beta-galactosidase
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| Pol_BBD | PF22936 | 238 - 312 | 1.2e-16 | Pol polyprotein, beta-barrel domain |
| gag_pre-integrs | PF13976 | 343 - 415 | 3.9e-15 | GAG-pre-integrase domain |
| rve | PF00665 | 430 - 528 | 4.9e-12 | Integrase core domain |
| SH3_retrovirus | PF25597 | 615 - 672 | 1e-24 | Retroviral polymerase SH3-like domain |
| RVT_2 | PF07727 | 866 - 1109 | 2.6e-71 | Reverse transcriptase (RNA-dependent DNA polymerase) |
Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.
| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AccB7I | CCANNNNNTGG | 2 cut(s) | 1157, 2985 |
| AccBSI | CCGCTC | 1 cut(s) | 2065 |
| AccI | GTMKAC | 5 cut(s) | 1739, 2726, 2886, 3304, 3626 |
| AccIII | TCCGGA | 1 cut(s) | 144 |
| AciI | CCGC | 6 cut(s) | 287, 1009, 1615, 2065, 2625, 2810 |
| AcoI | YGGCCR | 1 cut(s) | 2772 |
| AcsI | RAATTY | 3 cut(s) | 2311, 3507, 3808 |
| AcuI | CTGAAG | 6 cut(s) | 639, 1718, 2852, 3080, 3615, 3972 |
| AcvI | CACGTG | 1 cut(s) | 3669 |
| AdeI | CACNNNGTG | 1 cut(s) | 3479 |
| AfiI | CCNNNNNNNGG | 7 cut(s) | 699, 830, 994, 1157, 2985, 3539, 3540 |
| AflII | CTTAAG | 1 cut(s) | 47 |
| AflIII | ACRYGT | 4 cut(s) | 1568, 2451, 3877, 3940 |
| AgeI | ACCGGT | 1 cut(s) | 3287 |
| AhdI | GACNNNNNGTC | 1 cut(s) | 1569 |
| AhlI | ACTAGT | 1 cut(s) | 2611 |
| AjnI | CCWGG | 3 cut(s) | 346, 2705, 2902 |
| AjuI | GAANNNNNNNTTGG | 2 cut(s) | 3191, 3223 |
| Alw21I | GWGCWC | 3 cut(s) | 441, 1271, 1657 |
| Alw26I | GTCTC | 6 cut(s) | 182, 389, 556, 2862, 3278, 4026 |
| AlwNI | CAGNNNCTG | 1 cut(s) | 3716 |
| Aor13HI | TCCGGA | 1 cut(s) | 144 |
| AoxI | GGCC | 3 cut(s) | 2427, 2772, 2825 |
| ApeKI | GCWGC | 4 cut(s) | 1402, 2165, 2675, 3830 |
| ApoI | RAATTY | 3 cut(s) | 2311, 3507, 3808 |
| ArsI | GACNNNNNNTTYG | 2 cut(s) | 534, 566 |
| AseI | ATTAAT | 1 cut(s) | 2277 |
| AsiGI | ACCGGT | 1 cut(s) | 3287 |
| Asp700I | GAANNNNTTC | 2 cut(s) | 2855, 3203 |
| AspS9I | GGNCC | 3 cut(s) | 34, 736, 1319 |
| AsuC2I | CCSGG | 5 cut(s) | 382, 422, 1381, 3131, 3534 |
| AsuHPI | GGTGA | 5 cut(s) | 58, 122, 758, 1520, 1691 |
| AvaII | GGWCC | 3 cut(s) | 34, 736, 1319 |
| AxyI | CCTNAGG | 1 cut(s) | 2256 |
| BalI | TGGCCA | 1 cut(s) | 2774 |
| BamHI | GGATCC | 1 cut(s) | 350 |
| BanII | GRGCYC | 2 cut(s) | 1271, 1657 |
| BbrPI | CACGTG | 1 cut(s) | 3669 |
| BbsI | GAAGAC | 2 cut(s) | 2061, 3530 |
