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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AatII | GACGTC | 1 cut(s) | 1161 |
| Acc16I | TGCGCA | 1 cut(s) | 225 |
| AccB1I | GGYRCC | 2 cut(s) | 335, 431 |
| AccB7I | CCANNNNNTGG | 3 cut(s) | 159, 449, 496 |
| AccBSI | CCGCTC | 3 cut(s) | 244, 695, 1122 |
| AccI | GTMKAC | 1 cut(s) | 1343 |
| AccII | CGCG | 5 cut(s) | 187, 735, 742, 894, 1304 |
| AclWI | GGATC | 3 cut(s) | 49, 359, 1612 |
| AcoI | YGGCCR | 5 cut(s) | 3, 1110, 1275, 1593, 1647 |
| AcsI | RAATTY | 2 cut(s) | 72, 445 |
| AcuI | CTGAAG | 3 cut(s) | 66, 300, 1607 |
| AcyI | GRCGYC | 3 cut(s) | 870, 1158, 1421 |
| AfaI | GTAC | 5 cut(s) | 591, 629, 926, 1307, 1730 |
| AflIII | ACRYGT | 2 cut(s) | 185, 493 |
| AgsI | TTSAA | 1 cut(s) | 24 |
| AjiI | CACGTC | 1 cut(s) | 1261 |
| AjnI | CCWGG | 4 cut(s) | 327, 601, 912, 1530 |
| AluBI | AGCT | 2 cut(s) | 1507, 1706 |
| AluI | AGCT | 2 cut(s) | 1507, 1706 |
| Alw21I | GWGCWC | 2 cut(s) | 394, 1131 |
| Alw26I | GTCTC | 2 cut(s) | 833, 962 |
| Alw44I | GTGCAC | 2 cut(s) | 390, 1127 |
| AlwI | GGATC | 3 cut(s) | 49, 359, 1612 |
| AlwNI | CAGNNNCTG | 1 cut(s) | 1531 |
| Ama87I | CYCGRG | 2 cut(s) | 1244, 1434 |
| AoxI | GGCC | 9 cut(s) | 3, 975, 1110, 1209, 1275, 1374, 1473, 1593, 1647 |
| ApaI | GGGCCC | 1 cut(s) | 1213 |
| ApaLI | GTGCAC | 2 cut(s) | 390, 1127 |
| ApeKI | GCWGC | 9 cut(s) | 215, 221, 569, 1045, 1090, 1399, 1429, 1487, 1706 |
| ApoI | RAATTY | 2 cut(s) | 72, 445 |
| AsiSI | GCGATCGC | 1 cut(s) | 1713 |
| AspLEI | GCGC | 4 cut(s) | 226, 742, 896, 1146 |
| AspS9I | GGNCC | 8 cut(s) | 322, 549, 639, 889, 976, 1209, 1210, 1528 |
| AsuC2I | CCSGG | 6 cut(s) | 849, 866, 934, 1117, 1435, 1436 |
| AsuHPI | GGTGA | 5 cut(s) | 374, 428, 970, 1153, 1682 |
| AsuNHI | GCTAGC | 1 cut(s) | 860 |
| AvaI | CYCGRG | 2 cut(s) | 1244, 1434 |
| AvaII | GGWCC | 5 cut(s) | 322, 549, 639, 889, 1528 |
| BaeGI | GKGCMC | 4 cut(s) | 394, 1131, 1213, 1386 |
| BalI | TGGCCA | 1 cut(s) | 5 |
| BanI | GGYRCC | 2 cut(s) | 335, 431 |
| BanII | GRGCYC | 1 cut(s) | 1213 |
| BauI | CACGAG | 5 cut(s) | 393, 408, 828, 1279, 1403 |
| BbsI | GAAGAC | 2 cut(s) | 779, 956 |
| Bbv12I | GWGCWC | 2 cut(s) | 394, 1131 |
| BbvI | GCAGC | 9 cut(s) | 202, 208, 556, 1032, 1077, 1386, 1441, 1499, 1693 |
| BccI | CCATC | 3 cut(s) | 949, 1035, 1373 |
