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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AasI | GACNNNNNNGTC | 1 cut(s) | 1165 |
| Acc65I | GGTACC | 1 cut(s) | 911 |
| AccB1I | GGYRCC | 4 cut(s) | 367, 911, 1028, 1244 |
| AccBSI | CCGCTC | 4 cut(s) | 430, 457, 670, 799 |
| AccII | CGCG | 5 cut(s) | 138, 407, 490, 711, 1304 |
| AclWI | GGATC | 1 cut(s) | 87 |
| AcoI | YGGCCR | 3 cut(s) | 726, 858, 921 |
| AcuI | CTGAAG | 1 cut(s) | 502 |
| AcvI | CACGTG | 1 cut(s) | 1208 |
| AcyI | GRCGYC | 4 cut(s) | 368, 572, 705, 1049 |
| AfaI | GTAC | 3 cut(s) | 404, 913, 1123 |
| AfeI | AGCGCT | 1 cut(s) | 94 |
| AfiI | CCNNNNNNNGG | 7 cut(s) | 222, 592, 735, 852, 1118, 1163, 1198 |
| AflIII | ACRYGT | 1 cut(s) | 1011 |
| AgsI | TTSAA | 5 cut(s) | 158, 935, 943, 1018, 1319 |
| AhdI | GACNNNNNGTC | 1 cut(s) | 1260 |
| AjiI | CACGTC | 2 cut(s) | 760, 1063 |
| AjnI | CCWGG | 4 cut(s) | 182, 330, 585, 741 |
| AloI | GAACNNNNNNTCC | 2 cut(s) | 419, 451 |
| AluBI | AGCT | 6 cut(s) | 522, 601, 823, 902, 1115, 1271 |
| AluI | AGCT | 6 cut(s) | 522, 601, 823, 902, 1115, 1271 |
| Alw21I | GWGCWC | 2 cut(s) | 603, 759 |
| Alw26I | GTCTC | 6 cut(s) | 24, 626, 646, 766, 1085, 1247 |
| AlwI | GGATC | 1 cut(s) | 87 |
| Ama87I | CYCGRG | 3 cut(s) | 996, 1233, 1272 |
| Aor51HI | AGCGCT | 1 cut(s) | 94 |
| ApaI | GGGCCC | 2 cut(s) | 310, 997 |
| ApeKI | GCWGC | 9 cut(s) | 95, 580, 787, 790, 835, 917, 926, 1134, 1322 |
| Asp718I | GGTACC | 1 cut(s) | 911 |
| AspLEI | GCGC | 7 cut(s) | 95, 138, 238, 370, 409, 492, 1306 |
| AsuC2I | CCSGG | 5 cut(s) | 997, 998, 1085, 1234, 1235 |
| AsuHPI | GGTGA | 3 cut(s) | 41, 217, 893 |
| AvaI | CYCGRG | 3 cut(s) | 996, 1233, 1272 |
| AvaII | GGWCC | 4 cut(s) | 140, 213, 739, 1167 |
| BaeGI | GKGCMC | 2 cut(s) | 310, 997 |
| BanI | GGYRCC | 4 cut(s) | 367, 911, 1028, 1244 |
| BanII | GRGCYC | 3 cut(s) | 310, 603, 997 |
| BbrPI | CACGTG | 1 cut(s) | 1208 |
| BbsI | GAAGAC | 1 cut(s) | 971 |
| Bbv12I | GWGCWC | 2 cut(s) | 603, 759 |
| BbvCI | CCTCAGC | 1 cut(s) | 903 |
| BbvI | GCAGC | 9 cut(s) | 82, 592, 774, 777, 847, 904, 913, 1146, 1334 |
| BccI | CCATC | 5 cut(s) | 29, 349, 453, 737, 850 |
| BceAI | ACGGC | 3 cut(s) | 359, 513, 1258 |
| BcgI | CGANNNNNNTGC | 2 cut(s) | 468, 502 |
| BciT130I | CCWGG | 4 cut(s) | 184, 332, 587, 743 |
