miRNA display CGI


Results 1 - 17 of 17 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
31891 5' -60.6 NC_006938.1 + 39929 0.66 0.508565
Target:  5'- uGUGaCGGUCaGGGUugUGUCCGuccGGCcGGUg -3'
miRNA:   3'- -CGC-GCCAGgCCCA--ACAGGU---CCGuCCA- -5'
31891 5' -60.6 NC_006938.1 + 52931 0.66 0.498641
Target:  5'- aCGCaGGUCUGGGUgaacaacGUCgAGGCucccgaGGGUg -3'
miRNA:   3'- cGCG-CCAGGCCCAa------CAGgUCCG------UCCA- -5'
31891 5' -60.6 NC_006938.1 + 28960 0.66 0.488803
Target:  5'- cGCGCaGUCCGGGUcGUCgAucugcacgacucGGCAGu- -3'
miRNA:   3'- -CGCGcCAGGCCCAaCAGgU------------CCGUCca -5'
31891 5' -60.6 NC_006938.1 + 50250 0.66 0.469407
Target:  5'- cCGgGGUCCGGcggGUCCGGcGCAGc- -3'
miRNA:   3'- cGCgCCAGGCCcaaCAGGUC-CGUCca -5'
31891 5' -60.6 NC_006938.1 + 33272 0.66 0.450414
Target:  5'- aGC-CGGUCCGGGcUGcaCCGuGCGGGUc -3'
miRNA:   3'- -CGcGCCAGGCCCaACa-GGUcCGUCCA- -5'
31891 5' -60.6 NC_006938.1 + 19799 0.67 0.43185
Target:  5'- -gGCuGGUCCGGG---UCC-GGCGGGUc -3'
miRNA:   3'- cgCG-CCAGGCCCaacAGGuCCGUCCA- -5'
31891 5' -60.6 NC_006938.1 + 15653 0.67 0.43185
Target:  5'- aGCGCGGUCggcguCGaGGUcgGUCgGuacuGGCAGGUg -3'
miRNA:   3'- -CGCGCCAG-----GC-CCAa-CAGgU----CCGUCCA- -5'
31891 5' -60.6 NC_006938.1 + 7196 0.68 0.387473
Target:  5'- aGCGC-GUCCGcGUUGaCCAGGCgcAGGg -3'
miRNA:   3'- -CGCGcCAGGCcCAACaGGUCCG--UCCa -5'
31891 5' -60.6 NC_006938.1 + 57705 0.68 0.387473
Target:  5'- aCGCGGUCCGcucGU--UCCAGGCGGa- -3'
miRNA:   3'- cGCGCCAGGCc--CAacAGGUCCGUCca -5'
31891 5' -60.6 NC_006938.1 + 29696 0.68 0.354201
Target:  5'- gGCGCGGgugcaggCCGGacaGUCCAGGUcGGa -3'
miRNA:   3'- -CGCGCCa------GGCCcaaCAGGUCCGuCCa -5'
31891 5' -60.6 NC_006938.1 + 21791 0.69 0.313307
Target:  5'- cGUGCuGGUCCaGGUcGUCUaucucagagagccgGGGCAGGUu -3'
miRNA:   3'- -CGCG-CCAGGcCCAaCAGG--------------UCCGUCCA- -5'
31891 5' -60.6 NC_006938.1 + 58651 0.7 0.280121
Target:  5'- aCGCGG-CCGGaGacacaaUUGUCCAGGC-GGUg -3'
miRNA:   3'- cGCGCCaGGCC-C------AACAGGUCCGuCCA- -5'
31891 5' -60.6 NC_006938.1 + 2562 0.71 0.241295
Target:  5'- -aGUGGUCCcugcagcacgccgGGGUc-UCCAGGCAGGUc -3'
miRNA:   3'- cgCGCCAGG-------------CCCAacAGGUCCGUCCA- -5'
31891 5' -60.6 NC_006938.1 + 32650 0.72 0.1928
Target:  5'- aGCGCaacgggauGUCCGGGUgcgucGUCCgcAGGCAGGa -3'
miRNA:   3'- -CGCGc-------CAGGCCCAa----CAGG--UCCGUCCa -5'
31891 5' -60.6 NC_006938.1 + 31854 0.76 0.104564
Target:  5'- cGCGCGGUCgaGGGUguccuggagccgGUCguGGCAGGg -3'
miRNA:   3'- -CGCGCCAGg-CCCAa-----------CAGguCCGUCCa -5'
31891 5' -60.6 NC_006938.1 + 21869 0.81 0.044808
Target:  5'- aGCGggagggauacCGGUCCGGGUUGUCCGGGUccAGGc -3'
miRNA:   3'- -CGC----------GCCAGGCCCAACAGGUCCG--UCCa -5'
31891 5' -60.6 NC_006938.1 + 51569 1.09 0.000401
Target:  5'- gGCGCGGUCCGGGUUGUCCAGGCAGGUg -3'
miRNA:   3'- -CGCGCCAGGCCCAACAGGUCCGUCCA- -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.