miRNA display CGI


Results 1 - 20 of 24 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
22400 3' -55.7 NC_005056.1 + 6426 1.15 0.000174
Target:  5'- cGCCUUUCGCACUGGCAUCCACGCCGCg -3'
miRNA:   3'- -CGGAAAGCGUGACCGUAGGUGCGGCG- -5'
22400 3' -55.7 NC_005056.1 + 2594 0.73 0.211905
Target:  5'- aGUCUUUCgaauaucaguuGCACUGGUAUC-GCGCCGg -3'
miRNA:   3'- -CGGAAAG-----------CGUGACCGUAGgUGCGGCg -5'
22400 3' -55.7 NC_005056.1 + 26353 0.72 0.240782
Target:  5'- gGUCUUUCGCGCccgacagccucgcgUGGCGcguUCCAUGCauaaGCa -3'
miRNA:   3'- -CGGAAAGCGUG--------------ACCGU---AGGUGCGg---CG- -5'
22400 3' -55.7 NC_005056.1 + 2971 0.72 0.242081
Target:  5'- cGCUgc-UGUACUGGCAgggguuuUCCGUGCCGCa -3'
miRNA:   3'- -CGGaaaGCGUGACCGU-------AGGUGCGGCG- -5'
22400 3' -55.7 NC_005056.1 + 26957 0.72 0.249329
Target:  5'- uGCCaUUCGUgaUGuGCGUgCGCGCCGCc -3'
miRNA:   3'- -CGGaAAGCGugAC-CGUAgGUGCGGCG- -5'
22400 3' -55.7 NC_005056.1 + 6324 0.71 0.277203
Target:  5'- cGCCgugugUGCGaUGGCGaCCGCGUCGCu -3'
miRNA:   3'- -CGGaaa--GCGUgACCGUaGGUGCGGCG- -5'
22400 3' -55.7 NC_005056.1 + 18551 0.7 0.299701
Target:  5'- uGCCUguugCGCACUGacacgcgccagcGCGU-CACGCUGCc -3'
miRNA:   3'- -CGGAaa--GCGUGAC------------CGUAgGUGCGGCG- -5'
22400 3' -55.7 NC_005056.1 + 27641 0.7 0.307508
Target:  5'- gGCUguuacCGCAUgGGCGUCUACGUgGCg -3'
miRNA:   3'- -CGGaaa--GCGUGaCCGUAGGUGCGgCG- -5'
22400 3' -55.7 NC_005056.1 + 12538 0.7 0.331856
Target:  5'- gGCCuUUUCGCGCgguggUGGCGUCCuguGCgGUa -3'
miRNA:   3'- -CGG-AAAGCGUG-----ACCGUAGGug-CGgCG- -5'
22400 3' -55.7 NC_005056.1 + 19768 0.69 0.357591
Target:  5'- cGCCUgcugcCGCGaugaUGGCAUUgAUGCCGg -3'
miRNA:   3'- -CGGAaa---GCGUg---ACCGUAGgUGCGGCg -5'
22400 3' -55.7 NC_005056.1 + 13260 0.69 0.357591
Target:  5'- gGUCUUUUGUugUGGUAcUCugGCgGCu -3'
miRNA:   3'- -CGGAAAGCGugACCGUaGGugCGgCG- -5'
22400 3' -55.7 NC_005056.1 + 21844 0.69 0.366475
Target:  5'- uGCCacgaaaGCGCaGGcCAUgCGCGCCGCu -3'
miRNA:   3'- -CGGaaag--CGUGaCC-GUAgGUGCGGCG- -5'
22400 3' -55.7 NC_005056.1 + 11882 0.69 0.384694
Target:  5'- uGCCgg-UGCaguaaaGCUGGCAgcggcaaCCGCGCCGg -3'
miRNA:   3'- -CGGaaaGCG------UGACCGUa------GGUGCGGCg -5'
22400 3' -55.7 NC_005056.1 + 23355 0.68 0.432781
Target:  5'- aGCuCUUUUGCucauccggcucACUGGUAUaucacCUAUGCCGCu -3'
miRNA:   3'- -CG-GAAAGCG-----------UGACCGUA-----GGUGCGGCG- -5'
22400 3' -55.7 NC_005056.1 + 16254 0.67 0.457073
Target:  5'- gGCUg-UUGCACUGGCAUCagucugucagaaGCUGCg -3'
miRNA:   3'- -CGGaaAGCGUGACCGUAGgug---------CGGCG- -5'
22400 3' -55.7 NC_005056.1 + 1147 0.67 0.462225
Target:  5'- uGCCUccauuUUCgggGCGCUGGCggUCAuuuuuuuUGCCGCa -3'
miRNA:   3'- -CGGA-----AAG---CGUGACCGuaGGU-------GCGGCG- -5'
22400 3' -55.7 NC_005056.1 + 1352 0.67 0.473667
Target:  5'- cGCCgaccUCGC-CUgGGCGaCCAUGCaCGCc -3'
miRNA:   3'- -CGGaa--AGCGuGA-CCGUaGGUGCG-GCG- -5'
22400 3' -55.7 NC_005056.1 + 27547 0.67 0.484191
Target:  5'- uGCCUgaaaacgguUUCGCGC-GGC-UCCucuuuCGUCGCc -3'
miRNA:   3'- -CGGA---------AAGCGUGaCCGuAGGu----GCGGCG- -5'
22400 3' -55.7 NC_005056.1 + 9570 0.67 0.484191
Target:  5'- aCCcaUCGCGCcgGGCGUUCGCGCa-- -3'
miRNA:   3'- cGGaaAGCGUGa-CCGUAGGUGCGgcg -5'
22400 3' -55.7 NC_005056.1 + 5949 0.67 0.494825
Target:  5'- aCCUgaCGCugUaccGGCGUCCACcGCC-Cg -3'
miRNA:   3'- cGGAaaGCGugA---CCGUAGGUG-CGGcG- -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.