| BcnI | CCSGG | 5 cut(s) | 997, 998, 1085, 1234, 1235 |
| BcoDI | GTCTC | 6 cut(s) | 24, 626, 646, 766, 1085, 1247 |
| BfmI | CTRYAG | 3 cut(s) | 45, 791, 1116 |
| BfoI | RGCGCY | 3 cut(s) | 96, 239, 371 |
| BglI | GCCNNNNNGGC | 1 cut(s) | 332 |
| Bme1390I | CCNGG | 9 cut(s) | 184, 332, 587, 743, 997, 998, 1085, 1234, 1235 |
| Bme18I | GGWCC | 4 cut(s) | 140, 213, 739, 1167 |
| BmeRI | GACNNNNNGTC | 1 cut(s) | 1260 |
| BmeT110I | CYCGRG | 3 cut(s) | 996, 1233, 1272 |
| BmgBI | CACGTC | 2 cut(s) | 760, 1063 |
| BmrFI | CCNGG | 9 cut(s) | 184, 332, 587, 743, 997, 998, 1085, 1234, 1235 |
| BmrI | ACTGGG | 1 cut(s) | 1254 |
| BmsI | GCATC | 1 cut(s) | 111 |
| BmuI | ACTGGG | 1 cut(s) | 1254 |
| BoxI | GACNNNNGTC | 1 cut(s) | 1097 |
| BpiI | GAAGAC | 1 cut(s) | 971 |
| BplI | GAGNNNNNCTC | 2 cut(s) | 746, 778 |
| BpmI | CTGGAG | 4 cut(s) | 260, 608, 764, 1241 |
| Bpu10I | CCTNAGC | 2 cut(s) | 602, 903 |
| BpuMI | CCSGG | 5 cut(s) | 997, 998, 1085, 1234, 1235 |
| BsaAI | YACGTR | 1 cut(s) | 1208 |
| BsaHI | GRCGYC | 4 cut(s) | 368, 572, 705, 1049 |
| BsaI | GGTCTC | 2 cut(s) | 626, 1247 |
| BsaJI | CCNNGG | 5 cut(s) | 183, 585, 709, 996, 1233 |
| BsaXI | ACNNNNNCTCC | 4 cut(s) | 276, 306, 419, 449 |
| Bsc4I | CCNNNNNNNGG | 7 cut(s) | 222, 592, 735, 852, 1118, 1163, 1198 |
| Bse118I | RCCGGY | 3 cut(s) | 71, 160, 1069 |
| Bse1I | ACTGG | 4 cut(s) | 16, 197, 660, 1260 |
| BseBI | CCWGG | 4 cut(s) | 184, 332, 587, 743 |
| BseDI | CCNNGG | 5 cut(s) | 183, 585, 709, 996, 1233 |
| BseGI | GGATG | 5 cut(s) | 40, 126, 729, 861, 1153 |
| BseLI | CCNNNNNNNGG | 7 cut(s) | 222, 592, 735, 852, 1118, 1163, 1198 |
| BseMII | CTCAG | 4 cut(s) | 77, 616, 887, 894 |
| BseNI | ACTGG | 4 cut(s) | 16, 197, 660, 1260 |
| BseSI | GKGCMC | 2 cut(s) | 310, 997 |
| BseX3I | CGGCCG | 1 cut(s) | 921 |
| BseXI | GCAGC | 9 cut(s) | 82, 592, 774, 777, 847, 904, 913, 1146, 1334 |
| BseYI | CCCAGC | 6 cut(s) | 221, 273, 460, 1111, 1170, 1182 |
| BsgI | GTGCAG | 2 cut(s) | 71, 854 |
| Bsh1236I | CGCG | 5 cut(s) | 138, 407, 490, 711, 1304 |
| Bsh1285I | CGRYCG | 6 cut(s) | 72, 102, 924, 1074, 1298, 1302 |
| BshNI | GGYRCC | 4 cut(s) | 367, 911, 1028, 1244 |
| BsiEI | CGRYCG | 6 cut(s) | 72, 102, 924, 1074, 1298, 1302 |
| BsiHKAI | GWGCWC | 2 cut(s) | 603, 759 |
| BsiHKCI | CYCGRG | 3 cut(s) | 996, 1233, 1272 |
