1 cut(s) | 2083 |
| GluI | GCNGC | 4 cut(s) | 1125, 1284, 1587, 2483 |
| HaeII | RGCGCY | 1 cut(s) | 2085 |
| HaeIII | GGCC | 3 cut(s) | 1797, 2203, 2266 |
| HapII | CCGG | 5 cut(s) | 30, 1885, 1971, 2092, 2204 |
| HgaI | GACGC | 1 cut(s) | 2488 |
| HhaI | GCGC | 1 cut(s) | 2084 |
| Hin6I | GCGC | 1 cut(s) | 2082 |
| HinP1I | GCGC | 1 cut(s) | 2082 |
| HincII | GTYRAC | 2 cut(s) | 1240, 1567 |
| HindII | GTYRAC | 2 cut(s) | 1240, 1567 |
| HindIII | AAGCTT | 1 cut(s) | 1381 |
| HinfI | GANTC | 7 cut(s) | 22, 208, 530, 1193, 1647, 2167, 2339 |
| HpaII | CCGG | 5 cut(s) | 30, 1885, 1971, 2092, 2204 |
| HphI | GGTGA | 6 cut(s) | 257, 292, 2075, 2518, 2587, 2607 |
| Hpy166II | GTNNAC | 6 cut(s) | 993, 1240, 1567, 1943, 2595, 2615 |
| Hpy188I | TCNGA | 4 cut(s) | 680, 1192, 1979, 2105 |
| Hpy8I | GTNNAC | 6 cut(s) | 993, 1240, 1567, 1943, 2595, 2615 |
| Hpy99I | CGWCG | 1 cut(s) | 1610 |
| HpyAV | CCTTC | 5 cut(s) | 1775, 2102, 2106, 2591, 2663 |
| HpyCH4III | ACNGT | 2 cut(s) | 949, 2578 |
| HpyCH4IV | ACGT | 8 cut(s) | 1535, 1569, 2188, 2301, 2308, 2586, 2611, 2658 |
| HpyF10VI | GCNNNNNNNGC | 8 cut(s) | 271, 1130, 1488, 1967, 2081, 2204, 2488, 2524 |
| HpyF3I | CTNAG | 6 cut(s) | 330, 799, 1039, 1066, 1379, 1639 |
| HpySE526I | ACGT | 8 cut(s) | 1535, 1569, 2188, 2301, 2308, 2586, 2611, 2658 |
| HspAI | GCGC | 1 cut(s) | 2082 |
| Kpn2I | TCCGGA | 1 cut(s) | 1884 |
| KroI | GCCGGC | 1 cut(s) | 2203 |
| KroNI | GCCGGC | 1 cut(s) | 2205 |
| Kzo9I | GATC | 6 cut(s) | 87, 809, 1693, 1837, 2622, 2661 |
| LguI | GCTCTTC | 1 cut(s) | 1885 |
| LmnI | GCTCC | 2 cut(s) | 2524, 2560 |
| Lsp1109I | GCAGC | 3 cut(s) | 1111, 1270, 2469 |
| LweI | GCATC | 5 cut(s) | 61, 501, 1345, 2056, 2478 |
| MaeII | ACGT | 8 cut(s) | 1535, 1569, 2188, 2301, 2308, 2586, 2611, 2658 |
| MaeIII | GTNAC | 7 cut(s) | 730, 957, 1409, 1590, 1601, 2347, 2629 |
| MalI | GATC | 6 cut(s) | 89, 811, 1695, 1839, 2624, 2663 |
| MboI | GATC | 6 cut(s) | 87, 809, 1693, 1837, 2622, 2661 |
| MboII | GAAGA | 7 cut(s) | 194, 197, 598, 1027, 1220, 1902, 2057 |
| MfeI | CAATTG | 3 cut(s) | 80, 2001, 2291 |
| MflI | RGATCY | 4 cut(s) | 87, 809, 1693, 2622 |
| MhlI | GDGCHC | 4 cut(s) | 1151, 2529, 2557, 2576 |
| MlsI | TGGCCA | 1 cut(s) | 2266 |
| MluNI | TGGCCA | 1 cut(s) | 2266 |
| MlyI | GAGTC | 2 cut(s) | 1641, 2333 |
| MmeI | TCCRAC | 2 cut(s) | 1624, 1916 |
| Mox20I | TGGCCA | 1 cut(s) | 2266 |
