Control of topological states of DNA by transient breakage and subsequent rejoining of DNA strands. Topoisomerase II makes double-strand breaks
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AanI | TTATAA | 3 cut(s) | 1842, 2568, 2781 |
| AarI | CACCTGC | 1 cut(s) | 568 |
| AasI | GACNNNNNNGTC | 1 cut(s) | 2882 |
| AatII | GACGTC | 2 cut(s) | 336, 2735 |
| Acc36I | ACCTGC | 2 cut(s) | 568, 2106 |
| AccB1I | GGYRCC | 3 cut(s) | 432, 500, 2623 |
| AccBSI | CCGCTC | 1 cut(s) | 25 |
| AccI | GTMKAC | 5 cut(s) | 195, 357, 408, 1568, 2874 |
| AciI | CCGC | 6 cut(s) | 23, 75, 78, 279, 548, 1415 |
| AclWI | GGATC | 8 cut(s) | 293, 1180, 2627, 2640, 2717, 2822, 2835, 2994 |
| AcoI | YGGCCR | 2 cut(s) | 744, 1676 |
| AcsI | RAATTY | 9 cut(s) | 264, 1252, 1354, 1692, 1801, 2786, 2939, 3027, 3059 |
| AcuI | CTGAAG | 2 cut(s) | 1295, 2954 |
| AcyI | GRCGYC | 3 cut(s) | 333, 501, 2732 |
| AdeI | CACNNNGTG | 1 cut(s) | 627 |
| AfaI | GTAC | 8 cut(s) | 107, 248, 1369, 2019, 2051, 2266, 2642, 2869 |
| AfeI | AGCGCT | 1 cut(s) | 2374 |
| AfiI | CCNNNNNNNGG | 8 cut(s) | 71, 159, 870, 1138, 1463, 1642, 2350, 3103 |
| AflII | CTTAAG | 1 cut(s) | 1577 |
| AgeI | ACCGGT | 1 cut(s) | 479 |
| AgsI | TTSAA | 7 cut(s) | 935, 1889, 2134, 2321, 2455, 2477, 3059 |
| AjiI | CACGTC | 1 cut(s) | 1863 |
| AjnI | CCWGG | 5 cut(s) | 393, 650, 2011, 2137, 2636 |
| AjuI | GAANNNNNNNTTGG | 6 cut(s) | 2816, 2848, 3071, 3086, 3103, 3118 |
| AleI | CACNNNNGTG | 2 cut(s) | 2244, 2892 |
| AloI | GAACNNNNNNTCC | 2 cut(s) | 506, 538 |
| Alw21I | GWGCWC | 1 cut(s) | 2552 |
| Alw26I | GTCTC | 7 cut(s) | 536, 920, 1383, 1652, 2571, 2723, 3046 |
| AlwI | GGATC | 8 cut(s) | 293, 1180, 2627, 2640, 2717, 2822, 2835, 2994 |
| Ama87I | CYCGRG | 1 cut(s) | 2572 |
| Aor51HI | AGCGCT | 1 cut(s) | 2374 |
| AoxI | GGCC | 3 cut(s) | 241, 744, 1676 |
| ApeKI | GCWGC | 2 cut(s) | 1684, 2912 |
| ApoI | RAATTY | 9 cut(s) | 264, 1252, 1354, 1692, 1801, 2786, 2939, 3027, 3059 |
| ArsI | GACNNNNNNTTYG | 2 cut(s) | 255, 287 |
| AsiGI | ACCGGT | 1 cut(s) | 479 |
| Asp700I | GAANNNNTTC | 2 cut(s) | 518, 3027 |
| AspLEI | GCGC | 4 cut(s) | 371, 503, 613, 2375 |
| AspS9I | GGNCC | 4 cut(s) | 648, 793, 1621, 1827 |
| AsuC2I | CCSGG | 2 cut(s) | 240, 416 |
| AsuHPI | GGTGA | 9 cut(s) | 220, 316, 383, 478, 577, 778, 2258, 2624, 3038 |