| BsiSI | CCGG | 8 cut(s) | 72, 161, 733, 997, 1070, 1085, 1212, 1234 |
| BslFI | GGGAC | 4 cut(s) | 73, 752, 1067, 1153 |
| BslI | CCNNNNNNNGG | 7 cut(s) | 222, 592, 735, 852, 1118, 1163, 1198 |
| BsmAI | GTCTC | 6 cut(s) | 24, 626, 646, 766, 1085, 1247 |
| BsmBI | CGTCTC | 1 cut(s) | 766 |
| BsmFI | GGGAC | 4 cut(s) | 73, 752, 1067, 1153 |
| Bso31I | GGTCTC | 2 cut(s) | 626, 1247 |
| BsoBI | CYCGRG | 3 cut(s) | 996, 1233, 1272 |
| Bsp120I | GGGCCC | 2 cut(s) | 306, 993 |
| Bsp1286I | GDGCHC | 4 cut(s) | 310, 603, 759, 997 |
| Bsp143I | GATC | 5 cut(s) | 79, 382, 780, 1282, 1295 |
| BspCNI | CTCAG | 4 cut(s) | 76, 615, 888, 895 |
| BspFNI | CGCG | 5 cut(s) | 138, 407, 490, 711, 1304 |
| BspHI | TCATGA | 1 cut(s) | 414 |
| BspMAI | CTGCAG | 1 cut(s) | 795 |
| BspPI | GGATC | 1 cut(s) | 87 |
| BspQI | GCTCTTC | 1 cut(s) | 591 |
| BspT107I | GGYRCC | 4 cut(s) | 367, 911, 1028, 1244 |
| BspTNI | GGTCTC | 2 cut(s) | 626, 1247 |
| BsrBI | CCGCTC | 4 cut(s) | 430, 457, 670, 799 |
| BsrFI | RCCGGY | 3 cut(s) | 71, 160, 1069 |
| BsrI | ACTGG | 4 cut(s) | 16, 197, 660, 1260 |
| BssAI | RCCGGY | 3 cut(s) | 71, 160, 1069 |
| BssECI | CCNNGG | 5 cut(s) | 183, 585, 709, 996, 1233 |
| BssMI | GATC | 5 cut(s) | 79, 382, 780, 1282, 1295 |
| BssNI | GRCGYC | 4 cut(s) | 368, 572, 705, 1049 |
| Bst2UI | CCWGG | 4 cut(s) | 184, 332, 587, 743 |
| Bst4CI | ACNGT | 1 cut(s) | 49 |
| Bst6I | CTCTTC | 2 cut(s) | 273, 591 |
| BstACI | GRCGYC | 4 cut(s) | 368, 572, 705, 1049 |
| BstBAI | YACGTR | 1 cut(s) | 1208 |
| BstDEI | CTNAG | 4 cut(s) | 63, 602, 896, 903 |
| BstDSI | CCRYGG | 1 cut(s) | 709 |
| BstEII | GGTNACC | 1 cut(s) | 886 |
| BstF5I | GGATG | 5 cut(s) | 40, 126, 729, 861, 1153 |
| BstFNI | CGCG | 5 cut(s) | 138, 407, 490, 711, 1304 |
| BstH2I | RGCGCY | 3 cut(s) | 96, 239, 371 |
| BstHHI | GCGC | 7 cut(s) | 95, 138, 238, 370, 409, 492, 1306 |
| BstKTI | GATC | 5 cut(s) | 82, 385, 783, 1285, 1298 |
| BstMAI | GTCTC | 6 cut(s) | 24, 626, 646, 766, 1085, 1247 |
| BstMBI | GATC | 5 cut(s) | 79, 382, 780, 1282, 1295 |
| BstMCI | CGRYCG | 6 cut(s) | 72, 102, 924, 1074, 1298, 1302 |
| BstNI | CCWGG | 4 cut(s) | 184, 332, 587, 743 |
| BstNSI | RCATGY | 1 cut(s) | 1015 |
| BstPAI | GACNNNNGTC | 1 cut(s) | 1097 |
| BstPI | GGTNACC | 1 cut(s) | 886 |
| BstSCI | CCNGG | 9 cut(s) | 182, 330, 585, 741, 995, 996, 1083, 1232, 1233 |
