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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AatII | GACGTC | 1 cut(s) | 822 |
| AccB1I | GGYRCC | 3 cut(s) | 271, 481, 1142 |
| AccBSI | CCGCTC | 3 cut(s) | 571, 784, 913 |
| AccII | CGCG | 8 cut(s) | 252, 521, 604, 825, 899, 1178, 1321, 1389 |
| AclWI | GGATC | 3 cut(s) | 12, 861, 1408 |
| AcoI | YGGCCR | 3 cut(s) | 792, 840, 1035 |
| AcuI | CTGAAG | 1 cut(s) | 616 |
| AcyI | GRCGYC | 4 cut(s) | 482, 686, 819, 1143 |
| AfaI | GTAC | 4 cut(s) | 1027, 1073, 1345, 1360 |
| AfiI | CCNNNNNNNGG | 7 cut(s) | 106, 225, 300, 391, 765, 849, 1232 |
| AflIII | ACRYGT | 3 cut(s) | 871, 1125, 1314 |
| AgsI | TTSAA | 3 cut(s) | 279, 1049, 1057 |
| AhdI | GACNNNNNGTC | 1 cut(s) | 1374 |
| AjiI | CACGTC | 2 cut(s) | 874, 1315 |
| AjnI | CCWGG | 2 cut(s) | 245, 299 |
| AloI | GAACNNNNNNTCC | 2 cut(s) | 533, 565 |
| AluBI | AGCT | 6 cut(s) | 636, 715, 832, 937, 1060, 1163 |
| AluI | AGCT | 6 cut(s) | 636, 715, 832, 937, 1060, 1163 |
| Alw21I | GWGCWC | 1 cut(s) | 1111 |
| Alw26I | GTCTC | 8 cut(s) | 77, 144, 278, 740, 749, 880, 971, 1361 |
| AlwI | GGATC | 3 cut(s) | 12, 861, 1408 |
| Ama87I | CYCGRG | 2 cut(s) | 1226, 1347 |
| AoxI | GGCC | 7 cut(s) | 33, 57, 297, 438, 792, 840, 1035 |
| ApeKI | GCWGC | 9 cut(s) | 223, 335, 373, 694, 901, 904, 949, 1040, 1248 |
| AspLEI | GCGC | 9 cut(s) | 252, 355, 369, 484, 523, 606, 901, 1145, 1180 |
| AspS9I | GGNCC | 7 cut(s) | 58, 254, 330, 421, 439, 1281, 1392 |
| AsuC2I | CCSGG | 4 cut(s) | 80, 220, 1348, 1349 |
| AsuHPI | GGTGA | 6 cut(s) | 85, 130, 134, 317, 334, 1007 |
| AvaI | CYCGRG | 2 cut(s) | 1226, 1347 |
| AvaII | GGWCC | 5 cut(s) | 254, 330, 421, 1281, 1392 |
| BalI | TGGCCA | 2 cut(s) | 794, 842 |
| BanI | GGYRCC | 3 cut(s) | 271, 481, 1142 |
| BbsI | GAAGAC | 2 cut(s) | 272, 1211 |
| Bbv12I | GWGCWC | 1 cut(s) | 1111 |
| BbvCI | CCTCAGC | 1 cut(s) | 716 |
| BbvI | GCAGC | 9 cut(s) | 235, 322, 385, 706, 888, 891, 961, 1027, 1260 |
| BccI | CCATC | 5 cut(s) | 115, 149, 567, 851, 1154 |
| BceAI | ACGGC | 3 cut(s) | 627, 1199, 1398 |
| BciT130I | CCWGG | 2 cut(s) | 247, 301 |
| BcnI | CCSGG | 4 cut(s) | 80, 220, 1348, 1349 |
| BcoDI | GTCTC | 8 cut(s) | 77, 144, 278, 740, 749, 880, 971, 1361 |
| BfaI | CTAG | 1 cut(s) | 1104 |
| BfmI | CTRYAG | 2 cut(s) | 905, 1362 |