| AvaI | CYCGRG | 1 cut(s) | 2572 |
| AvaII | GGWCC | 4 cut(s) | 648, 793, 1621, 1827 |
| BaeGI | GKGCMC | 1 cut(s) | 435 |
| BalI | TGGCCA | 1 cut(s) | 1678 |
| BamHI | GGATCC | 2 cut(s) | 2632, 2827 |
| BanI | GGYRCC | 3 cut(s) | 432, 500, 2623 |
| BanII | GRGCYC | 1 cut(s) | 2552 |
| BarI | GAAGNNNNNNTAC | 2 cut(s) | 239, 271 |
| BauI | CACGAG | 1 cut(s) | 2965 |
| BbsI | GAAGAC | 2 cut(s) | 479, 1229 |
| Bbv12I | GWGCWC | 1 cut(s) | 2552 |
| BbvI | GCAGC | 2 cut(s) | 1671, 2924 |
| BceAI | ACGGC | 3 cut(s) | 382, 514, 561 |
| BcgI | CGANNNNNNTGC | 4 cut(s) | 76, 110, 2956, 2990 |
| BciT130I | CCWGG | 5 cut(s) | 395, 652, 2013, 2139, 2638 |
| BclI | TGATCA | 2 cut(s) | 1615, 2860 |
| BcnI | CCSGG | 2 cut(s) | 240, 416 |
| BcoDI | GTCTC | 7 cut(s) | 536, 920, 1383, 1652, 2571, 2723, 3046 |
| BfaI | CTAG | 1 cut(s) | 1491 |
| BfmI | CTRYAG | 1 cut(s) | 2871 |
| BfoI | RGCGCY | 3 cut(s) | 372, 504, 2376 |
| BfrI | CTTAAG | 1 cut(s) | 1577 |
| BfuAI | ACCTGC | 2 cut(s) | 568, 2106 |
| BglII | AGATCT | 1 cut(s) | 252 |
| BisI | GCNGC | 4 cut(s) | 76, 279, 1685, 2913 |
| BlpI | GCTNAGC | 1 cut(s) | 1899 |
| BlsI | GCNGC | 4 cut(s) | 77, 280, 1686, 2914 |
| BmcAI | AGTACT | 2 cut(s) | 2266, 2869 |
| Bme1390I | CCNGG | 7 cut(s) | 240, 395, 416, 652, 2013, 2139, 2638 |
| Bme18I | GGWCC | 4 cut(s) | 648, 793, 1621, 1827 |
| BmeT110I | CYCGRG | 1 cut(s) | 2572 |
| BmgBI | CACGTC | 1 cut(s) | 1863 |
| BmgT120I | GGNCC | 4 cut(s) | 648, 793, 1621, 1827 |
| BmrFI | CCNGG | 7 cut(s) | 240, 395, 416, 652, 2013, 2139, 2638 |
| BmrI | ACTGGG | 1 cut(s) | 2197 |
| BmsI | GCATC | 6 cut(s) | 711, 740, 847, 1321, 2422, 2605 |
| BmuI | ACTGGG | 1 cut(s) | 2197 |
| BpiI | GAAGAC | 2 cut(s) | 479, 1229 |
| BplI | GAGNNNNNCTC | 4 cut(s) | 329, 361, 2786, 2818 |
| BpmI | CTGGAG | 5 cut(s) | 146, 393, 1365, 2034, 3003 |
| Bpu10I | CCTNAGC | 1 cut(s) | 1398 |
| Bpu1102I | GCTNAGC | 1 cut(s) | 1899 |
| BpuEI | CTTGAG | 5 cut(s) | 1346, 2757, 2813, 3053, 3119 |
| BpuMI | CCSGG | 2 cut(s) | 240, 416 |
| Bsa29I | ATCGAT | 1 cut(s) | 3163 |
| BsaAI | YACGTR | 1 cut(s) | 994 |
| BsaHI | GRCGYC | 3 cut(s) | 333, 501, 2732 |
| BsaI | GGTCTC | 1 cut(s) | 1652 |
| BsaJI | CCNNGG | 9 cut(s) | 306, 651, 754, 2088, 2242, 2424, 2636, 2823, 3142 |
| BsaWI | WCCGGW | 1 cut(s) | 479 |
