miRNA display CGI


Results 1 - 20 of 21 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
16358 5' -61.5 NC_004084.1 + 37563 0.66 0.445645
Target:  5'- cCGgCGCGGUCGAcGUGC-CACCCUcGGc -3'
miRNA:   3'- -GCgGCGUCGGCUcCGUGaGUGGGA-CC- -5'
16358 5' -61.5 NC_004084.1 + 54254 0.66 0.445645
Target:  5'- gCGCCGUcggcgaGGuuGAGGUAgucCUCGuuCUGGa -3'
miRNA:   3'- -GCGGCG------UCggCUCCGU---GAGUggGACC- -5'
16358 5' -61.5 NC_004084.1 + 48648 0.66 0.436372
Target:  5'- gGCCGCAGCCGAugauGGaagcggGCUCAUUCg-- -3'
miRNA:   3'- gCGGCGUCGGCU----CCg-----UGAGUGGGacc -5'
16358 5' -61.5 NC_004084.1 + 12239 0.66 0.436372
Target:  5'- uCGCCGCcuaccAGCUG-GGCAagUUCgcggugagcgaGCCCUGGu -3'
miRNA:   3'- -GCGGCG-----UCGGCuCCGU--GAG-----------UGGGACC- -5'
16358 5' -61.5 NC_004084.1 + 15837 0.66 0.415475
Target:  5'- uCGuuGUAGCaCGAguGGCAgCUCGCCCcauccaucgucgggUGGa -3'
miRNA:   3'- -GCggCGUCG-GCU--CCGU-GAGUGGG--------------ACC- -5'
16358 5' -61.5 NC_004084.1 + 36431 0.66 0.409238
Target:  5'- uCGCCGCAGaCCu--GUACgaCAUCCUGGg -3'
miRNA:   3'- -GCGGCGUC-GGcucCGUGa-GUGGGACC- -5'
16358 5' -61.5 NC_004084.1 + 47135 0.66 0.400429
Target:  5'- aCGCCG-AGCgagaGGGGCACUCGuaccUCCUGc -3'
miRNA:   3'- -GCGGCgUCGg---CUCCGUGAGU----GGGACc -5'
16358 5' -61.5 NC_004084.1 + 9454 0.66 0.395202
Target:  5'- aCGCCGUAGUCGGcGGCAUcguguuugucccaggUCACCUc-- -3'
miRNA:   3'- -GCGGCGUCGGCU-CCGUG---------------AGUGGGacc -5'
16358 5' -61.5 NC_004084.1 + 5765 0.67 0.38318
Target:  5'- uGCCcCcGCCGGGGC-CUCugCUUGa -3'
miRNA:   3'- gCGGcGuCGGCUCCGuGAGugGGACc -5'
16358 5' -61.5 NC_004084.1 + 9515 0.67 0.38318
Target:  5'- aGUCGUGGCCGAccgaccgacGGUGCaUCACUgUGGa -3'
miRNA:   3'- gCGGCGUCGGCU---------CCGUG-AGUGGgACC- -5'
16358 5' -61.5 NC_004084.1 + 48493 0.67 0.374742
Target:  5'- uCGCUGaggcucGUCGAGGCGCUCuugUCUUGGa -3'
miRNA:   3'- -GCGGCgu----CGGCUCCGUGAGu--GGGACC- -5'
16358 5' -61.5 NC_004084.1 + 37530 0.67 0.358248
Target:  5'- -aCCGCuccgacuGCCGGGGCugACUgACCgUGGa -3'
miRNA:   3'- gcGGCGu------CGGCUCCG--UGAgUGGgACC- -5'
16358 5' -61.5 NC_004084.1 + 1502 0.68 0.334475
Target:  5'- aCGUCGCccucgagcucgaAGCCGAuGCACUCGCggucggUCUGGa -3'
miRNA:   3'- -GCGGCG------------UCGGCUcCGUGAGUG------GGACC- -5'
16358 5' -61.5 NC_004084.1 + 3179 0.68 0.334475
Target:  5'- uCGUCGaCGGCgaggacgugaaCGAGGCgguggcgaaGCUCACCaCUGGa -3'
miRNA:   3'- -GCGGC-GUCG-----------GCUCCG---------UGAGUGG-GACC- -5'
16358 5' -61.5 NC_004084.1 + 13879 0.68 0.326811
Target:  5'- gGCaccaGCAGCCGAGGaC-CUUcCCCUGc -3'
miRNA:   3'- gCGg---CGUCGGCUCC-GuGAGuGGGACc -5'
16358 5' -61.5 NC_004084.1 + 22865 0.68 0.297466
Target:  5'- aGCUGCGuCCGGcGGCACUCGCCg--- -3'
miRNA:   3'- gCGGCGUcGGCU-CCGUGAGUGGgacc -5'
16358 5' -61.5 NC_004084.1 + 37578 0.68 0.297466
Target:  5'- uCGUCGacgAGCCGAGGCACUC-UCggGGa -3'
miRNA:   3'- -GCGGCg--UCGGCUCCGUGAGuGGgaCC- -5'
16358 5' -61.5 NC_004084.1 + 18067 0.69 0.257349
Target:  5'- uGCCGCGGUCGAuGUGC-CGCCCUucgaGGa -3'
miRNA:   3'- gCGGCGUCGGCUcCGUGaGUGGGA----CC- -5'
16358 5' -61.5 NC_004084.1 + 11375 0.7 0.251109
Target:  5'- -aCCGCAGUCcGGGCACUC-CCC-GGc -3'
miRNA:   3'- gcGGCGUCGGcUCCGUGAGuGGGaCC- -5'
16358 5' -61.5 NC_004084.1 + 26962 0.7 0.244391
Target:  5'- uGCgUGCuGCCGuccucgaGGGCAgUCACCCUGa -3'
miRNA:   3'- gCG-GCGuCGGC-------UCCGUgAGUGGGACc -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.