| BfoI | RGCGCY | 4 cut(s) | 356, 370, 485, 1146 |
| Bme1390I | CCNGG | 6 cut(s) | 80, 220, 247, 301, 1348, 1349 |
| Bme18I | GGWCC | 5 cut(s) | 254, 330, 421, 1281, 1392 |
| BmeRI | GACNNNNNGTC | 1 cut(s) | 1374 |
| BmeT110I | CYCGRG | 2 cut(s) | 1226, 1347 |
| BmgBI | CACGTC | 2 cut(s) | 874, 1315 |
| BmgT120I | GGNCC | 7 cut(s) | 58, 254, 330, 421, 439, 1281, 1392 |
| BmiI | GGNNCC | 8 cut(s) | 111, 273, 422, 483, 1144, 1282, 1283, 1393 |
| BmrFI | CCNGG | 6 cut(s) | 80, 220, 247, 301, 1348, 1349 |
| BmrI | ACTGGG | 1 cut(s) | 1368 |
| BmsI | GCATC | 5 cut(s) | 117, 225, 461, 1203, 1432 |
| BmuI | ACTGGG | 1 cut(s) | 1368 |
| BpiI | GAAGAC | 2 cut(s) | 272, 1211 |
| BpmI | CTGGAG | 4 cut(s) | 297, 377, 722, 878 |
| Bpu10I | CCTNAGC | 1 cut(s) | 716 |
| BpuEI | CTTGAG | 1 cut(s) | 1095 |
| BpuMI | CCSGG | 4 cut(s) | 80, 220, 1348, 1349 |
| BsaHI | GRCGYC | 4 cut(s) | 482, 686, 819, 1143 |
| BsaI | GGTCTC | 3 cut(s) | 740, 749, 1361 |
| BsaWI | WCCGGW | 1 cut(s) | 112 |
| BsaXI | ACNNNNNCTCC | 4 cut(s) | 23, 53, 533, 563 |
| Bsc4I | CCNNNNNNNGG | 7 cut(s) | 106, 225, 300, 391, 765, 849, 1232 |
| Bse118I | RCCGGY | 1 cut(s) | 369 |
| Bse1I | ACTGG | 5 cut(s) | 100, 136, 314, 975, 1374 |
| BseBI | CCWGG | 2 cut(s) | 247, 301 |
| BseGI | GGATG | 5 cut(s) | 240, 843, 979, 1194, 1297 |
| BseLI | CCNNNNNNNGG | 7 cut(s) | 106, 225, 300, 391, 765, 849, 1232 |
| BseMII | CTCAG | 3 cut(s) | 197, 707, 1080 |
| BseNI | ACTGG | 5 cut(s) | 100, 136, 314, 975, 1374 |
| BseX3I | CGGCCG | 1 cut(s) | 1035 |
| BseXI | GCAGC | 9 cut(s) | 235, 322, 385, 706, 888, 891, 961, 1027, 1260 |
| BseYI | CCCAGC | 3 cut(s) | 60, 574, 988 |
| BsgI | GTGCAG | 2 cut(s) | 191, 968 |
| Bsh1236I | CGCG | 8 cut(s) | 252, 521, 604, 825, 899, 1178, 1321, 1389 |
| Bsh1285I | CGRYCG | 1 cut(s) | 1038 |
| BshFI | GGCC | 7 cut(s) | 35, 59, 299, 440, 794, 842, 1037 |
| BshNI | GGYRCC | 3 cut(s) | 271, 481, 1142 |
| BsiEI | CGRYCG | 1 cut(s) | 1038 |
| BsiHKAI | GWGCWC | 1 cut(s) | 1111 |
| BsiHKCI | CYCGRG | 2 cut(s) | 1226, 1347 |
| BsiSI | CCGG | 6 cut(s) | 80, 113, 219, 370, 847, 1348 |
| BslFI | GGGAC | 2 cut(s) | 193, 1267 |
| BslI | CCNNNNNNNGG | 7 cut(s) | 106, 225, 300, 391, 765, 849, 1232 |
| BsmAI | GTCTC | 8 cut(s) | 77, 144, 278, 740, 749, 880, 971, 1361 |
| BsmBI | CGTCTC | 3 cut(s) | 77, 880, 971 |
