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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AasI | GACNNNNNNGTC | 1 cut(s) | 1347 |
| Acc36I | ACCTGC | 2 cut(s) | 1123, 1507 |
| Acc65I | GGTACC | 1 cut(s) | 211 |
| AccB1I | GGYRCC | 1 cut(s) | 211 |
| AccB7I | CCANNNNNTGG | 1 cut(s) | 1681 |
| AccBSI | CCGCTC | 1 cut(s) | 436 |
| AccII | CGCG | 8 cut(s) | 111, 457, 818, 1253, 1284, 1499, 1536, 1566 |
| AclI | AACGTT | 1 cut(s) | 1239 |
| AclWI | GGATC | 7 cut(s) | 65, 629, 941, 954, 1067, 1487, 1616 |
| AcoI | YGGCCR | 4 cut(s) | 187, 529, 555, 651 |
| AcsI | RAATTY | 2 cut(s) | 260, 1436 |
| AcuI | CTGAAG | 5 cut(s) | 615, 627, 756, 1005, 1449 |
| AcyI | GRCGYC | 1 cut(s) | 417 |
| AfaI | GTAC | 5 cut(s) | 213, 588, 1287, 1476, 1545 |
| AfiI | CCNNNNNNNGG | 8 cut(s) | 22, 509, 527, 560, 929, 1054, 1136, 1681 |
| AgeI | ACCGGT | 1 cut(s) | 1165 |
| AgsI | TTSAA | 1 cut(s) | 392 |
| Alw21I | GWGCWC | 6 cut(s) | 48, 165, 366, 463, 1387, 1458 |
| Alw26I | GTCTC | 4 cut(s) | 121, 310, 1550, 1758 |
| AlwI | GGATC | 7 cut(s) | 65, 629, 941, 954, 1067, 1487, 1616 |
| AlwNI | CAGNNNCTG | 1 cut(s) | 869 |
| ApaI | GGGCCC | 1 cut(s) | 824 |
| ApoI | RAATTY | 2 cut(s) | 260, 1436 |
| ArsI | GACNNNNNNTTYG | 2 cut(s) | 326, 358 |
| AsiGI | ACCGGT | 1 cut(s) | 1165 |
| Asp700I | GAANNNNTTC | 1 cut(s) | 1782 |
| Asp718I | GGTACC | 1 cut(s) | 211 |
| AspLEI | GCGC | 9 cut(s) | 113, 520, 808, 973, 1003, 1159, 1255, 1373, 1800 |
| AsuC2I | CCSGG | 4 cut(s) | 470, 930, 1161, 1368 |
| AsuHPI | GGTGA | 5 cut(s) | 543, 1103, 1589, 1613, 1699 |
| AsuNHI | GCTAGC | 1 cut(s) | 1814 |
| AvaII | GGWCC | 6 cut(s) | 270, 1163, 1349, 1519, 1600, 1629 |
| AxyI | CCTNAGG | 4 cut(s) | 411, 942, 1122, 1191 |
| BaeGI | GKGCMC | 3 cut(s) | 94, 824, 935 |
| BamHI | GGATCC | 1 cut(s) | 946 |
| BanI | GGYRCC | 1 cut(s) | 211 |
| BanII | GRGCYC | 7 cut(s) | 165, 366, 463, 824, 1086, 1387, 1458 |
| BauI | CACGAG | 1 cut(s) | 200 |
| BbsI | GAAGAC | 1 cut(s) | 1671 |
| Bbv12I | GWGCWC | 6 cut(s) | 48, 165, 366, 463, 1387, 1458 |
| BccI | CCATC | 4 cut(s) | 754, 848, 1393, 1430 |
| BceAI | ACGGC | 3 cut(s) | 1289, 1707, 1752 |
| BcgI | CGANNNNNNTGC | 4 cut(s) | 326, 360, 447, 481 |
| BciVI | GTATCC | 1 cut(s) | 387 |
| BcnI | CCSGG | 4 cut(s) | 470, 930, 1161, 1368 |
| BcoDI | GTCTC | 4 cut(s) | 121, 310, 1550, 1758 |
