miRNA display CGI


Results 1 - 20 of 56 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
18785 5' -58.8 NC_004683.1 + 33830 0.67 0.514353
Target:  5'- -uAGAUGCU-CugCGAgcucgcgcGGUCGCCGGGa -3'
miRNA:   3'- acUUUGCGGcGugGCU--------CCAGCGGCCC- -5'
18785 5' -58.8 NC_004683.1 + 6482 0.68 0.427256
Target:  5'- cGAgGACGCCaGCGCCGA----GCCGGGu -3'
miRNA:   3'- aCU-UUGCGG-CGUGGCUccagCGGCCC- -5'
18785 5' -58.8 NC_004683.1 + 14913 0.68 0.445878
Target:  5'- gGAGACGUU-CACCcuGGUCGCgGGGu -3'
miRNA:   3'- aCUUUGCGGcGUGGcuCCAGCGgCCC- -5'
18785 5' -58.8 NC_004683.1 + 42577 0.68 0.445878
Target:  5'- cGAGcGCGCCGCGgCGGucggggccGGUCGuCCGGc -3'
miRNA:   3'- aCUU-UGCGGCGUgGCU--------CCAGC-GGCCc -5'
18785 5' -58.8 NC_004683.1 + 33101 0.68 0.455357
Target:  5'- cGGGAgGCCGCccucgcgcaguGCCGucacaAGGUCGUCGaGGu -3'
miRNA:   3'- aCUUUgCGGCG-----------UGGC-----UCCAGCGGC-CC- -5'
18785 5' -58.8 NC_004683.1 + 37845 0.68 0.464944
Target:  5'- gUGAcGCgGCCGC-CUGGGuGUCGUCGGc -3'
miRNA:   3'- -ACUuUG-CGGCGuGGCUC-CAGCGGCCc -5'
18785 5' -58.8 NC_004683.1 + 33536 0.68 0.478539
Target:  5'- gGAGGCGCCGUaaccgguucacugugACCG-GGUCGuaGGc -3'
miRNA:   3'- aCUUUGCGGCG---------------UGGCuCCAGCggCCc -5'
18785 5' -58.8 NC_004683.1 + 1779 0.67 0.484426
Target:  5'- cGcAACGCCG-GCCGAcGUUGCCaGGGc -3'
miRNA:   3'- aCuUUGCGGCgUGGCUcCAGCGG-CCC- -5'
18785 5' -58.8 NC_004683.1 + 56785 0.67 0.514353
Target:  5'- -----aGCCGCuACCGAGGUC-CCGa- -3'
miRNA:   3'- acuuugCGGCG-UGGCUCCAGcGGCcc -5'
18785 5' -58.8 NC_004683.1 + 52786 0.68 0.427256
Target:  5'- aGAGGCGCUGCucGCCGAGGcCGaCGa- -3'
miRNA:   3'- aCUUUGCGGCG--UGGCUCCaGCgGCcc -5'
18785 5' -58.8 NC_004683.1 + 15215 0.69 0.417213
Target:  5'- gGGAACguucaaguucgcuGCCGCGCCcGGGUCGaCGGa -3'
miRNA:   3'- aCUUUG-------------CGGCGUGGcUCCAGCgGCCc -5'
18785 5' -58.8 NC_004683.1 + 23899 0.69 0.391439
Target:  5'- cGAguuccAGCGCCGCguaggcguggcgGCCGAcGGcaUCGUCGGGc -3'
miRNA:   3'- aCU-----UUGCGGCG------------UGGCU-CC--AGCGGCCC- -5'
18785 5' -58.8 NC_004683.1 + 39610 0.72 0.255993
Target:  5'- -uGGGCGcCCGUuCCGGGGUgggcgcCGCCGGGg -3'
miRNA:   3'- acUUUGC-GGCGuGGCUCCA------GCGGCCC- -5'
18785 5' -58.8 NC_004683.1 + 31280 0.72 0.262396
Target:  5'- gUGGAAUGuuGCACCGGGGguugUGCagcugCGGGc -3'
miRNA:   3'- -ACUUUGCggCGUGGCUCCa---GCG-----GCCC- -5'
18785 5' -58.8 NC_004683.1 + 1997 0.7 0.349513
Target:  5'- gGAGACuGCCGCACCGGcuGUCGaggugUGGGa -3'
miRNA:   3'- aCUUUG-CGGCGUGGCUc-CAGCg----GCCC- -5'
18785 5' -58.8 NC_004683.1 + 13166 0.7 0.349513
Target:  5'- ---uACGUCGCAcuacuaucgccCCGcGGUUGCCGGGc -3'
miRNA:   3'- acuuUGCGGCGU-----------GGCuCCAGCGGCCC- -5'
18785 5' -58.8 NC_004683.1 + 25520 0.7 0.352747
Target:  5'- uUGAagcuGACGCCGUGCCGcuguggcucggccuGGUCGCCGc- -3'
miRNA:   3'- -ACU----UUGCGGCGUGGCu-------------CCAGCGGCcc -5'
18785 5' -58.8 NC_004683.1 + 18165 0.7 0.365062
Target:  5'- cGAAGcCGCCGUcacggucACCGGcucGUCGCCGGa -3'
miRNA:   3'- aCUUU-GCGGCG-------UGGCUc--CAGCGGCCc -5'
18785 5' -58.8 NC_004683.1 + 40289 0.7 0.365894
Target:  5'- cGAAcugcGCGCUGgcauCGCCGAGGgcaUCGCCGcGGc -3'
miRNA:   3'- aCUU----UGCGGC----GUGGCUCC---AGCGGC-CC- -5'
18785 5' -58.8 NC_004683.1 + 26301 0.69 0.391439
Target:  5'- cGAGAC-UCGCACCGAGGcauacaaggaaaUCGaCCGGc -3'
miRNA:   3'- aCUUUGcGGCGUGGCUCC------------AGC-GGCCc -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.