miRNA display CGI


Results 1 - 20 of 23 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
18789 5' -55.4 NC_004683.1 + 5090 0.66 0.73928
Target:  5'- gCUGUCgGGCuccAGGAUgGCGUCGcgGUc -3'
miRNA:   3'- -GGCGGgUCG---UCCUAgUGCAGCuaCAu -5'
18789 5' -55.4 NC_004683.1 + 6493 0.66 0.728771
Target:  5'- gCGCCgAGCcGGGUCACcugcgcUCGGUGg- -3'
miRNA:   3'- gGCGGgUCGuCCUAGUGc-----AGCUACau -5'
18789 5' -55.4 NC_004683.1 + 19183 0.66 0.727716
Target:  5'- cCCGCgcgcaucCCAGCGGGGUagauccaggcgCGcCGUCGGUGg- -3'
miRNA:   3'- -GGCG-------GGUCGUCCUA-----------GU-GCAGCUACau -5'
18789 5' -55.4 NC_004683.1 + 8205 0.66 0.696718
Target:  5'- -aGUCCAGUuGGAUCACGggguugUCGGUGc- -3'
miRNA:   3'- ggCGGGUCGuCCUAGUGC------AGCUACau -5'
18789 5' -55.4 NC_004683.1 + 45128 0.66 0.696718
Target:  5'- uCCaGCgCCAGCGugugcaccuuGGccagCGCGUCGAUGUGa -3'
miRNA:   3'- -GG-CG-GGUCGU----------CCua--GUGCAGCUACAU- -5'
18789 5' -55.4 NC_004683.1 + 49500 0.66 0.685894
Target:  5'- gCUGCCUGGCGGGAUCuuucuccccgAgGUCgGAUGg- -3'
miRNA:   3'- -GGCGGGUCGUCCUAG----------UgCAG-CUACau -5'
18789 5' -55.4 NC_004683.1 + 17880 0.67 0.675019
Target:  5'- gUGCgCCAGCGGcGUCACGUUGAc--- -3'
miRNA:   3'- gGCG-GGUCGUCcUAGUGCAGCUacau -5'
18789 5' -55.4 NC_004683.1 + 26598 0.67 0.673929
Target:  5'- aCCGCCCGGUAgcacuccagcugcGGGUCGgacaucaguccuCGUCGgcGUAu -3'
miRNA:   3'- -GGCGGGUCGU-------------CCUAGU------------GCAGCuaCAU- -5'
18789 5' -55.4 NC_004683.1 + 25015 0.67 0.653159
Target:  5'- gUCGCC--GCGGGucGUCACGUUGGUGa- -3'
miRNA:   3'- -GGCGGguCGUCC--UAGUGCAGCUACau -5'
18789 5' -55.4 NC_004683.1 + 15895 0.67 0.653158
Target:  5'- cUCGCCCGaauGCAGGAcgaccUCgACGUCGAcUGg- -3'
miRNA:   3'- -GGCGGGU---CGUCCU-----AG-UGCAGCU-ACau -5'
18789 5' -55.4 NC_004683.1 + 13078 0.68 0.620248
Target:  5'- gCGCCCGGCAGGAagcCGCGcUCGc---- -3'
miRNA:   3'- gGCGGGUCGUCCUa--GUGC-AGCuacau -5'
18789 5' -55.4 NC_004683.1 + 15718 0.68 0.609286
Target:  5'- gCUGCCgAGCGGGuAUCGCGUCc----- -3'
miRNA:   3'- -GGCGGgUCGUCC-UAGUGCAGcuacau -5'
18789 5' -55.4 NC_004683.1 + 3583 0.68 0.609286
Target:  5'- gCCGCCCGGCGugucCGCGUCGgcGUc -3'
miRNA:   3'- -GGCGGGUCGUccuaGUGCAGCuaCAu -5'
18789 5' -55.4 NC_004683.1 + 16217 0.69 0.533579
Target:  5'- aCGCCCAGUcguGGGU---GUCGAUGUAg -3'
miRNA:   3'- gGCGGGUCGu--CCUAgugCAGCUACAU- -5'
18789 5' -55.4 NC_004683.1 + 255 0.69 0.523005
Target:  5'- gCUGCCCgcGGCGGGGcuggUCGCGaCGGUGg- -3'
miRNA:   3'- -GGCGGG--UCGUCCU----AGUGCaGCUACau -5'
18789 5' -55.4 NC_004683.1 + 8309 0.7 0.502109
Target:  5'- gCCGUCCGaCAGGGUCACgGUCGGg--- -3'
miRNA:   3'- -GGCGGGUcGUCCUAGUG-CAGCUacau -5'
18789 5' -55.4 NC_004683.1 + 50487 0.7 0.46148
Target:  5'- gCGCUCGGagcGGAUCGCGUCGGUu-- -3'
miRNA:   3'- gGCGGGUCgu-CCUAGUGCAGCUAcau -5'
18789 5' -55.4 NC_004683.1 + 19090 0.71 0.422653
Target:  5'- cCCGCCCucguacAGCAagguuuGGAUCuCGUCGGUGa- -3'
miRNA:   3'- -GGCGGG------UCGU------CCUAGuGCAGCUACau -5'
18789 5' -55.4 NC_004683.1 + 26279 0.71 0.413255
Target:  5'- cUCGaCCUGGCGGGcgagCGCGUUGGUGUGg -3'
miRNA:   3'- -GGC-GGGUCGUCCua--GUGCAGCUACAU- -5'
18789 5' -55.4 NC_004683.1 + 21284 0.71 0.403988
Target:  5'- gUCGCCCAGCagcaggcggGGGAUCGacauggcagcguCGUCGGUGc- -3'
miRNA:   3'- -GGCGGGUCG---------UCCUAGU------------GCAGCUACau -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.