miRNA display CGI


Results 1 - 20 of 62 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
21346 3' -57.3 NC_004778.3 + 1136 0.68 0.745047
Target:  5'- gCGUUGGAGgccgCUGCUGCGcCGauCGaCGCCg -3'
miRNA:   3'- -GCAACCUUa---GACGGUGCcGC--GC-GCGG- -5'
21346 3' -57.3 NC_004778.3 + 1663 0.66 0.826884
Target:  5'- uCGUUGGcaccuUCgGUUugGGUGCG-GCCa -3'
miRNA:   3'- -GCAACCuu---AGaCGGugCCGCGCgCGG- -5'
21346 3' -57.3 NC_004778.3 + 3996 0.67 0.791909
Target:  5'- gCGUUGGGAaggGCCACGcacGUcgGCGCGUCc -3'
miRNA:   3'- -GCAACCUUagaCGGUGC---CG--CGCGCGG- -5'
21346 3' -57.3 NC_004778.3 + 4734 0.79 0.217449
Target:  5'- cCGUUGGAcaguggccaGUCUGCUaacGCGGCacaGCGCGCUg -3'
miRNA:   3'- -GCAACCU---------UAGACGG---UGCCG---CGCGCGG- -5'
21346 3' -57.3 NC_004778.3 + 7143 0.7 0.61452
Target:  5'- ---aGGAAUCcGUCuCGGCgggcgGCGCGCCg -3'
miRNA:   3'- gcaaCCUUAGaCGGuGCCG-----CGCGCGG- -5'
21346 3' -57.3 NC_004778.3 + 8910 0.7 0.631844
Target:  5'- uGUUGGggUaguggacgggguggCgcGCCACGGCGCcggcgGCGUCa -3'
miRNA:   3'- gCAACCuuA--------------Ga-CGGUGCCGCG-----CGCGG- -5'
21346 3' -57.3 NC_004778.3 + 10721 0.68 0.714689
Target:  5'- gGUUGGAccgCUGuucgcugcgcgcuCCGCGGgcugccgugUGCGCGCCg -3'
miRNA:   3'- gCAACCUua-GAC-------------GGUGCC---------GCGCGCGG- -5'
21346 3' -57.3 NC_004778.3 + 15451 0.68 0.725552
Target:  5'- --aUGGGAUCUGCCGaguuuaGCGCGUaGCUc -3'
miRNA:   3'- gcaACCUUAGACGGUgc----CGCGCG-CGG- -5'
21346 3' -57.3 NC_004778.3 + 17268 0.74 0.395881
Target:  5'- ---cGGcg-UUGCCACGGUagGCGCGCCg -3'
miRNA:   3'- gcaaCCuuaGACGGUGCCG--CGCGCGG- -5'
21346 3' -57.3 NC_004778.3 + 18549 0.67 0.809716
Target:  5'- aCGUUGGG---UGCCACGGaGUucCGCCg -3'
miRNA:   3'- -GCAACCUuagACGGUGCCgCGc-GCGG- -5'
21346 3' -57.3 NC_004778.3 + 26061 0.67 0.782788
Target:  5'- uCGUUGccaccgccGUCgugGCCACGGCGCuguacauaaucGCGCUu -3'
miRNA:   3'- -GCAACcu------UAGa--CGGUGCCGCG-----------CGCGG- -5'
21346 3' -57.3 NC_004778.3 + 28060 0.66 0.817525
Target:  5'- --cUGGAacaugcuAUCUGCCACGcaGCagGUGUGCCc -3'
miRNA:   3'- gcaACCU-------UAGACGGUGC--CG--CGCGCGG- -5'
21346 3' -57.3 NC_004778.3 + 28811 0.67 0.800889
Target:  5'- ---aGGAAaC-GCCGCGGC-CGCGCa -3'
miRNA:   3'- gcaaCCUUaGaCGGUGCCGcGCGCGg -5'
21346 3' -57.3 NC_004778.3 + 29327 0.7 0.61452
Target:  5'- ----cGAAggUGgCGCGGCGCGCGCUg -3'
miRNA:   3'- gcaacCUUagACgGUGCCGCGCGCGG- -5'
21346 3' -57.3 NC_004778.3 + 31228 0.68 0.745047
Target:  5'- aGUUaGAGgcguugCUGuCCGUGGCGCGCGCa -3'
miRNA:   3'- gCAAcCUUa-----GAC-GGUGCCGCGCGCGg -5'
21346 3' -57.3 NC_004778.3 + 31743 0.7 0.594191
Target:  5'- --aUGGAGUUUaa-GCGGCGCGuCGCCa -3'
miRNA:   3'- gcaACCUUAGAcggUGCCGCGC-GCGG- -5'
21346 3' -57.3 NC_004778.3 + 31905 0.66 0.843349
Target:  5'- cCGUUGGA----GCU--GGCGaCGCGCCg -3'
miRNA:   3'- -GCAACCUuagaCGGugCCGC-GCGCGG- -5'
21346 3' -57.3 NC_004778.3 + 32305 0.78 0.228308
Target:  5'- -uUUGGAAgugGCCGCGGCGCauuggaGCGCCg -3'
miRNA:   3'- gcAACCUUagaCGGUGCCGCG------CGCGG- -5'
21346 3' -57.3 NC_004778.3 + 32820 0.68 0.754652
Target:  5'- --------gCUGCCGCGGCGCGUGgUg -3'
miRNA:   3'- gcaaccuuaGACGGUGCCGCGCGCgG- -5'
21346 3' -57.3 NC_004778.3 + 35035 0.67 0.791909
Target:  5'- ---cGGAggCUGCgugacuuuCACGGUGCGuCGCUa -3'
miRNA:   3'- gcaaCCUuaGACG--------GUGCCGCGC-GCGG- -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.