In silico digests of human cDNA with TypeII restriction enzymes Analysis based on human genome version GRCh38 sequence and annotation The most inclusive isoforms are analyzed for alternatively spliced genes number of genes: 20,847 total cDNA length: 36,629,829 bp Calculations: FRAGMENTS = Summa(number_of_sites + 1), summed for all genes AVE_FRAG_LENGTH = (total cDNA length) / FRAGMENTS SITES_PER_Mbp = (total cDNA length) / number_of_sites # ENZYME SPECIFICITY FRAGMENTS AVE_FRAG_LENGTH SITES_PER_Mbp # MnlI CCTC 498836 73 13049.3 BthCI GCNGC 324813 112 8298.4 Fnu4HI GCNGC 324813 112 8298.4 ScrFI CCNGG 310289 118 7901.9 SsoII CCNGG 310289 118 7901.9 AciI CCGC 269087 136 6777.1 HaeIII GGCC 268915 136 6772.4 NlaIV GGNNCC 242828 150 6060.2 AluI AGCT 240836 152 6005.8 BbvI GCAGC 227404 161 5639.1 BstNI CCWGG 226357 161 5610.5 R1.BceSIV GCAGC 227404 161 5639.1 TseI GCWGC 227404 161 5639.1 MboII GAAGA 206235 177 5061.2 Cac8I GCNNGC 201272 181 4925.7 CviAII CATG 185743 197 4501.8 FatI CATG 185743 197 4501.8 NlaIII CATG 185743 197 4501.8 DdeI CTNAG 180511 202 4358.9 Hpy188I TCNGA 162893 224 3878.0 BspNCI CCAGA 161774 226 3847.4 Hin4II CCTTC 154179 237 3640.1 TspRI CASTG 152484 240 3593.8 HinfI GANTC 142395 257 3318.4 HpaII CCGG 142479 257 3320.7 BccI CCATC 135217 270 3122.4 BspKT6I GATC 135513 270 3130.5 MboI GATC 135513 270 3130.5 FokI GGATG 132876 275 3058.5 BsrI ACTGG 127644 286 2915.7 HhaI GCGC 120210 304 2712.7 HinP1I GCGC 120210 304 2712.7 MjaIV GTNNAC 115598 316 2586.8 HphI GGTGA 113578 322 2531.7 BscAI GCATC 107664 340 2370.2 SfaNI GCATC 107664 340 2370.2 AvaII GGWCC 105973 345 2324.0 MseI TTAA 99306 368 2142.0 CviQI GTAC 96035 381 2052.7 PabI GTAC 96035 381 2052.7 RsaI GTAC 96035 381 2052.7 BsmAI GTCTC 94948 385 2023.1 FauI CCCGC 91292 401 1923.2 Tsp45I GTSAC 87088 420 1808.5 MlyI GAGTC 84821 431 1746.6 PleI GAGTC 84821 431 1746.6 SfeI CTRYAG 83386 439 1707.4 TfiI GAWTC 78418 467 1571.8 FnuDII CGCG 77520 472 1547.3 EsaBC3I TCGA 75152 487 1482.6 TaqI TCGA 75152 487 1482.6 StyI CCWWGG 74511 491 1465.1 HgiCI GGYRCC 64405 568 1189.2 ApoI RAATTY 64164 570 1182.6 BceAI ACGGC 64103 571 1181.0 PstI CTGCAG 60664 603 1087.1 AvaI CYCGRG 59140 619 1045.5 PvuII CAGCTG 57674 635 1005.5 HaeII RGCGCY 56508 648 973.6 BscGI CCCGT 55951 654 958.4 HgaI GACGC 54821 668 927.6 BspMI ACCTGC 54214 675 911.0 SmlI CTYRAG 52504 697 864.3 NspI RCATGY 50843 720 819.0 PpuMI RGGWCCY 50200 729 801.4 BfiI ACTGGG 47720 767 733.7 Hpy99I CGWCG 42921 853 602.7 ApaI GGGCCC 40700 899 542.1 BsmI GAATGC 37937 965 466.6 BsrBI CCGCTC 37710 971 460.4 NcoI CCATGG 37640 973 458.5 StuI AGGCCT 37413 979 452.3 SacI GAGCTC 36202 1011 419.3 AflIII ACRYGT 36165 1012 418.3 EciI GGCGGA 35551 1030 401.5 SmaI CCCGGG 35320 1037 395.2 XmaI CCCGGG 35320 1037 395.2 BsaAI YACGTR 34282 1068 366.9 AccI GTMKAC 34033 1076 360.1 NaeI GCCGGC 33001 1109 331.9 SapI GCTCTTC 32914 1112 329.5 BglII AGATCT 32389 1130 315.2 KasI GGCGCC 32059 1142 306.2 NarI GGCGCC 32059 1142 306.2 BspHI TCATGA 31732 1154 297.2 HindIII AAGCTT 31195 1174 282.6 BamHI GGATCC 31098 1177 279.9 EcoRI GAATTC 30907 1185 274.7 BclI TGATCA 30685 1193 268.7 BciVI GTATCC 29718 1232 242.3 SspI AATATT 29591 1237 238.8 BstEII GGTNACC 29553 1239 237.8 ApaLI GTGCAC 29201 1254 228.1 SacII CCGCGG 28953 1265 221.4 SexAI ACCWGGT 28379 1290 205.7 SphI GCATGC 28100 1303 198.1 ScaI AGTACT 27460 1333 180.6 AvaIII ATGCAT 27280 1342 175.7 NdeI CATATG 26572 1378 156.4 EcoRV GATATC 26246 1395 147.5 KpnI GGTACC 26152 1400 144.9 MfeI CAATTG 25855 1416 136.8 XbaI TCTAGA 25810 1419 135.6 PsiI TTATAA 25776 1421 134.6 XhoI CTCGAG 25771 1421 134.5 AatII GACGTC 24977 1466 112.8 ZraI GACGTC 24977 1466 112.8 AflII CTTAAG 24630 1487 103.4 PspXI VCTCGAGB 23968 1528 85.3 AvrII CCTAGG 23680 1546 77.4 ClaI ATCGAT 23511 1557 72.8 NheI GCTAGC 23485 1559 72.1 HpaI GTTAAC 23289 1572 66.7 AgeI ACCGGT 22953 1595 57.6 SgrAI CRCCGGYG 22959 1595 57.7 AclI AACGTT 22920 1598 56.7 SpeI ACTAGT 22907 1599 56.3 SalI GTCGAC 22802 1606 53.5 NotI GCGGCCGC 22662 1616 49.6 FseI GGCCGGCC 22080 1658 33.7 RsrII CGGWCCG 22001 1664 31.6 MluI ACGCGT 21805 1679 26.2 SnaBI TACGTA 21759 1683 25.0 PvuI CGATCG 21732 1685 24.2 NruI TCGCGA 21704 1687 23.5 SwaI ATTTAAAT 21514 1702 18.3 AscI GGCGCGCC 21441 1708 16.3 PacI TTAATTAA 21076 1737 6.3 PmeI GTTTAAAC 21040 1740 5.4