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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AasI | GACNNNNNNGTC | 2 cut(s) | 288, 1188 |
| AccB1I | GGYRCC | 3 cut(s) | 393, 1054, 1267 |
| AccBSI | CCGCTC | 5 cut(s) | 456, 483, 696, 774, 825 |
| AccII | CGCG | 4 cut(s) | 29, 516, 737, 1327 |
| AclWI | GGATC | 2 cut(s) | 59, 773 |
| AcoI | YGGCCR | 3 cut(s) | 752, 884, 947 |
| AcsI | RAATTY | 2 cut(s) | 69, 563 |
| AcuI | CTGAAG | 1 cut(s) | 528 |
| AcvI | CACGTG | 1 cut(s) | 1231 |
| AcyI | GRCGYC | 4 cut(s) | 394, 598, 731, 1075 |
| AfaI | GTAC | 2 cut(s) | 88, 1146 |
| AfiI | CCNNNNNNNGG | 8 cut(s) | 153, 248, 618, 761, 878, 1141, 1186, 1221 |
| AflIII | ACRYGT | 2 cut(s) | 783, 1088 |
| AgeI | ACCGGT | 1 cut(s) | 1364 |
| AgsI | TTSAA | 4 cut(s) | 961, 969, 1044, 1342 |
| AhdI | GACNNNNNGTC | 1 cut(s) | 1283 |
| AjiI | CACGTC | 2 cut(s) | 786, 1089 |
| AjnI | CCWGG | 1 cut(s) | 1022 |
| AleI | CACNNNNGTG | 1 cut(s) | 194 |
| AloI | GAACNNNNNNTCC | 2 cut(s) | 445, 477 |
| AluBI | AGCT | 6 cut(s) | 361, 548, 627, 744, 849, 928 |
| AluI | AGCT | 6 cut(s) | 361, 548, 627, 744, 849, 928 |
| Alw21I | GWGCWC | 2 cut(s) | 629, 940 |
| Alw26I | GTCTC | 8 cut(s) | 124, 191, 296, 652, 672, 792, 1111, 1270 |
| AlwI | GGATC | 2 cut(s) | 59, 773 |
| Ama87I | CYCGRG | 4 cut(s) | 611, 1152, 1256, 1295 |
| ApaI | GGGCCC | 1 cut(s) | 1023 |
| ApeKI | GCWGC | 8 cut(s) | 606, 813, 816, 861, 943, 952, 1157, 1345 |
| ApoI | RAATTY | 2 cut(s) | 69, 563 |
| AsiGI | ACCGGT | 1 cut(s) | 1364 |
| Asp700I | GAANNNNTTC | 1 cut(s) | 1106 |
| AspLEI | GCGC | 4 cut(s) | 396, 435, 518, 1329 |
| AsuC2I | CCSGG | 6 cut(s) | 11, 127, 612, 613, 1257, 1258 |
| AsuHPI | GGTGA | 3 cut(s) | 132, 177, 181 |
| AvaI | CYCGRG | 4 cut(s) | 611, 1152, 1256, 1295 |
| AvaII | GGWCC | 3 cut(s) | 239, 1190, 1301 |
| BaeGI | GKGCMC | 2 cut(s) | 1023, 1130 |
| BanI | GGYRCC | 3 cut(s) | 393, 1054, 1267 |
| BanII | GRGCYC | 3 cut(s) | 501, 629, 1023 |
| BbrPI | CACGTG | 1 cut(s) | 1231 |
| BbsI | GAAGAC | 1 cut(s) | 997 |
| Bbv12I | GWGCWC | 2 cut(s) | 629, 940 |
| BbvCI | CCTCAGC | 1 cut(s) | 929 |
| BbvI | GCAGC | 8 cut(s) | 618, 800, 803, 873, 930, 939, 1169, 1357 |
| BccI | CCATC | 5 cut(s) | 42, 162, 479, 763, 876 |
| BceAI | ACGGC | 5 cut(s) | 299, 385, 539, 1123, 1281 |