| BsaXI | ACNNNNNCTCC | 6 cut(s) | 9, 39, 366, 396, 506, 536 |
| Bsc4I | CCNNNNNNNGG | 8 cut(s) | 71, 159, 870, 1138, 1463, 1642, 2350, 3103 |
| Bse118I | RCCGGY | 1 cut(s) | 479 |
| Bse1I | ACTGG | 6 cut(s) | 33, 444, 614, 1572, 2203, 2659 |
| Bse3DI | GCAATG | 4 cut(s) | 496, 1416, 1819, 2625 |
| BseBI | CCWGG | 5 cut(s) | 395, 652, 2013, 2139, 2638 |
| BseCI | ATCGAT | 1 cut(s) | 3163 |
| BseDI | CCNNGG | 9 cut(s) | 306, 651, 754, 2088, 2242, 2424, 2636, 2823, 3142 |
| BseGI | GGATG | 5 cut(s) | 755, 1336, 2037, 2283, 2434 |
| BseLI | CCNNNNNNNGG | 8 cut(s) | 71, 159, 870, 1138, 1463, 1642, 2350, 3103 |
| BseMI | GCAATG | 4 cut(s) | 496, 1416, 1819, 2625 |
| BseMII | CTCAG | 8 cut(s) | 931, 1350, 1514, 1770, 1913, 2214, 2752, 3041 |
| BseNI | ACTGG | 6 cut(s) | 33, 444, 614, 1572, 2203, 2659 |
| BseRI | GAGGAG | 1 cut(s) | 2912 |
| BseSI | GKGCMC | 1 cut(s) | 435 |
| BseXI | GCAGC | 2 cut(s) | 1671, 2924 |
| BseYI | CCCAGC | 1 cut(s) | 58 |
| Bsh1285I | CGRYCG | 2 cut(s) | 9, 168 |
| BshFI | GGCC | 3 cut(s) | 243, 746, 1678 |
| BshNI | GGYRCC | 3 cut(s) | 432, 500, 2623 |
| BshTI | ACCGGT | 1 cut(s) | 479 |
| BshVI | ATCGAT | 1 cut(s) | 3163 |
| BsiEI | CGRYCG | 2 cut(s) | 9, 168 |
| BsiHKAI | GWGCWC | 1 cut(s) | 2552 |
| BsiHKCI | CYCGRG | 1 cut(s) | 2572 |
| BsiSI | CCGG | 5 cut(s) | 240, 416, 480, 747, 843 |
| BslFI | GGGAC | 4 cut(s) | 398, 779, 1892, 2551 |
| BslI | CCNNNNNNNGG | 8 cut(s) | 71, 159, 870, 1138, 1463, 1642, 2350, 3103 |
| BsmAI | GTCTC | 7 cut(s) | 536, 920, 1383, 1652, 2571, 2723, 3046 |
| BsmBI | CGTCTC | 2 cut(s) | 536, 2723 |
| BsmFI | GGGAC | 4 cut(s) | 398, 779, 1892, 2551 |
| BsmI | GAATGC | 3 cut(s) | 561, 1054, 2227 |
| BsnI | GGCC | 3 cut(s) | 243, 746, 1678 |
| Bso31I | GGTCTC | 1 cut(s) | 1652 |
| BsoBI | CYCGRG | 1 cut(s) | 2572 |
| Bsp1286I | GDGCHC | 2 cut(s) | 435, 2552 |
| Bsp1407I | TGTACA | 1 cut(s) | 246 |
| Bsp1720I | GCTNAGC | 1 cut(s) | 1899 |
| Bsp19I | CCATGG | 3 cut(s) | 306, 2088, 2242 |
| BspACI | CCGC | 6 cut(s) | 23, 75, 78, 279, 548, 1415 |
| BspANI | GGCC | 3 cut(s) | 243, 746, 1678 |
| BspCNI | CTCAG | 8 cut(s) | 930, 1351, 1513, 1771, 1912, 2215, 2751, 3042 |
| BspDI | ATCGAT | 1 cut(s) | 3163 |
| BspMI | ACCTGC | 2 cut(s) | 568, 2106 |
| BspPI | GGATC | 8 cut(s) | 293, 1180, 2627, 2640, 2717, 2822, 2835, 2994 |
| BspQI | GCTCTTC | 1 cut(s) | 110 |
