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
2905 5' -54.7 NC_001493.1 + 71274 0.66 0.939397
Target:  5'- gGGAGCGCgugaaauuGAUACagggccugaaaacCAGGgauGGGGGUGGa -3'
miRNA:   3'- aCCUUGCG--------CUAUGa------------GUUC---CCCCCACC- -5'
2905 5' -54.7 NC_001493.1 + 113426 0.66 0.936491
Target:  5'- aUGGAGUGUGGUGga-AAGGGGGGUugcgaGGa -3'
miRNA:   3'- -ACCUUGCGCUAUgagUUCCCCCCA-----CC- -5'
2905 5' -54.7 NC_001493.1 + 55111 0.66 0.936491
Target:  5'- cUGGAuccCGCaGAUuCUCAAGaGGGGGa-- -3'
miRNA:   3'- -ACCUu--GCG-CUAuGAGUUC-CCCCCacc -5'
2905 5' -54.7 NC_001493.1 + 22012 0.66 0.920651
Target:  5'- cGGGAUGgGGUuCUUGAGGucGGUGGa -3'
miRNA:   3'- aCCUUGCgCUAuGAGUUCCccCCACC- -5'
2905 5' -54.7 NC_001493.1 + 36224 0.67 0.914884
Target:  5'- cGGccuGCGCGGgggUGCUCAguGGGGcGGGUugcgcGGa -3'
miRNA:   3'- aCCu--UGCGCU---AUGAGU--UCCC-CCCA-----CC- -5'
2905 5' -54.7 NC_001493.1 + 26478 0.67 0.898763
Target:  5'- cGaGAGCGUccaugggaGAGGGGGGUGGa -3'
miRNA:   3'- aC-CUUGCGcuaugag-UUCCCCCCACC- -5'
2905 5' -54.7 NC_001493.1 + 115700 0.67 0.89614
Target:  5'- gGGGGCGUGGggguggCGAGGGuGGGUcuGGa -3'
miRNA:   3'- aCCUUGCGCUauga--GUUCCC-CCCA--CC- -5'
2905 5' -54.7 NC_001493.1 + 18820 0.68 0.875289
Target:  5'- -cGggUGUGGUGCgagcGGGGGGUGa -3'
miRNA:   3'- acCuuGCGCUAUGaguuCCCCCCACc -5'
2905 5' -54.7 NC_001493.1 + 18686 0.68 0.855604
Target:  5'- cGGAACGCacaccGGUcgggcacgaccccucACUCuccGGGaGGGGUGGu -3'
miRNA:   3'- aCCUUGCG-----CUA---------------UGAGu--UCC-CCCCACC- -5'
2905 5' -54.7 NC_001493.1 + 3795 0.69 0.839509
Target:  5'- aGGAGCGCGccccugugcgaaccgGUAUUCGcGGGGGcGGcGGg -3'
miRNA:   3'- aCCUUGCGC---------------UAUGAGU-UCCCC-CCaCC- -5'
2905 5' -54.7 NC_001493.1 + 119349 0.69 0.839509
Target:  5'- aGGAGCGCGccccugugcgaaccgGUAUUCGcGGGGGcGGcGGg -3'
miRNA:   3'- aCCUUGCGC---------------UAUGAGU-UCCCC-CCaCC- -5'
2905 5' -54.7 NC_001493.1 + 14998 0.69 0.819187
Target:  5'- gGGggUGCGA---UCGAGGccgcGGGUGGa -3'
miRNA:   3'- aCCuuGCGCUaugAGUUCCc---CCCACC- -5'
2905 5' -54.7 NC_001493.1 + 130553 0.69 0.819187
Target:  5'- gGGggUGCGA---UCGAGGccgcGGGUGGa -3'
miRNA:   3'- aCCuuGCGCUaugAGUUCCc---CCCACC- -5'
2905 5' -54.7 NC_001493.1 + 9151 0.7 0.744928
Target:  5'- gGGAugGCGg----CGAGGGGGGaGGc -3'
miRNA:   3'- aCCUugCGCuaugaGUUCCCCCCaCC- -5'
2905 5' -54.7 NC_001493.1 + 124706 0.7 0.744928
Target:  5'- gGGAugGCGg----CGAGGGGGGaGGc -3'
miRNA:   3'- aCCUugCGCuaugaGUUCCCCCCaCC- -5'
2905 5' -54.7 NC_001493.1 + 39980 0.71 0.735095
Target:  5'- cGGAACuCuGUACUgu-GGGGGGUGGu -3'
miRNA:   3'- aCCUUGcGcUAUGAguuCCCCCCACC- -5'
2905 5' -54.7 NC_001493.1 + 14119 0.71 0.72517
Target:  5'- gGGGugGUGGUGg-CGAuGGGGGUGGc -3'
miRNA:   3'- aCCUugCGCUAUgaGUUcCCCCCACC- -5'
2905 5' -54.7 NC_001493.1 + 129674 0.71 0.72517
Target:  5'- gGGGugGUGGUGg-CGAuGGGGGUGGc -3'
miRNA:   3'- aCCUugCGCUAUgaGUUcCCCCCACC- -5'
2905 5' -54.7 NC_001493.1 + 2999 0.71 0.715165
Target:  5'- cGGAugGUcGUGCUCAAcGGGauGGUGGa -3'
miRNA:   3'- aCCUugCGcUAUGAGUUcCCC--CCACC- -5'
2905 5' -54.7 NC_001493.1 + 118554 0.71 0.715165
Target:  5'- cGGAugGUcGUGCUCAAcGGGauGGUGGa -3'
miRNA:   3'- aCCUugCGcUAUGAGUUcCCC--CCACC- -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.