| BciT130I | CCWGG | 1 cut(s) | 1024 |
| BcnI | CCSGG | 6 cut(s) | 11, 127, 612, 613, 1257, 1258 |
| BcoDI | GTCTC | 8 cut(s) | 124, 191, 296, 652, 672, 792, 1111, 1270 |
| BfmI | CTRYAG | 1 cut(s) | 817 |
| BfoI | RGCGCY | 1 cut(s) | 397 |
| Bme1390I | CCNGG | 7 cut(s) | 11, 127, 612, 613, 1024, 1257, 1258 |
| Bme18I | GGWCC | 3 cut(s) | 239, 1190, 1301 |
| BmeRI | GACNNNNNGTC | 1 cut(s) | 1283 |
| BmeT110I | CYCGRG | 4 cut(s) | 611, 1152, 1256, 1295 |
| BmgBI | CACGTC | 2 cut(s) | 786, 1089 |
| BmrFI | CCNGG | 7 cut(s) | 11, 127, 612, 613, 1024, 1257, 1258 |
| BmrI | ACTGGG | 1 cut(s) | 1277 |
| BmsI | GCATC | 1 cut(s) | 164 |
| BmuI | ACTGGG | 1 cut(s) | 1277 |
| BpiI | GAAGAC | 1 cut(s) | 997 |
| BpmI | CTGGAG | 4 cut(s) | 286, 634, 790, 1264 |
| Bpu10I | CCTNAGC | 1 cut(s) | 929 |
| BpuEI | CTTGAG | 1 cut(s) | 613 |
| BpuMI | CCSGG | 6 cut(s) | 11, 127, 612, 613, 1257, 1258 |
| BsaAI | YACGTR | 1 cut(s) | 1231 |
| BsaHI | GRCGYC | 4 cut(s) | 394, 598, 731, 1075 |
| BsaI | GGTCTC | 2 cut(s) | 652, 1270 |
| BsaJI | CCNNGG | 9 cut(s) | 92, 192, 610, 611, 671, 735, 1022, 1256, 1296 |
| BsaWI | WCCGGW | 2 cut(s) | 159, 1364 |
| BsaXI | ACNNNNNCTCC | 6 cut(s) | 70, 100, 302, 332, 445, 475 |
| Bsc4I | CCNNNNNNNGG | 8 cut(s) | 153, 248, 618, 761, 878, 1141, 1186, 1221 |
| Bse118I | RCCGGY | 2 cut(s) | 1095, 1364 |
| Bse1I | ACTGG | 7 cut(s) | 147, 183, 223, 686, 707, 1283, 1333 |
| BseBI | CCWGG | 1 cut(s) | 1024 |
| BseDI | CCNNGG | 9 cut(s) | 92, 192, 610, 611, 671, 735, 1022, 1256, 1296 |
| BseGI | GGATG | 3 cut(s) | 755, 887, 1176 |
| BseLI | CCNNNNNNNGG | 8 cut(s) | 153, 248, 618, 761, 878, 1141, 1186, 1221 |
| BseMII | CTCAG | 4 cut(s) | 143, 278, 913, 920 |
| BseNI | ACTGG | 7 cut(s) | 147, 183, 223, 686, 707, 1283, 1333 |
| BseSI | GKGCMC | 2 cut(s) | 1023, 1130 |
| BseX3I | CGGCCG | 1 cut(s) | 947 |
| BseXI | GCAGC | 8 cut(s) | 618, 800, 803, 873, 930, 939, 1169, 1357 |
| BseYI | CCCAGC | 7 cut(s) | 107, 247, 486, 900, 1134, 1193, 1205 |
| BsgI | GTGCAG | 1 cut(s) | 880 |
| Bsh1236I | CGCG | 4 cut(s) | 29, 516, 737, 1327 |
| Bsh1285I | CGRYCG | 4 cut(s) | 950, 1100, 1321, 1325 |
| BshNI | GGYRCC | 3 cut(s) | 393, 1054, 1267 |
| BshTI | ACCGGT | 1 cut(s) | 1364 |
| BsiEI | CGRYCG | 4 cut(s) | 950, 1100, 1321, 1325 |
| BsiHKAI | GWGCWC | 2 cut(s) | 629, 940 |