| BceAI | ACGGC | 6 cut(s) | 349, 372, 818, 1037, 1178, 1389 |
| BcgI | CGANNNNNNTGC | 2 cut(s) | 1235, 1269 |
| BciT130I | CCWGG | 4 cut(s) | 329, 603, 914, 1532 |
| BcnI | CCSGG | 6 cut(s) | 849, 866, 934, 1117, 1435, 1436 |
| BcoDI | GTCTC | 2 cut(s) | 833, 962 |
| BfaI | CTAG | 7 cut(s) | 122, 131, 201, 861, 1230, 1289, 1641 |
| BfmI | CTRYAG | 1 cut(s) | 1254 |
| BglI | GCCNNNNNGGC | 1 cut(s) | 1058 |
| Bme18I | GGWCC | 5 cut(s) | 322, 549, 639, 889, 1528 |
| BmeT110I | CYCGRG | 2 cut(s) | 1244, 1434 |
| BmgBI | CACGTC | 1 cut(s) | 1261 |
| BmgT120I | GGNCC | 8 cut(s) | 322, 549, 639, 889, 976, 1209, 1210, 1528 |
| BmsI | GCATC | 3 cut(s) | 496, 1180, 1483 |
| BmtI | GCTAGC | 1 cut(s) | 864 |
| BpiI | GAAGAC | 2 cut(s) | 779, 956 |
| BpmI | CTGGAG | 2 cut(s) | 311, 1685 |
| Bpu10I | CCTNAGC | 2 cut(s) | 980, 1692 |
| BpuMI | CCSGG | 6 cut(s) | 849, 866, 934, 1117, 1435, 1436 |
| BsaAI | YACGTR | 1 cut(s) | 593 |
| BsaHI | GRCGYC | 3 cut(s) | 870, 1158, 1421 |
| BsaJI | CCNNGG | 9 cut(s) | 158, 602, 885, 1194, 1245, 1433, 1434, 1498, 1650 |
| BsaXI | ACNNNNNCTCC | 4 cut(s) | 279, 309, 644, 674 |
| Bse1I | ACTGG | 4 cut(s) | 267, 589, 799, 1072 |
| BseBI | CCWGG | 4 cut(s) | 329, 603, 914, 1532 |
| BseDI | CCNNGG | 9 cut(s) | 158, 602, 885, 1194, 1245, 1433, 1434, 1498, 1650 |
| BseGI | GGATG | 1 cut(s) | 1195 |
| BseMII | CTCAG | 4 cut(s) | 300, 959, 981, 1676 |
| BseNI | ACTGG | 4 cut(s) | 267, 589, 799, 1072 |
| BseRI | GAGGAG | 1 cut(s) | 1199 |
| BseSI | GKGCMC | 4 cut(s) | 394, 1131, 1213, 1386 |
| BseXI | GCAGC | 9 cut(s) | 202, 208, 556, 1032, 1077, 1386, 1441, 1499, 1693 |
| BseYI | CCCAGC | 2 cut(s) | 798, 1147 |
| BsgI | GTGCAG | 2 cut(s) | 555, 1385 |
| Bsh1236I | CGCG | 5 cut(s) | 187, 735, 742, 894, 1304 |
| Bsh1285I | CGRYCG | 2 cut(s) | 1347, 1713 |
| BshFI | GGCC | 9 cut(s) | 5, 977, 1112, 1211, 1277, 1376, 1475, 1595, 1649 |
| BshNI | GGYRCC | 2 cut(s) | 335, 431 |
| BsiEI | CGRYCG | 2 cut(s) | 1347, 1713 |
| BsiHKAI | GWGCWC | 2 cut(s) | 394, 1131 |
| BsiHKCI | CYCGRG | 2 cut(s) | 1244, 1434 |
| BsiSI | CCGG | 6 cut(s) | 848, 865, 933, 1117, 1173, 1435 |
| BsiWI | CGTACG | 1 cut(s) | 1305 |
| BslFI | GGGAC | 4 cut(s) | 176, 562, 881, 1558 |
| BsmAI | GTCTC | 2 cut(s) | 833, 962 |
| BsmBI | CGTCTC | 1 cut(s) | 962 |
| BsmFI | GGGAC | 4 cut(s) | 176, 562, 881, 1558 |
