miRNA display CGI


Results 1 - 18 of 18 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
13247 3' -61.6 NC_003401.1 + 119991 0.66 0.650903
Target:  5'- cGUCcCUGGuGGCGGCCgccugCGCGCuguuuagccuCGGUGCc -3'
miRNA:   3'- -CAGcGACC-CUGUCGG-----GUGCG----------GCCACG- -5'
13247 3' -61.6 NC_003401.1 + 111343 0.66 0.647919
Target:  5'- --aGCUGGGAUucuGCCCacguugccgaaaagACGCCGaGgagGCu -3'
miRNA:   3'- cagCGACCCUGu--CGGG--------------UGCGGC-Ca--CG- -5'
13247 3' -61.6 NC_003401.1 + 127348 0.66 0.630996
Target:  5'- aUCGCaacuuuUGGGuucgacgaGCAGCCcguuuccuccaaCugGCUGGUGCg -3'
miRNA:   3'- cAGCG------ACCC--------UGUCGG------------GugCGGCCACG- -5'
13247 3' -61.6 NC_003401.1 + 8134 0.66 0.621041
Target:  5'- cUCGgaGGGGaggauGCCCAuCGCCGGa-- -3'
miRNA:   3'- cAGCgaCCCUgu---CGGGU-GCGGCCacg -5'
13247 3' -61.6 NC_003401.1 + 23832 0.66 0.611093
Target:  5'- -aCGCUGGcGGCAGCCaaugggCGCGuuGG-GUu -3'
miRNA:   3'- caGCGACC-CUGUCGG------GUGCggCCaCG- -5'
13247 3' -61.6 NC_003401.1 + 105360 0.67 0.591249
Target:  5'- -cCGCcaGGGugGGCCaCAUGgCGGUGa -3'
miRNA:   3'- caGCGa-CCCugUCGG-GUGCgGCCACg -5'
13247 3' -61.6 NC_003401.1 + 118899 0.67 0.591249
Target:  5'- gGUCGUUGGGGgAGgaagCCGCGCCGccaaGCg -3'
miRNA:   3'- -CAGCGACCCUgUCg---GGUGCGGCca--CG- -5'
13247 3' -61.6 NC_003401.1 + 126331 0.67 0.581366
Target:  5'- -cCGCUaucGaGAUGGCCCugGCCGGUa- -3'
miRNA:   3'- caGCGAc--C-CUGUCGGGugCGGCCAcg -5'
13247 3' -61.6 NC_003401.1 + 80325 0.67 0.581366
Target:  5'- --gGCUGGGcCAGgCCaaggcGCGCCuauugGGUGCg -3'
miRNA:   3'- cagCGACCCuGUCgGG-----UGCGG-----CCACG- -5'
13247 3' -61.6 NC_003401.1 + 89158 0.67 0.56171
Target:  5'- cGUUGCUGGGaACAGUgU-CGCCGGg-- -3'
miRNA:   3'- -CAGCGACCC-UGUCGgGuGCGGCCacg -5'
13247 3' -61.6 NC_003401.1 + 107738 0.68 0.532587
Target:  5'- -aCGCUcGGGGCGGCCgA-GCCGGa-- -3'
miRNA:   3'- caGCGA-CCCUGUCGGgUgCGGCCacg -5'
13247 3' -61.6 NC_003401.1 + 12212 0.68 0.504023
Target:  5'- aUCGCUGGauguuauccGugAGCCCcuCGaCCGGUuGCa -3'
miRNA:   3'- cAGCGACC---------CugUCGGGu-GC-GGCCA-CG- -5'
13247 3' -61.6 NC_003401.1 + 60699 0.69 0.44021
Target:  5'- cGUCGaCUGGGugGucGCCCuuGgGuuGGUGCc -3'
miRNA:   3'- -CAGC-GACCCugU--CGGG--UgCggCCACG- -5'
13247 3' -61.6 NC_003401.1 + 127685 0.69 0.422831
Target:  5'- cUCGC-GGGGCGGCCUGCGCCu---- -3'
miRNA:   3'- cAGCGaCCCUGUCGGGUGCGGccacg -5'
13247 3' -61.6 NC_003401.1 + 20626 0.71 0.365397
Target:  5'- uGUCGUguUGGGcggcCAGCCCuACGCUGGcGCc -3'
miRNA:   3'- -CAGCG--ACCCu---GUCGGG-UGCGGCCaCG- -5'
13247 3' -61.6 NC_003401.1 + 127846 0.71 0.349249
Target:  5'- -gCGCUGuGGACGGUuuuaagaaagCCACcgaggacaggcguGCCGGUGCg -3'
miRNA:   3'- caGCGAC-CCUGUCG----------GGUG-------------CGGCCACG- -5'
13247 3' -61.6 NC_003401.1 + 8605 0.73 0.280096
Target:  5'- -aCGCUGc-ACuGCCuCACGCCGGUGCu -3'
miRNA:   3'- caGCGACccUGuCGG-GUGCGGCCACG- -5'
13247 3' -61.6 NC_003401.1 + 108993 1.11 0.000523
Target:  5'- cGUCGCUGGGACAGCCCACGCCGGUGCa -3'
miRNA:   3'- -CAGCGACCCUGUCGGGUGCGGCCACG- -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.