| Mph1103I | ATGCAT | 2 cut(s) | 641, 2451 |
| MroI | TCCGGA | 1 cut(s) | 1884 |
| MroNI | GCCGGC | 1 cut(s) | 2203 |
| MroXI | GAANNNNTTC | 1 cut(s) | 2049 |
| MscI | TGGCCA | 1 cut(s) | 2266 |
| MslI | CAYNNNNRTG | 9 cut(s) | 156, 170, 634, 755, 1731, 2367, 2403, 2454, 2544 |
| Msp20I | TGGCCA | 1 cut(s) | 2266 |
| MspA1I | CMGCKG | 1 cut(s) | 319 |
| MspCI | CTTAAG | 2 cut(s) | 1207, 1657 |
| MspI | CCGG | 5 cut(s) | 30, 1885, 1971, 2092, 2204 |
| MspR9I | CCNGG | 2 cut(s) | 2183, 2493 |
| MunI | CAATTG | 3 cut(s) | 80, 2001, 2291 |
| MvaI | CCWGG | 2 cut(s) | 2183, 2493 |
| MwoI | GCNNNNNNNGC | 8 cut(s) | 271, 1130, 1488, 1967, 2081, 2204, 2488, 2524 |
| NaeI | GCCGGC | 1 cut(s) | 2205 |
| NdeI | CATATG | 2 cut(s) | 446, 1732 |
| NdeII | GATC | 6 cut(s) | 87, 809, 1693, 1837, 2622, 2661 |
| NgoMIV | GCCGGC | 1 cut(s) | 2203 |
| NlaIV | GGNNCC | 5 cut(s) | 6, 1257, 1695, 2575, 2624 |
| NmuCI | GTSAC | 3 cut(s) | 957, 1409, 2629 |
| NsiI | ATGCAT | 2 cut(s) | 641, 2451 |
| NspI | RCATGY | 7 cut(s) | 17, 365, 771, 870, 1471, 1907, 2522 |
| OliI | CACNNNNGTG | 1 cut(s) | 2544 |
| PaeI | GCATGC | 1 cut(s) | 365 |
| PagI | TCATGA | 1 cut(s) | 157 |
| PciI | ACATGT | 3 cut(s) | 767, 866, 1903 |
| PciSI | GCTCTTC | 1 cut(s) | 1885 |
| PcsI | WCGNNNNNNNCGW | 1 cut(s) | 1586 |
| PdiI | GCCGGC | 1 cut(s) | 2205 |
| PdmI | GAANNNNTTC | 1 cut(s) | 2049 |
| PfeI | GAWTC | 5 cut(s) | 22, 208, 530, 1193, 2167 |
| PflFI | GACNNNGTC | 2 cut(s) | 800, 1253 |
| PflMI | CCANNNNNTGG | 2 cut(s) | 2060, 2373 |
| PkrI | GCNGC | 4 cut(s) | 1126, 1285, 1588, 2484 |
| PleI | GAGTC | 2 cut(s) | 1641, 2333 |
| PmaCI | CACGTG | 3 cut(s) | 2189, 2587, 2659 |
| PmlI | CACGTG | 3 cut(s) | 2189, 2587, 2659 |
| PpsI | GAGTC | 2 cut(s) | 1641, 2333 |
| Ppu21I | YACGTR | 4 cut(s) | 1536, 2189, 2587, 2659 |
| PscI | ACATGT | 3 cut(s) | 767, 866, 1903 |
| PshAI | GACNNNNGTC | 1 cut(s) | 674 |
| PshBI | ATTAAT | 1 cut(s) | 1326 |
| PsiI | TTATAA | 1 cut(s) | 395 |
| Psp124BI | GAGCTC | 1 cut(s) | 2529 |
| Psp6I | CCWGG | 2 cut(s) | 2181, 2491 |
| PspCI | CACGTG | 3 cut(s) | 2189, 2587, 2659 |
| PspGI | CCWGG | 2 cut(s) | 2181, 2491 |
| PspN4I | GGNNCC | 5 cut(s) | 6, 1257, 1695, 2575, 2624 |
| PspPI | GGNCC | 2 cut(s) | 1255, 1796 |
| PstNI | CAGNNNCTG | 1 cut(s) | 2060 |
| PsuI | RGATCY | 4 cut(s) | 87, 809, 1693, 2622 |
| PsyI | GACNNNGTC | 2 cut(s) | 800, 1253 |
| RsaI | GTAC | 5 cut(s) | 546, 1225, 1486, 1534, 2512 |
