miRNA display CGI


Results 1 - 20 of 82 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
23847 3' -56.4 NC_005261.1 + 56482 0.78 0.275869
Target:  5'- aGGCGCUGGAGUCUaugCGcGCCucAGGCGc -3'
miRNA:   3'- aCUGCGACCUUAGA---GC-CGGcuUCCGC- -5'
23847 3' -56.4 NC_005261.1 + 118371 0.77 0.302909
Target:  5'- gGGCGCUGGGG-CgcgCGGCCcGAGGCGc -3'
miRNA:   3'- aCUGCGACCUUaGa--GCCGGcUUCCGC- -5'
23847 3' -56.4 NC_005261.1 + 50972 0.76 0.331943
Target:  5'- cGGCGC-GcGAAaccUCUCGGCCGAcGGCGg -3'
miRNA:   3'- aCUGCGaC-CUU---AGAGCCGGCUuCCGC- -5'
23847 3' -56.4 NC_005261.1 + 2980 0.76 0.371037
Target:  5'- cUGAgGCUGGGG-CUCGGCCu--GGCGg -3'
miRNA:   3'- -ACUgCGACCUUaGAGCCGGcuuCCGC- -5'
23847 3' -56.4 NC_005261.1 + 32078 0.74 0.446159
Target:  5'- cGGCGCUGGGG-CUCGgggagccggacuucGCgGAGGGCGa -3'
miRNA:   3'- aCUGCGACCUUaGAGC--------------CGgCUUCCGC- -5'
23847 3' -56.4 NC_005261.1 + 30203 0.73 0.476795
Target:  5'- -cGCGCUGGAGg--CGGCCGcgcuGGCGg -3'
miRNA:   3'- acUGCGACCUUagaGCCGGCuu--CCGC- -5'
23847 3' -56.4 NC_005261.1 + 20726 0.73 0.495862
Target:  5'- -cGCGCUGGGG-CUCGGCCGuuucacguguGGGUGu -3'
miRNA:   3'- acUGCGACCUUaGAGCCGGCu---------UCCGC- -5'
23847 3' -56.4 NC_005261.1 + 14946 0.73 0.515267
Target:  5'- cUGGCGCUGGAAgcgagCgggCGuGCCuGGGGCGa -3'
miRNA:   3'- -ACUGCGACCUUa----Ga--GC-CGGcUUCCGC- -5'
23847 3' -56.4 NC_005261.1 + 97087 0.72 0.544923
Target:  5'- aGGCGCcGG---CUgGGCCGggGGCGc -3'
miRNA:   3'- aCUGCGaCCuuaGAgCCGGCuuCCGC- -5'
23847 3' -56.4 NC_005261.1 + 128114 0.72 0.544923
Target:  5'- cGGCGC-GGggUCg-GGCCGAgugcggagagAGGCGa -3'
miRNA:   3'- aCUGCGaCCuuAGagCCGGCU----------UCCGC- -5'
23847 3' -56.4 NC_005261.1 + 104713 0.72 0.564999
Target:  5'- ---gGCUGGA----CGGCCGAGGGCGc -3'
miRNA:   3'- acugCGACCUuagaGCCGGCUUCCGC- -5'
23847 3' -56.4 NC_005261.1 + 73163 0.72 0.564999
Target:  5'- cGGCGUUGuug-CUCGGCCGggGGg- -3'
miRNA:   3'- aCUGCGACcuuaGAGCCGGCuuCCgc -5'
23847 3' -56.4 NC_005261.1 + 98025 0.72 0.571061
Target:  5'- cGAgGCUGGAGaCgccgcgguacuggCGGCCGcGGGCGg -3'
miRNA:   3'- aCUgCGACCUUaGa------------GCCGGCuUCCGC- -5'
23847 3' -56.4 NC_005261.1 + 79860 0.71 0.584246
Target:  5'- -cGCGCUGGggUugagcuuggccgcCUCGGCCcacAGGGCGc -3'
miRNA:   3'- acUGCGACCuuA-------------GAGCCGGc--UUCCGC- -5'
23847 3' -56.4 NC_005261.1 + 125279 0.71 0.585263
Target:  5'- gGGcCGCUGGAAgucaGGCCGcGGGCGc -3'
miRNA:   3'- aCU-GCGACCUUagagCCGGCuUCCGC- -5'
23847 3' -56.4 NC_005261.1 + 136601 0.71 0.626141
Target:  5'- cGGCGCagcgUGGAGcggCgcgcgCGcGCCGAGGGCGg -3'
miRNA:   3'- aCUGCG----ACCUUa--Ga----GC-CGGCUUCCGC- -5'
23847 3' -56.4 NC_005261.1 + 79391 0.71 0.626141
Target:  5'- cGGCGCUGG-AUCUCGcuguaGUCGAgcAGGCc -3'
miRNA:   3'- aCUGCGACCuUAGAGC-----CGGCU--UCCGc -5'
23847 3' -56.4 NC_005261.1 + 32372 0.71 0.634341
Target:  5'- aGACGCUGGugcaggcgCGGCgCGgcGGCGu -3'
miRNA:   3'- aCUGCGACCuuaga---GCCG-GCuuCCGC- -5'
23847 3' -56.4 NC_005261.1 + 70177 0.7 0.646637
Target:  5'- gGGCGC-GGGAg--CGGCCGcugugGAGGCGg -3'
miRNA:   3'- aCUGCGaCCUUagaGCCGGC-----UUCCGC- -5'
23847 3' -56.4 NC_005261.1 + 95470 0.7 0.646637
Target:  5'- cGGCGCUGGAgaagAUCaaGGCCcgcGGCGg -3'
miRNA:   3'- aCUGCGACCU----UAGagCCGGcuuCCGC- -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.