| BsnI | GGCC | 9 cut(s) | 5, 977, 1112, 1211, 1277, 1376, 1475, 1595, 1649 |
| BsoBI | CYCGRG | 2 cut(s) | 1244, 1434 |
| Bsp120I | GGGCCC | 1 cut(s) | 1209 |
| Bsp1286I | GDGCHC | 4 cut(s) | 394, 1131, 1213, 1386 |
| Bsp1407I | TGTACA | 1 cut(s) | 924 |
| Bsp143I | GATC | 6 cut(s) | 41, 364, 1200, 1585, 1617, 1710 |
| Bsp19I | CCATGG | 1 cut(s) | 885 |
| BspANI | GGCC | 9 cut(s) | 5, 977, 1112, 1211, 1277, 1376, 1475, 1595, 1649 |
| BspCNI | CTCAG | 4 cut(s) | 301, 958, 982, 1677 |
| BspFNI | CGCG | 5 cut(s) | 187, 735, 742, 894, 1304 |
| BspMAI | CTGCAG | 1 cut(s) | 1258 |
| BspOI | GCTAGC | 1 cut(s) | 864 |
| BspPI | GGATC | 3 cut(s) | 49, 359, 1612 |
| BspQI | GCTCTTC | 1 cut(s) | 234 |
| BspT107I | GGYRCC | 2 cut(s) | 335, 431 |
| BsrBI | CCGCTC | 3 cut(s) | 244, 695, 1122 |
| BsrGI | TGTACA | 1 cut(s) | 924 |
| BsrI | ACTGG | 4 cut(s) | 267, 589, 799, 1072 |
| BssECI | CCNNGG | 9 cut(s) | 158, 602, 885, 1194, 1245, 1433, 1434, 1498, 1650 |
| BssMI | GATC | 6 cut(s) | 41, 364, 1200, 1585, 1617, 1710 |
| BssNI | GRCGYC | 3 cut(s) | 870, 1158, 1421 |
| BssSI | CACGAG | 5 cut(s) | 393, 408, 828, 1279, 1403 |
| BssT1I | CCWWGG | 1 cut(s) | 885 |
| Bst2BI | CACGAG | 5 cut(s) | 393, 408, 828, 1279, 1403 |
| Bst2UI | CCWGG | 4 cut(s) | 329, 603, 914, 1532 |
| Bst4CI | ACNGT | 5 cut(s) | 159, 557, 1141, 1348, 1481 |
| Bst6I | CTCTTC | 3 cut(s) | 234, 720, 1176 |
| BstACI | GRCGYC | 3 cut(s) | 870, 1158, 1421 |
| BstAPI | GCANNNNNTGC | 3 cut(s) | 232, 1070, 1493 |
| BstAUI | TGTACA | 1 cut(s) | 924 |
| BstBAI | YACGTR | 1 cut(s) | 593 |
| BstDEI | CTNAG | 6 cut(s) | 309, 945, 980, 990, 1685, 1692 |
| BstDSI | CCRYGG | 4 cut(s) | 158, 885, 1194, 1498 |
| BstEII | GGTNACC | 1 cut(s) | 416 |
| BstENI | CCTNNNNNAGG | 1 cut(s) | 1469 |
| BstF5I | GGATG | 1 cut(s) | 1195 |
| BstFNI | CGCG | 5 cut(s) | 187, 735, 742, 894, 1304 |
| BstHHI | GCGC | 4 cut(s) | 226, 742, 896, 1146 |
| BstKTI | GATC | 6 cut(s) | 44, 367, 1203, 1588, 1620, 1713 |
| BstMAI | GTCTC | 2 cut(s) | 833, 962 |
| BstMBI | GATC | 6 cut(s) | 41, 364, 1200, 1585, 1617, 1710 |
| BstMCI | CGRYCG | 2 cut(s) | 1347, 1713 |
| BstNI | CCWGG | 4 cut(s) | 329, 603, 914, 1532 |
| BstNSI | RCATGY | 1 cut(s) | 497 |
| BstPI | GGTNACC | 1 cut(s) | 416 |
| BstSFI | CTRYAG | 1 cut(s) | 1254 |
| BstSLI | GKGCMC | 4 cut(s) | 394, 1131, 1213, 1386 |