| BfaI | CTAG | 1 cut(s) | 1815 |
| BfmI | CTRYAG | 3 cut(s) | 657, 1050, 1334 |
| BfoI | RGCGCY | 2 cut(s) | 809, 1160 |
| BfuAI | ACCTGC | 2 cut(s) | 1123, 1507 |
| BfuI | GTATCC | 1 cut(s) | 387 |
| BglI | GCCNNNNNGGC | 2 cut(s) | 66, 98 |
| BlpI | GCTNAGC | 2 cut(s) | 862, 1080 |
| BmcAI | AGTACT | 1 cut(s) | 588 |
| Bme18I | GGWCC | 6 cut(s) | 270, 1163, 1349, 1519, 1600, 1629 |
| BmsI | GCATC | 4 cut(s) | 220, 492, 986, 1210 |
| BmtI | GCTAGC | 1 cut(s) | 1818 |
| BpiI | GAAGAC | 1 cut(s) | 1671 |
| BpmI | CTGGAG | 3 cut(s) | 489, 1631, 1721 |
| Bpu10I | CCTNAGC | 1 cut(s) | 365 |
| Bpu1102I | GCTNAGC | 2 cut(s) | 862, 1080 |
| BpuEI | CTTGAG | 4 cut(s) | 768, 975, 1371, 1752 |
| BpuMI | CCSGG | 4 cut(s) | 470, 930, 1161, 1368 |
| Bsa29I | ATCGAT | 1 cut(s) | 1482 |
| BsaHI | GRCGYC | 1 cut(s) | 417 |
| BsaI | GGTCTC | 1 cut(s) | 310 |
| BsaJI | CCNNGG | 6 cut(s) | 64, 144, 526, 816, 1303, 1345 |
| BsaWI | WCCGGW | 2 cut(s) | 328, 1165 |
| Bsc4I | CCNNNNNNNGG | 8 cut(s) | 22, 509, 527, 560, 929, 1054, 1136, 1681 |
| Bse118I | RCCGGY | 4 cut(s) | 185, 553, 1003, 1165 |
| Bse1I | ACTGG | 2 cut(s) | 215, 1704 |
| Bse21I | CCTNAGG | 4 cut(s) | 411, 942, 1122, 1191 |
| Bse3DI | GCAATG | 1 cut(s) | 1098 |
| BseCI | ATCGAT | 1 cut(s) | 1482 |
| BseDI | CCNNGG | 6 cut(s) | 64, 144, 526, 816, 1303, 1345 |
| BseGI | GGATG | 3 cut(s) | 337, 1635, 1834 |
| BseLI | CCNNNNNNNGG | 8 cut(s) | 22, 509, 527, 560, 929, 1054, 1136, 1681 |
| BseMI | GCAATG | 1 cut(s) | 1098 |
| BseNI | ACTGG | 2 cut(s) | 215, 1704 |
| BseRI | GAGGAG | 2 cut(s) | 1070, 1236 |
| BseSI | GKGCMC | 3 cut(s) | 94, 824, 935 |
| BseX3I | CGGCCG | 1 cut(s) | 555 |
| BsgI | GTGCAG | 2 cut(s) | 899, 942 |
| Bsh1236I | CGCG | 8 cut(s) | 111, 457, 818, 1253, 1284, 1499, 1536, 1566 |
| Bsh1285I | CGRYCG | 7 cut(s) | 88, 434, 558, 954, 1170, 1497, 1503 |
| BshNI | GGYRCC | 1 cut(s) | 211 |
| BshTI | ACCGGT | 1 cut(s) | 1165 |
| BshVI | ATCGAT | 1 cut(s) | 1482 |
| BsiEI | CGRYCG | 7 cut(s) | 88, 434, 558, 954, 1170, 1497, 1503 |
| BsiHKAI | GWGCWC | 6 cut(s) | 48, 165, 366, 463, 1387, 1458 |
| BsiSI | CCGG | 9 cut(s) | 186, 329, 470, 554, 929, 1004, 1160, 1166, 1367 |
| BslFI | GGGAC | 7 cut(s) | 203, 283, 1031, 1176, 1335, 1340, 1613 |
| BslI | CCNNNNNNNGG | 8 cut(s) | 22, 509, 527, 560, 929, 1054, 1136, 1681 |