| BstSFI | CTRYAG | 3 cut(s) | 45, 791, 1116 |
| BstSLI | GKGCMC | 2 cut(s) | 310, 997 |
| BstUI | CGCG | 5 cut(s) | 138, 407, 490, 711, 1304 |
| BstV1I | GCAGC | 9 cut(s) | 82, 592, 774, 777, 847, 904, 913, 1146, 1334 |
| BstV2I | GAAGAC | 1 cut(s) | 971 |
| BstZI | CGGCCG | 1 cut(s) | 921 |
| BtgI | CCRYGG | 1 cut(s) | 709 |
| BtgZI | GCGATG | 1 cut(s) | 368 |
| BtrI | CACGTC | 2 cut(s) | 760, 1063 |
| BtsCI | GGATG | 5 cut(s) | 40, 126, 729, 861, 1153 |
| BtsIMutI | CAGTG | 2 cut(s) | 54, 385 |
| CciI | TCATGA | 1 cut(s) | 414 |
| CciNI | GCGGCCGC | 1 cut(s) | 921 |
| CfoI | GCGC | 7 cut(s) | 95, 138, 238, 370, 409, 492, 1306 |
| Cfr10I | RCCGGY | 3 cut(s) | 71, 160, 1069 |
| Cfr42I | CCGCGG | 1 cut(s) | 712 |
| Cfr9I | CCCGGG | 2 cut(s) | 996, 1233 |
| CseI | GACGC | 4 cut(s) | 239, 561, 713, 1038 |
| Csp6I | GTAC | 3 cut(s) | 403, 912, 1122 |
| CviAII | CATG | 2 cut(s) | 415, 1012 |
| CviQI | GTAC | 3 cut(s) | 403, 912, 1122 |
| DdeI | CTNAG | 4 cut(s) | 63, 602, 896, 903 |
| DinI | GGCGCC | 1 cut(s) | 369 |
| DpnI | GATC | 5 cut(s) | 81, 384, 782, 1284, 1297 |
| DpnII | GATC | 5 cut(s) | 79, 382, 780, 1282, 1295 |
| DrdI | GACNNNNNNGTC | 1 cut(s) | 1165 |
| DriI | GACNNNNNGTC | 1 cut(s) | 1260 |
| DseDI | GACNNNNNNGTC | 1 cut(s) | 1165 |
| EaeI | YGGCCR | 3 cut(s) | 726, 858, 921 |
| EagI | CGGCCG | 1 cut(s) | 921 |
| Eam1104I | CTCTTC | 2 cut(s) | 273, 591 |
| Eam1105I | GACNNNNNGTC | 1 cut(s) | 1260 |
| EarI | CTCTTC | 2 cut(s) | 273, 591 |
| EciI | GGCGGA | 7 cut(s) | 179, 653, 674, 701, 835, 968, 1103 |
| Ecl136II | GAGCTC | 1 cut(s) | 601 |
| EclXI | CGGCCG | 1 cut(s) | 921 |
| Eco24I | GRGCYC | 3 cut(s) | 310, 603, 997 |
| Eco31I | GGTCTC | 2 cut(s) | 626, 1247 |
| Eco47I | GGWCC | 4 cut(s) | 140, 213, 739, 1167 |
| Eco47III | AGCGCT | 1 cut(s) | 94 |
| Eco52I | CGGCCG | 1 cut(s) | 921 |
| Eco53kI | GAGCTC | 1 cut(s) | 601 |
| Eco57I | CTGAAG | 1 cut(s) | 502 |
| Eco72I | CACGTG | 1 cut(s) | 1208 |
| Eco88I | CYCGRG | 3 cut(s) | 996, 1233, 1272 |
| Eco91I | GGTNACC | 1 cut(s) | 886 |
| EcoICRI | GAGCTC | 1 cut(s) | 601 |
| EcoO109I | RGGNCCY | 4 cut(s) | 306, 739, 993, 1167 |
| EcoO65I | GGTNACC | 1 cut(s) | 886 |
| EcoRII | CCWGG | 4 cut(s) | 182, 330, 585, 741 |
| EcoT38I | GRGCYC | 3 cut(s) | 310, 603, 997 |