| BstUI | CGCG | 5 cut(s) | 187, 735, 742, 894, 1304 |
| BstV1I | GCAGC | 9 cut(s) | 202, 208, 556, 1032, 1077, 1386, 1441, 1499, 1693 |
| BstV2I | GAAGAC | 2 cut(s) | 779, 956 |
| BstX2I | RGATCY | 2 cut(s) | 41, 1617 |
| BstYI | RGATCY | 2 cut(s) | 41, 1617 |
| BsuRI | GGCC | 9 cut(s) | 5, 977, 1112, 1211, 1277, 1376, 1475, 1595, 1649 |
| BtgI | CCRYGG | 4 cut(s) | 158, 885, 1194, 1498 |
| BtrI | CACGTC | 1 cut(s) | 1261 |
| BtsCI | GGATG | 1 cut(s) | 1195 |
| BtsI | GCAGTG | 3 cut(s) | 34, 116, 1042 |
| BtsIMutI | CAGTG | 6 cut(s) | 34, 116, 274, 1042, 1146, 1757 |
| CaiI | CAGNNNCTG | 1 cut(s) | 1531 |
| CfoI | GCGC | 4 cut(s) | 226, 742, 896, 1146 |
| Cfr13I | GGNCC | 8 cut(s) | 322, 549, 639, 889, 976, 1209, 1210, 1528 |
| Cfr9I | CCCGGG | 1 cut(s) | 1434 |
| CseI | GACGC | 7 cut(s) | 80, 176, 521, 878, 979, 1410, 1493 |
| Csp6I | GTAC | 5 cut(s) | 590, 628, 925, 1306, 1729 |
| CviAII | CATG | 6 cut(s) | 104, 236, 494, 886, 922, 1012 |
| CviQI | GTAC | 5 cut(s) | 590, 628, 925, 1306, 1729 |
| DdeI | CTNAG | 6 cut(s) | 309, 945, 980, 990, 1685, 1692 |
| DpnI | GATC | 6 cut(s) | 43, 366, 1202, 1587, 1619, 1712 |
| DpnII | GATC | 6 cut(s) | 41, 364, 1200, 1585, 1617, 1710 |
| EaeI | YGGCCR | 5 cut(s) | 3, 1110, 1275, 1593, 1647 |
| Eam1104I | CTCTTC | 3 cut(s) | 234, 720, 1176 |
| EarI | CTCTTC | 3 cut(s) | 234, 720, 1176 |
| EciI | GGCGGA | 5 cut(s) | 80, 576, 775, 834, 1191 |
| Eco130I | CCWWGG | 1 cut(s) | 885 |
| Eco24I | GRGCYC | 1 cut(s) | 1213 |
| Eco47I | GGWCC | 5 cut(s) | 322, 549, 639, 889, 1528 |
| Eco57I | CTGAAG | 3 cut(s) | 66, 300, 1607 |
| Eco88I | CYCGRG | 2 cut(s) | 1244, 1434 |
| Eco91I | GGTNACC | 1 cut(s) | 416 |
| EcoNI | CCTNNNNNAGG | 1 cut(s) | 1469 |
| EcoO109I | RGGNCCY | 3 cut(s) | 322, 1209, 1528 |
| EcoO65I | GGTNACC | 1 cut(s) | 416 |
| EcoRII | CCWGG | 4 cut(s) | 327, 601, 912, 1530 |
| EcoT14I | CCWWGG | 1 cut(s) | 885 |
| EcoT22I | ATGCAT | 1 cut(s) | 237 |
| EcoT38I | GRGCYC | 1 cut(s) | 1213 |
| ErhI | CCWWGG | 1 cut(s) | 885 |
| Esp3I | CGTCTC | 1 cut(s) | 962 |
| FaeI | CATG | 6 cut(s) | 107, 239, 497, 889, 925, 1015 |
| FaqI | GGGAC | 4 cut(s) | 176, 562, 881, 1558 |
| FatI | CATG | 6 cut(s) | 103, 235, 493, 885, 921, 1011 |
| FauI | CCCGC | 7 cut(s) | 199, 346, 433, 628, 688, 1115, 1220 |
| FblI | GTMKAC | 1 cut(s) | 1343 |
| FokI | GGATG | 1 cut(s) | 1202 |
| FriOI | GRGCYC | 1 cut(s) | 1213 |
