miRNA display CGI


Results 1 - 13 of 13 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
27727 3' -49.7 NC_005884.1 + 12351 0.66 0.911948
Target:  5'- uUUCUACUCcaauGCuCUCAAgg-CGGCCa -3'
miRNA:   3'- -AGGAUGAGauu-CG-GAGUUagaGUCGG- -5'
27727 3' -49.7 NC_005884.1 + 38914 0.66 0.902106
Target:  5'- cUCCUuggcGCUCUuacuauuccauCCUCAGUUggaUCAGCCg -3'
miRNA:   3'- -AGGA----UGAGAuuc--------GGAGUUAG---AGUCGG- -5'
27727 3' -49.7 NC_005884.1 + 24803 0.67 0.890125
Target:  5'- uUCCUuaaCUGAGCUUCAAUCacUAGCUu -3'
miRNA:   3'- -AGGAugaGAUUCGGAGUUAGa-GUCGG- -5'
27727 3' -49.7 NC_005884.1 + 28227 0.67 0.874083
Target:  5'- uUCUgaaUCUGAGUCcCAAUCcaggCAGCCg -3'
miRNA:   3'- -AGGaugAGAUUCGGaGUUAGa---GUCGG- -5'
27727 3' -49.7 NC_005884.1 + 42618 0.68 0.838666
Target:  5'- gCCUuuCUCUuucaGAGCCaUCAAUUgagUAGCCa -3'
miRNA:   3'- aGGAu-GAGA----UUCGG-AGUUAGa--GUCGG- -5'
27727 3' -49.7 NC_005884.1 + 21038 0.68 0.829171
Target:  5'- aUCCaGCUUggaaauAGCCUCAGaauauccuuuacUCUgAGCCa -3'
miRNA:   3'- -AGGaUGAGau----UCGGAGUU------------AGAgUCGG- -5'
27727 3' -49.7 NC_005884.1 + 41622 0.68 0.819442
Target:  5'- uUCCUACUCaagcgcAGCUUUcuAAUUUCAGCa -3'
miRNA:   3'- -AGGAUGAGau----UCGGAG--UUAGAGUCGg -5'
27727 3' -49.7 NC_005884.1 + 18010 0.68 0.809489
Target:  5'- cUUCUAC-CUGAGCUUUgGAUC-CAGCCu -3'
miRNA:   3'- -AGGAUGaGAUUCGGAG-UUAGaGUCGG- -5'
27727 3' -49.7 NC_005884.1 + 35897 0.71 0.665775
Target:  5'- ---aGCUCUAcAGUCUCAGUCUguuUAGCCu -3'
miRNA:   3'- aggaUGAGAU-UCGGAGUUAGA---GUCGG- -5'
27727 3' -49.7 NC_005884.1 + 9061 0.72 0.595584
Target:  5'- uUCCUGCUCaguagcauggAAGUCcaugCAAUCUCGGCg -3'
miRNA:   3'- -AGGAUGAGa---------UUCGGa---GUUAGAGUCGg -5'
27727 3' -49.7 NC_005884.1 + 29231 0.73 0.560807
Target:  5'- aCCUGCcauugCUGAGUCUCAAUgUCcccGCCa -3'
miRNA:   3'- aGGAUGa----GAUUCGGAGUUAgAGu--CGG- -5'
27727 3' -49.7 NC_005884.1 + 21392 0.75 0.439898
Target:  5'- cCCUuccCUCaGAGCCUUAuaCUCAGCCg -3'
miRNA:   3'- aGGAu--GAGaUUCGGAGUuaGAGUCGG- -5'
27727 3' -49.7 NC_005884.1 + 42733 1.13 0.001501
Target:  5'- cUCCUACUCUAAGCCUCAAUCUCAGCCc -3'
miRNA:   3'- -AGGAUGAGAUUCGGAGUUAGAGUCGG- -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.