| BsiHKCI | CYCGRG | 4 cut(s) | 611, 1152, 1256, 1295 |
| BslFI | GGGAC | 2 cut(s) | 713, 1176 |
| BslI | CCNNNNNNNGG | 8 cut(s) | 153, 248, 618, 761, 878, 1141, 1186, 1221 |
| BsmAI | GTCTC | 8 cut(s) | 124, 191, 296, 652, 672, 792, 1111, 1270 |
| BsmBI | CGTCTC | 2 cut(s) | 124, 792 |
| BsmFI | GGGAC | 2 cut(s) | 713, 1176 |
| BsmI | GAATGC | 1 cut(s) | 964 |
| Bso31I | GGTCTC | 2 cut(s) | 652, 1270 |
| BsoBI | CYCGRG | 4 cut(s) | 611, 1152, 1256, 1295 |
| Bsp120I | GGGCCC | 1 cut(s) | 1019 |
| Bsp1286I | GDGCHC | 5 cut(s) | 501, 629, 940, 1023, 1130 |
| Bsp143I | GATC | 5 cut(s) | 51, 408, 765, 1305, 1318 |
| Bsp68I | TCGCGA | 1 cut(s) | 29 |
| BspCNI | CTCAG | 4 cut(s) | 144, 279, 914, 921 |
| BspFNI | CGCG | 4 cut(s) | 29, 516, 737, 1327 |
| BspHI | TCATGA | 1 cut(s) | 440 |
| BspMAI | CTGCAG | 1 cut(s) | 821 |
| BspPI | GGATC | 2 cut(s) | 59, 773 |
| BspQI | GCTCTTC | 1 cut(s) | 617 |
| BspT107I | GGYRCC | 3 cut(s) | 393, 1054, 1267 |
| BspTNI | GGTCTC | 2 cut(s) | 652, 1270 |
| BsrBI | CCGCTC | 5 cut(s) | 456, 483, 696, 774, 825 |
| BsrFI | RCCGGY | 2 cut(s) | 1095, 1364 |
| BsrI | ACTGG | 7 cut(s) | 147, 183, 223, 686, 707, 1283, 1333 |
| BssAI | RCCGGY | 2 cut(s) | 1095, 1364 |
| BssECI | CCNNGG | 9 cut(s) | 92, 192, 610, 611, 671, 735, 1022, 1256, 1296 |
| BssMI | GATC | 5 cut(s) | 51, 408, 765, 1305, 1318 |
| BssNI | GRCGYC | 4 cut(s) | 394, 598, 731, 1075 |
| BssT1I | CCWWGG | 2 cut(s) | 192, 671 |
| Bst2UI | CCWGG | 1 cut(s) | 1024 |
| Bst4CI | ACNGT | 1 cut(s) | 117 |
| Bst6I | CTCTTC | 3 cut(s) | 299, 472, 617 |
| BstACI | GRCGYC | 4 cut(s) | 394, 598, 731, 1075 |
| BstAPI | GCANNNNNTGC | 1 cut(s) | 373 |
| BstBAI | YACGTR | 1 cut(s) | 1231 |
| BstDEI | CTNAG | 4 cut(s) | 152, 287, 922, 929 |
| BstDSI | CCRYGG | 1 cut(s) | 735 |
| BstEII | GGTNACC | 1 cut(s) | 912 |
| BstF5I | GGATG | 3 cut(s) | 755, 887, 1176 |
| BstFNI | CGCG | 4 cut(s) | 29, 516, 737, 1327 |
| BstH2I | RGCGCY | 1 cut(s) | 397 |
| BstHHI | GCGC | 4 cut(s) | 396, 435, 518, 1329 |
| BstKTI | GATC | 5 cut(s) | 54, 411, 768, 1308, 1321 |
| BstMAI | GTCTC | 8 cut(s) | 124, 191, 296, 652, 672, 792, 1111, 1270 |
| BstMBI | GATC | 5 cut(s) | 51, 408, 765, 1305, 1318 |
| BstMCI | CGRYCG | 4 cut(s) | 950, 1100, 1321, 1325 |
| BstNI | CCWGG | 1 cut(s) | 1024 |
