miRNA display CGI


Results 1 - 20 of 38 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
18544 3' -60.1 NC_004682.1 + 45945 1.12 0.0002
Target:  5'- cGCCCGAGUAGCGCGGGCUCACCGAGCc -3'
miRNA:   3'- -CGGGCUCAUCGCGCCCGAGUGGCUCG- -5'
18544 3' -60.1 NC_004682.1 + 45898 0.8 0.04949
Target:  5'- aGCgCGAGUAGCGCacucGGGCUCGCCGucGUc -3'
miRNA:   3'- -CGgGCUCAUCGCG----CCCGAGUGGCu-CG- -5'
18544 3' -60.1 NC_004682.1 + 23649 0.72 0.179771
Target:  5'- cGCCCagcagGAGaccGGCGCGaaguGGgUCGCCGAGCa -3'
miRNA:   3'- -CGGG-----CUCa--UCGCGC----CCgAGUGGCUCG- -5'
18544 3' -60.1 NC_004682.1 + 37133 0.72 0.199508
Target:  5'- -aCCGuGUAGUcgauGCGGGCggugCGCCGAGa -3'
miRNA:   3'- cgGGCuCAUCG----CGCCCGa---GUGGCUCg -5'
18544 3' -60.1 NC_004682.1 + 46673 0.72 0.205258
Target:  5'- uCUCGAuGUGGCGCGGGaCgccgaagaugugcagCACCGGGUa -3'
miRNA:   3'- cGGGCU-CAUCGCGCCC-Ga--------------GUGGCUCG- -5'
18544 3' -60.1 NC_004682.1 + 2956 0.71 0.210068
Target:  5'- uUCUGG--GGCGCGGGCggcggCGCUGGGCa -3'
miRNA:   3'- cGGGCUcaUCGCGCCCGa----GUGGCUCG- -5'
18544 3' -60.1 NC_004682.1 + 20752 0.71 0.215526
Target:  5'- aGCCCG-GUGGUcCGGGUUCauggaucacuACCGGGUg -3'
miRNA:   3'- -CGGGCuCAUCGcGCCCGAG----------UGGCUCG- -5'
18544 3' -60.1 NC_004682.1 + 50005 0.71 0.226808
Target:  5'- uCCUGGGUGGUcaGCGGGCUC-CUG-GCc -3'
miRNA:   3'- cGGGCUCAUCG--CGCCCGAGuGGCuCG- -5'
18544 3' -60.1 NC_004682.1 + 49378 0.7 0.257206
Target:  5'- -gCCGGGaAGUuGaCGGGCUCGCCGcuGGCg -3'
miRNA:   3'- cgGGCUCaUCG-C-GCCCGAGUGGC--UCG- -5'
18544 3' -60.1 NC_004682.1 + 10415 0.7 0.263672
Target:  5'- uCCCGuuGGUGuuccuGCaCGGGCUCACCguGAGCg -3'
miRNA:   3'- cGGGC--UCAU-----CGcGCCCGAGUGG--CUCG- -5'
18544 3' -60.1 NC_004682.1 + 28826 0.7 0.27632
Target:  5'- aUCCGAgccagaaguggccGUAGC-CGGGUUCACCGAcGUa -3'
miRNA:   3'- cGGGCU-------------CAUCGcGCCCGAGUGGCU-CG- -5'
18544 3' -60.1 NC_004682.1 + 20681 0.69 0.281789
Target:  5'- uGCCCGAGgacaaGGCGCagugGGGCgcucaggagaucgcUCgccugaugGCCGAGCa -3'
miRNA:   3'- -CGGGCUCa----UCGCG----CCCG--------------AG--------UGGCUCG- -5'
18544 3' -60.1 NC_004682.1 + 13993 0.69 0.283862
Target:  5'- cGCCuCGcAGUGGCcUGGGgUCAUCGAGg -3'
miRNA:   3'- -CGG-GC-UCAUCGcGCCCgAGUGGCUCg -5'
18544 3' -60.1 NC_004682.1 + 4944 0.69 0.290858
Target:  5'- aGCCCGAGUGcggcuacucGCGCuGGGacgaagccaUCACCGAc- -3'
miRNA:   3'- -CGGGCUCAU---------CGCG-CCCg--------AGUGGCUcg -5'
18544 3' -60.1 NC_004682.1 + 23009 0.68 0.351685
Target:  5'- cGCCCGucGgaaAGCacCGGGCUucaugaCACCGGGCu -3'
miRNA:   3'- -CGGGCu-Ca--UCGc-GCCCGA------GUGGCUCG- -5'
18544 3' -60.1 NC_004682.1 + 47690 0.68 0.359895
Target:  5'- uGCCCGAGUuG-GCGGcuGCUgCGCCGccuGCg -3'
miRNA:   3'- -CGGGCUCAuCgCGCC--CGA-GUGGCu--CG- -5'
18544 3' -60.1 NC_004682.1 + 40103 0.68 0.369078
Target:  5'- gGCCCGcAGaggguccuuaagguUGGCGUGGuGCUCcuugccugcggcagcAUCGAGCa -3'
miRNA:   3'- -CGGGC-UC--------------AUCGCGCC-CGAG---------------UGGCUCG- -5'
18544 3' -60.1 NC_004682.1 + 1835 0.67 0.376711
Target:  5'- cGCCCGuccgGGCGUcugcucGGGCUCcCCG-GCc -3'
miRNA:   3'- -CGGGCuca-UCGCG------CCCGAGuGGCuCG- -5'
18544 3' -60.1 NC_004682.1 + 41397 0.67 0.394048
Target:  5'- cGUCCGGGcAGCuGCGucGGUg-ACCGAGCg -3'
miRNA:   3'- -CGGGCUCaUCG-CGC--CCGagUGGCUCG- -5'
18544 3' -60.1 NC_004682.1 + 42754 0.67 0.394048
Target:  5'- cGgCUGGGUcAGgacgugccaCGCGGGCagACCGGGCu -3'
miRNA:   3'- -CgGGCUCA-UC---------GCGCCCGagUGGCUCG- -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.