| Bbv12I | GWGCWC | 3 cut(s) | 441, 1271, 1657 |
| BbvI | GCAGC | 4 cut(s) | 1389, 2177, 2687, 3842 |
| BcgI | CGANNNNNNTGC | 2 cut(s) | 242, 276 |
| BciT130I | CCWGG | 3 cut(s) | 348, 2707, 2904 |
| BciVI | GTATCC | 1 cut(s) | 3575 |
| BcnI | CCSGG | 5 cut(s) | 382, 422, 1381, 3131, 3534 |
| BcoDI | GTCTC | 6 cut(s) | 182, 389, 556, 2862, 3278, 4026 |
| BcuI | ACTAGT | 1 cut(s) | 2611 |
| BfmI | CTRYAG | 3 cut(s) | 1740, 1951, 2640 |
| BfrI | CTTAAG | 1 cut(s) | 47 |
| BfuI | GTATCC | 1 cut(s) | 3575 |
| BglI | GCCNNNNNGGC | 1 cut(s) | 792 |
| BglII | AGATCT | 2 cut(s) | 1119, 3184 |
| BisI | GCNGC | 5 cut(s) | 1403, 2166, 2676, 2811, 3831 |
| BlpI | GCTNAGC | 1 cut(s) | 210 |
| BlsI | GCNGC | 5 cut(s) | 1404, 2167, 2677, 2812, 3832 |
| BmcAI | AGTACT | 1 cut(s) | 2796 |
| Bme1390I | CCNGG | 8 cut(s) | 348, 382, 422, 1381, 2707, 2904, 3131, 3534 |
| Bme18I | GGWCC | 3 cut(s) | 34, 736, 1319 |
| BmeRI | GACNNNNNGTC | 1 cut(s) | 1569 |
| BmgT120I | GGNCC | 3 cut(s) | 34, 736, 1319 |
| BmiI | GGNNCC | 4 cut(s) | 36, 352, 1320, 2100 |
| BmrFI | CCNGG | 8 cut(s) | 348, 382, 422, 1381, 2707, 2904, 3131, 3534 |
| BmrI | ACTGGG | 2 cut(s) | 773, 1421 |
| BmuI | ACTGGG | 2 cut(s) | 773, 1421 |
| BpiI | GAAGAC | 2 cut(s) | 2061, 3530 |
| BpmI | CTGGAG | 3 cut(s) | 330, 852, 2178 |
| Bpu10I | CCTNAGC | 1 cut(s) | 1746 |
| Bpu1102I | GCTNAGC | 1 cut(s) | 210 |
| BpuEI | CTTGAG | 3 cut(s) | 26, 183, 531 |
| BpuMI | CCSGG | 5 cut(s) | 382, 422, 1381, 3131, 3534 |
| Bsa29I | ATCGAT | 1 cut(s) | 529 |
| BsaAI | YACGTR | 1 cut(s) | 3669 |
| BsaBI | GATNNNNATC | 1 cut(s) | 819 |
| BsaI | GGTCTC | 1 cut(s) | 3278 |
| BsaJI | CCNNGG | 6 cut(s) | 962, 1546, 1983, 2094, 2103, 2424 |
| BsaWI | WCCGGW | 2 cut(s) | 144, 3287 |
| BsaXI | ACNNNNNCTCC | 6 cut(s) | 276, 306, 1497, 1527, 2235, 2265 |
| Bsc4I | CCNNNNNNNGG | 7 cut(s) | 699, 830, 994, 1157, 2985, 3539, 3540 |
| Bse118I | RCCGGY | 2 cut(s) | 786, 3287 |
| Bse21I | CCTNAGG | 1 cut(s) | 2256 |
| Bse3DI | GCAATG | 3 cut(s) | 367, 2585, 3240 |
| Bse8I | GATNNNNATC | 1 cut(s) | 819 |
| BseAI | TCCGGA | 1 cut(s) | 144 |
| BseBI | CCWGG | 3 cut(s) | 348, 2707, 2904 |
| BseCI | ATCGAT | 1 cut(s) | 529 |
| BseDI | CCNNGG | 6 cut(s) | 962, 1546, 1983, 2094, 2103, 2424 |
| BseJI | GATNNNNATC | 1 cut(s) | 819 |
| BseLI | CCNNNNNNNGG | 7 cut(s) | 699, 830, 994, 1157, 2985, 3539, 3540 |