| BspT107I | GGYRCC | 3 cut(s) | 432, 500, 2623 |
| BspTI | CTTAAG | 1 cut(s) | 1577 |
| BspTNI | GGTCTC | 1 cut(s) | 1652 |
| BsrBI | CCGCTC | 1 cut(s) | 25 |
| BsrDI | GCAATG | 4 cut(s) | 496, 1416, 1819, 2625 |
| BsrFI | RCCGGY | 1 cut(s) | 479 |
| BsrGI | TGTACA | 1 cut(s) | 246 |
| BsrI | ACTGG | 6 cut(s) | 33, 444, 614, 1572, 2203, 2659 |
| BssAI | RCCGGY | 1 cut(s) | 479 |
| BssECI | CCNNGG | 9 cut(s) | 306, 651, 754, 2088, 2242, 2424, 2636, 2823, 3142 |
| BssNAI | GTATAC | 1 cut(s) | 1569 |
| BssNI | GRCGYC | 3 cut(s) | 333, 501, 2732 |
| BssSI | CACGAG | 1 cut(s) | 2965 |
| BssT1I | CCWWGG | 6 cut(s) | 306, 2088, 2242, 2424, 2823, 3142 |
| Bst1107I | GTATAC | 1 cut(s) | 1569 |
| Bst2BI | CACGAG | 1 cut(s) | 2965 |
| Bst2UI | CCWGG | 5 cut(s) | 395, 652, 2013, 2139, 2638 |
| Bst6I | CTCTTC | 3 cut(s) | 110, 1974, 2423 |
| BstACI | GRCGYC | 3 cut(s) | 333, 501, 2732 |
| BstAFI | CTTAAG | 1 cut(s) | 1577 |
| BstAPI | GCANNNNNTGC | 2 cut(s) | 136, 2198 |
| BstAUI | TGTACA | 1 cut(s) | 246 |
| BstBAI | YACGTR | 1 cut(s) | 994 |
| BstC8I | GCNNGC | 5 cut(s) | 23, 122, 1422, 1956, 2371 |
| BstDSI | CCRYGG | 3 cut(s) | 306, 2088, 2242 |
| BstF5I | GGATG | 5 cut(s) | 755, 1336, 2037, 2283, 2434 |
| BstH2I | RGCGCY | 3 cut(s) | 372, 504, 2376 |
| BstHHI | GCGC | 4 cut(s) | 371, 503, 613, 2375 |
| BstMAI | GTCTC | 7 cut(s) | 536, 920, 1383, 1652, 2571, 2723, 3046 |
| BstMCI | CGRYCG | 2 cut(s) | 9, 168 |
| BstMWI | GCNNNNNNNGC | 7 cut(s) | 84, 136, 1340, 1421, 1684, 2008, 2198 |
| BstNI | CCWGG | 5 cut(s) | 395, 652, 2013, 2139, 2638 |
| BstSCI | CCNGG | 7 cut(s) | 238, 393, 414, 650, 2011, 2137, 2636 |
| BstSFI | CTRYAG | 1 cut(s) | 2871 |
| BstSLI | GKGCMC | 1 cut(s) | 435 |
| BstSNI | TACGTA | 1 cut(s) | 994 |
| BstV1I | GCAGC | 2 cut(s) | 1671, 2924 |
| BstV2I | GAAGAC | 2 cut(s) | 479, 1229 |
| BstX2I | RGATCY | 5 cut(s) | 252, 298, 1172, 2632, 2827 |
| BstXI | CCANNNNNNTGG | 2 cut(s) | 595, 2210 |
| BstYI | RGATCY | 5 cut(s) | 252, 298, 1172, 2632, 2827 |
| BstZ17I | GTATAC | 1 cut(s) | 1569 |
| Bsu15I | ATCGAT | 1 cut(s) | 3163 |
| BsuRI | GGCC | 3 cut(s) | 243, 746, 1678 |
| BsuTUI | ATCGAT | 1 cut(s) | 3163 |
| BtgI | CCRYGG | 3 cut(s) | 306, 2088, 2242 |
| BtgZI | GCGATG | 1 cut(s) | 1665 |
| BtrI | CACGTC | 1 cut(s) | 1863 |
| BtsCI | GGATG | 5 cut(s) | 755, 1336, 2037, 2283, 2434 |