| BstPI | GGTNACC | 1 cut(s) | 912 |
| BstSCI | CCNGG | 7 cut(s) | 9, 125, 610, 611, 1022, 1255, 1256 |
| BstSFI | CTRYAG | 1 cut(s) | 817 |
| BstSLI | GKGCMC | 2 cut(s) | 1023, 1130 |
| BstUI | CGCG | 4 cut(s) | 29, 516, 737, 1327 |
| BstV1I | GCAGC | 8 cut(s) | 618, 800, 803, 873, 930, 939, 1169, 1357 |
| BstV2I | GAAGAC | 1 cut(s) | 997 |
| BstX2I | RGATCY | 1 cut(s) | 765 |
| BstYI | RGATCY | 1 cut(s) | 765 |
| BstZI | CGGCCG | 1 cut(s) | 947 |
| BtgI | CCRYGG | 1 cut(s) | 735 |
| BtgZI | GCGATG | 2 cut(s) | 61, 187 |
| BtrI | CACGTC | 2 cut(s) | 786, 1089 |
| BtsCI | GGATG | 3 cut(s) | 755, 887, 1176 |
| BtsIMutI | CAGTG | 1 cut(s) | 230 |
| BtuMI | TCGCGA | 1 cut(s) | 29 |
| CciI | TCATGA | 1 cut(s) | 440 |
| CciNI | GCGGCCGC | 1 cut(s) | 947 |
| CfoI | GCGC | 4 cut(s) | 396, 435, 518, 1329 |
| Cfr10I | RCCGGY | 2 cut(s) | 1095, 1364 |
| Cfr42I | CCGCGG | 1 cut(s) | 738 |
| Cfr9I | CCCGGG | 2 cut(s) | 611, 1256 |
| CseI | GACGC | 5 cut(s) | 40, 587, 739, 1002, 1064 |
| Csp6I | GTAC | 2 cut(s) | 87, 1145 |
| CspAI | ACCGGT | 1 cut(s) | 1364 |
| CviAII | CATG | 3 cut(s) | 84, 441, 580 |
| CviQI | GTAC | 2 cut(s) | 87, 1145 |
| DdeI | CTNAG | 4 cut(s) | 152, 287, 922, 929 |
| DinI | GGCGCC | 1 cut(s) | 395 |
| DpnI | GATC | 5 cut(s) | 53, 410, 767, 1307, 1320 |
| DpnII | GATC | 5 cut(s) | 51, 408, 765, 1305, 1318 |
| DrdI | GACNNNNNNGTC | 2 cut(s) | 288, 1188 |
| DriI | GACNNNNNGTC | 1 cut(s) | 1283 |
| DseDI | GACNNNNNNGTC | 2 cut(s) | 288, 1188 |
| EaeI | YGGCCR | 3 cut(s) | 752, 884, 947 |
| EagI | CGGCCG | 1 cut(s) | 947 |
| Eam1104I | CTCTTC | 3 cut(s) | 299, 472, 617 |
| Eam1105I | GACNNNNNGTC | 1 cut(s) | 1283 |
| EarI | CTCTTC | 3 cut(s) | 299, 472, 617 |
| EciI | GGCGGA | 4 cut(s) | 73, 700, 861, 994 |
| Ecl136II | GAGCTC | 1 cut(s) | 627 |
| EclXI | CGGCCG | 1 cut(s) | 947 |
| Eco130I | CCWWGG | 2 cut(s) | 192, 671 |
| Eco24I | GRGCYC | 3 cut(s) | 501, 629, 1023 |
| Eco31I | GGTCTC | 2 cut(s) | 652, 1270 |
| Eco47I | GGWCC | 3 cut(s) | 239, 1190, 1301 |
| Eco52I | CGGCCG | 1 cut(s) | 947 |
| Eco53kI | GAGCTC | 1 cut(s) | 627 |
| Eco57I | CTGAAG | 1 cut(s) | 528 |
| Eco72I | CACGTG | 1 cut(s) | 1231 |
| Eco88I | CYCGRG | 4 cut(s) | 611, 1152, 1256, 1295 |
| Eco91I | GGTNACC | 1 cut(s) | 912 |
| EcoICRI | GAGCTC | 1 cut(s) | 627 |