| BsmFI | GGGAC | 2 cut(s) | 193, 1267 |
| BsnI | GGCC | 7 cut(s) | 35, 59, 299, 440, 794, 842, 1037 |
| Bso31I | GGTCTC | 3 cut(s) | 740, 749, 1361 |
| BsoBI | CYCGRG | 2 cut(s) | 1226, 1347 |
| Bsp1286I | GDGCHC | 1 cut(s) | 1111 |
| Bsp143I | GATC | 6 cut(s) | 4, 496, 853, 894, 1396, 1413 |
| BspANI | GGCC | 7 cut(s) | 35, 59, 299, 440, 794, 842, 1037 |
| BspCNI | CTCAG | 3 cut(s) | 196, 708, 1081 |
| BspFNI | CGCG | 8 cut(s) | 252, 521, 604, 825, 899, 1178, 1321, 1389 |
| BspHI | TCATGA | 1 cut(s) | 528 |
| BspLI | GGNNCC | 8 cut(s) | 111, 273, 422, 483, 1144, 1282, 1283, 1393 |
| BspMAI | CTGCAG | 1 cut(s) | 909 |
| BspPI | GGATC | 3 cut(s) | 12, 861, 1408 |
| BspQI | GCTCTTC | 1 cut(s) | 705 |
| BspT107I | GGYRCC | 3 cut(s) | 271, 481, 1142 |
| BspTNI | GGTCTC | 3 cut(s) | 740, 749, 1361 |
| BsrBI | CCGCTC | 3 cut(s) | 571, 784, 913 |
| BsrFI | RCCGGY | 1 cut(s) | 369 |
| BsrI | ACTGG | 5 cut(s) | 100, 136, 314, 975, 1374 |
| BssAI | RCCGGY | 1 cut(s) | 369 |
| BssMI | GATC | 6 cut(s) | 4, 496, 853, 894, 1396, 1413 |
| BssNI | GRCGYC | 4 cut(s) | 482, 686, 819, 1143 |
| BssT1I | CCWWGG | 3 cut(s) | 145, 759, 795 |
| Bst2UI | CCWGG | 2 cut(s) | 247, 301 |
| Bst4CI | ACNGT | 4 cut(s) | 70, 169, 211, 271 |
| Bst6I | CTCTTC | 3 cut(s) | 390, 399, 705 |
| BstACI | GRCGYC | 4 cut(s) | 482, 686, 819, 1143 |
| BstDEI | CTNAG | 4 cut(s) | 183, 690, 716, 1089 |
| BstDSI | CCRYGG | 2 cut(s) | 69, 823 |
| BstF5I | GGATG | 5 cut(s) | 240, 843, 979, 1194, 1297 |
| BstFNI | CGCG | 8 cut(s) | 252, 521, 604, 825, 899, 1178, 1321, 1389 |
| BstH2I | RGCGCY | 4 cut(s) | 356, 370, 485, 1146 |
| BstHHI | GCGC | 9 cut(s) | 252, 355, 369, 484, 523, 606, 901, 1145, 1180 |
| BstKTI | GATC | 6 cut(s) | 7, 499, 856, 897, 1399, 1416 |
| BstMAI | GTCTC | 8 cut(s) | 77, 144, 278, 740, 749, 880, 971, 1361 |
| BstMBI | GATC | 6 cut(s) | 4, 496, 853, 894, 1396, 1413 |
| BstMCI | CGRYCG | 1 cut(s) | 1038 |
| BstNI | CCWGG | 2 cut(s) | 247, 301 |
| BstNSI | RCATGY | 1 cut(s) | 1129 |
| BstSCI | CCNGG | 6 cut(s) | 78, 218, 245, 299, 1346, 1347 |
| BstSFI | CTRYAG | 2 cut(s) | 905, 1362 |
| BstUI | CGCG | 8 cut(s) | 252, 521, 604, 825, 899, 1178, 1321, 1389 |
| BstV1I | GCAGC | 9 cut(s) | 235, 322, 385, 706, 888, 891, 961, 1027, 1260 |
| BstV2I | GAAGAC | 2 cut(s) | 272, 1211 |
| BstX2I | RGATCY | 1 cut(s) | 853 |