| BtsI | GCAGTG | 1 cut(s) | 2697 |
| BtsIMutI | CAGTG | 5 cut(s) | 2059, 2514, 2697, 2731, 2863 |
| BveI | ACCTGC | 2 cut(s) | 568, 2106 |
| Cac8I | GCNNGC | 5 cut(s) | 23, 122, 1422, 1956, 2371 |
| CfoI | GCGC | 4 cut(s) | 371, 503, 613, 2375 |
| Cfr10I | RCCGGY | 1 cut(s) | 479 |
| Cfr13I | GGNCC | 4 cut(s) | 648, 793, 1621, 1827 |
| ClaI | ATCGAT | 1 cut(s) | 3163 |
| CseI | GACGC | 2 cut(s) | 343, 495 |
| Csp6I | GTAC | 8 cut(s) | 106, 247, 1368, 2018, 2050, 2265, 2641, 2868 |
| CspAI | ACCGGT | 1 cut(s) | 479 |
| CspCI | CAANNNNNGTGG | 2 cut(s) | 1801, 1836 |
| CviQI | GTAC | 8 cut(s) | 106, 247, 1368, 2018, 2050, 2265, 2641, 2868 |
| DinI | GGCGCC | 1 cut(s) | 502 |
| DraI | TTTAAA | 1 cut(s) | 1258 |
| DraIII | CACNNNGTG | 1 cut(s) | 627 |
| DrdI | GACNNNNNNGTC | 1 cut(s) | 2882 |
| DseDI | GACNNNNNNGTC | 1 cut(s) | 2882 |
| EaeI | YGGCCR | 2 cut(s) | 744, 1676 |
| Eam1104I | CTCTTC | 3 cut(s) | 110, 1974, 2423 |
| EarI | CTCTTC | 3 cut(s) | 110, 1974, 2423 |
| EciI | GGCGGA | 2 cut(s) | 93, 563 |
| Ecl136II | GAGCTC | 1 cut(s) | 2550 |
| Eco105I | TACGTA | 1 cut(s) | 994 |
| Eco130I | CCWWGG | 6 cut(s) | 306, 2088, 2242, 2424, 2823, 3142 |
| Eco24I | GRGCYC | 1 cut(s) | 2552 |
| Eco31I | GGTCTC | 1 cut(s) | 1652 |
| Eco47I | GGWCC | 4 cut(s) | 648, 793, 1621, 1827 |
| Eco47III | AGCGCT | 1 cut(s) | 2374 |
| Eco53kI | GAGCTC | 1 cut(s) | 2550 |
| Eco57I | CTGAAG | 2 cut(s) | 1295, 2954 |
| Eco88I | CYCGRG | 1 cut(s) | 2572 |
| EcoICRI | GAGCTC | 1 cut(s) | 2550 |
| EcoO109I | RGGNCCY | 1 cut(s) | 793 |
| EcoRI | GAATTC | 3 cut(s) | 1354, 2786, 3059 |
| EcoRII | CCWGG | 5 cut(s) | 393, 650, 2011, 2137, 2636 |
| EcoT14I | CCWWGG | 6 cut(s) | 306, 2088, 2242, 2424, 2823, 3142 |
| EcoT38I | GRGCYC | 1 cut(s) | 2552 |
| EgeI | GGCGCC | 1 cut(s) | 502 |
| EheI | GGCGCC | 1 cut(s) | 502 |
| ErhI | CCWWGG | 6 cut(s) | 306, 2088, 2242, 2424, 2823, 3142 |
| Esp3I | CGTCTC | 2 cut(s) | 536, 2723 |
| FalI | AAGNNNNNCTT | 4 cut(s) | 2141, 2173, 2162, 2194 |
| FaqI | GGGAC | 4 cut(s) | 398, 779, 1892, 2551 |
| FauI | CCCGC | 2 cut(s) | 30, 1408 |
| FbaI | TGATCA | 2 cut(s) | 1615, 2860 |
| FblI | GTMKAC | 5 cut(s) | 195, 357, 408, 1568, 2874 |
| Fnu4HI | GCNGC | 4 cut(s) | 76, 279, 1685, 2913 |
| FokI | GGATG | 5 cut(s) | 762, 1343, 2044, 2290, 2441 |