| BsmAI | GTCTC | 4 cut(s) | 121, 310, 1550, 1758 |
| BsmFI | GGGAC | 7 cut(s) | 203, 283, 1031, 1176, 1335, 1340, 1613 |
| BsmI | GAATGC | 1 cut(s) | 922 |
| Bso31I | GGTCTC | 1 cut(s) | 310 |
| Bsp120I | GGGCCC | 1 cut(s) | 820 |
| Bsp1407I | TGTACA | 1 cut(s) | 1543 |
| Bsp143I | GATC | 9 cut(s) | 70, 634, 882, 946, 951, 1072, 1479, 1579, 1608 |
| Bsp1720I | GCTNAGC | 2 cut(s) | 862, 1080 |
| Bsp68I | TCGCGA | 1 cut(s) | 1566 |
| BspDI | ATCGAT | 1 cut(s) | 1482 |
| BspFNI | CGCG | 8 cut(s) | 111, 457, 818, 1253, 1284, 1499, 1536, 1566 |
| BspMAI | CTGCAG | 2 cut(s) | 1054, 1338 |
| BspMI | ACCTGC | 2 cut(s) | 1123, 1507 |
| BspOI | GCTAGC | 1 cut(s) | 1818 |
| BspPI | GGATC | 7 cut(s) | 65, 629, 941, 954, 1067, 1487, 1616 |
| BspQI | GCTCTTC | 1 cut(s) | 1704 |
| BspT107I | GGYRCC | 1 cut(s) | 211 |
| BspTNI | GGTCTC | 1 cut(s) | 310 |
| BsrBI | CCGCTC | 1 cut(s) | 436 |
| BsrDI | GCAATG | 1 cut(s) | 1098 |
| BsrFI | RCCGGY | 4 cut(s) | 185, 553, 1003, 1165 |
| BsrGI | TGTACA | 1 cut(s) | 1543 |
| BsrI | ACTGG | 2 cut(s) | 215, 1704 |
| BssAI | RCCGGY | 4 cut(s) | 185, 553, 1003, 1165 |
| BssECI | CCNNGG | 6 cut(s) | 64, 144, 526, 816, 1303, 1345 |
| BssMI | GATC | 9 cut(s) | 70, 634, 882, 946, 951, 1072, 1479, 1579, 1608 |
| BssNI | GRCGYC | 1 cut(s) | 417 |
| BssSI | CACGAG | 1 cut(s) | 200 |
| Bst2BI | CACGAG | 1 cut(s) | 200 |
| Bst4CI | ACNGT | 4 cut(s) | 11, 89, 545, 646 |
| Bst6I | CTCTTC | 2 cut(s) | 906, 1704 |
| BstACI | GRCGYC | 1 cut(s) | 417 |
| BstAPI | GCANNNNNTGC | 1 cut(s) | 590 |
| BstAUI | TGTACA | 1 cut(s) | 1543 |
| BstDSI | CCRYGG | 1 cut(s) | 816 |
| BstENI | CCTNNNNNAGG | 1 cut(s) | 507 |
| BstF5I | GGATG | 3 cut(s) | 337, 1635, 1834 |
| BstFNI | CGCG | 8 cut(s) | 111, 457, 818, 1253, 1284, 1499, 1536, 1566 |
| BstH2I | RGCGCY | 2 cut(s) | 809, 1160 |
| BstHHI | GCGC | 9 cut(s) | 113, 520, 808, 973, 1003, 1159, 1255, 1373, 1800 |
| BstKTI | GATC | 9 cut(s) | 73, 637, 885, 949, 954, 1075, 1482, 1582, 1611 |
| BstMAI | GTCTC | 4 cut(s) | 121, 310, 1550, 1758 |
| BstMBI | GATC | 9 cut(s) | 70, 634, 882, 946, 951, 1072, 1479, 1579, 1608 |
| BstMCI | CGRYCG | 7 cut(s) | 88, 434, 558, 954, 1170, 1497, 1503 |
| BstSFI | CTRYAG | 3 cut(s) | 657, 1050, 1334 |
| BstSLI | GKGCMC | 3 cut(s) | 94, 824, 935 |
| BstUI | CGCG | 8 cut(s) | 111, 457, 818, 1253, 1284, 1499, 1536, 1566 |