| EcoO109I | RGGNCCY | 2 cut(s) | 1019, 1190 |
| EcoO65I | GGTNACC | 1 cut(s) | 912 |
| EcoRII | CCWGG | 1 cut(s) | 1022 |
| EcoT14I | CCWWGG | 2 cut(s) | 192, 671 |
| EcoT38I | GRGCYC | 3 cut(s) | 501, 629, 1023 |
| EgeI | GGCGCC | 1 cut(s) | 395 |
| EheI | GGCGCC | 1 cut(s) | 395 |
| ErhI | CCWWGG | 2 cut(s) | 192, 671 |
| Esp3I | CGTCTC | 2 cut(s) | 124, 792 |
| FaeI | CATG | 3 cut(s) | 87, 444, 583 |
| FaqI | GGGAC | 2 cut(s) | 713, 1176 |
| FatI | CATG | 3 cut(s) | 83, 440, 579 |
| FokI | GGATG | 3 cut(s) | 742, 894, 1163 |
| FriOI | GRGCYC | 3 cut(s) | 501, 629, 1023 |
| GlaI | GCGC | 4 cut(s) | 395, 434, 517, 1328 |
| GsaI | CCCAGC | 7 cut(s) | 111, 251, 490, 904, 1138, 1197, 1209 |
| GsuI | CTGGAG | 4 cut(s) | 286, 634, 790, 1264 |
| HaeII | RGCGCY | 1 cut(s) | 397 |
| HgaI | GACGC | 5 cut(s) | 40, 587, 739, 1002, 1064 |
| HhaI | GCGC | 4 cut(s) | 396, 435, 518, 1329 |
| Hin1I | GRCGYC | 4 cut(s) | 394, 598, 731, 1075 |
| Hin1II | CATG | 3 cut(s) | 87, 444, 583 |
| Hin6I | GCGC | 4 cut(s) | 394, 433, 516, 1327 |
| HinP1I | GCGC | 4 cut(s) | 394, 433, 516, 1327 |
| HindIII | AAGCTT | 1 cut(s) | 742 |
| HinfI | GANTC | 3 cut(s) | 289, 415, 868 |
| HphI | GGTGA | 3 cut(s) | 132, 177, 181 |
| Hpy166II | GTNNAC | 1 cut(s) | 123 |
| Hpy188I | TCNGA | 6 cut(s) | 153, 643, 1181, 1221, 1289, 1305 |
| Hpy188III | TCNNGA | 7 cut(s) | 28, 295, 412, 441, 651, 769, 1243 |
| Hpy8I | GTNNAC | 1 cut(s) | 123 |
| Hpy99I | CGWCG | 6 cut(s) | 34, 237, 525, 1185, 1221, 1267 |
| HpyAV | CCTTC | 5 cut(s) | 342, 429, 552, 1044, 1180 |
| HpyCH4III | ACNGT | 1 cut(s) | 117 |
| HpyCH4IV | ACGT | 4 cut(s) | 133, 785, 1088, 1230 |
| HpyCH4V | TGCA | 3 cut(s) | 367, 819, 861 |
| HpyF3I | CTNAG | 4 cut(s) | 152, 287, 922, 929 |
| HpySE526I | ACGT | 4 cut(s) | 133, 785, 1088, 1230 |
| Hsp92I | GRCGYC | 4 cut(s) | 394, 598, 731, 1075 |
| Hsp92II | CATG | 3 cut(s) | 87, 444, 583 |
| HspAI | GCGC | 4 cut(s) | 394, 433, 516, 1327 |
| KasI | GGCGCC | 1 cut(s) | 393 |
| KflI | GGGWCCC | 1 cut(s) | 1190 |
| KspI | CCGCGG | 1 cut(s) | 738 |
| Kzo9I | GATC | 5 cut(s) | 51, 408, 765, 1305, 1318 |
| LguI | GCTCTTC | 1 cut(s) | 617 |
| LmnI | GCTCC | 7 cut(s) | 251, 366, 453, 771, 798, 822, 935 |
| Lsp1109I | GCAGC | 8 cut(s) | 618, 800, 803, 873, 930, 939, 1169, 1357 |