| FriOI | GRGCYC | 1 cut(s) | 2552 |
| Fsp4HI | GCNGC | 4 cut(s) | 76, 279, 1685, 2913 |
| FspBI | CTAG | 1 cut(s) | 1491 |
| GlaI | GCGC | 4 cut(s) | 370, 502, 612, 2374 |
| GluI | GCNGC | 4 cut(s) | 76, 279, 1685, 2913 |
| GsaI | CCCAGC | 1 cut(s) | 62 |
| GsuI | CTGGAG | 5 cut(s) | 146, 393, 1365, 2034, 3003 |
| HaeII | RGCGCY | 3 cut(s) | 372, 504, 2376 |
| HaeIII | GGCC | 3 cut(s) | 243, 746, 1678 |
| HapII | CCGG | 5 cut(s) | 240, 416, 480, 747, 843 |
| HgaI | GACGC | 2 cut(s) | 343, 495 |
| HhaI | GCGC | 4 cut(s) | 371, 503, 613, 2375 |
| Hin1I | GRCGYC | 3 cut(s) | 333, 501, 2732 |
| Hin6I | GCGC | 4 cut(s) | 369, 501, 611, 2373 |
| HinP1I | GCGC | 4 cut(s) | 369, 501, 611, 2373 |
| HincII | GTYRAC | 4 cut(s) | 217, 274, 823, 876 |
| HindII | GTYRAC | 4 cut(s) | 217, 274, 823, 876 |
| HindIII | AAGCTT | 3 cut(s) | 506, 1322, 2039 |
| HpaII | CCGG | 5 cut(s) | 240, 416, 480, 747, 843 |
| HphI | GGTGA | 9 cut(s) | 220, 316, 383, 478, 577, 778, 2258, 2624, 3038 |
| Hpy99I | CGWCG | 4 cut(s) | 263, 338, 461, 926 |
| HpyAV | CCTTC | 9 cut(s) | 763, 875, 1379, 1681, 1789, 1865, 1869, 2522, 2801 |
| HpyCH4IV | ACGT | 6 cut(s) | 234, 333, 411, 993, 1862, 2732 |
| HpyF10VI | GCNNNNNNNGC | 7 cut(s) | 84, 136, 1340, 1421, 1684, 2008, 2198 |
| HpySE526I | ACGT | 6 cut(s) | 234, 333, 411, 993, 1862, 2732 |
| Hsp92I | GRCGYC | 3 cut(s) | 333, 501, 2732 |
| HspAI | GCGC | 4 cut(s) | 369, 501, 611, 2373 |
| KasI | GGCGCC | 1 cut(s) | 500 |
| KflI | GGGWCCC | 1 cut(s) | 793 |
| Ksp22I | TGATCA | 2 cut(s) | 1615, 2860 |
| LguI | GCTCTTC | 1 cut(s) | 110 |
| LmnI | GCTCC | 6 cut(s) | 30, 127, 144, 865, 2298, 2547 |
| Lsp1109I | GCAGC | 2 cut(s) | 1671, 2924 |
| LweI | GCATC | 6 cut(s) | 711, 740, 847, 1321, 2422, 2605 |
| MaeI | CTAG | 1 cut(s) | 1491 |
| MaeII | ACGT | 6 cut(s) | 234, 333, 411, 993, 1862, 2732 |
| MaeIII | GTNAC | 7 cut(s) | 35, 322, 655, 994, 2054, 2345, 2733 |
| MbiI | CCGCTC | 1 cut(s) | 25 |
| MfeI | CAATTG | 1 cut(s) | 1947 |
| MflI | RGATCY | 5 cut(s) | 252, 298, 1172, 2632, 2827 |
| MhlI | GDGCHC | 2 cut(s) | 435, 2552 |
| MlsI | TGGCCA | 1 cut(s) | 1678 |
| MluNI | TGGCCA | 1 cut(s) | 1678 |
| Mly113I | GGCGCC | 1 cut(s) | 501 |
| MlyI | GAGTC | 7 cut(s) | 305, 922, 1385, 2263, 2605, 2764, 2804 |
| MmeI | TCCRAC | 3 cut(s) | 166, 2528, 3084 |