| EgeI | GGCGCC | 1 cut(s) | 369 |
| EheI | GGCGCC | 1 cut(s) | 369 |
| Esp3I | CGTCTC | 1 cut(s) | 766 |
| FaeI | CATG | 2 cut(s) | 418, 1015 |
| FaiI | YATR | 8 cut(s) | 416, 485, 560, 699, 830, 1007, 1013, 1250 |
| FaqI | GGGAC | 4 cut(s) | 73, 752, 1067, 1153 |
| FatI | CATG | 2 cut(s) | 414, 1011 |
| FokI | GGATG | 5 cut(s) | 47, 133, 716, 868, 1140 |
| FriOI | GRGCYC | 3 cut(s) | 310, 603, 997 |
| GlaI | GCGC | 7 cut(s) | 94, 137, 237, 369, 408, 491, 1305 |
| GsaI | CCCAGC | 6 cut(s) | 225, 277, 464, 1115, 1174, 1186 |
| GsuI | CTGGAG | 4 cut(s) | 260, 608, 764, 1241 |
| HaeII | RGCGCY | 3 cut(s) | 96, 239, 371 |
| HapII | CCGG | 8 cut(s) | 72, 161, 733, 997, 1070, 1085, 1212, 1234 |
| HgaI | GACGC | 4 cut(s) | 239, 561, 713, 1038 |
| HhaI | GCGC | 7 cut(s) | 95, 138, 238, 370, 409, 492, 1306 |
| Hin1I | GRCGYC | 4 cut(s) | 368, 572, 705, 1049 |
| Hin1II | CATG | 2 cut(s) | 418, 1015 |
| Hin6I | GCGC | 7 cut(s) | 93, 136, 236, 368, 407, 490, 1304 |
| HinP1I | GCGC | 7 cut(s) | 93, 136, 236, 368, 407, 490, 1304 |
| HinfI | GANTC | 3 cut(s) | 61, 389, 842 |
| HpaII | CCGG | 8 cut(s) | 72, 161, 733, 997, 1070, 1085, 1212, 1234 |
| HphI | GGTGA | 3 cut(s) | 41, 217, 893 |
| Hpy188I | TCNGA | 7 cut(s) | 66, 84, 255, 617, 1158, 1198, 1266 |
| Hpy188III | TCNNGA | 5 cut(s) | 386, 415, 625, 1075, 1220 |
| Hpy99I | CGWCG | 6 cut(s) | 255, 499, 577, 1162, 1198, 1244 |
| HpyAV | CCTTC | 6 cut(s) | 106, 316, 416, 526, 1018, 1157 |
| HpyCH4III | ACNGT | 1 cut(s) | 49 |
| HpyCH4IV | ACGT | 3 cut(s) | 759, 1062, 1207 |
| HpyCH4V | TGCA | 3 cut(s) | 52, 793, 835 |
| HpyF3I | CTNAG | 4 cut(s) | 63, 602, 896, 903 |
| HpySE526I | ACGT | 3 cut(s) | 759, 1062, 1207 |
| Hsp92I | GRCGYC | 4 cut(s) | 368, 572, 705, 1049 |
| Hsp92II | CATG | 2 cut(s) | 418, 1015 |
| HspAI | GCGC | 7 cut(s) | 93, 136, 236, 368, 407, 490, 1304 |
| KasI | GGCGCC | 1 cut(s) | 367 |
| KflI | GGGWCCC | 1 cut(s) | 1167 |
| KpnI | GGTACC | 1 cut(s) | 915 |
| KspI | CCGCGG | 1 cut(s) | 712 |
| Kzo9I | GATC | 5 cut(s) | 79, 382, 780, 1282, 1295 |
| LguI | GCTCTTC | 1 cut(s) | 591 |
| LmnI | GCTCC | 5 cut(s) | 225, 340, 427, 772, 796 |
| Lsp1109I | GCAGC | 9 cut(s) | 82, 592, 774, 777, 847, 904, 913, 1146, 1334 |
| LweI | GCATC | 1 cut(s) | 111 |
| MaeII | ACGT | 3 cut(s) | 759, 1062, 1207 |