| FspBI | CTAG | 7 cut(s) | 122, 131, 201, 861, 1230, 1289, 1641 |
| FspI | TGCGCA | 1 cut(s) | 225 |
| GlaI | GCGC | 4 cut(s) | 225, 741, 895, 1145 |
| GsaI | CCCAGC | 2 cut(s) | 802, 1151 |
| GsuI | CTGGAG | 2 cut(s) | 311, 1685 |
| HaeIII | GGCC | 9 cut(s) | 5, 977, 1112, 1211, 1277, 1376, 1475, 1595, 1649 |
| HapII | CCGG | 6 cut(s) | 848, 865, 933, 1117, 1173, 1435 |
| HgaI | GACGC | 7 cut(s) | 80, 176, 521, 878, 979, 1410, 1493 |
| HhaI | GCGC | 4 cut(s) | 226, 742, 896, 1146 |
| Hin1I | GRCGYC | 3 cut(s) | 870, 1158, 1421 |
| Hin1II | CATG | 6 cut(s) | 107, 239, 497, 889, 925, 1015 |
| Hin6I | GCGC | 4 cut(s) | 224, 740, 894, 1144 |
| HinP1I | GCGC | 4 cut(s) | 224, 740, 894, 1144 |
| HincII | GTYRAC | 2 cut(s) | 1344, 1354 |
| HindII | GTYRAC | 2 cut(s) | 1344, 1354 |
| HpaII | CCGG | 6 cut(s) | 848, 865, 933, 1117, 1173, 1435 |
| HphI | GGTGA | 5 cut(s) | 374, 428, 970, 1153, 1682 |
| Hpy166II | GTNNAC | 7 cut(s) | 392, 590, 927, 961, 1129, 1344, 1354 |
| Hpy188I | TCNGA | 6 cut(s) | 41, 46, 676, 749, 948, 991 |
| Hpy188III | TCNNGA | 3 cut(s) | 191, 408, 719 |
| Hpy8I | GTNNAC | 7 cut(s) | 392, 590, 927, 961, 1129, 1344, 1354 |
| Hpy99I | CGWCG | 3 cut(s) | 661, 1352, 1426 |
| HpyAV | CCTTC | 4 cut(s) | 275, 1219, 1631, 1747 |
| HpyCH4III | ACNGT | 5 cut(s) | 159, 557, 1141, 1348, 1481 |
| HpyCH4IV | ACGT | 6 cut(s) | 9, 165, 592, 659, 1158, 1260 |
| HpyF3I | CTNAG | 6 cut(s) | 309, 945, 980, 990, 1685, 1692 |
| HpySE526I | ACGT | 6 cut(s) | 9, 165, 592, 659, 1158, 1260 |
| Hsp92I | GRCGYC | 3 cut(s) | 870, 1158, 1421 |
| Hsp92II | CATG | 6 cut(s) | 107, 239, 497, 889, 925, 1015 |
| HspAI | GCGC | 4 cut(s) | 224, 740, 894, 1144 |
| Kzo9I | GATC | 6 cut(s) | 41, 364, 1200, 1585, 1617, 1710 |
| LguI | GCTCTTC | 1 cut(s) | 234 |
| LmnI | GCTCC | 6 cut(s) | 652, 1119, 1243, 1561, 1584, 1698 |
| Lsp1109I | GCAGC | 9 cut(s) | 202, 208, 556, 1032, 1077, 1386, 1441, 1499, 1693 |
| LweI | GCATC | 3 cut(s) | 496, 1180, 1483 |
| MaeI | CTAG | 7 cut(s) | 122, 131, 201, 861, 1230, 1289, 1641 |
| MaeII | ACGT | 6 cut(s) | 9, 165, 592, 659, 1158, 1260 |
| MaeIII | GTNAC | 4 cut(s) | 416, 1037, 1159, 1481 |
| MalI | GATC | 6 cut(s) | 43, 366, 1202, 1587, 1619, 1712 |
| MbiI | CCGCTC | 3 cut(s) | 244, 695, 1122 |
| MboI | GATC | 6 cut(s) | 41, 364, 1200, 1585, 1617, 1710 |