| BstYI | RGATCY | 1 cut(s) | 853 |
| BstZI | CGGCCG | 1 cut(s) | 1035 |
| BsuRI | GGCC | 7 cut(s) | 35, 59, 299, 440, 794, 842, 1037 |
| BtgI | CCRYGG | 2 cut(s) | 69, 823 |
| BtgZI | GCGATG | 2 cut(s) | 140, 1097 |
| BtrI | CACGTC | 2 cut(s) | 874, 1315 |
| BtsCI | GGATG | 5 cut(s) | 240, 843, 979, 1194, 1297 |
| BtsI | GCAGTG | 1 cut(s) | 471 |
| BtsIMutI | CAGTG | 3 cut(s) | 321, 471, 499 |
| CciI | TCATGA | 1 cut(s) | 528 |
| CciNI | GCGGCCGC | 1 cut(s) | 1035 |
| CfoI | GCGC | 9 cut(s) | 252, 355, 369, 484, 523, 606, 901, 1145, 1180 |
| Cfr10I | RCCGGY | 1 cut(s) | 369 |
| Cfr13I | GGNCC | 7 cut(s) | 58, 254, 330, 421, 439, 1281, 1392 |
| Cfr42I | CCGCGG | 1 cut(s) | 826 |
| Cfr9I | CCCGGG | 1 cut(s) | 1347 |
| CseI | GACGC | 2 cut(s) | 675, 1184 |
| Csp6I | GTAC | 4 cut(s) | 1026, 1072, 1344, 1359 |
| CviAII | CATG | 3 cut(s) | 37, 529, 1126 |
| CviQI | GTAC | 4 cut(s) | 1026, 1072, 1344, 1359 |
| DdeI | CTNAG | 4 cut(s) | 183, 690, 716, 1089 |
| DinI | GGCGCC | 2 cut(s) | 483, 1144 |
| DpnI | GATC | 6 cut(s) | 6, 498, 855, 896, 1398, 1415 |
| DpnII | GATC | 6 cut(s) | 4, 496, 853, 894, 1396, 1413 |
| DriI | GACNNNNNGTC | 1 cut(s) | 1374 |
| EaeI | YGGCCR | 3 cut(s) | 792, 840, 1035 |
| EagI | CGGCCG | 1 cut(s) | 1035 |
| Eam1104I | CTCTTC | 3 cut(s) | 390, 399, 705 |
| Eam1105I | GACNNNNNGTC | 1 cut(s) | 1374 |
| EarI | CTCTTC | 3 cut(s) | 390, 399, 705 |
| EciI | GGCGGA | 9 cut(s) | 26, 413, 485, 767, 788, 815, 1082, 1150, 1278 |
| EclXI | CGGCCG | 1 cut(s) | 1035 |
| Eco130I | CCWWGG | 3 cut(s) | 145, 759, 795 |
| Eco31I | GGTCTC | 3 cut(s) | 740, 749, 1361 |
| Eco47I | GGWCC | 5 cut(s) | 254, 330, 421, 1281, 1392 |
| Eco52I | CGGCCG | 1 cut(s) | 1035 |
| Eco57I | CTGAAG | 1 cut(s) | 616 |
| Eco88I | CYCGRG | 2 cut(s) | 1226, 1347 |
| EcoO109I | RGGNCCY | 1 cut(s) | 1281 |
| EcoRII | CCWGG | 2 cut(s) | 245, 299 |
| EcoT14I | CCWWGG | 3 cut(s) | 145, 759, 795 |
| EgeI | GGCGCC | 2 cut(s) | 483, 1144 |
| EheI | GGCGCC | 2 cut(s) | 483, 1144 |
| ErhI | CCWWGG | 3 cut(s) | 145, 759, 795 |
| Esp3I | CGTCTC | 3 cut(s) | 77, 880, 971 |
| FaeI | CATG | 3 cut(s) | 40, 532, 1129 |
| FaiI | YATR | 9 cut(s) | 38, 42, 530, 599, 674, 813, 1127, 1271, 1364 |
| FaqI | GGGAC | 2 cut(s) | 193, 1267 |
| FatI | CATG | 3 cut(s) | 36, 528, 1125 |
| FokI | GGATG | 5 cut(s) | 247, 830, 986, 1181, 1284 |