| LweI | GCATC | 1 cut(s) | 164 |
| MaeII | ACGT | 4 cut(s) | 133, 785, 1088, 1230 |
| MaeIII | GTNAC | 5 cut(s) | 204, 575, 912, 1076, 1226 |
| MalI | GATC | 5 cut(s) | 53, 410, 767, 1307, 1320 |
| MbiI | CCGCTC | 5 cut(s) | 456, 483, 696, 774, 825 |
| MboI | GATC | 5 cut(s) | 51, 408, 765, 1305, 1318 |
| MboII | GAAGA | 5 cut(s) | 316, 357, 459, 634, 1002 |
| MfeI | CAATTG | 1 cut(s) | 527 |
| MflI | RGATCY | 1 cut(s) | 765 |
| MhlI | GDGCHC | 5 cut(s) | 501, 629, 940, 1023, 1130 |
| MluCI | AATT | 3 cut(s) | 69, 527, 563 |
| Mly113I | GGCGCC | 1 cut(s) | 394 |
| MlyI | GAGTC | 3 cut(s) | 298, 409, 877 |
| MmeI | TCCRAC | 4 cut(s) | 776, 1199, 1204, 1312 |
| MroXI | GAANNNNTTC | 1 cut(s) | 1106 |
| MseI | TTAA | 2 cut(s) | 746, 986 |
| MslI | CAYNNNNRTG | 2 cut(s) | 194, 856 |
| MspA1I | CMGCKG | 5 cut(s) | 247, 737, 943, 952, 1160 |
| MspR9I | CCNGG | 7 cut(s) | 11, 127, 612, 613, 1024, 1257, 1258 |
| MunI | CAATTG | 1 cut(s) | 527 |
| Mva1269I | GAATGC | 1 cut(s) | 964 |
| MvaI | CCWGG | 1 cut(s) | 1024 |
| MvnI | CGCG | 4 cut(s) | 29, 516, 737, 1327 |
| NarI | GGCGCC | 1 cut(s) | 394 |
| NciI | CCSGG | 6 cut(s) | 11, 127, 612, 613, 1257, 1258 |
| NdeII | GATC | 5 cut(s) | 51, 408, 765, 1305, 1318 |
| NlaIII | CATG | 3 cut(s) | 87, 444, 583 |
| NmeAIII | GCCGAG | 3 cut(s) | 117, 450, 529 |
| NmuCI | GTSAC | 3 cut(s) | 204, 1076, 1226 |
| NotI | GCGGCCGC | 1 cut(s) | 947 |
| NruI | TCGCGA | 1 cut(s) | 29 |
| OliI | CACNNNNGTG | 1 cut(s) | 194 |
| PagI | TCATGA | 1 cut(s) | 440 |
| PciSI | GCTCTTC | 1 cut(s) | 617 |
| PctI | GAATGC | 1 cut(s) | 964 |
| PdmI | GAANNNNTTC | 1 cut(s) | 1106 |
| PflFI | GACNNNGTC | 1 cut(s) | 1215 |
| PinAI | ACCGGT | 1 cut(s) | 1364 |
| Ple19I | CGATCG | 1 cut(s) | 1321 |
| PleI | GAGTC | 3 cut(s) | 297, 409, 876 |
| PluTI | GGCGCC | 1 cut(s) | 397 |
| PmaCI | CACGTG | 1 cut(s) | 1231 |
| PmlI | CACGTG | 1 cut(s) | 1231 |
| PpsI | GAGTC | 3 cut(s) | 297, 409, 876 |
| Ppu21I | YACGTR | 1 cut(s) | 1231 |
| PpuMI | RGGWCCY | 1 cut(s) | 1190 |
| Psp124BI | GAGCTC | 1 cut(s) | 629 |
| Psp5II | RGGWCCY | 1 cut(s) | 1190 |
| Psp6I | CCWGG | 1 cut(s) | 1022 |
| PspCI | CACGTG | 1 cut(s) | 1231 |
| PspEI | GGTNACC | 1 cut(s) | 912 |
| PspFI | CCCAGC | 7 cut(s) | 107, 247, 486, 900, 1134, 1193, 1205 |
