miRNA display CGI


Results 1 - 20 of 55 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
13007 5' -56.5 NC_003387.1 + 52635 1.12 0.000412
Target:  5'- uGCAGGGGAGUCGAGCCAGCAAACGCCc -3'
miRNA:   3'- -CGUCCCCUCAGCUCGGUCGUUUGCGG- -5'
13007 5' -56.5 NC_003387.1 + 31031 0.68 0.522784
Target:  5'- nCGGGGcGG-CG-GCCAGCAcggcaccGGCGCCg -3'
miRNA:   3'- cGUCCCcUCaGCuCGGUCGU-------UUGCGG- -5'
13007 5' -56.5 NC_003387.1 + 4277 0.69 0.48251
Target:  5'- cGCGGGcgauGGAGgccgCGGGCgAGCA-GCGCa -3'
miRNA:   3'- -CGUCC----CCUCa---GCUCGgUCGUuUGCGg -5'
13007 5' -56.5 NC_003387.1 + 622 0.69 0.442825
Target:  5'- aGCAGGGcGAGggcagCGucgccGCCgcGGCAgcGACGCCc -3'
miRNA:   3'- -CGUCCC-CUCa----GCu----CGG--UCGU--UUGCGG- -5'
13007 5' -56.5 NC_003387.1 + 52591 0.7 0.386936
Target:  5'- cGCccGGcGAG-CGAGCuCAGCAAacACGCCc -3'
miRNA:   3'- -CGucCC-CUCaGCUCG-GUCGUU--UGCGG- -5'
13007 5' -56.5 NC_003387.1 + 30992 0.7 0.378083
Target:  5'- cGCAguuGGGGccgaggucaGGaUCGGGCCgAGCGuGCGCCg -3'
miRNA:   3'- -CGU---CCCC---------UC-AGCUCGG-UCGUuUGCGG- -5'
13007 5' -56.5 NC_003387.1 + 21261 0.66 0.664533
Target:  5'- cGCGacGaGGAGUCGGGCaAGguGGCGCa -3'
miRNA:   3'- -CGU--CcCCUCAGCUCGgUCguUUGCGg -5'
13007 5' -56.5 NC_003387.1 + 45678 0.66 0.664533
Target:  5'- uCAGGGcGAGcggcCGGGCCuGCcguuGAACGCg -3'
miRNA:   3'- cGUCCC-CUCa---GCUCGGuCG----UUUGCGg -5'
13007 5' -56.5 NC_003387.1 + 21941 0.67 0.598972
Target:  5'- gGCGGcGGGGG-CG-G-CGGCAGGCGUCu -3'
miRNA:   3'- -CGUC-CCCUCaGCuCgGUCGUUUGCGG- -5'
13007 5' -56.5 NC_003387.1 + 39223 0.68 0.4927
Target:  5'- gGCAGuGGGAG-CGGGuaCCGGCGccgggcGAgGCCg -3'
miRNA:   3'- -CGUC-CCCUCaGCUC--GGUCGU------UUgCGG- -5'
13007 5' -56.5 NC_003387.1 + 20967 0.69 0.433193
Target:  5'- gGCAGGGG---CGGGCaacgccGCGAAUGCCg -3'
miRNA:   3'- -CGUCCCCucaGCUCGgu----CGUUUGCGG- -5'
13007 5' -56.5 NC_003387.1 + 46000 0.76 0.172129
Target:  5'- aGCGGGGcGAGUCGAcggugaacuGCCcGCGgugcaaGACGCCg -3'
miRNA:   3'- -CGUCCC-CUCAGCU---------CGGuCGU------UUGCGG- -5'
13007 5' -56.5 NC_003387.1 + 30186 0.66 0.631752
Target:  5'- uCGGGcaaGGAGcagucgcCGAGCCGGU--ACGCCg -3'
miRNA:   3'- cGUCC---CCUCa------GCUCGGUCGuuUGCGG- -5'
13007 5' -56.5 NC_003387.1 + 21232 0.72 0.327884
Target:  5'- cGCAGGGcGA-UCcGGUCGGCAugguGCGCCg -3'
miRNA:   3'- -CGUCCC-CUcAGcUCGGUCGUu---UGCGG- -5'
13007 5' -56.5 NC_003387.1 + 9397 0.69 0.486574
Target:  5'- gGCGGGcaagacgaucgccgaGGAGU-GGGCCGacgaguacgacGCGGGCGCCg -3'
miRNA:   3'- -CGUCC---------------CCUCAgCUCGGU-----------CGUUUGCGG- -5'
13007 5' -56.5 NC_003387.1 + 13897 0.66 0.653622
Target:  5'- uGCGGcGGcucGUCGAGCCAGCuAACa-- -3'
miRNA:   3'- -CGUC-CCcu-CAGCUCGGUCGuUUGcgg -5'
13007 5' -56.5 NC_003387.1 + 35325 0.66 0.664533
Target:  5'- gGCAGuGGuGGG-CGGGCgAGgAgauuGACGCCg -3'
miRNA:   3'- -CGUC-CC-CUCaGCUCGgUCgU----UUGCGG- -5'
13007 5' -56.5 NC_003387.1 + 309 0.71 0.352351
Target:  5'- aGCcGGuGGAGccCGAGcCCGGCGAcacgcACGCCa -3'
miRNA:   3'- -CGuCC-CCUCa-GCUC-GGUCGUU-----UGCGG- -5'
13007 5' -56.5 NC_003387.1 + 46626 0.67 0.588089
Target:  5'- cGCAGGuGu-UCGAGCCuGCcgacGACGCCc -3'
miRNA:   3'- -CGUCCcCucAGCUCGGuCGu---UUGCGG- -5'
13007 5' -56.5 NC_003387.1 + 26403 0.67 0.555692
Target:  5'- cCAGGGu-GUCGuugaacacAGCCAGCAcGACaGCCa -3'
miRNA:   3'- cGUCCCcuCAGC--------UCGGUCGU-UUG-CGG- -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.