| BstV2I | GAAGAC | 1 cut(s) | 1671 |
| BstX2I | RGATCY | 2 cut(s) | 946, 1608 |
| BstYI | RGATCY | 2 cut(s) | 946, 1608 |
| BstZI | CGGCCG | 1 cut(s) | 555 |
| Bsu15I | ATCGAT | 1 cut(s) | 1482 |
| Bsu36I | CCTNAGG | 4 cut(s) | 411, 942, 1122, 1191 |
| BsuI | GTATCC | 1 cut(s) | 387 |
| BsuTUI | ATCGAT | 1 cut(s) | 1482 |
| BtgI | CCRYGG | 1 cut(s) | 816 |
| BtgZI | GCGATG | 2 cut(s) | 963, 1763 |
| BtsCI | GGATG | 3 cut(s) | 337, 1635, 1834 |
| BtsI | GCAGTG | 1 cut(s) | 1800 |
| BtsIMutI | CAGTG | 4 cut(s) | 550, 849, 1425, 1800 |
| BtuMI | TCGCGA | 1 cut(s) | 1566 |
| BveI | ACCTGC | 2 cut(s) | 1123, 1507 |
| CaiI | CAGNNNCTG | 1 cut(s) | 869 |
| CfoI | GCGC | 9 cut(s) | 113, 520, 808, 973, 1003, 1159, 1255, 1373, 1800 |
| Cfr10I | RCCGGY | 4 cut(s) | 185, 553, 1003, 1165 |
| Cfr42I | CCGCGG | 1 cut(s) | 819 |
| ClaI | ATCGAT | 1 cut(s) | 1482 |
| CseI | GACGC | 2 cut(s) | 425, 1820 |
| Csp6I | GTAC | 5 cut(s) | 212, 587, 1286, 1475, 1544 |
| CspAI | ACCGGT | 1 cut(s) | 1165 |
| CviAII | CATG | 5 cut(s) | 53, 120, 649, 689, 1853 |
| CviQI | GTAC | 5 cut(s) | 212, 587, 1286, 1475, 1544 |
| DpnI | GATC | 9 cut(s) | 72, 636, 884, 948, 953, 1074, 1481, 1581, 1610 |
| DpnII | GATC | 9 cut(s) | 70, 634, 882, 946, 951, 1072, 1479, 1579, 1608 |
| DrdI | GACNNNNNNGTC | 1 cut(s) | 1347 |
| DseDI | GACNNNNNNGTC | 1 cut(s) | 1347 |
| EaeI | YGGCCR | 4 cut(s) | 187, 529, 555, 651 |
| EagI | CGGCCG | 1 cut(s) | 555 |
| Eam1104I | CTCTTC | 2 cut(s) | 906, 1704 |
| EarI | CTCTTC | 2 cut(s) | 906, 1704 |
| Ecl136II | GAGCTC | 5 cut(s) | 163, 364, 461, 1385, 1456 |
| EclXI | CGGCCG | 1 cut(s) | 555 |
| Eco147I | AGGCCT | 1 cut(s) | 427 |
| Eco24I | GRGCYC | 7 cut(s) | 165, 366, 463, 824, 1086, 1387, 1458 |
| Eco31I | GGTCTC | 1 cut(s) | 310 |
| Eco47I | GGWCC | 6 cut(s) | 270, 1163, 1349, 1519, 1600, 1629 |
| Eco52I | CGGCCG | 1 cut(s) | 555 |
| Eco53kI | GAGCTC | 5 cut(s) | 163, 364, 461, 1385, 1456 |
| Eco57I | CTGAAG | 5 cut(s) | 615, 627, 756, 1005, 1449 |
| Eco81I | CCTNAGG | 4 cut(s) | 411, 942, 1122, 1191 |
| EcoICRI | GAGCTC | 5 cut(s) | 163, 364, 461, 1385, 1456 |
| EcoNI | CCTNNNNNAGG | 1 cut(s) | 507 |
| EcoO109I | RGGNCCY | 4 cut(s) | 821, 995, 1349, 1600 |
| EcoRI | GAATTC | 1 cut(s) | 1436 |
| EcoT38I | GRGCYC | 7 cut(s) | 165, 366, 463, 824, 1086, 1387, 1458 |
