miRNA display CGI


Results 1 - 20 of 52 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
25754 3' -56.7 NC_005337.1 + 10343 0.66 0.832897
Target:  5'- -cUGCAcGcGGCCGucGCCGCcgCAGCGg -3'
miRNA:   3'- gaACGUcCaCCGGU--CGGUGuaGUCGU- -5'
25754 3' -56.7 NC_005337.1 + 6094 0.66 0.824288
Target:  5'- cCUUGCacgAGGUGuacGUCgcGGCCACGUgCAGCGg -3'
miRNA:   3'- -GAACG---UCCAC---CGG--UCGGUGUA-GUCGU- -5'
25754 3' -56.7 NC_005337.1 + 91109 0.66 0.824288
Target:  5'- --gGCgAGGUccGGUCGGCgCGCAUgAGCAu -3'
miRNA:   3'- gaaCG-UCCA--CCGGUCG-GUGUAgUCGU- -5'
25754 3' -56.7 NC_005337.1 + 90137 0.66 0.824288
Target:  5'- -cUGCAGGuUGuGCUugaaGGCCACGUUcucgGGCAu -3'
miRNA:   3'- gaACGUCC-AC-CGG----UCGGUGUAG----UCGU- -5'
25754 3' -56.7 NC_005337.1 + 90926 0.66 0.815496
Target:  5'- --aGCGGcGUcuucccggcGGCCAG-CGCGUCGGCGa -3'
miRNA:   3'- gaaCGUC-CA---------CCGGUCgGUGUAGUCGU- -5'
25754 3' -56.7 NC_005337.1 + 29565 0.66 0.815496
Target:  5'- -cUGCucAGGUGGCaCAGCaGCuccUCGGCGg -3'
miRNA:   3'- gaACG--UCCACCG-GUCGgUGu--AGUCGU- -5'
25754 3' -56.7 NC_005337.1 + 25706 0.66 0.80653
Target:  5'- --aGCGGGUuGuCCGGCCGCGccgcCAGCGu -3'
miRNA:   3'- gaaCGUCCAcC-GGUCGGUGUa---GUCGU- -5'
25754 3' -56.7 NC_005337.1 + 31908 0.66 0.80653
Target:  5'- --aGCGcGGUGGCCAGgUGCG-CGGCc -3'
miRNA:   3'- gaaCGU-CCACCGGUCgGUGUaGUCGu -5'
25754 3' -56.7 NC_005337.1 + 42951 0.66 0.80653
Target:  5'- --cGCAuGGUcaaggggaccguGGCCAGCCugG-CGGCGu -3'
miRNA:   3'- gaaCGU-CCA------------CCGGUCGGugUaGUCGU- -5'
25754 3' -56.7 NC_005337.1 + 40552 0.66 0.80653
Target:  5'- --gGCGGGUcGCUggaGGCCGCGUCgAGCc -3'
miRNA:   3'- gaaCGUCCAcCGG---UCGGUGUAG-UCGu -5'
25754 3' -56.7 NC_005337.1 + 1271 0.66 0.797397
Target:  5'- --cGCAGGaUGGCCcgcggAGgCGgGUCGGCGg -3'
miRNA:   3'- gaaCGUCC-ACCGG-----UCgGUgUAGUCGU- -5'
25754 3' -56.7 NC_005337.1 + 110487 0.67 0.788109
Target:  5'- --cGCAGGUaccgGGCCAGCUcgACGU-GGCGc -3'
miRNA:   3'- gaaCGUCCA----CCGGUCGG--UGUAgUCGU- -5'
25754 3' -56.7 NC_005337.1 + 3366 0.67 0.788109
Target:  5'- gCUUGCAggaGGUGuGCgCGGCCAUGaggugCAGCGg -3'
miRNA:   3'- -GAACGU---CCAC-CG-GUCGGUGUa----GUCGU- -5'
25754 3' -56.7 NC_005337.1 + 85069 0.67 0.788109
Target:  5'- cCUUGUAcagcguccGGUGGUUGGCCACGUaccGCAc -3'
miRNA:   3'- -GAACGU--------CCACCGGUCGGUGUAgu-CGU- -5'
25754 3' -56.7 NC_005337.1 + 77815 0.67 0.788109
Target:  5'- --cGCGGGUcGCUGGCCACcAUCAccGCGc -3'
miRNA:   3'- gaaCGUCCAcCGGUCGGUG-UAGU--CGU- -5'
25754 3' -56.7 NC_005337.1 + 4478 0.67 0.778673
Target:  5'- --gGCAGGUGcucugcaucGCCAGC-ACGUgCAGCGg -3'
miRNA:   3'- gaaCGUCCAC---------CGGUCGgUGUA-GUCGU- -5'
25754 3' -56.7 NC_005337.1 + 21921 0.67 0.778673
Target:  5'- -aUGgAGGUGGCCGcgcgcuccGCCGagcucgcggaguCAUCGGCGu -3'
miRNA:   3'- gaACgUCCACCGGU--------CGGU------------GUAGUCGU- -5'
25754 3' -56.7 NC_005337.1 + 91346 0.67 0.778673
Target:  5'- --cGCAGGUucuGGCCguugaaggugAGCUGCcgCAGCGa -3'
miRNA:   3'- gaaCGUCCA---CCGG----------UCGGUGuaGUCGU- -5'
25754 3' -56.7 NC_005337.1 + 100629 0.67 0.7691
Target:  5'- --aGguGGUGuaCuGCgACAUCAGCAc -3'
miRNA:   3'- gaaCguCCACcgGuCGgUGUAGUCGU- -5'
25754 3' -56.7 NC_005337.1 + 52109 0.67 0.759399
Target:  5'- -gUGCAGGUgcgcgacgGGCCGGCCAU---GGCc -3'
miRNA:   3'- gaACGUCCA--------CCGGUCGGUGuagUCGu -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.