| Mox20I | TGGCCA | 1 cut(s) | 1678 |
| MroXI | GAANNNNTTC | 2 cut(s) | 518, 3027 |
| MscI | TGGCCA | 1 cut(s) | 1678 |
| MslI | CAYNNNNRTG | 3 cut(s) | 1446, 2244, 2892 |
| Msp20I | TGGCCA | 1 cut(s) | 1678 |
| MspA1I | CMGCKG | 1 cut(s) | 124 |
| MspCI | CTTAAG | 1 cut(s) | 1577 |
| MspI | CCGG | 5 cut(s) | 240, 416, 480, 747, 843 |
| MspR9I | CCNGG | 7 cut(s) | 240, 395, 416, 652, 2013, 2139, 2638 |
| MunI | CAATTG | 1 cut(s) | 1947 |
| Mva1269I | GAATGC | 3 cut(s) | 561, 1054, 2227 |
| MvaI | CCWGG | 5 cut(s) | 395, 652, 2013, 2139, 2638 |
| MwoI | GCNNNNNNNGC | 7 cut(s) | 84, 136, 1340, 1421, 1684, 2008, 2198 |
| NarI | GGCGCC | 1 cut(s) | 501 |
| NciI | CCSGG | 2 cut(s) | 240, 416 |
| NcoI | CCATGG | 3 cut(s) | 306, 2088, 2242 |
| NmeAIII | GCCGAG | 1 cut(s) | 1373 |
| NmuCI | GTSAC | 3 cut(s) | 322, 2054, 2733 |
| OliI | CACNNNNGTG | 2 cut(s) | 2244, 2892 |
| PaqCI | CACCTGC | 1 cut(s) | 568 |
| PciSI | GCTCTTC | 1 cut(s) | 110 |
| PcsI | WCGNNNNNNNCGW | 3 cut(s) | 48, 165, 267 |
| PctI | GAATGC | 3 cut(s) | 561, 1054, 2227 |
| PdmI | GAANNNNTTC | 2 cut(s) | 518, 3027 |
| PfeI | GAWTC | 5 cut(s) | 388, 1127, 1540, 2152, 2681 |
| PflFI | GACNNNGTC | 1 cut(s) | 314 |
| PfoI | TCCNGGA | 1 cut(s) | 414 |
| PinAI | ACCGGT | 1 cut(s) | 479 |
| PkrI | GCNGC | 4 cut(s) | 77, 280, 1686, 2914 |
| Ple19I | CGATCG | 2 cut(s) | 9, 168 |
| PleI | GAGTC | 7 cut(s) | 305, 921, 1385, 2262, 2604, 2764, 2803 |
| PluTI | GGCGCC | 1 cut(s) | 504 |
| PpsI | GAGTC | 7 cut(s) | 305, 921, 1385, 2262, 2604, 2764, 2803 |
| Ppu21I | YACGTR | 1 cut(s) | 994 |
| PpuMI | RGGWCCY | 1 cut(s) | 793 |
| PsiI | TTATAA | 3 cut(s) | 1842, 2568, 2781 |
| Psp124BI | GAGCTC | 1 cut(s) | 2552 |
| Psp5II | RGGWCCY | 1 cut(s) | 793 |
| Psp6I | CCWGG | 5 cut(s) | 393, 650, 2011, 2137, 2636 |
| PspFI | CCCAGC | 1 cut(s) | 58 |
| PspGI | CCWGG | 5 cut(s) | 393, 650, 2011, 2137, 2636 |
| PspPI | GGNCC | 4 cut(s) | 648, 793, 1621, 1827 |
| PspPPI | RGGWCCY | 1 cut(s) | 793 |
| PsuI | RGATCY | 5 cut(s) | 252, 298, 1172, 2632, 2827 |
| PsyI | GACNNNGTC | 1 cut(s) | 314 |
| PvuI | CGATCG | 2 cut(s) | 9, 168 |
| PvuII | CAGCTG | 1 cut(s) | 124 |
| RsaI | GTAC | 8 cut(s) | 107, 248, 1369, 2019, 2051, 2266, 2642, 2869 |
| RsaNI | GTAC | 8 cut(s) | 106, 247, 1368, 2018, 2050, 2265, 2641, 2868 |
| RseI | CAYNNNNRTG | 3 cut(s) | 1446, 2244, 2892 |
