miRNA display CGI


Results 1 - 20 of 32 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
18156 3' -58.6 NC_004680.1 + 28966 0.66 0.606633
Target:  5'- gGCGGgCUGG-ACGuuguAGUCCACgUGCgGg -3'
miRNA:   3'- -CGCCgGACCaUGC----UUAGGUGgGCGgC- -5'
18156 3' -58.6 NC_004680.1 + 36173 0.66 0.606633
Target:  5'- gGCGGCgaGGaccGCuGGUCUGCUCGCUGg -3'
miRNA:   3'- -CGCCGgaCCa--UGcUUAGGUGGGCGGC- -5'
18156 3' -58.6 NC_004680.1 + 8890 0.66 0.600281
Target:  5'- gGCGGCCccuugaccgcgccgGG-ACGggUCU--CCGCCGg -3'
miRNA:   3'- -CGCCGGa-------------CCaUGCuuAGGugGGCGGC- -5'
18156 3' -58.6 NC_004680.1 + 41928 0.66 0.596051
Target:  5'- uGCGGUgaGGUGuuCGAAccggUCACCCGCa- -3'
miRNA:   3'- -CGCCGgaCCAU--GCUUa---GGUGGGCGgc -5'
18156 3' -58.6 NC_004680.1 + 30788 0.66 0.596051
Target:  5'- cCGGCUUGGaGCGGAUCa--CCGgCGa -3'
miRNA:   3'- cGCCGGACCaUGCUUAGgugGGCgGC- -5'
18156 3' -58.6 NC_004680.1 + 9952 0.66 0.596051
Target:  5'- gGCGGCCgugaaagcGGUacccaacgcGCGGccagCCACCgCGCCa -3'
miRNA:   3'- -CGCCGGa-------CCA---------UGCUua--GGUGG-GCGGc -5'
18156 3' -58.6 NC_004680.1 + 52973 0.66 0.596051
Target:  5'- -aGGCUgucGUGCuccuGGAUCCACUCGCCc -3'
miRNA:   3'- cgCCGGac-CAUG----CUUAGGUGGGCGGc -5'
18156 3' -58.6 NC_004680.1 + 46090 0.66 0.564509
Target:  5'- gGCGGCCUugGGUGCGGG-CgCAUUCGgCGc -3'
miRNA:   3'- -CGCCGGA--CCAUGCUUaG-GUGGGCgGC- -5'
18156 3' -58.6 NC_004680.1 + 47989 0.66 0.554087
Target:  5'- cGCGGCUccGGUGuCGGAUCCccguACCgGUCa -3'
miRNA:   3'- -CGCCGGa-CCAU-GCUUAGG----UGGgCGGc -5'
18156 3' -58.6 NC_004680.1 + 29972 0.67 0.542689
Target:  5'- uGUGcGCCaagUGGUAUGAccagcccgagguuAUCCAgCUCGCCGa -3'
miRNA:   3'- -CGC-CGG---ACCAUGCU-------------UAGGU-GGGCGGC- -5'
18156 3' -58.6 NC_004680.1 + 15633 0.67 0.523192
Target:  5'- aCGGCCUGa-ACGGuuUCCAUCCGCa- -3'
miRNA:   3'- cGCCGGACcaUGCUu-AGGUGGGCGgc -5'
18156 3' -58.6 NC_004680.1 + 55008 0.67 0.523192
Target:  5'- gGCGGCCaGGaucaUGCGGcgCaugGCUCGCCGc -3'
miRNA:   3'- -CGCCGGaCC----AUGCUuaGg--UGGGCGGC- -5'
18156 3' -58.6 NC_004680.1 + 42389 0.67 0.516077
Target:  5'- cGCGGCCagGGUugGAcucgugagcagucGauugaguggauuucgUUCAUCCGCCGc -3'
miRNA:   3'- -CGCCGGa-CCAugCU-------------U---------------AGGUGGGCGGC- -5'
18156 3' -58.6 NC_004680.1 + 7130 0.67 0.513039
Target:  5'- gGUGGCgUGGcuguccccucUGgGAAagguuUCUACCCGCCGc -3'
miRNA:   3'- -CGCCGgACC----------AUgCUU-----AGGUGGGCGGC- -5'
18156 3' -58.6 NC_004680.1 + 19511 0.67 0.513039
Target:  5'- gGUGGCCcgGGUgACGGcgCCGCCgGUgGu -3'
miRNA:   3'- -CGCCGGa-CCA-UGCUuaGGUGGgCGgC- -5'
18156 3' -58.6 NC_004680.1 + 394 0.67 0.509
Target:  5'- -aGGCCgacacugauuacgGG-ACGAAUCCGCUgGCCc -3'
miRNA:   3'- cgCCGGa------------CCaUGCUUAGGUGGgCGGc -5'
18156 3' -58.6 NC_004680.1 + 35880 0.67 0.502967
Target:  5'- -aGGCCgaucGGacGCGAAgCCGCCCaGCCGc -3'
miRNA:   3'- cgCCGGa---CCa-UGCUUaGGUGGG-CGGC- -5'
18156 3' -58.6 NC_004680.1 + 40810 0.67 0.492983
Target:  5'- cCGGCCacaUGGUGCGAcuaCCACggugugcgggUCGCCGa -3'
miRNA:   3'- cGCCGG---ACCAUGCUua-GGUG----------GGCGGC- -5'
18156 3' -58.6 NC_004680.1 + 12805 0.68 0.48309
Target:  5'- gGCGGUuuggCUGGUGCGGcucCCGCgUUGCCGa -3'
miRNA:   3'- -CGCCG----GACCAUGCUua-GGUG-GGCGGC- -5'
18156 3' -58.6 NC_004680.1 + 12241 0.68 0.482106
Target:  5'- gGUGGCgUGGUuccggugucggugACGAAcUgGCCCGCCc -3'
miRNA:   3'- -CGCCGgACCA-------------UGCUUaGgUGGGCGGc -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.