miRNA display CGI


Results 1 - 20 of 21 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
1513 3' -62.8 NC_001335.1 + 2370 0.66 0.347509
Target:  5'- cUCGCGGcGAaguucagccucGACCucGCUGGCCCgCuGGGCu -3'
miRNA:   3'- -AGCGCU-CU-----------CUGGu-CGGCCGGG-G-UCCG- -5'
1513 3' -62.8 NC_001335.1 + 1077 0.66 0.339619
Target:  5'- cCGaUGGGAGGCCggggaaguaaAGgCGGCCCC-GGUc -3'
miRNA:   3'- aGC-GCUCUCUGG----------UCgGCCGGGGuCCG- -5'
1513 3' -62.8 NC_001335.1 + 11591 0.66 0.331861
Target:  5'- gUGCGGGAucuucuGGCCGGUCGuGCCCauCGGGa -3'
miRNA:   3'- aGCGCUCU------CUGGUCGGC-CGGG--GUCCg -5'
1513 3' -62.8 NC_001335.1 + 34039 0.66 0.331092
Target:  5'- cUCGCGGGcGACCGcgaagcuGCCGuaGCCCUccuuGGCc -3'
miRNA:   3'- -AGCGCUCuCUGGU-------CGGC--CGGGGu---CCG- -5'
1513 3' -62.8 NC_001335.1 + 606 0.67 0.295035
Target:  5'- cCGCGAGAuaGGCCGGCacgaagucgguCGGCCgCAGa- -3'
miRNA:   3'- aGCGCUCU--CUGGUCG-----------GCCGGgGUCcg -5'
1513 3' -62.8 NC_001335.1 + 48290 0.67 0.281221
Target:  5'- gUCGCGGccGGCCGGCCGaaccacaCCCUuGGCg -3'
miRNA:   3'- -AGCGCUcuCUGGUCGGCc------GGGGuCCG- -5'
1513 3' -62.8 NC_001335.1 + 17113 0.67 0.281221
Target:  5'- aCGUacuGGuGACCAGuCUGGCCCCGcacaucccGGCg -3'
miRNA:   3'- aGCGc--UCuCUGGUC-GGCCGGGGU--------CCG- -5'
1513 3' -62.8 NC_001335.1 + 41510 0.67 0.277178
Target:  5'- cUC-CGAcGAGGCCagcuaguccuggucuGcGCCGGCCCC-GGCa -3'
miRNA:   3'- -AGcGCU-CUCUGG---------------U-CGGCCGGGGuCCG- -5'
1513 3' -62.8 NC_001335.1 + 4594 0.67 0.274508
Target:  5'- cCGCGAGAGAgCgCAGUgGGUCCacgacauGGCc -3'
miRNA:   3'- aGCGCUCUCU-G-GUCGgCCGGGgu-----CCG- -5'
1513 3' -62.8 NC_001335.1 + 33115 0.68 0.260831
Target:  5'- cCGCGAaccucuuGAGAUCGGCugcgacauccuCGGCCUCguAGGCg -3'
miRNA:   3'- aGCGCU-------CUCUGGUCG-----------GCCGGGG--UCCG- -5'
1513 3' -62.8 NC_001335.1 + 12925 0.68 0.257658
Target:  5'- gCGCGAGcGACCGacaCCGcGCCCCGauugucuauccgccuGGCa -3'
miRNA:   3'- aGCGCUCuCUGGUc--GGC-CGGGGU---------------CCG- -5'
1513 3' -62.8 NC_001335.1 + 30019 0.68 0.248939
Target:  5'- -aGCGAGuGcccgaACCcGCCGGCCUCgaaGGGCc -3'
miRNA:   3'- agCGCUCuC-----UGGuCGGCCGGGG---UCCG- -5'
1513 3' -62.8 NC_001335.1 + 41672 0.68 0.23108
Target:  5'- aCGCcuGGGGCCGGCUGGUCUCucGCg -3'
miRNA:   3'- aGCGcuCUCUGGUCGGCCGGGGucCG- -5'
1513 3' -62.8 NC_001335.1 + 32985 0.69 0.211087
Target:  5'- cCGUG-GAGcaccgccccugcccaGCCcgAGCCGGCCCC-GGCu -3'
miRNA:   3'- aGCGCuCUC---------------UGG--UCGGCCGGGGuCCG- -5'
1513 3' -62.8 NC_001335.1 + 6928 0.69 0.20896
Target:  5'- cCGCGAGGgcguGAUCcGCCGGCUCaaGGGCu -3'
miRNA:   3'- aGCGCUCU----CUGGuCGGCCGGGg-UCCG- -5'
1513 3' -62.8 NC_001335.1 + 39587 0.7 0.19359
Target:  5'- aUGCGAGAGGCCgaaagGGCCGGCauuCCCGu-- -3'
miRNA:   3'- aGCGCUCUCUGG-----UCGGCCG---GGGUccg -5'
1513 3' -62.8 NC_001335.1 + 31062 0.7 0.174643
Target:  5'- cUUGCGGuucGGCCggcucgGGCCGGUCUCAGGCu -3'
miRNA:   3'- -AGCGCUcu-CUGG------UCGGCCGGGGUCCG- -5'
1513 3' -62.8 NC_001335.1 + 7587 0.71 0.157366
Target:  5'- cCGCGAG-GGCCuGCUcaucGCCCgAGGCg -3'
miRNA:   3'- aGCGCUCuCUGGuCGGc---CGGGgUCCG- -5'
1513 3' -62.8 NC_001335.1 + 14775 0.71 0.143911
Target:  5'- gUCGCGGcGAacuCCAGCCuugugggcgugauGCCCCAGGCg -3'
miRNA:   3'- -AGCGCU-CUcu-GGUCGGc------------CGGGGUCCG- -5'
1513 3' -62.8 NC_001335.1 + 2479 0.76 0.070121
Target:  5'- gCGCGGGAacGACCacAGCCGGUCCaaucugCAGGCa -3'
miRNA:   3'- aGCGCUCU--CUGG--UCGGCCGGG------GUCCG- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.