miRNA display CGI


Results 1 - 18 of 18 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
20875 3' -58.4 NC_004689.1 + 51105 0.66 0.661979
Target:  5'- uGCGCGucuGCGCa--GUGAUuuccaagUCUACGCc -3'
miRNA:   3'- gCGCGCu--CGCGgugCGCUA-------AGGUGCG- -5'
20875 3' -58.4 NC_004689.1 + 36393 0.66 0.631551
Target:  5'- uCGCGCuugcaGGCGCagggaauCGCGuc-CCACGCa -3'
miRNA:   3'- -GCGCGc----UCGCGgu-----GCGCuaaGGUGCG- -5'
20875 3' -58.4 NC_004689.1 + 43713 0.66 0.62945
Target:  5'- gCGCGCGuGUGcCCGCGCGcuagcucaccacUUCacaGCGCc -3'
miRNA:   3'- -GCGCGCuCGC-GGUGCGCu-----------AAGg--UGCG- -5'
20875 3' -58.4 NC_004689.1 + 36291 0.66 0.621049
Target:  5'- gCGCGCGGGgaaucgcaCGCCuguacGCGCGAacaaaCCAgGCg -3'
miRNA:   3'- -GCGCGCUC--------GCGG-----UGCGCUaa---GGUgCG- -5'
20875 3' -58.4 NC_004689.1 + 4446 0.66 0.610555
Target:  5'- gCGCuucuGCGuGCGCUgaguCGgGAUUCC-CGCa -3'
miRNA:   3'- -GCG----CGCuCGCGGu---GCgCUAAGGuGCG- -5'
20875 3' -58.4 NC_004689.1 + 52283 0.66 0.610555
Target:  5'- gGCGUGAGCGagaCCGUGCGG-UCCuuGCc -3'
miRNA:   3'- gCGCGCUCGC---GGUGCGCUaAGGugCG- -5'
20875 3' -58.4 NC_004689.1 + 40562 0.66 0.610555
Target:  5'- aGCGCGccuccgauuGCGCCAC-CGA--UCAUGCa -3'
miRNA:   3'- gCGCGCu--------CGCGGUGcGCUaaGGUGCG- -5'
20875 3' -58.4 NC_004689.1 + 33469 0.67 0.555407
Target:  5'- uGUGCuGGCucaagcacguacccGCCAUGCGggUCCAUGUu -3'
miRNA:   3'- gCGCGcUCG--------------CGGUGCGCuaAGGUGCG- -5'
20875 3' -58.4 NC_004689.1 + 6197 0.67 0.548218
Target:  5'- uGCGCGAcGgGCCAUGCc---CCACaGCg -3'
miRNA:   3'- gCGCGCU-CgCGGUGCGcuaaGGUG-CG- -5'
20875 3' -58.4 NC_004689.1 + 36244 0.68 0.497844
Target:  5'- aCGCGCGGaaauaaucgcGCGCauUACGCGAUcguuuaUCGCGCa -3'
miRNA:   3'- -GCGCGCU----------CGCG--GUGCGCUAa-----GGUGCG- -5'
20875 3' -58.4 NC_004689.1 + 36326 0.71 0.378266
Target:  5'- uCGCGCcuGUGUCACGCGGggaaUCGCGCc -3'
miRNA:   3'- -GCGCGcuCGCGGUGCGCUaa--GGUGCG- -5'
20875 3' -58.4 NC_004689.1 + 12282 0.72 0.32996
Target:  5'- aGCGUcGGCGUC-CGCGAggaacaUCCACGUg -3'
miRNA:   3'- gCGCGcUCGCGGuGCGCUa-----AGGUGCG- -5'
20875 3' -58.4 NC_004689.1 + 64013 0.73 0.279548
Target:  5'- aCGgGCGAuGCGCgCACcCuGUUCCACGCa -3'
miRNA:   3'- -GCgCGCU-CGCG-GUGcGcUAAGGUGCG- -5'
20875 3' -58.4 NC_004689.1 + 69146 0.73 0.279548
Target:  5'- aCGCaaGCGAGCGCCAgUGgGGUUgaguucaaCCACGCc -3'
miRNA:   3'- -GCG--CGCUCGCGGU-GCgCUAA--------GGUGCG- -5'
20875 3' -58.4 NC_004689.1 + 36529 0.74 0.229657
Target:  5'- aCGCGCGuGCG-CGCcCGAUaCCGCGCg -3'
miRNA:   3'- -GCGCGCuCGCgGUGcGCUAaGGUGCG- -5'
20875 3' -58.4 NC_004689.1 + 60535 0.75 0.202446
Target:  5'- gCGUGCGuAGCGaUCACGCGuguUUCCGCGa -3'
miRNA:   3'- -GCGCGC-UCGC-GGUGCGCu--AAGGUGCg -5'
20875 3' -58.4 NC_004689.1 + 36460 0.76 0.182734
Target:  5'- uCGCGUG-GCGCuCGCGCGuggaaucgcaUCCGCGCa -3'
miRNA:   3'- -GCGCGCuCGCG-GUGCGCua--------AGGUGCG- -5'
20875 3' -58.4 NC_004689.1 + 63131 0.78 0.133463
Target:  5'- gGUGCGAuUGCUGCGCGcAUUCCAUGCg -3'
miRNA:   3'- gCGCGCUcGCGGUGCGC-UAAGGUGCG- -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.