| MboII | GAAGA | 6 cut(s) | 251, 734, 737, 779, 961, 1193 |
| MflI | RGATCY | 2 cut(s) | 41, 1617 |
| MhlI | GDGCHC | 4 cut(s) | 394, 1131, 1213, 1386 |
| MlsI | TGGCCA | 1 cut(s) | 5 |
| MluCI | AATT | 3 cut(s) | 72, 445, 1547 |
| MluI | ACGCGT | 1 cut(s) | 185 |
| MluNI | TGGCCA | 1 cut(s) | 5 |
| MlyI | GAGTC | 6 cut(s) | 77, 320, 709, 835, 1163, 1733 |
| MmeI | TCCRAC | 2 cut(s) | 666, 1539 |
| Mox20I | TGGCCA | 1 cut(s) | 5 |
| Mph1103I | ATGCAT | 1 cut(s) | 237 |
| MscI | TGGCCA | 1 cut(s) | 5 |
| MseI | TTAA | 2 cut(s) | 669, 1656 |
| Msp20I | TGGCCA | 1 cut(s) | 5 |
| MspA1I | CMGCKG | 3 cut(s) | 221, 428, 1151 |
| MspI | CCGG | 6 cut(s) | 848, 865, 933, 1117, 1173, 1435 |
| MvaI | CCWGG | 4 cut(s) | 329, 603, 914, 1532 |
| MvnI | CGCG | 5 cut(s) | 187, 735, 742, 894, 1304 |
| NciI | CCSGG | 6 cut(s) | 849, 866, 934, 1117, 1435, 1436 |
| NcoI | CCATGG | 1 cut(s) | 885 |
| NdeII | GATC | 6 cut(s) | 41, 364, 1200, 1585, 1617, 1710 |
| NheI | GCTAGC | 1 cut(s) | 860 |
| NlaIII | CATG | 6 cut(s) | 107, 239, 497, 889, 925, 1015 |
| NmeAIII | GCCGAG | 3 cut(s) | 1336, 1675, 1727 |
| NmuCI | GTSAC | 4 cut(s) | 416, 1037, 1159, 1481 |
| NsbI | TGCGCA | 1 cut(s) | 225 |
| NsiI | ATGCAT | 1 cut(s) | 237 |
| NspI | RCATGY | 1 cut(s) | 497 |
| PciI | ACATGT | 1 cut(s) | 493 |
| PciSI | GCTCTTC | 1 cut(s) | 234 |
| PcsI | WCGNNNNNNNCGW | 3 cut(s) | 92, 184, 339 |
| PfeI | GAWTC | 4 cut(s) | 763, 917, 1292, 1631 |
| Pfl23II | CGTACG | 1 cut(s) | 1305 |
| PflMI | CCANNNNNTGG | 3 cut(s) | 159, 449, 496 |
| PfoI | TCCNGGA | 2 cut(s) | 327, 912 |
| Ple19I | CGATCG | 1 cut(s) | 1713 |
| PleI | GAGTC | 6 cut(s) | 77, 319, 709, 835, 1163, 1732 |
| PpsI | GAGTC | 6 cut(s) | 77, 319, 709, 835, 1163, 1732 |
| Ppu21I | YACGTR | 1 cut(s) | 593 |
| PpuMI | RGGWCCY | 2 cut(s) | 322, 1528 |
| PscI | ACATGT | 1 cut(s) | 493 |
| Psp5II | RGGWCCY | 2 cut(s) | 322, 1528 |
| Psp6I | CCWGG | 4 cut(s) | 327, 601, 912, 1530 |
| PspEI | GGTNACC | 1 cut(s) | 416 |
| PspFI | CCCAGC | 2 cut(s) | 798, 1147 |
| PspGI | CCWGG | 4 cut(s) | 327, 601, 912, 1530 |
| PspLI | CGTACG | 1 cut(s) | 1305 |
| PspOMI | GGGCCC | 1 cut(s) | 1209 |
| PspPI | GGNCC | 8 cut(s) | 322, 549, 639, 889, 976, 1209, 1210, 1528 |
| PspPPI | RGGWCCY | 2 cut(s) | 322, 1528 |
| PstI | CTGCAG | 1 cut(s) | 1258 |
| PstNI | CAGNNNCTG | 1 cut(s) | 1531 |
