miRNA display CGI


Results 1 - 20 of 96 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
16199 3' -56.2 NC_004065.1 + 68512 0.79 0.361346
Target:  5'- aGGCGGCGGACGC-AUCUcCCggaGGCCGa -3'
miRNA:   3'- -CCGCCGCCUGUGcUAGAaGGa--CUGGU- -5'
16199 3' -56.2 NC_004065.1 + 131869 0.7 0.811832
Target:  5'- aGGCGGCGGugGCGGcggcgacuaUCaccgCCaGACCu -3'
miRNA:   3'- -CCGCCGCCugUGCU---------AGaa--GGaCUGGu -5'
16199 3' -56.2 NC_004065.1 + 136687 0.7 0.828392
Target:  5'- cGGCGGCGGGCcggcuCGAgCUUUUauccgccacgaUGACCAu -3'
miRNA:   3'- -CCGCCGCCUGu----GCUaGAAGG-----------ACUGGU- -5'
16199 3' -56.2 NC_004065.1 + 138247 0.66 0.965145
Target:  5'- -aUGGCGGACgACGAUCUcuccagCCUcGCCc -3'
miRNA:   3'- ccGCCGCCUG-UGCUAGAa-----GGAcUGGu -5'
16199 3' -56.2 NC_004065.1 + 79550 0.73 0.653003
Target:  5'- aGGCGGUcGAUGCGGcgcagcggcgCUUCCUGGCCGa -3'
miRNA:   3'- -CCGCCGcCUGUGCUa---------GAAGGACUGGU- -5'
16199 3' -56.2 NC_004065.1 + 176341 0.73 0.653003
Target:  5'- gGGCGGC-GACACGAUCaUCggaUGACUAu -3'
miRNA:   3'- -CCGCCGcCUGUGCUAGaAGg--ACUGGU- -5'
16199 3' -56.2 NC_004065.1 + 144374 0.72 0.692228
Target:  5'- cGGCgcuGGCGGugACGAUCUggugccUCCUuGCCu -3'
miRNA:   3'- -CCG---CCGCCugUGCUAGA------AGGAcUGGu -5'
16199 3' -56.2 NC_004065.1 + 90993 0.72 0.701938
Target:  5'- uGGCGGaCGGACugcaGCG-UCUUCUUGACgCGg -3'
miRNA:   3'- -CCGCC-GCCUG----UGCuAGAAGGACUG-GU- -5'
16199 3' -56.2 NC_004065.1 + 143268 0.72 0.721185
Target:  5'- cGCGGCGGGgGCGGcagCUUCaagGGCCGa -3'
miRNA:   3'- cCGCCGCCUgUGCUa--GAAGga-CUGGU- -5'
16199 3' -56.2 NC_004065.1 + 6509 0.7 0.803321
Target:  5'- cGCGGCcGGCACuaGAUCc-CCUGACCGg -3'
miRNA:   3'- cCGCCGcCUGUG--CUAGaaGGACUGGU- -5'
16199 3' -56.2 NC_004065.1 + 8761 0.7 0.794666
Target:  5'- uGGCGGCGG-CAgGGUUcauaUCCUGGCa- -3'
miRNA:   3'- -CCGCCGCCuGUgCUAGa---AGGACUGgu -5'
16199 3' -56.2 NC_004065.1 + 129896 0.72 0.721185
Target:  5'- uGCGGCGGACccUGAUCggggCCUGGCg- -3'
miRNA:   3'- cCGCCGCCUGu-GCUAGaa--GGACUGgu -5'
16199 3' -56.2 NC_004065.1 + 94738 0.79 0.369089
Target:  5'- cGGCGGCGGAgACGcgUUUcagcgcgaaCCUGGCCAg -3'
miRNA:   3'- -CCGCCGCCUgUGCuaGAA---------GGACUGGU- -5'
16199 3' -56.2 NC_004065.1 + 224195 0.7 0.794666
Target:  5'- cGCGGCGGuuACGAUUUUCCgucGAUa- -3'
miRNA:   3'- cCGCCGCCugUGCUAGAAGGa--CUGgu -5'
16199 3' -56.2 NC_004065.1 + 99403 0.76 0.488631
Target:  5'- uGGCGGCGGGCGCGuugCUggagaUCUUGACa- -3'
miRNA:   3'- -CCGCCGCCUGUGCua-GA-----AGGACUGgu -5'
16199 3' -56.2 NC_004065.1 + 42238 0.72 0.711593
Target:  5'- cGGCGGgGGGCGCGAUagggggugUCUGAUCu -3'
miRNA:   3'- -CCGCCgCCUGUGCUAgaa-----GGACUGGu -5'
16199 3' -56.2 NC_004065.1 + 130175 0.7 0.803321
Target:  5'- cGGCGGCgaucgGGGCGCaGAcgCUgaaacgCCUGGCCGg -3'
miRNA:   3'- -CCGCCG-----CCUGUG-CUa-GAa-----GGACUGGU- -5'
16199 3' -56.2 NC_004065.1 + 28995 0.7 0.811832
Target:  5'- cGGCGGCGGugGCGAggcgccgcgcgcacgCggCCUcgagucaGACCGg -3'
miRNA:   3'- -CCGCCGCCugUGCUa--------------GaaGGA-------CUGGU- -5'
16199 3' -56.2 NC_004065.1 + 28745 0.76 0.516595
Target:  5'- cGGUGGCGGACGC---CUUCCUGcGCCu -3'
miRNA:   3'- -CCGCCGCCUGUGcuaGAAGGAC-UGGu -5'
16199 3' -56.2 NC_004065.1 + 186118 0.72 0.692228
Target:  5'- uGGCGGCGcaucGACGCGAUC-UCC-GACUc -3'
miRNA:   3'- -CCGCCGC----CUGUGCUAGaAGGaCUGGu -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.