miRNA display CGI


Results 1 - 20 of 60 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
30205 3' -58.5 NC_006273.1 + 39166 0.67 0.832214
Target:  5'- --gCCGGGCUGCgGCGGUgcUCCGAgcGGCGu -3'
miRNA:   3'- gaaGGUCUGACG-UGCCG--GGGUU--CCGC- -5'
30205 3' -58.5 NC_006273.1 + 235072 0.69 0.720571
Target:  5'- --gCCAGACaagacgcggGCGCaagggaggagucgcgGGCCCCGGGGCa -3'
miRNA:   3'- gaaGGUCUGa--------CGUG---------------CCGGGGUUCCGc -5'
30205 3' -58.5 NC_006273.1 + 29402 0.69 0.7357
Target:  5'- -gUCgCAGGC-GUagACGGCCCCGguauAGGCGa -3'
miRNA:   3'- gaAG-GUCUGaCG--UGCCGGGGU----UCCGC- -5'
30205 3' -58.5 NC_006273.1 + 94116 0.68 0.77252
Target:  5'- --cCUAGGgaGCGCGaGCCCCGugccGGGCa -3'
miRNA:   3'- gaaGGUCUgaCGUGC-CGGGGU----UCCGc -5'
30205 3' -58.5 NC_006273.1 + 94959 0.68 0.781456
Target:  5'- gCUUCCGGGuCUcGCgGCGGCuCCCucucGGCGg -3'
miRNA:   3'- -GAAGGUCU-GA-CG-UGCCG-GGGuu--CCGC- -5'
30205 3' -58.5 NC_006273.1 + 140850 0.68 0.798951
Target:  5'- ---aCAGGCggUGCGCGGCCgcuucUCGGGGCGc -3'
miRNA:   3'- gaagGUCUG--ACGUGCCGG-----GGUUCCGC- -5'
30205 3' -58.5 NC_006273.1 + 49885 0.68 0.804946
Target:  5'- ---aCAGACggUGCccaucugcccacgaAgGGCCCCAGGGCGc -3'
miRNA:   3'- gaagGUCUG--ACG--------------UgCCGGGGUUCCGC- -5'
30205 3' -58.5 NC_006273.1 + 203996 0.68 0.807494
Target:  5'- cCUUCCGGug-GCGCGGUgccgaccucggaCCCAGGGaCGu -3'
miRNA:   3'- -GAAGGUCugaCGUGCCG------------GGGUUCC-GC- -5'
30205 3' -58.5 NC_006273.1 + 187533 0.67 0.824132
Target:  5'- -gUCC-GACUcccgccGUACGGCgCCGAGGCc -3'
miRNA:   3'- gaAGGuCUGA------CGUGCCGgGGUUCCGc -5'
30205 3' -58.5 NC_006273.1 + 241 0.69 0.720571
Target:  5'- --gCCAGACaagacgcggGCGCaagggaggagucgcgGGCCCCGGGGCa -3'
miRNA:   3'- gaaGGUCUGa--------CGUG---------------CCGGGGUUCCGc -5'
30205 3' -58.5 NC_006273.1 + 72540 0.7 0.711022
Target:  5'- cCUUCCcggcgugccgacgcaAGGCUGCGaugaGGCCCCGcagcugcGGCGa -3'
miRNA:   3'- -GAAGG---------------UCUGACGUg---CCGGGGUu------CCGC- -5'
30205 3' -58.5 NC_006273.1 + 33223 0.71 0.648788
Target:  5'- --cCCGGuaGC-GCACcgagGGCCCCGGGGCGg -3'
miRNA:   3'- gaaGGUC--UGaCGUG----CCGGGGUUCCGC- -5'
30205 3' -58.5 NC_006273.1 + 3 0.77 0.315633
Target:  5'- aUUCCGGGCcgugUGCugGGuCCCCGagGGGCGg -3'
miRNA:   3'- gAAGGUCUG----ACGugCC-GGGGU--UCCGC- -5'
30205 3' -58.5 NC_006273.1 + 234834 0.77 0.315633
Target:  5'- aUUCCGGGCcgugUGCugGGuCCCCGagGGGCGg -3'
miRNA:   3'- gAAGGUCUG----ACGugCC-GGGGU--UCCGC- -5'
30205 3' -58.5 NC_006273.1 + 120744 0.75 0.423748
Target:  5'- --gCCAGGaUGC-CGGCCgCCAGGGCGg -3'
miRNA:   3'- gaaGGUCUgACGuGCCGG-GGUUCCGC- -5'
30205 3' -58.5 NC_006273.1 + 229436 0.73 0.5039
Target:  5'- -aUCCAcGACUcGCACGGCCUguGGuGCGa -3'
miRNA:   3'- gaAGGU-CUGA-CGUGCCGGGguUC-CGC- -5'
30205 3' -58.5 NC_006273.1 + 120558 0.73 0.513224
Target:  5'- -gUCgAGGCgaUGCAUGGCCCgggCAAGGCGu -3'
miRNA:   3'- gaAGgUCUG--ACGUGCCGGG---GUUCCGC- -5'
30205 3' -58.5 NC_006273.1 + 73411 0.72 0.540643
Target:  5'- --cCCAGACUGCggucgcgAUGGCCCgGAGcGCGc -3'
miRNA:   3'- gaaGGUCUGACG-------UGCCGGGgUUC-CGC- -5'
30205 3' -58.5 NC_006273.1 + 57195 0.72 0.560801
Target:  5'- --aCCAGAauCUGCACGGUgCCCGuaGGGCa -3'
miRNA:   3'- gaaGGUCU--GACGUGCCG-GGGU--UCCGc -5'
30205 3' -58.5 NC_006273.1 + 232960 0.71 0.636021
Target:  5'- -gUCCAGcucgggcagcagccGCcGCGCGGCCUCGGcGGCGg -3'
miRNA:   3'- gaAGGUC--------------UGaCGUGCCGGGGUU-CCGC- -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.