| FaeI | CATG | 5 cut(s) | 56, 123, 652, 692, 1856 |
| FalI | AAGNNNNNCTT | 2 cut(s) | 22, 54 |
| FaqI | GGGAC | 7 cut(s) | 203, 283, 1031, 1176, 1335, 1340, 1613 |
| FatI | CATG | 5 cut(s) | 52, 119, 648, 688, 1852 |
| FauI | CCCGC | 5 cut(s) | 101, 811, 823, 1093, 1849 |
| FauNDI | CATATG | 1 cut(s) | 754 |
| FokI | GGATG | 3 cut(s) | 344, 1622, 1841 |
| FriOI | GRGCYC | 7 cut(s) | 165, 366, 463, 824, 1086, 1387, 1458 |
| FspBI | CTAG | 1 cut(s) | 1815 |
| GlaI | GCGC | 9 cut(s) | 112, 519, 807, 972, 1002, 1158, 1254, 1372, 1799 |
| GsuI | CTGGAG | 3 cut(s) | 489, 1631, 1721 |
| HaeII | RGCGCY | 2 cut(s) | 809, 1160 |
| HapII | CCGG | 9 cut(s) | 186, 329, 470, 554, 929, 1004, 1160, 1166, 1367 |
| HgaI | GACGC | 2 cut(s) | 425, 1820 |
| HhaI | GCGC | 9 cut(s) | 113, 520, 808, 973, 1003, 1159, 1255, 1373, 1800 |
| Hin1I | GRCGYC | 1 cut(s) | 417 |
| Hin1II | CATG | 5 cut(s) | 56, 123, 652, 692, 1856 |
| Hin6I | GCGC | 9 cut(s) | 111, 518, 806, 971, 1001, 1157, 1253, 1371, 1798 |
| HinP1I | GCGC | 9 cut(s) | 111, 518, 806, 971, 1001, 1157, 1253, 1371, 1798 |
| HincII | GTYRAC | 2 cut(s) | 313, 385 |
| HindII | GTYRAC | 2 cut(s) | 313, 385 |
| HinfI | GANTC | 9 cut(s) | 33, 322, 370, 611, 1105, 1308, 1341, 1568, 1588 |
| HpaI | GTTAAC | 1 cut(s) | 313 |
| HpaII | CCGG | 9 cut(s) | 186, 329, 470, 554, 929, 1004, 1160, 1166, 1367 |
| HphI | GGTGA | 5 cut(s) | 543, 1103, 1589, 1613, 1699 |
| Hpy166II | GTNNAC | 3 cut(s) | 313, 385, 1009 |
| Hpy8I | GTNNAC | 3 cut(s) | 313, 385, 1009 |
| Hpy99I | CGWCG | 6 cut(s) | 269, 632, 635, 741, 1187, 1814 |
| HpyAV | CCTTC | 9 cut(s) | 48, 272, 503, 574, 698, 758, 935, 1088, 1634 |
| HpyCH4III | ACNGT | 4 cut(s) | 11, 89, 545, 646 |
| HpyCH4IV | ACGT | 2 cut(s) | 1044, 1239 |
| HpyCH4V | TGCA | 9 cut(s) | 205, 827, 880, 920, 959, 1052, 1154, 1336, 1462 |
| HpySE526I | ACGT | 2 cut(s) | 1044, 1239 |
| Hsp92I | GRCGYC | 1 cut(s) | 417 |
| Hsp92II | CATG | 5 cut(s) | 56, 123, 652, 692, 1856 |
| HspAI | GCGC | 9 cut(s) | 111, 518, 806, 971, 1001, 1157, 1253, 1371, 1798 |
| KflI | GGGWCCC | 1 cut(s) | 1349 |
| KpnI | GGTACC | 1 cut(s) | 215 |
| KroI | GCCGGC | 1 cut(s) | 185 |
| KroNI | GCCGGC | 1 cut(s) | 187 |
| KspAI | GTTAAC | 1 cut(s) | 313 |
| KspI | CCGCGG | 1 cut(s) | 819 |
| Kzo9I | GATC | 9 cut(s) | 70, 634, 882, 946, 951, 1072, 1479, 1579, 1608 |