| SacI | GAGCTC | 1 cut(s) | 2552 |
| SapI | GCTCTTC | 1 cut(s) | 110 |
| SatI | GCNGC | 4 cut(s) | 76, 279, 1685, 2913 |
| Sau96I | GGNCC | 4 cut(s) | 648, 793, 1621, 1827 |
| ScaI | AGTACT | 2 cut(s) | 2266, 2869 |
| SchI | GAGTC | 7 cut(s) | 305, 922, 1385, 2263, 2605, 2764, 2804 |
| ScrFI | CCNGG | 7 cut(s) | 240, 395, 416, 652, 2013, 2139, 2638 |
| SduI | GDGCHC | 2 cut(s) | 435, 2552 |
| SfaNI | GCATC | 6 cut(s) | 711, 740, 847, 1321, 2422, 2605 |
| SfcI | CTRYAG | 1 cut(s) | 2871 |
| SfoI | GGCGCC | 1 cut(s) | 502 |
| SgrAI | CRCCGGYG | 1 cut(s) | 479 |
| SinI | GGWCC | 4 cut(s) | 648, 793, 1621, 1827 |
| SmiMI | CAYNNNNRTG | 3 cut(s) | 1446, 2244, 2892 |
| SmlI | CTYRAG | 6 cut(s) | 1325, 1577, 2772, 2792, 3032, 3098 |
| SmoI | CTYRAG | 6 cut(s) | 1325, 1577, 2772, 2792, 3032, 3098 |
| SnaBI | TACGTA | 1 cut(s) | 994 |
| SsiI | CCGC | 6 cut(s) | 23, 75, 78, 279, 548, 1415 |
| SspDI | GGCGCC | 1 cut(s) | 500 |
| SspI | AATATT | 2 cut(s) | 1027, 1838 |
| SspMI | CTAG | 1 cut(s) | 1491 |
| SstI | GAGCTC | 1 cut(s) | 2552 |
| StyD4I | CCNGG | 7 cut(s) | 238, 393, 414, 650, 2011, 2137, 2636 |
| StyI | CCWWGG | 6 cut(s) | 306, 2088, 2242, 2424, 2823, 3142 |
| TaiI | ACGT | 6 cut(s) | 237, 336, 414, 996, 1865, 2735 |
| TatI | WGTACW | 6 cut(s) | 246, 1367, 2017, 2049, 2264, 2867 |
| TauI | GCSGC | 2 cut(s) | 78, 281 |
| TfiI | GAWTC | 5 cut(s) | 388, 1127, 1540, 2152, 2681 |
| TscAI | CASTG | 5 cut(s) | 2059, 2514, 2704, 2731, 2863 |
| TseFI | GTSAC | 3 cut(s) | 322, 2054, 2733 |
| TseI | GCWGC | 2 cut(s) | 1684, 2912 |
| Tsp45I | GTSAC | 3 cut(s) | 322, 2054, 2733 |
| TspDTI | ATGAA | 8 cut(s) | 523, 1037, 1298, 1651, 1655, 1705, 2472, 2824 |
| TspGWI | ACGGA | 7 cut(s) | 291, 304, 567, 893, 2103, 2750, 2820 |
| TspRI | CASTG | 5 cut(s) | 2059, 2514, 2704, 2731, 2863 |
| Tth111I | GACNNNGTC | 1 cut(s) | 314 |
| Vha464I | CTTAAG | 1 cut(s) | 1577 |
| VpaK11BI | GGWCC | 4 cut(s) | 648, 793, 1621, 1827 |
| XapI | RAATTY | 9 cut(s) | 264, 1252, 1354, 1692, 1801, 2786, 2939, 3027, 3059 |
| XcmI | CCANNNNNNNNNTGG | 2 cut(s) | 2634, 2763 |
| XmiI | GTMKAC | 5 cut(s) | 195, 357, 408, 1568, 2874 |
| XmnI | GAANNNNTTC | 2 cut(s) | 518, 3027 |
| XspI | CTAG | 1 cut(s) | 1491 |
| ZraI | GACGTC | 2 cut(s) | 334, 2733 |
| ZrmI | AGTACT | 2 cut(s) | 2266, 2869 |