| MaeIII | GTNAC | 5 cut(s) | 178, 205, 886, 1050, 1203 |
| MalI | GATC | 5 cut(s) | 81, 384, 782, 1284, 1297 |
| MbiI | CCGCTC | 4 cut(s) | 430, 457, 670, 799 |
| MboI | GATC | 5 cut(s) | 79, 382, 780, 1282, 1295 |
| MboII | GAAGA | 5 cut(s) | 179, 290, 331, 608, 976 |
| MfeI | CAATTG | 1 cut(s) | 501 |
| MhlI | GDGCHC | 4 cut(s) | 310, 603, 759, 997 |
| MluCI | AATT | 1 cut(s) | 501 |
| Mly113I | GGCGCC | 1 cut(s) | 368 |
| MlyI | GAGTC | 2 cut(s) | 55, 383 |
| MmeI | TCCRAC | 5 cut(s) | 233, 750, 1176, 1181, 1289 |
| MseI | TTAA | 2 cut(s) | 720, 960 |
| MslI | CAYNNNNRTG | 2 cut(s) | 27, 830 |
| MspI | CCGG | 8 cut(s) | 72, 161, 733, 997, 1070, 1085, 1212, 1234 |
| MspR9I | CCNGG | 9 cut(s) | 184, 332, 587, 743, 997, 998, 1085, 1234, 1235 |
| MunI | CAATTG | 1 cut(s) | 501 |
| MvaI | CCWGG | 4 cut(s) | 184, 332, 587, 743 |
| MvnI | CGCG | 5 cut(s) | 138, 407, 490, 711, 1304 |
| NarI | GGCGCC | 1 cut(s) | 368 |
| NciI | CCSGG | 5 cut(s) | 997, 998, 1085, 1234, 1235 |
| NdeII | GATC | 5 cut(s) | 79, 382, 780, 1282, 1295 |
| NlaIII | CATG | 2 cut(s) | 418, 1015 |
| NmeAIII | GCCGAG | 1 cut(s) | 424 |
| NmuCI | GTSAC | 4 cut(s) | 178, 205, 1050, 1203 |
| NotI | GCGGCCGC | 1 cut(s) | 921 |
| NspI | RCATGY | 1 cut(s) | 1015 |
| PaeR7I | CTCGAG | 1 cut(s) | 1272 |
| PagI | TCATGA | 1 cut(s) | 414 |
| PciI | ACATGT | 1 cut(s) | 1011 |
| PciSI | GCTCTTC | 1 cut(s) | 591 |
| PcsI | WCGNNNNNNNCGW | 1 cut(s) | 561 |
| PfeI | GAWTC | 1 cut(s) | 842 |
| PflFI | GACNNNGTC | 1 cut(s) | 1192 |
| Ple19I | CGATCG | 1 cut(s) | 1298 |
| PleI | GAGTC | 2 cut(s) | 55, 383 |
| PluTI | GGCGCC | 1 cut(s) | 371 |
| PmaCI | CACGTG | 1 cut(s) | 1208 |
| PmlI | CACGTG | 1 cut(s) | 1208 |
| PpsI | GAGTC | 2 cut(s) | 55, 383 |
| Ppu21I | YACGTR | 1 cut(s) | 1208 |
| PpuMI | RGGWCCY | 2 cut(s) | 739, 1167 |
| PscI | ACATGT | 1 cut(s) | 1011 |
| PshAI | GACNNNNGTC | 1 cut(s) | 1097 |
| Psp124BI | GAGCTC | 1 cut(s) | 603 |
| Psp5II | RGGWCCY | 2 cut(s) | 739, 1167 |
| Psp6I | CCWGG | 4 cut(s) | 182, 330, 585, 741 |
| PspCI | CACGTG | 1 cut(s) | 1208 |
| PspEI | GGTNACC | 1 cut(s) | 886 |
| PspFI | CCCAGC | 6 cut(s) | 221, 273, 460, 1111, 1170, 1182 |
| PspGI | CCWGG | 4 cut(s) | 182, 330, 585, 741 |
| PspOMI | GGGCCC | 2 cut(s) | 306, 993 |
| PspPPI | RGGWCCY | 2 cut(s) | 739, 1167 |
| PspXI | VCTCGAGB | 1 cut(s) | 1272 |