| LguI | GCTCTTC | 1 cut(s) | 1704 |
| LmnI | GCTCC | 5 cut(s) | 51, 175, 441, 1303, 1702 |
| LweI | GCATC | 4 cut(s) | 220, 492, 986, 1210 |
| MaeI | CTAG | 1 cut(s) | 1815 |
| MaeII | ACGT | 2 cut(s) | 1044, 1239 |
| MaeIII | GTNAC | 3 cut(s) | 11, 1040, 1687 |
| MalI | GATC | 9 cut(s) | 72, 636, 884, 948, 953, 1074, 1481, 1581, 1610 |
| MbiI | CCGCTC | 1 cut(s) | 436 |
| MboI | GATC | 9 cut(s) | 70, 634, 882, 946, 951, 1072, 1479, 1579, 1608 |
| MfeI | CAATTG | 2 cut(s) | 206, 1676 |
| MflI | RGATCY | 2 cut(s) | 946, 1608 |
| MluCI | AATT | 8 cut(s) | 18, 191, 206, 238, 260, 489, 1436, 1676 |
| MlyI | GAGTC | 4 cut(s) | 316, 1317, 1335, 1562 |
| MmeI | TCCRAC | 2 cut(s) | 73, 108 |
| MroNI | GCCGGC | 1 cut(s) | 185 |
| MroXI | GAANNNNTTC | 1 cut(s) | 1782 |
| MseI | TTAA | 1 cut(s) | 312 |
| MspA1I | CMGCKG | 6 cut(s) | 560, 605, 776, 818, 1088, 1376 |
| MspI | CCGG | 9 cut(s) | 186, 329, 470, 554, 929, 1004, 1160, 1166, 1367 |
| MunI | CAATTG | 2 cut(s) | 206, 1676 |
| Mva1269I | GAATGC | 1 cut(s) | 922 |
| MvnI | CGCG | 8 cut(s) | 111, 457, 818, 1253, 1284, 1499, 1536, 1566 |
| NaeI | GCCGGC | 1 cut(s) | 187 |
| NciI | CCSGG | 4 cut(s) | 470, 930, 1161, 1368 |
| NdeI | CATATG | 1 cut(s) | 754 |
| NdeII | GATC | 9 cut(s) | 70, 634, 882, 946, 951, 1072, 1479, 1579, 1608 |
| NgoMIV | GCCGGC | 1 cut(s) | 185 |
| NheI | GCTAGC | 1 cut(s) | 1814 |
| NlaIII | CATG | 5 cut(s) | 56, 123, 652, 692, 1856 |
| NmeAIII | GCCGAG | 1 cut(s) | 169 |
| NmuCI | GTSAC | 2 cut(s) | 11, 1687 |
| NruI | TCGCGA | 1 cut(s) | 1566 |
| PceI | AGGCCT | 1 cut(s) | 427 |
| PciSI | GCTCTTC | 1 cut(s) | 1704 |
| PcsI | WCGNNNNNNNCGW | 2 cut(s) | 270, 1588 |
| PctI | GAATGC | 1 cut(s) | 922 |
| PdiI | GCCGGC | 1 cut(s) | 187 |
| PdmI | GAANNNNTTC | 1 cut(s) | 1782 |
| PfeI | GAWTC | 5 cut(s) | 33, 370, 611, 1105, 1588 |
| PflMI | CCANNNNNTGG | 1 cut(s) | 1681 |
| PinAI | ACCGGT | 1 cut(s) | 1165 |
| Ple19I | CGATCG | 1 cut(s) | 954 |
| PleI | GAGTC | 4 cut(s) | 316, 1316, 1335, 1562 |
| PpsI | GAGTC | 4 cut(s) | 316, 1316, 1335, 1562 |
| PpuMI | RGGWCCY | 2 cut(s) | 1349, 1600 |
| Psp124BI | GAGCTC | 5 cut(s) | 165, 366, 463, 1387, 1458 |
| Psp1406I | AACGTT | 1 cut(s) | 1239 |
| Psp5II | RGGWCCY | 2 cut(s) | 1349, 1600 |
| PspOMI | GGGCCC | 1 cut(s) | 820 |