| BseMI | GCAATG | 3 cut(s) | 367, 2585, 3240 |
| BseMII | CTCAG | 6 cut(s) | 201, 569, 2247, 2744, 3503, 3708 |
| BseRI | GAGGAG | 2 cut(s) | 597, 1572 |
| BseXI | GCAGC | 4 cut(s) | 1389, 2177, 2687, 3842 |
| BseYI | CCCAGC | 1 cut(s) | 303 |
| BsgI | GTGCAG | 3 cut(s) | 2549, 3069, 3729 |
| BshFI | GGCC | 3 cut(s) | 2429, 2774, 2827 |
| BshTI | ACCGGT | 1 cut(s) | 3287 |
| BshVI | ATCGAT | 1 cut(s) | 529 |
| BsiHKAI | GWGCWC | 3 cut(s) | 441, 1271, 1657 |
| BsiSI | CCGG | 9 cut(s) | 145, 381, 422, 787, 1328, 1381, 3131, 3288, 3534 |
| BslFI | GGGAC | 3 cut(s) | 1158, 1332, 2959 |
| BslI | CCNNNNNNNGG | 7 cut(s) | 699, 830, 994, 1157, 2985, 3539, 3540 |
| BsmAI | GTCTC | 6 cut(s) | 182, 389, 556, 2862, 3278, 4026 |
| BsmFI | GGGAC | 3 cut(s) | 1158, 1332, 2959 |
| BsmI | GAATGC | 2 cut(s) | 2300, 2857 |
| BsnI | GGCC | 3 cut(s) | 2429, 2774, 2827 |
| Bso31I | GGTCTC | 1 cut(s) | 3278 |
| Bsp1286I | GDGCHC | 3 cut(s) | 441, 1271, 1657 |
| Bsp13I | TCCGGA | 1 cut(s) | 144 |
| Bsp1407I | TGTACA | 1 cut(s) | 1855 |
| Bsp1720I | GCTNAGC | 1 cut(s) | 210 |
| Bsp19I | CCATGG | 3 cut(s) | 1546, 1983, 2103 |
| BspACI | CCGC | 6 cut(s) | 287, 1009, 1615, 2065, 2625, 2810 |
| BspANI | GGCC | 3 cut(s) | 2429, 2774, 2827 |
| BspCNI | CTCAG | 6 cut(s) | 202, 570, 2248, 2743, 3504, 3709 |
| BspDI | ATCGAT | 1 cut(s) | 529 |
| BspEI | TCCGGA | 1 cut(s) | 144 |
| BspHI | TCATGA | 1 cut(s) | 645 |
| BspLI | GGNNCC | 4 cut(s) | 36, 352, 1320, 2100 |
| BspQI | GCTCTTC | 1 cut(s) | 2055 |
| BspTI | CTTAAG | 1 cut(s) | 47 |
| BspTNI | GGTCTC | 1 cut(s) | 3278 |
| BsrBI | CCGCTC | 1 cut(s) | 2065 |
| BsrDI | GCAATG | 3 cut(s) | 367, 2585, 3240 |
| BsrFI | RCCGGY | 2 cut(s) | 786, 3287 |
| BsrGI | TGTACA | 1 cut(s) | 1855 |
| BssAI | RCCGGY | 2 cut(s) | 786, 3287 |
| BssECI | CCNNGG | 6 cut(s) | 962, 1546, 1983, 2094, 2103, 2424 |
| BssNAI | GTATAC | 1 cut(s) | 2727 |
| BssT1I | CCWWGG | 5 cut(s) | 1546, 1983, 2094, 2103, 2424 |
| Bst1107I | GTATAC | 1 cut(s) | 2727 |
| Bst2UI | CCWGG | 3 cut(s) | 348, 2707, 2904 |
| Bst4CI | ACNGT | 8 cut(s) | 614, 877, 1188, 2788, 2802, 2973, 3018, 3054 |
| Bst6I | CTCTTC | 3 cut(s) | 180, 1181, 2055 |
| BstAFI | CTTAAG | 1 cut(s) | 47 |
| BstAPI | GCANNNNNTGC | 2 cut(s) | 369, 1227 |
| BstAUI | TGTACA | 1 cut(s) | 1855 |
| BstBAI | YACGTR | 1 cut(s) | 3669 |
| BstC8I | GCNNGC | 5 cut(s) | 167, 1057, 1636, 3401, 3471 |