| FspBI | CTAG | 1 cut(s) | 1104 |
| GlaI | GCGC | 9 cut(s) | 251, 354, 368, 483, 522, 605, 900, 1144, 1179 |
| GsaI | CCCAGC | 3 cut(s) | 64, 578, 992 |
| GsuI | CTGGAG | 4 cut(s) | 297, 377, 722, 878 |
| HaeII | RGCGCY | 4 cut(s) | 356, 370, 485, 1146 |
| HaeIII | GGCC | 7 cut(s) | 35, 59, 299, 440, 794, 842, 1037 |
| HapII | CCGG | 6 cut(s) | 80, 113, 219, 370, 847, 1348 |
| HgaI | GACGC | 2 cut(s) | 675, 1184 |
| HhaI | GCGC | 9 cut(s) | 252, 355, 369, 484, 523, 606, 901, 1145, 1180 |
| Hin1I | GRCGYC | 4 cut(s) | 482, 686, 819, 1143 |
| Hin1II | CATG | 3 cut(s) | 40, 532, 1129 |
| Hin6I | GCGC | 9 cut(s) | 250, 353, 367, 482, 521, 604, 899, 1143, 1178 |
| HinP1I | GCGC | 9 cut(s) | 250, 353, 367, 482, 521, 604, 899, 1143, 1178 |
| HindIII | AAGCTT | 1 cut(s) | 1161 |
| HinfI | GANTC | 5 cut(s) | 181, 380, 503, 956, 1405 |
| HpaII | CCGG | 6 cut(s) | 80, 113, 219, 370, 847, 1348 |
| HphI | GGTGA | 6 cut(s) | 85, 130, 134, 317, 334, 1007 |
| Hpy166II | GTNNAC | 2 cut(s) | 76, 1123 |
| Hpy188I | TCNGA | 6 cut(s) | 106, 702, 731, 1312, 1380, 1396 |
| Hpy188III | TCNNGA | 5 cut(s) | 500, 529, 739, 857, 1226 |
| Hpy8I | GTNNAC | 2 cut(s) | 76, 1123 |
| Hpy99I | CGWCG | 3 cut(s) | 1178, 1312, 1384 |
| HpyAV | CCTTC | 9 cut(s) | 285, 430, 451, 530, 640, 1093, 1132, 1271, 1442 |
| HpyCH4III | ACNGT | 4 cut(s) | 70, 169, 211, 271 |
| HpyCH4IV | ACGT | 5 cut(s) | 86, 819, 873, 1119, 1314 |
| HpyCH4V | TGCA | 7 cut(s) | 172, 464, 667, 815, 907, 949, 1012 |
| HpyF3I | CTNAG | 4 cut(s) | 183, 690, 716, 1089 |
| HpySE526I | ACGT | 5 cut(s) | 86, 819, 873, 1119, 1314 |
| Hsp92I | GRCGYC | 4 cut(s) | 482, 686, 819, 1143 |
| Hsp92II | CATG | 3 cut(s) | 40, 532, 1129 |
| HspAI | GCGC | 9 cut(s) | 250, 353, 367, 482, 521, 604, 899, 1143, 1178 |
| KasI | GGCGCC | 2 cut(s) | 481, 1142 |
| KflI | GGGWCCC | 1 cut(s) | 1281 |
| KroI | GCCGGC | 1 cut(s) | 369 |
| KroNI | GCCGGC | 1 cut(s) | 371 |
| KspI | CCGCGG | 1 cut(s) | 826 |
| Kzo9I | GATC | 6 cut(s) | 4, 496, 853, 894, 1396, 1413 |
| LguI | GCTCTTC | 1 cut(s) | 705 |
| LmnI | GCTCC | 4 cut(s) | 541, 886, 910, 1228 |
| Lsp1109I | GCAGC | 9 cut(s) | 235, 322, 385, 706, 888, 891, 961, 1027, 1260 |
| LweI | GCATC | 5 cut(s) | 117, 225, 461, 1203, 1432 |
| MaeI | CTAG | 1 cut(s) | 1104 |
| MaeII | ACGT | 5 cut(s) | 86, 819, 873, 1119, 1314 |