| RsaNI | GTAC | 5 cut(s) | 545, 1224, 1485, 1533, 2511 |
| RseI | CAYNNNNRTG | 9 cut(s) | 156, 170, 634, 755, 1731, 2367, 2403, 2454, 2544 |
| SacI | GAGCTC | 1 cut(s) | 2529 |
| SapI | GCTCTTC | 1 cut(s) | 1885 |
| SatI | GCNGC | 4 cut(s) | 1125, 1284, 1587, 2483 |
| Sau3AI | GATC | 6 cut(s) | 87, 809, 1693, 1837, 2622, 2661 |
| Sau96I | GGNCC | 2 cut(s) | 1255, 1796 |
| ScaI | AGTACT | 2 cut(s) | 1486, 2512 |
| SchI | GAGTC | 2 cut(s) | 1641, 2333 |
| ScrFI | CCNGG | 2 cut(s) | 2183, 2493 |
| SduI | GDGCHC | 4 cut(s) | 1151, 2529, 2557, 2576 |
| SfaNI | GCATC | 5 cut(s) | 61, 501, 1345, 2056, 2478 |
| SfcI | CTRYAG | 1 cut(s) | 843 |
| SinI | GGWCC | 1 cut(s) | 1255 |
| SmiMI | CAYNNNNRTG | 9 cut(s) | 156, 170, 634, 755, 1731, 2367, 2403, 2454, 2544 |
| SmlI | CTYRAG | 8 cut(s) | 223, 473, 534, 1207, 1454, 1657, 1845, 2672 |
| SmoI | CTYRAG | 8 cut(s) | 223, 473, 534, 1207, 1454, 1657, 1845, 2672 |
| SnaBI | TACGTA | 1 cut(s) | 1536 |
| SpeI | ACTAGT | 2 cut(s) | 1153, 1912 |
| SphI | GCATGC | 1 cut(s) | 365 |
| SsiI | CCGC | 3 cut(s) | 317, 1586, 2485 |
| SspI | AATATT | 3 cut(s) | 2121, 2147, 2471 |
| SstI | GAGCTC | 1 cut(s) | 2529 |
| StyD4I | CCNGG | 2 cut(s) | 2181, 2491 |
| StyI | CCWWGG | 2 cut(s) | 8, 2618 |
| TaaI | ACNGT | 2 cut(s) | 949, 2578 |
| TaiI | ACGT | 8 cut(s) | 1538, 1572, 2191, 2304, 2311, 2589, 2614, 2661 |
| TaqI | TCGA | 4 cut(s) | 1774, 1947, 1990, 2702 |
| TatI | WGTACW | 4 cut(s) | 544, 1223, 1484, 2510 |
| TauI | GCSGC | 1 cut(s) | 1589 |
| TfiI | GAWTC | 5 cut(s) | 22, 208, 530, 1193, 2167 |
| TscAI | CASTG | 3 cut(s) | 338, 620, 2374 |
| TseFI | GTSAC | 3 cut(s) | 957, 1409, 2629 |
| TseI | GCWGC | 3 cut(s) | 1124, 1283, 2482 |
| Tsp45I | GTSAC | 3 cut(s) | 957, 1409, 2629 |
| TspDTI | ATGAA | 7 cut(s) | 51, 174, 624, 1076, 1131, 1259, 1286 |
| TspGWI | ACGGA | 3 cut(s) | 1623, 2160, 2302 |
| TspRI | CASTG | 3 cut(s) | 338, 620, 2374 |
| Tth111I | GACNNNGTC | 2 cut(s) | 800, 1253 |
| Van91I | CCANNNNNTGG | 2 cut(s) | 2060, 2373 |
| Vha464I | CTTAAG | 2 cut(s) | 1207, 1657 |
| VpaK11BI | GGWCC | 1 cut(s) | 1255 |
| VspI | ATTAAT | 1 cut(s) | 1326 |
| XceI | RCATGY | 7 cut(s) | 17, 365, 771, 870, 1471, 1907, 2522 |
| XcmI | CCANNNNNNNNNTGG | 2 cut(s) | 904, 1686 |
| XmaJI | CCTAGG | 1 cut(s) | 8 |
| XmnI | GAANNNNTTC | 1 cut(s) | 2049 |
| ZrmI | AGTACT | 2 cut(s) | 1486, 2512 |
| Zsp2I | ATGCAT | 2 cut(s) | 641, 2451 |