miRNA display CGI


Results 1 - 20 of 23 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
9896 5' -58.1 NC_002641.1 + 47252 0.66 0.825087
Target:  5'- -uCGCCGCCACaGGGUGccUAUCCaGCa -3'
miRNA:   3'- acGCGGCGGUGaUCCGUucGUAGG-CG- -5'
9896 5' -58.1 NC_002641.1 + 125224 0.66 0.816583
Target:  5'- aGgGCCaaGCCGCUuGGCcgcAGCGcuggCCGCg -3'
miRNA:   3'- aCgCGG--CGGUGAuCCGu--UCGUa---GGCG- -5'
9896 5' -58.1 NC_002641.1 + 157249 0.66 0.816583
Target:  5'- aGgGCCaaGCCGCUuGGCcgcAGCGcuggCCGCg -3'
miRNA:   3'- aCgCGG--CGGUGAuCCGu--UCGUa---GGCG- -5'
9896 5' -58.1 NC_002641.1 + 48965 0.66 0.813999
Target:  5'- cUGCaucgGCCGCCgaacuugcggacGCUGcGGCAGaugcugaauuacccGCAUCCGUg -3'
miRNA:   3'- -ACG----CGGCGG------------UGAU-CCGUU--------------CGUAGGCG- -5'
9896 5' -58.1 NC_002641.1 + 108775 0.66 0.807914
Target:  5'- aUGaGCCGCCACauGGCA-GCAUCUu- -3'
miRNA:   3'- -ACgCGGCGGUGauCCGUuCGUAGGcg -5'
9896 5' -58.1 NC_002641.1 + 157002 0.66 0.807914
Target:  5'- gGcCGCCGCCGagucCUAcGGCG-GCAgagCUGCg -3'
miRNA:   3'- aC-GCGGCGGU----GAU-CCGUuCGUa--GGCG- -5'
9896 5' -58.1 NC_002641.1 + 45471 0.66 0.807914
Target:  5'- -cUGCUGCCAguaucagcauCUGGGCAuGCGcUCUGCu -3'
miRNA:   3'- acGCGGCGGU----------GAUCCGUuCGU-AGGCG- -5'
9896 5' -58.1 NC_002641.1 + 125470 0.66 0.807914
Target:  5'- gGcCGCCGCCGagucCUAcGGCG-GCAgagCUGCg -3'
miRNA:   3'- aC-GCGGCGGU----GAU-CCGUuCGUa--GGCG- -5'
9896 5' -58.1 NC_002641.1 + 152179 0.66 0.799088
Target:  5'- cGUucCCGCCACUAuguGGCGAGgAuggagaUCCGCc -3'
miRNA:   3'- aCGc-GGCGGUGAU---CCGUUCgU------AGGCG- -5'
9896 5' -58.1 NC_002641.1 + 130293 0.66 0.799088
Target:  5'- cGUucuCCGCCACUAuguGGCGAGgAuggagaUCCGCc -3'
miRNA:   3'- aCGc--GGCGGUGAU---CCGUUCgU------AGGCG- -5'
9896 5' -58.1 NC_002641.1 + 156969 0.67 0.780999
Target:  5'- cGCGCCGUCACUucGCGGucuUAUCaCGCu -3'
miRNA:   3'- aCGCGGCGGUGAucCGUUc--GUAG-GCG- -5'
9896 5' -58.1 NC_002641.1 + 125504 0.67 0.780999
Target:  5'- cGCGCCGUCACUucGCGGucuUAUCaCGCu -3'
miRNA:   3'- aCGCGGCGGUGAucCGUUc--GUAG-GCG- -5'
9896 5' -58.1 NC_002641.1 + 38458 0.67 0.752901
Target:  5'- -aUGCCaCCACcccggauaUAGGCGGcGCAUCUGCa -3'
miRNA:   3'- acGCGGcGGUG--------AUCCGUU-CGUAGGCG- -5'
9896 5' -58.1 NC_002641.1 + 38271 0.67 0.750035
Target:  5'- aUGCGCCGCCuauauccgGGGUGguggcauagaguauAGCcguuGUCCGCu -3'
miRNA:   3'- -ACGCGGCGGuga-----UCCGU--------------UCG----UAGGCG- -5'
9896 5' -58.1 NC_002641.1 + 12757 0.68 0.714013
Target:  5'- uUGC-CCGCUACaucGGCAGacGCGUCCGa -3'
miRNA:   3'- -ACGcGGCGGUGau-CCGUU--CGUAGGCg -5'
9896 5' -58.1 NC_002641.1 + 125203 0.68 0.684093
Target:  5'- cGUGCCGCCGCUcgcuaacGGCGcGCAggaGCg -3'
miRNA:   3'- aCGCGGCGGUGAu------CCGUuCGUaggCG- -5'
9896 5' -58.1 NC_002641.1 + 125087 0.68 0.684093
Target:  5'- aGCGCCGUUGCca-GCGAGCcgCCGa -3'
miRNA:   3'- aCGCGGCGGUGaucCGUUCGuaGGCg -5'
9896 5' -58.1 NC_002641.1 + 157385 0.68 0.684093
Target:  5'- aGCGCCGUUGCca-GCGAGCcgCCGa -3'
miRNA:   3'- aCGCGGCGGUGaucCGUUCGuaGGCg -5'
9896 5' -58.1 NC_002641.1 + 157269 0.68 0.684093
Target:  5'- cGUGCCGCCGCUcgcuaacGGCGcGCAggaGCg -3'
miRNA:   3'- aCGCGGCGGUGAu------CCGUuCGUaggCG- -5'
9896 5' -58.1 NC_002641.1 + 109378 0.69 0.663921
Target:  5'- gGCG-CGCCACUGGaGaacGGCAUgaCCGCa -3'
miRNA:   3'- aCGCgGCGGUGAUC-Cgu-UCGUA--GGCG- -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.