| MaeIII | GTNAC | 3 cut(s) | 322, 806, 1406 |
| MalI | GATC | 6 cut(s) | 6, 498, 855, 896, 1398, 1415 |
| MbiI | CCGCTC | 3 cut(s) | 571, 784, 913 |
| MboI | GATC | 6 cut(s) | 4, 496, 853, 894, 1396, 1413 |
| MfeI | CAATTG | 1 cut(s) | 615 |
| MflI | RGATCY | 1 cut(s) | 853 |
| MhlI | GDGCHC | 1 cut(s) | 1111 |
| MlsI | TGGCCA | 2 cut(s) | 794, 842 |
| MluCI | AATT | 1 cut(s) | 615 |
| MluNI | TGGCCA | 2 cut(s) | 794, 842 |
| Mly113I | GGCGCC | 2 cut(s) | 482, 1143 |
| MlyI | GAGTC | 5 cut(s) | 175, 374, 497, 965, 1414 |
| MmeI | TCCRAC | 3 cut(s) | 864, 1290, 1403 |
| Mox20I | TGGCCA | 2 cut(s) | 794, 842 |
| MroNI | GCCGGC | 1 cut(s) | 369 |
| MscI | TGGCCA | 2 cut(s) | 794, 842 |
| MseI | TTAA | 1 cut(s) | 1002 |
| MslI | CAYNNNNRTG | 2 cut(s) | 564, 944 |
| Msp20I | TGGCCA | 2 cut(s) | 794, 842 |
| MspA1I | CMGCKG | 6 cut(s) | 226, 335, 825, 952, 1040, 1251 |
| MspI | CCGG | 6 cut(s) | 80, 113, 219, 370, 847, 1348 |
| MspR9I | CCNGG | 6 cut(s) | 80, 220, 247, 301, 1348, 1349 |
| MunI | CAATTG | 1 cut(s) | 615 |
| MvaI | CCWGG | 2 cut(s) | 247, 301 |
| MvnI | CGCG | 8 cut(s) | 252, 521, 604, 825, 899, 1178, 1321, 1389 |
| NaeI | GCCGGC | 1 cut(s) | 371 |
| NarI | GGCGCC | 2 cut(s) | 482, 1143 |
| NciI | CCSGG | 4 cut(s) | 80, 220, 1348, 1349 |
| NdeII | GATC | 6 cut(s) | 4, 496, 853, 894, 1396, 1413 |
| NgoMIV | GCCGGC | 1 cut(s) | 369 |
| NlaIII | CATG | 3 cut(s) | 40, 532, 1129 |
| NlaIV | GGNNCC | 8 cut(s) | 111, 273, 422, 483, 1144, 1282, 1283, 1393 |
| NmeAIII | GCCGAG | 3 cut(s) | 70, 415, 617 |
| NmuCI | GTSAC | 3 cut(s) | 322, 806, 1406 |
| NotI | GCGGCCGC | 1 cut(s) | 1035 |
| NspI | RCATGY | 1 cut(s) | 1129 |
| PagI | TCATGA | 1 cut(s) | 528 |
| PciI | ACATGT | 1 cut(s) | 1125 |
| PciSI | GCTCTTC | 1 cut(s) | 705 |
| PcsI | WCGNNNNNNNCGW | 1 cut(s) | 675 |
| PdiI | GCCGGC | 1 cut(s) | 371 |
| PleI | GAGTC | 5 cut(s) | 175, 374, 497, 964, 1413 |
| PluTI | GGCGCC | 2 cut(s) | 485, 1146 |
| PpsI | GAGTC | 5 cut(s) | 175, 374, 497, 964, 1413 |
| PpuMI | RGGWCCY | 1 cut(s) | 1281 |
| PscI | ACATGT | 1 cut(s) | 1125 |
| Psp5II | RGGWCCY | 1 cut(s) | 1281 |
| Psp6I | CCWGG | 2 cut(s) | 245, 299 |
| PspFI | CCCAGC | 3 cut(s) | 60, 574, 988 |
| PspGI | CCWGG | 2 cut(s) | 245, 299 |
| PspN4I | GGNNCC | 8 cut(s) | 111, 273, 422, 483, 1144, 1282, 1283, 1393 |