| BstDSI | CCRYGG | 4 cut(s) | 962, 1546, 1983, 2103 |
| BstMAI | GTCTC | 6 cut(s) | 182, 389, 556, 2862, 3278, 4026 |
| BstNI | CCWGG | 3 cut(s) | 348, 2707, 2904 |
| BstNSI | RCATGY | 7 cut(s) | 1572, 2455, 3303, 3473, 3881, 3937, 3944 |
| BstSCI | CCNGG | 8 cut(s) | 346, 380, 420, 1379, 2705, 2902, 3129, 3532 |
| BstSFI | CTRYAG | 3 cut(s) | 1740, 1951, 2640 |
| BstV1I | GCAGC | 4 cut(s) | 1389, 2177, 2687, 3842 |
| BstV2I | GAAGAC | 2 cut(s) | 2061, 3530 |
| BstX2I | RGATCY | 9 cut(s) | 350, 839, 1119, 1392, 2413, 2655, 2893, 3184, 3701 |
| BstXI | CCANNNNNNTGG | 2 cut(s) | 413, 2120 |
| BstYI | RGATCY | 9 cut(s) | 350, 839, 1119, 1392, 2413, 2655, 2893, 3184, 3701 |
| BstZ17I | GTATAC | 1 cut(s) | 2727 |
| Bsu15I | ATCGAT | 1 cut(s) | 529 |
| Bsu36I | CCTNAGG | 1 cut(s) | 2256 |
| BsuI | GTATCC | 1 cut(s) | 3575 |
| BsuRI | GGCC | 3 cut(s) | 2429, 2774, 2827 |
| BsuTUI | ATCGAT | 1 cut(s) | 529 |
| BtgI | CCRYGG | 4 cut(s) | 962, 1546, 1983, 2103 |
| BtsI | GCAGTG | 3 cut(s) | 170, 1050, 2211 |
| Cac8I | GCNNGC | 5 cut(s) | 167, 1057, 1636, 3401, 3471 |
| CaiI | CAGNNNCTG | 1 cut(s) | 3716 |
| CciI | TCATGA | 1 cut(s) | 645 |
| Cfr10I | RCCGGY | 2 cut(s) | 786, 3287 |
| Cfr13I | GGNCC | 3 cut(s) | 34, 736, 1319 |
| ClaI | ATCGAT | 1 cut(s) | 529 |
| CseI | GACGC | 1 cut(s) | 2472 |
| CspAI | ACCGGT | 1 cut(s) | 3287 |
| DraI | TTTAAA | 1 cut(s) | 1216 |
| DraIII | CACNNNGTG | 1 cut(s) | 3479 |
| DriI | GACNNNNNGTC | 1 cut(s) | 1569 |
| EaeI | YGGCCR | 1 cut(s) | 2772 |
| Eam1104I | CTCTTC | 3 cut(s) | 180, 1181, 2055 |
| Eam1105I | GACNNNNNGTC | 1 cut(s) | 1569 |
| EarI | CTCTTC | 3 cut(s) | 180, 1181, 2055 |
| Ecl136II | GAGCTC | 2 cut(s) | 1269, 1655 |
| Eco130I | CCWWGG | 5 cut(s) | 1546, 1983, 2094, 2103, 2424 |
| Eco24I | GRGCYC | 2 cut(s) | 1271, 1657 |
| Eco31I | GGTCTC | 1 cut(s) | 3278 |
| Eco32I | GATATC | 3 cut(s) | 1943, 3383, 3970 |
| Eco47I | GGWCC | 3 cut(s) | 34, 736, 1319 |
| Eco53kI | GAGCTC | 2 cut(s) | 1269, 1655 |
| Eco57I | CTGAAG | 6 cut(s) | 639, 1718, 2852, 3080, 3615, 3972 |
| Eco72I | CACGTG | 1 cut(s) | 3669 |
| Eco81I | CCTNAGG | 1 cut(s) | 2256 |
| EcoICRI | GAGCTC | 2 cut(s) | 1269, 1655 |
| EcoO109I | RGGNCCY | 1 cut(s) | 1319 |
| EcoRI | GAATTC | 1 cut(s) | 3507 |
| EcoRII | CCWGG | 3 cut(s) | 346, 2705, 2902 |
| EcoRV | GATATC | 3 cut(s) | 1943, 3383, 3970 |
