miRNA display CGI


Results 1 - 20 of 20 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
18310 5' -54.8 NC_004681.1 + 69176 0.66 0.850487
Target:  5'- aGGAgCUgGAGAUCAUCUGGucuuGCGG-CAa -3'
miRNA:   3'- -CCUgGGgCUCUAGUAGGCU----CGCUaGU- -5'
18310 5' -54.8 NC_004681.1 + 6408 0.66 0.833553
Target:  5'- cGGCCUUcGGGUCAUCCGAccGCGG-CAg -3'
miRNA:   3'- cCUGGGGcUCUAGUAGGCU--CGCUaGU- -5'
18310 5' -54.8 NC_004681.1 + 38798 0.66 0.823894
Target:  5'- cGGGCCgcgcgcaaguccgCCGAGAcCAUCCGGGCc---- -3'
miRNA:   3'- -CCUGG-------------GGCUCUaGUAGGCUCGcuagu -5'
18310 5' -54.8 NC_004681.1 + 938 0.67 0.768473
Target:  5'- aGGuCCUCaagGGGAUCGUCCGGGaGGUCc -3'
miRNA:   3'- -CCuGGGG---CUCUAGUAGGCUCgCUAGu -5'
18310 5' -54.8 NC_004681.1 + 32353 0.68 0.748536
Target:  5'- uGGCCuuGAGuUCGUCCGGGCu---- -3'
miRNA:   3'- cCUGGggCUCuAGUAGGCUCGcuagu -5'
18310 5' -54.8 NC_004681.1 + 24245 0.68 0.728153
Target:  5'- aGGCCCUuGGcggCGUCCGAcGCGAUCu -3'
miRNA:   3'- cCUGGGGcUCua-GUAGGCU-CGCUAGu -5'
18310 5' -54.8 NC_004681.1 + 50324 0.69 0.686385
Target:  5'- uGGGcacCCCCGAGGaaAUCCGAGagcuGGUCGa -3'
miRNA:   3'- -CCU---GGGGCUCUagUAGGCUCg---CUAGU- -5'
18310 5' -54.8 NC_004681.1 + 35330 0.69 0.675795
Target:  5'- aGGcGCCCCGAGAag--UCGAGCGAcCAc -3'
miRNA:   3'- -CC-UGGGGCUCUaguaGGCUCGCUaGU- -5'
18310 5' -54.8 NC_004681.1 + 45059 0.69 0.675795
Target:  5'- gGGACgCCGAag-CAUCCGccGCGGUCGa -3'
miRNA:   3'- -CCUGgGGCUcuaGUAGGCu-CGCUAGU- -5'
18310 5' -54.8 NC_004681.1 + 3326 0.69 0.675795
Target:  5'- cGGACCCCGAu----UCCGGGUGAg-- -3'
miRNA:   3'- -CCUGGGGCUcuaguAGGCUCGCUagu -5'
18310 5' -54.8 NC_004681.1 + 3375 0.7 0.622453
Target:  5'- gGGACUCCuuGAGGguggccuucCAUCCGAGCGAg-- -3'
miRNA:   3'- -CCUGGGG--CUCUa--------GUAGGCUCGCUagu -5'
18310 5' -54.8 NC_004681.1 + 16743 0.7 0.59047
Target:  5'- aGACCCuCGAGggUGUCCGGGCuGAUg- -3'
miRNA:   3'- cCUGGG-GCUCuaGUAGGCUCG-CUAgu -5'
18310 5' -54.8 NC_004681.1 + 6286 0.71 0.558782
Target:  5'- aGGGCCgCGAGAUCAUgggcCUGccGCGGUCGg -3'
miRNA:   3'- -CCUGGgGCUCUAGUA----GGCu-CGCUAGU- -5'
18310 5' -54.8 NC_004681.1 + 46855 0.72 0.527591
Target:  5'- cGGcACCCCGAuGAUCAaccgccuugUCCGGGUGGaguUCAc -3'
miRNA:   3'- -CC-UGGGGCU-CUAGU---------AGGCUCGCU---AGU- -5'
18310 5' -54.8 NC_004681.1 + 24656 0.72 0.517335
Target:  5'- cGGACCCCGAcaaccCGcCCGAGCuGAUCGc -3'
miRNA:   3'- -CCUGGGGCUcua--GUaGGCUCG-CUAGU- -5'
18310 5' -54.8 NC_004681.1 + 2966 0.72 0.477171
Target:  5'- aGGACCCCGAGAU-AUUCGcGGCcAUCGa -3'
miRNA:   3'- -CCUGGGGCUCUAgUAGGC-UCGcUAGU- -5'
18310 5' -54.8 NC_004681.1 + 1976 0.74 0.401895
Target:  5'- uGGACgUCG-GGUUGUCCGGGCGAUUg -3'
miRNA:   3'- -CCUGgGGCuCUAGUAGGCUCGCUAGu -5'
18310 5' -54.8 NC_004681.1 + 6600 0.74 0.393025
Target:  5'- cGGucuuCCCCGAG-UCcgUgGAGCGAUCAg -3'
miRNA:   3'- -CCu---GGGGCUCuAGuaGgCUCGCUAGU- -5'
18310 5' -54.8 NC_004681.1 + 64766 0.75 0.366351
Target:  5'- aGGCCCagcuuggCGGGAUCGUCCGguauGGCGAUCu -3'
miRNA:   3'- cCUGGG-------GCUCUAGUAGGC----UCGCUAGu -5'
18310 5' -54.8 NC_004681.1 + 36752 1.11 0.001329
Target:  5'- cGGACCCCGAGAUCAUCCGAGCGAUCAa -3'
miRNA:   3'- -CCUGGGGCUCUAGUAGGCUCGCUAGU- -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.