| PsuI | RGATCY | 2 cut(s) | 41, 1617 |
| PvuI | CGATCG | 1 cut(s) | 1713 |
| RgaI | GCGATCGC | 1 cut(s) | 1713 |
| RsaI | GTAC | 5 cut(s) | 591, 629, 926, 1307, 1730 |
| RsaNI | GTAC | 5 cut(s) | 590, 628, 925, 1306, 1729 |
| SalI | GTCGAC | 1 cut(s) | 1342 |
| SapI | GCTCTTC | 1 cut(s) | 234 |
| SaqAI | TTAA | 2 cut(s) | 669, 1656 |
| Sau3AI | GATC | 6 cut(s) | 41, 364, 1200, 1585, 1617, 1710 |
| Sau96I | GGNCC | 8 cut(s) | 322, 549, 639, 889, 976, 1209, 1210, 1528 |
| SchI | GAGTC | 6 cut(s) | 77, 320, 709, 835, 1163, 1733 |
| SduI | GDGCHC | 4 cut(s) | 394, 1131, 1213, 1386 |
| SfaAI | GCGATCGC | 1 cut(s) | 1713 |
| SfaNI | GCATC | 3 cut(s) | 496, 1180, 1483 |
| SfcI | CTRYAG | 1 cut(s) | 1254 |
| SgfI | GCGATCGC | 1 cut(s) | 1713 |
| SinI | GGWCC | 5 cut(s) | 322, 549, 639, 889, 1528 |
| SmaI | CCCGGG | 1 cut(s) | 1436 |
| Sse9I | AATT | 3 cut(s) | 72, 445, 1547 |
| SspMI | CTAG | 7 cut(s) | 122, 131, 201, 861, 1230, 1289, 1641 |
| StyI | CCWWGG | 1 cut(s) | 885 |
| TaaI | ACNGT | 5 cut(s) | 159, 557, 1141, 1348, 1481 |
| TaiI | ACGT | 6 cut(s) | 12, 168, 595, 662, 1161, 1263 |
| TaqI | TCGA | 4 cut(s) | 720, 903, 1343, 1424 |
| TaqII | GACCGA | 1 cut(s) | 566 |
| TasI | AATT | 3 cut(s) | 72, 445, 1547 |
| TatI | WGTACW | 1 cut(s) | 924 |
| TfiI | GAWTC | 4 cut(s) | 763, 917, 1292, 1631 |
| Tru1I | TTAA | 2 cut(s) | 669, 1656 |
| Tru9I | TTAA | 2 cut(s) | 669, 1656 |
| TscAI | CASTG | 6 cut(s) | 34, 123, 274, 1042, 1146, 1764 |
| TseFI | GTSAC | 4 cut(s) | 416, 1037, 1159, 1481 |
| TseI | GCWGC | 9 cut(s) | 215, 221, 569, 1045, 1090, 1399, 1429, 1487, 1706 |
| Tsp45I | GTSAC | 4 cut(s) | 416, 1037, 1159, 1481 |
| TspDTI | ATGAA | 2 cut(s) | 252, 1284 |
| TspGWI | ACGGA | 3 cut(s) | 84, 1552, 1736 |
| TspMI | CCCGGG | 1 cut(s) | 1434 |
| TspRI | CASTG | 6 cut(s) | 34, 123, 274, 1042, 1146, 1764 |
| Van91I | CCANNNNNTGG | 3 cut(s) | 159, 449, 496 |
| VneI | GTGCAC | 2 cut(s) | 390, 1127 |
| VpaK11BI | GGWCC | 5 cut(s) | 322, 549, 639, 889, 1528 |
| XagI | CCTNNNNNAGG | 1 cut(s) | 1469 |
| XapI | RAATTY | 2 cut(s) | 72, 445 |
| XceI | RCATGY | 1 cut(s) | 497 |
| XcmI | CCANNNNNNNNNTGG | 1 cut(s) | 1028 |
| XmaI | CCCGGG | 1 cut(s) | 1434 |
| XmiI | GTMKAC | 1 cut(s) | 1343 |
| XspI | CTAG | 7 cut(s) | 122, 131, 201, 861, 1230, 1289, 1641 |
| ZraI | GACGTC | 1 cut(s) | 1159 |
| Zsp2I | ATGCAT | 1 cut(s) | 237 |