| EcoT14I | CCWWGG | 5 cut(s) | 1546, 1983, 2094, 2103, 2424 |
| EcoT22I | ATGCAT | 1 cut(s) | 3471 |
| EcoT38I | GRGCYC | 2 cut(s) | 1271, 1657 |
| ErhI | CCWWGG | 5 cut(s) | 1546, 1983, 2094, 2103, 2424 |
| FaqI | GGGAC | 3 cut(s) | 1158, 1332, 2959 |
| FauI | CCCGC | 2 cut(s) | 1002, 2632 |
| FauNDI | CATATG | 5 cut(s) | 741, 1659, 2479, 2737, 3439 |
| FblI | GTMKAC | 5 cut(s) | 1739, 2726, 2886, 3304, 3626 |
| Fnu4HI | GCNGC | 5 cut(s) | 1403, 2166, 2676, 2811, 3831 |
| FriOI | GRGCYC | 2 cut(s) | 1271, 1657 |
| Fsp4HI | GCNGC | 5 cut(s) | 1403, 2166, 2676, 2811, 3831 |
| GluI | GCNGC | 5 cut(s) | 1403, 2166, 2676, 2811, 3831 |
| GsaI | CCCAGC | 1 cut(s) | 307 |
| GsuI | CTGGAG | 3 cut(s) | 330, 852, 2178 |
| HaeIII | GGCC | 3 cut(s) | 2429, 2774, 2827 |
| HapII | CCGG | 9 cut(s) | 145, 381, 422, 787, 1328, 1381, 3131, 3288, 3534 |
| HgaI | GACGC | 1 cut(s) | 2472 |
| HincII | GTYRAC | 2 cut(s) | 2390, 3271 |
| HindII | GTYRAC | 2 cut(s) | 2390, 3271 |
| HindIII | AAGCTT | 1 cut(s) | 44 |
| HpaII | CCGG | 9 cut(s) | 145, 381, 422, 787, 1328, 1381, 3131, 3288, 3534 |
| HphI | GGTGA | 5 cut(s) | 58, 122, 758, 1520, 1691 |
| Hpy99I | CGWCG | 1 cut(s) | 1068 |
| HpyCH4III | ACNGT | 8 cut(s) | 614, 877, 1188, 2788, 2802, 2973, 3018, 3054 |
| HpyCH4IV | ACGT | 1 cut(s) | 3668 |
| HpySE526I | ACGT | 1 cut(s) | 3668 |
| Kpn2I | TCCGGA | 1 cut(s) | 144 |
| LguI | GCTCTTC | 1 cut(s) | 2055 |
| LmnI | GCTCC | 9 cut(s) | 19, 305, 436, 833, 1643, 1652, 2136, 2256, 3325 |
| Lsp1109I | GCAGC | 4 cut(s) | 1389, 2177, 2687, 3842 |
| MaeII | ACGT | 1 cut(s) | 3668 |
| MbiI | CCGCTC | 1 cut(s) | 2065 |
| MflI | RGATCY | 9 cut(s) | 350, 839, 1119, 1392, 2413, 2655, 2893, 3184, 3701 |
| MhlI | GDGCHC | 3 cut(s) | 441, 1271, 1657 |
| MlsI | TGGCCA | 1 cut(s) | 2774 |
| MluNI | TGGCCA | 1 cut(s) | 2774 |
| MlyI | GAGTC | 7 cut(s) | 53, 93, 150, 216, 1252, 1710, 3926 |
| MmeI | TCCRAC | 3 cut(s) | 1370, 1982, 3894 |
| Mox20I | TGGCCA | 1 cut(s) | 2774 |
| Mph1103I | ATGCAT | 1 cut(s) | 3471 |
| MroI | TCCGGA | 1 cut(s) | 144 |
| MroXI | GAANNNNTTC | 2 cut(s) | 2855, 3203 |
| MscI | TGGCCA | 1 cut(s) | 2774 |
| MseI | TTAA | 9 cut(s) | 48, 495, 696, 773, 1215, 1479, 1646, 2277, 3930 |
| MslI | CAYNNNNRTG | 9 cut(s) | 71, 135, 411, 1043, 1308, 1382, 2004, 2304, 3932 |
| Msp20I | TGGCCA | 1 cut(s) | 2774 |
| MspA1I | CMGCKG | 2 cut(s) | 2168, 2678 |
| MspCI | CTTAAG | 1 cut(s) | 47 |