| PspPI | GGNCC | 7 cut(s) | 58, 254, 330, 421, 439, 1281, 1392 |
| PspPPI | RGGWCCY | 1 cut(s) | 1281 |
| PsrI | GAACNNNNNNTAC | 2 cut(s) | 199, 231 |
| PstI | CTGCAG | 1 cut(s) | 909 |
| PsuI | RGATCY | 1 cut(s) | 853 |
| RsaI | GTAC | 4 cut(s) | 1027, 1073, 1345, 1360 |
| RsaNI | GTAC | 4 cut(s) | 1026, 1072, 1344, 1359 |
| RseI | CAYNNNNRTG | 2 cut(s) | 564, 944 |
| SacII | CCGCGG | 1 cut(s) | 826 |
| SapI | GCTCTTC | 1 cut(s) | 705 |
| SaqAI | TTAA | 1 cut(s) | 1002 |
| Sau3AI | GATC | 6 cut(s) | 4, 496, 853, 894, 1396, 1413 |
| Sau96I | GGNCC | 7 cut(s) | 58, 254, 330, 421, 439, 1281, 1392 |
| SchI | GAGTC | 5 cut(s) | 175, 374, 497, 965, 1414 |
| ScrFI | CCNGG | 6 cut(s) | 80, 220, 247, 301, 1348, 1349 |
| SduI | GDGCHC | 1 cut(s) | 1111 |
| SfaNI | GCATC | 5 cut(s) | 117, 225, 461, 1203, 1432 |
| SfcI | CTRYAG | 2 cut(s) | 905, 1362 |
| SfoI | GGCGCC | 2 cut(s) | 483, 1144 |
| Sfr303I | CCGCGG | 1 cut(s) | 826 |
| SgrBI | CCGCGG | 1 cut(s) | 826 |
| SinI | GGWCC | 5 cut(s) | 254, 330, 421, 1281, 1392 |
| SmaI | CCCGGG | 1 cut(s) | 1349 |
| SmiMI | CAYNNNNRTG | 2 cut(s) | 564, 944 |
| SmlI | CTYRAG | 1 cut(s) | 1110 |
| SmoI | CTYRAG | 1 cut(s) | 1110 |
| Sse9I | AATT | 1 cut(s) | 615 |
| SspDI | GGCGCC | 2 cut(s) | 481, 1142 |
| SspMI | CTAG | 1 cut(s) | 1104 |
| StyD4I | CCNGG | 6 cut(s) | 78, 218, 245, 299, 1346, 1347 |
| StyI | CCWWGG | 3 cut(s) | 145, 759, 795 |
| TaaI | ACNGT | 4 cut(s) | 70, 169, 211, 271 |
| TaiI | ACGT | 5 cut(s) | 89, 822, 876, 1122, 1317 |
| TaqI | TCGA | 4 cut(s) | 455, 780, 1149, 1412 |
| TasI | AATT | 1 cut(s) | 615 |
| TatI | WGTACW | 1 cut(s) | 1071 |
| Tru1I | TTAA | 1 cut(s) | 1002 |
| Tru9I | TTAA | 1 cut(s) | 1002 |
| TscAI | CASTG | 3 cut(s) | 321, 471, 499 |
| TseFI | GTSAC | 3 cut(s) | 322, 806, 1406 |
| TseI | GCWGC | 9 cut(s) | 223, 335, 373, 694, 901, 904, 949, 1040, 1248 |
| Tsp45I | GTSAC | 3 cut(s) | 322, 806, 1406 |
| TspDTI | ATGAA | 2 cut(s) | 517, 882 |
| TspGWI | ACGGA | 3 cut(s) | 247, 296, 1229 |
| TspMI | CCCGGG | 1 cut(s) | 1347 |
| TspRI | CASTG | 3 cut(s) | 321, 471, 499 |
| VpaK11BI | GGWCC | 5 cut(s) | 254, 330, 421, 1281, 1392 |
| XceI | RCATGY | 1 cut(s) | 1129 |
| XcmI | CCANNNNNNNNNTGG | 2 cut(s) | 143, 766 |
| XmaI | CCCGGG | 1 cut(s) | 1347 |
| XspI | CTAG | 1 cut(s) | 1104 |
| ZraI | GACGTC | 1 cut(s) | 820 |