| PspGI | CCWGG | 1 cut(s) | 1022 |
| PspOMI | GGGCCC | 1 cut(s) | 1019 |
| PspPPI | RGGWCCY | 1 cut(s) | 1190 |
| PstI | CTGCAG | 1 cut(s) | 821 |
| PsuI | RGATCY | 1 cut(s) | 765 |
| PsyI | GACNNNGTC | 1 cut(s) | 1215 |
| PvuI | CGATCG | 1 cut(s) | 1321 |
| RruI | TCGCGA | 1 cut(s) | 29 |
| RsaI | GTAC | 2 cut(s) | 88, 1146 |
| RsaNI | GTAC | 2 cut(s) | 87, 1145 |
| RseI | CAYNNNNRTG | 2 cut(s) | 194, 856 |
| SacI | GAGCTC | 1 cut(s) | 629 |
| SacII | CCGCGG | 1 cut(s) | 738 |
| SapI | GCTCTTC | 1 cut(s) | 617 |
| SaqAI | TTAA | 2 cut(s) | 746, 986 |
| Sau3AI | GATC | 5 cut(s) | 51, 408, 765, 1305, 1318 |
| SchI | GAGTC | 3 cut(s) | 298, 409, 877 |
| ScrFI | CCNGG | 7 cut(s) | 11, 127, 612, 613, 1024, 1257, 1258 |
| SduI | GDGCHC | 5 cut(s) | 501, 629, 940, 1023, 1130 |
| SfaNI | GCATC | 1 cut(s) | 164 |
| SfcI | CTRYAG | 1 cut(s) | 817 |
| SfoI | GGCGCC | 1 cut(s) | 395 |
| Sfr303I | CCGCGG | 1 cut(s) | 738 |
| SgrBI | CCGCGG | 1 cut(s) | 738 |
| SinI | GGWCC | 3 cut(s) | 239, 1190, 1301 |
| SmaI | CCCGGG | 2 cut(s) | 613, 1258 |
| SmiMI | CAYNNNNRTG | 2 cut(s) | 194, 856 |
| SmlI | CTYRAG | 1 cut(s) | 628 |
| SmoI | CTYRAG | 1 cut(s) | 628 |
| Sse9I | AATT | 3 cut(s) | 69, 527, 563 |
| SspDI | GGCGCC | 1 cut(s) | 393 |
| SstI | GAGCTC | 1 cut(s) | 629 |
| StyD4I | CCNGG | 7 cut(s) | 9, 125, 610, 611, 1022, 1255, 1256 |
| StyI | CCWWGG | 2 cut(s) | 192, 671 |
| TaaI | ACNGT | 1 cut(s) | 117 |
| TaiI | ACGT | 4 cut(s) | 136, 788, 1091, 1233 |
| TaqI | TCGA | 3 cut(s) | 329, 692, 1100 |
| TaqII | GACCGA | 2 cut(s) | 1015, 1311 |
| TasI | AATT | 3 cut(s) | 69, 527, 563 |
| Tru1I | TTAA | 2 cut(s) | 746, 986 |
| Tru9I | TTAA | 2 cut(s) | 746, 986 |
| TscAI | CASTG | 1 cut(s) | 230 |
| TseFI | GTSAC | 3 cut(s) | 204, 1076, 1226 |
| TseI | GCWGC | 8 cut(s) | 606, 813, 816, 861, 943, 952, 1157, 1345 |
| Tsp45I | GTSAC | 3 cut(s) | 204, 1076, 1226 |
| TspDTI | ATGAA | 3 cut(s) | 429, 794, 907 |
| TspGWI | ACGGA | 1 cut(s) | 1198 |
| TspMI | CCCGGG | 2 cut(s) | 611, 1256 |
| TspRI | CASTG | 1 cut(s) | 230 |
| Tth111I | GACNNNGTC | 1 cut(s) | 1215 |
| VpaK11BI | GGWCC | 3 cut(s) | 239, 1190, 1301 |
| XapI | RAATTY | 2 cut(s) | 69, 563 |
| XcmI | CCANNNNNNNNNTGG | 2 cut(s) | 190, 678 |
| XmaI | CCCGGG | 2 cut(s) | 611, 1256 |
| XmnI | GAANNNNTTC | 1 cut(s) | 1106 |