| PstI | CTGCAG | 1 cut(s) | 795 |
| PsyI | GACNNNGTC | 1 cut(s) | 1192 |
| PvuI | CGATCG | 1 cut(s) | 1298 |
| PvuII | CAGCTG | 1 cut(s) | 1115 |
| RsaI | GTAC | 3 cut(s) | 404, 913, 1123 |
| RsaNI | GTAC | 3 cut(s) | 403, 912, 1122 |
| RseI | CAYNNNNRTG | 2 cut(s) | 27, 830 |
| SacI | GAGCTC | 1 cut(s) | 603 |
| SacII | CCGCGG | 1 cut(s) | 712 |
| SapI | GCTCTTC | 1 cut(s) | 591 |
| SaqAI | TTAA | 2 cut(s) | 720, 960 |
| Sau3AI | GATC | 5 cut(s) | 79, 382, 780, 1282, 1295 |
| SchI | GAGTC | 2 cut(s) | 55, 383 |
| ScrFI | CCNGG | 9 cut(s) | 184, 332, 587, 743, 997, 998, 1085, 1234, 1235 |
| SduI | GDGCHC | 4 cut(s) | 310, 603, 759, 997 |
| SfaNI | GCATC | 1 cut(s) | 111 |
| SfcI | CTRYAG | 3 cut(s) | 45, 791, 1116 |
| SfoI | GGCGCC | 1 cut(s) | 369 |
| Sfr274I | CTCGAG | 1 cut(s) | 1272 |
| Sfr303I | CCGCGG | 1 cut(s) | 712 |
| SgrBI | CCGCGG | 1 cut(s) | 712 |
| SinI | GGWCC | 4 cut(s) | 140, 213, 739, 1167 |
| SlaI | CTCGAG | 1 cut(s) | 1272 |
| SmaI | CCCGGG | 2 cut(s) | 998, 1235 |
| SmiMI | CAYNNNNRTG | 2 cut(s) | 27, 830 |
| SmlI | CTYRAG | 1 cut(s) | 1272 |
| SmoI | CTYRAG | 1 cut(s) | 1272 |
| SrfI | GCCCGGGC | 1 cut(s) | 998 |
| Sse9I | AATT | 1 cut(s) | 501 |
| SspDI | GGCGCC | 1 cut(s) | 367 |
| SstI | GAGCTC | 1 cut(s) | 603 |
| StyD4I | CCNGG | 9 cut(s) | 182, 330, 585, 741, 995, 996, 1083, 1232, 1233 |
| TaaI | ACNGT | 1 cut(s) | 49 |
| TaiI | ACGT | 3 cut(s) | 762, 1065, 1210 |
| TaqI | TCGA | 6 cut(s) | 575, 666, 1074, 1273, 1281, 1332 |
| TaqII | GACCGA | 2 cut(s) | 989, 1288 |
| TasI | AATT | 1 cut(s) | 501 |
| TfiI | GAWTC | 1 cut(s) | 842 |
| Tru1I | TTAA | 2 cut(s) | 720, 960 |
| Tru9I | TTAA | 2 cut(s) | 720, 960 |
| TscAI | CASTG | 2 cut(s) | 54, 385 |
| TseFI | GTSAC | 4 cut(s) | 178, 205, 1050, 1203 |
| TseI | GCWGC | 9 cut(s) | 95, 580, 787, 790, 835, 917, 926, 1134, 1322 |
| Tsp45I | GTSAC | 4 cut(s) | 178, 205, 1050, 1203 |
| TspDTI | ATGAA | 2 cut(s) | 403, 881 |
| TspGWI | ACGGA | 2 cut(s) | 133, 1175 |
| TspMI | CCCGGG | 2 cut(s) | 996, 1233 |
| TspRI | CASTG | 2 cut(s) | 54, 385 |
| Tth111I | GACNNNGTC | 1 cut(s) | 1192 |
| VpaK11BI | GGWCC | 4 cut(s) | 140, 213, 739, 1167 |
| XceI | RCATGY | 1 cut(s) | 1015 |
| XcmI | CCANNNNNNNNNTGG | 1 cut(s) | 23 |
| XhoI | CTCGAG | 1 cut(s) | 1272 |
| XmaI | CCCGGG | 2 cut(s) | 996, 1233 |