miRNA display CGI


Results 1 - 20 of 33 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
24661 3' -52.1 NC_005264.1 + 162736 0.66 0.986555
Target:  5'- -gGAGCuCCAUGGGCUAgcuaucucugcAGGGCGAc- -3'
miRNA:   3'- ugCUCG-GGUACCUGGUa----------UUCUGCUau -5'
24661 3' -52.1 NC_005264.1 + 97058 0.66 0.984809
Target:  5'- --aAGCgCAUGGucuCCGUGAGGCGGa- -3'
miRNA:   3'- ugcUCGgGUACCu--GGUAUUCUGCUau -5'
24661 3' -52.1 NC_005264.1 + 97131 0.66 0.982896
Target:  5'- cUGAGCUCAaGGGCUAc-AGGCGGUAu -3'
miRNA:   3'- uGCUCGGGUaCCUGGUauUCUGCUAU- -5'
24661 3' -52.1 NC_005264.1 + 36305 0.66 0.982896
Target:  5'- -aGAGCCCGUaGAC---GAGGCGAUGg -3'
miRNA:   3'- ugCUCGGGUAcCUGguaUUCUGCUAU- -5'
24661 3' -52.1 NC_005264.1 + 80604 0.66 0.980144
Target:  5'- uCG-GCCCGggggggagcguucuUGGGCCccgAGGACGAUGg -3'
miRNA:   3'- uGCuCGGGU--------------ACCUGGua-UUCUGCUAU- -5'
24661 3' -52.1 NC_005264.1 + 28823 0.66 0.978532
Target:  5'- cUGAGCCCAUGGuacCCAUugccAGGCa--- -3'
miRNA:   3'- uGCUCGGGUACCu--GGUAu---UCUGcuau -5'
24661 3' -52.1 NC_005264.1 + 71558 0.66 0.977812
Target:  5'- -gGAGCUCGUgcacauccgcaucaGGACCA--AGACGGUGu -3'
miRNA:   3'- ugCUCGGGUA--------------CCUGGUauUCUGCUAU- -5'
24661 3' -52.1 NC_005264.1 + 11888 0.66 0.976064
Target:  5'- cCGAGCCgCGaGGGCCGUGGGAaaAUGc -3'
miRNA:   3'- uGCUCGG-GUaCCUGGUAUUCUgcUAU- -5'
24661 3' -52.1 NC_005264.1 + 130914 0.66 0.976064
Target:  5'- cCGAGCCgCGaGGGCCGUGGGAaaAUGc -3'
miRNA:   3'- uGCUCGG-GUaCCUGGUAUUCUgcUAU- -5'
24661 3' -52.1 NC_005264.1 + 54277 0.67 0.970515
Target:  5'- gGCGAGgaCCAUGG-CCAauuGGGCGAa- -3'
miRNA:   3'- -UGCUCg-GGUACCuGGUau-UCUGCUau -5'
24661 3' -52.1 NC_005264.1 + 103640 0.67 0.970515
Target:  5'- gUGGGCCUuguugGGGCCucGAGACGAg- -3'
miRNA:   3'- uGCUCGGGua---CCUGGuaUUCUGCUau -5'
24661 3' -52.1 NC_005264.1 + 128076 0.67 0.967419
Target:  5'- cACGAGCCUAgcguugaGGACCcgacgcgcugAGGACGAg- -3'
miRNA:   3'- -UGCUCGGGUa------CCUGGua--------UUCUGCUau -5'
24661 3' -52.1 NC_005264.1 + 9049 0.67 0.967419
Target:  5'- cACGAGCCUAgcguugaGGACCcgacgcgcugAGGACGAg- -3'
miRNA:   3'- -UGCUCGGGUa------CCUGGua--------UUCUGCUau -5'
24661 3' -52.1 NC_005264.1 + 12990 0.68 0.948476
Target:  5'- cGCGAGCCCGUucGAgCAcGAGGCGGa- -3'
miRNA:   3'- -UGCUCGGGUAc-CUgGUaUUCUGCUau -5'
24661 3' -52.1 NC_005264.1 + 132017 0.68 0.948476
Target:  5'- cGCGAGCCCGUucGAgCAcGAGGCGGa- -3'
miRNA:   3'- -UGCUCGGGUAc-CUgGUaUUCUGCUau -5'
24661 3' -52.1 NC_005264.1 + 91433 0.68 0.94396
Target:  5'- aACuGGUCCAUGGcCCuaGAGGCGAUGa -3'
miRNA:   3'- -UGcUCGGGUACCuGGuaUUCUGCUAU- -5'
24661 3' -52.1 NC_005264.1 + 115880 0.68 0.939681
Target:  5'- uCGAGCCCGccacccgggGGGCCAgugagcaacgccaagGAGACGAg- -3'
miRNA:   3'- uGCUCGGGUa--------CCUGGUa--------------UUCUGCUau -5'
24661 3' -52.1 NC_005264.1 + 118807 0.69 0.933657
Target:  5'- aGCGGccucuacGCCCAacggcUGGACgCAUGAGGCGGc- -3'
miRNA:   3'- -UGCU-------CGGGU-----ACCUG-GUAUUCUGCUau -5'
24661 3' -52.1 NC_005264.1 + 157361 0.69 0.928898
Target:  5'- gGCGGGCCC-UGG-CCGUGaugcuGGGCGGc- -3'
miRNA:   3'- -UGCUCGGGuACCuGGUAU-----UCUGCUau -5'
24661 3' -52.1 NC_005264.1 + 38334 0.69 0.928898
Target:  5'- gGCGGGCCC-UGG-CCGUGaugcuGGGCGGc- -3'
miRNA:   3'- -UGCUCGGGuACCuGGUAU-----UCUGCUau -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.