| MspI | CCGG | 9 cut(s) | 145, 381, 422, 787, 1328, 1381, 3131, 3288, 3534 |
| MspR9I | CCNGG | 8 cut(s) | 348, 382, 422, 1381, 2707, 2904, 3131, 3534 |
| Mva1269I | GAATGC | 2 cut(s) | 2300, 2857 |
| MvaI | CCWGG | 3 cut(s) | 348, 2707, 2904 |
| NciI | CCSGG | 5 cut(s) | 382, 422, 1381, 3131, 3534 |
| NcoI | CCATGG | 3 cut(s) | 1546, 1983, 2103 |
| NdeI | CATATG | 5 cut(s) | 741, 1659, 2479, 2737, 3439 |
| NlaIV | GGNNCC | 4 cut(s) | 36, 352, 1320, 2100 |
| NmuCI | GTSAC | 5 cut(s) | 85, 2342, 3115, 3664, 3818 |
| NsiI | ATGCAT | 1 cut(s) | 3471 |
| NspI | RCATGY | 7 cut(s) | 1572, 2455, 3303, 3473, 3881, 3937, 3944 |
| PaeI | GCATGC | 1 cut(s) | 3473 |
| PagI | TCATGA | 1 cut(s) | 645 |
| PciI | ACATGT | 4 cut(s) | 1568, 2451, 3877, 3940 |
| PciSI | GCTCTTC | 1 cut(s) | 2055 |
| PctI | GAATGC | 2 cut(s) | 2300, 2857 |
| PdmI | GAANNNNTTC | 2 cut(s) | 2855, 3203 |
| PfeI | GAWTC | 9 cut(s) | 153, 722, 815, 1667, 2198, 2336, 2596, 2997, 3786 |
| PflFI | GACNNNGTC | 1 cut(s) | 1323 |
| PflMI | CCANNNNNTGG | 2 cut(s) | 1157, 2985 |
| PfoI | TCCNGGA | 2 cut(s) | 346, 420 |
| PinAI | ACCGGT | 1 cut(s) | 3287 |
| PkrI | GCNGC | 5 cut(s) | 1404, 2167, 2677, 2812, 3832 |
| PleI | GAGTC | 7 cut(s) | 53, 92, 149, 216, 1251, 1710, 3925 |
| PmaCI | CACGTG | 1 cut(s) | 3669 |
| PmlI | CACGTG | 1 cut(s) | 3669 |
| PpsI | GAGTC | 7 cut(s) | 53, 92, 149, 216, 1251, 1710, 3925 |
| Ppu21I | YACGTR | 1 cut(s) | 3669 |
| PpuMI | RGGWCCY | 1 cut(s) | 1319 |
| PscI | ACATGT | 4 cut(s) | 1568, 2451, 3877, 3940 |
| PshBI | ATTAAT | 1 cut(s) | 2277 |
| Psp124BI | GAGCTC | 2 cut(s) | 1271, 1657 |
| Psp5II | RGGWCCY | 1 cut(s) | 1319 |
| Psp6I | CCWGG | 3 cut(s) | 346, 2705, 2902 |
| PspCI | CACGTG | 1 cut(s) | 3669 |
| PspFI | CCCAGC | 1 cut(s) | 303 |
| PspGI | CCWGG | 3 cut(s) | 346, 2705, 2902 |
| PspN4I | GGNNCC | 4 cut(s) | 36, 352, 1320, 2100 |
| PspPI | GGNCC | 3 cut(s) | 34, 736, 1319 |
| PspPPI | RGGWCCY | 1 cut(s) | 1319 |
| PsrI | GAACNNNNNNTAC | 4 cut(s) | 652, 684, 1995, 2027 |
| PstNI | CAGNNNCTG | 1 cut(s) | 3716 |
| PsuI | RGATCY | 9 cut(s) | 350, 839, 1119, 1392, 2413, 2655, 2893, 3184, 3701 |
| PsyI | GACNNNGTC | 1 cut(s) | 1323 |
| PvuII | CAGCTG | 2 cut(s) | 2168, 2678 |
| RseI | CAYNNNNRTG | 9 cut(s) | 71, 135, 411, 1043, 1308, 1382, 2004, 2304, 3932 |
| SacI | GAGCTC | 2 cut(s) | 1271, 1657 |
| SapI | GCTCTTC | 1 cut(s) | 2055 |