| PspPPI | RGGWCCY | 2 cut(s) | 1349, 1600 |
| PstI | CTGCAG | 2 cut(s) | 1054, 1338 |
| PstNI | CAGNNNCTG | 1 cut(s) | 869 |
| PsuI | RGATCY | 2 cut(s) | 946, 1608 |
| PvuI | CGATCG | 1 cut(s) | 954 |
| PvuII | CAGCTG | 3 cut(s) | 605, 776, 1376 |
| RruI | TCGCGA | 1 cut(s) | 1566 |
| RsaI | GTAC | 5 cut(s) | 213, 588, 1287, 1476, 1545 |
| RsaNI | GTAC | 5 cut(s) | 212, 587, 1286, 1475, 1544 |
| SacI | GAGCTC | 5 cut(s) | 165, 366, 463, 1387, 1458 |
| SacII | CCGCGG | 1 cut(s) | 819 |
| SapI | GCTCTTC | 1 cut(s) | 1704 |
| SaqAI | TTAA | 1 cut(s) | 312 |
| Sau3AI | GATC | 9 cut(s) | 70, 634, 882, 946, 951, 1072, 1479, 1579, 1608 |
| ScaI | AGTACT | 1 cut(s) | 588 |
| SchI | GAGTC | 4 cut(s) | 316, 1317, 1335, 1562 |
| SfaNI | GCATC | 4 cut(s) | 220, 492, 986, 1210 |
| SfcI | CTRYAG | 3 cut(s) | 657, 1050, 1334 |
| Sfr303I | CCGCGG | 1 cut(s) | 819 |
| SgrBI | CCGCGG | 1 cut(s) | 819 |
| SinI | GGWCC | 6 cut(s) | 270, 1163, 1349, 1519, 1600, 1629 |
| SmlI | CTYRAG | 4 cut(s) | 783, 990, 1386, 1767 |
| SmoI | CTYRAG | 4 cut(s) | 783, 990, 1386, 1767 |
| Sse9I | AATT | 8 cut(s) | 18, 191, 206, 238, 260, 489, 1436, 1676 |
| SseBI | AGGCCT | 1 cut(s) | 427 |
| SspMI | CTAG | 1 cut(s) | 1815 |
| SstI | GAGCTC | 5 cut(s) | 165, 366, 463, 1387, 1458 |
| StuI | AGGCCT | 1 cut(s) | 427 |
| TaaI | ACNGT | 4 cut(s) | 11, 89, 545, 646 |
| TaiI | ACGT | 2 cut(s) | 1047, 1242 |
| TaqII | GACCGA | 2 cut(s) | 287, 741 |
| TasI | AATT | 8 cut(s) | 18, 191, 206, 238, 260, 489, 1436, 1676 |
| TatI | WGTACW | 2 cut(s) | 586, 1543 |
| TauI | GCSGC | 8 cut(s) | 143, 534, 537, 560, 656, 1413, 1539, 1808 |
| TfiI | GAWTC | 5 cut(s) | 33, 370, 611, 1105, 1588 |
| Tru1I | TTAA | 1 cut(s) | 312 |
| Tru9I | TTAA | 1 cut(s) | 312 |
| TscAI | CASTG | 4 cut(s) | 550, 856, 1432, 1807 |
| TseFI | GTSAC | 2 cut(s) | 11, 1687 |
| Tsp45I | GTSAC | 2 cut(s) | 11, 1687 |
| TspDTI | ATGAA | 5 cut(s) | 726, 918, 1035, 1500, 1845 |
| TspGWI | ACGGA | 4 cut(s) | 363, 923, 1492, 1621 |
| TspRI | CASTG | 4 cut(s) | 550, 856, 1432, 1807 |
| Van91I | CCANNNNNTGG | 1 cut(s) | 1681 |
| VpaK11BI | GGWCC | 6 cut(s) | 270, 1163, 1349, 1519, 1600, 1629 |
| XagI | CCTNNNNNAGG | 1 cut(s) | 507 |
| XapI | RAATTY | 2 cut(s) | 260, 1436 |
| XmnI | GAANNNNTTC | 1 cut(s) | 1782 |
| XspI | CTAG | 1 cut(s) | 1815 |
| ZrmI | AGTACT | 1 cut(s) | 588 |