| SaqAI | TTAA | 9 cut(s) | 48, 495, 696, 773, 1215, 1479, 1646, 2277, 3930 |
| SatI | GCNGC | 5 cut(s) | 1403, 2166, 2676, 2811, 3831 |
| Sau96I | GGNCC | 3 cut(s) | 34, 736, 1319 |
| ScaI | AGTACT | 1 cut(s) | 2796 |
| SchI | GAGTC | 7 cut(s) | 53, 93, 150, 216, 1252, 1710, 3926 |
| ScrFI | CCNGG | 8 cut(s) | 348, 382, 422, 1381, 2707, 2904, 3131, 3534 |
| SduI | GDGCHC | 3 cut(s) | 441, 1271, 1657 |
| SfcI | CTRYAG | 3 cut(s) | 1740, 1951, 2640 |
| SinI | GGWCC | 3 cut(s) | 34, 736, 1319 |
| SmiMI | CAYNNNNRTG | 9 cut(s) | 71, 135, 411, 1043, 1308, 1382, 2004, 2304, 3932 |
| SmlI | CTYRAG | 4 cut(s) | 41, 47, 198, 546 |
| SmoI | CTYRAG | 4 cut(s) | 41, 47, 198, 546 |
| SpeI | ACTAGT | 1 cut(s) | 2611 |
| SphI | GCATGC | 1 cut(s) | 3473 |
| SsiI | CCGC | 6 cut(s) | 287, 1009, 1615, 2065, 2625, 2810 |
| SspI | AATATT | 1 cut(s) | 763 |
| SstI | GAGCTC | 2 cut(s) | 1271, 1657 |
| StyD4I | CCNGG | 8 cut(s) | 346, 380, 420, 1379, 2705, 2902, 3129, 3532 |
| StyI | CCWWGG | 5 cut(s) | 1546, 1983, 2094, 2103, 2424 |
| TaaI | ACNGT | 8 cut(s) | 614, 877, 1188, 2788, 2802, 2973, 3018, 3054 |
| TaiI | ACGT | 1 cut(s) | 3671 |
| TaqI | TCGA | 8 cut(s) | 529, 584, 680, 1271, 1368, 1867, 2791, 3892 |
| TatI | WGTACW | 6 cut(s) | 472, 587, 1855, 2794, 3499, 3720 |
| TauI | GCSGC | 1 cut(s) | 2813 |
| TfiI | GAWTC | 9 cut(s) | 153, 722, 815, 1667, 2198, 2336, 2596, 2997, 3786 |
| Tru1I | TTAA | 9 cut(s) | 48, 495, 696, 773, 1215, 1479, 1646, 2277, 3930 |
| Tru9I | TTAA | 9 cut(s) | 48, 495, 696, 773, 1215, 1479, 1646, 2277, 3930 |
| TseFI | GTSAC | 5 cut(s) | 85, 2342, 3115, 3664, 3818 |
| TseI | GCWGC | 4 cut(s) | 1402, 2165, 2675, 3830 |
| Tsp45I | GTSAC | 5 cut(s) | 85, 2342, 3115, 3664, 3818 |
| TspGWI | ACGGA | 3 cut(s) | 284, 749, 1251 |
| Tth111I | GACNNNGTC | 1 cut(s) | 1323 |
| Van91I | CCANNNNNTGG | 2 cut(s) | 1157, 2985 |
| Vha464I | CTTAAG | 1 cut(s) | 47 |
| VpaK11BI | GGWCC | 3 cut(s) | 34, 736, 1319 |
| VspI | ATTAAT | 1 cut(s) | 2277 |
| XapI | RAATTY | 3 cut(s) | 2311, 3507, 3808 |
| XbaI | TCTAGA | 1 cut(s) | 1624 |
| XceI | RCATGY | 7 cut(s) | 1572, 2455, 3303, 3473, 3881, 3937, 3944 |
| XcmI | CCANNNNNNNNNTGG | 1 cut(s) | 1671 |
| XmiI | GTMKAC | 5 cut(s) | 1739, 2726, 2886, 3304, 3626 |
| XmnI | GAANNNNTTC | 2 cut(s) | 2855, 3203 |
| ZrmI | AGTACT | 1 cut(s) | 2796 |
| Zsp2I | ATGCAT | 1 cut(s) | 3471 |