miRNA display CGI


Results 1 - 20 of 25 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
1448 3' -54.4 NC_001335.1 + 4459 0.66 0.793208
Target:  5'- aGGAGucgaaccUGGAACCGGcgGCUuuGGa-GACCg -3'
miRNA:   3'- -CCUU-------ACCUUGGCCa-CGGu-CCagCUGG- -5'
1448 3' -54.4 NC_001335.1 + 16430 0.67 0.747975
Target:  5'- aGAacGUGGccUCGGgccucgugaacaugGCCGGGUCGAUCa -3'
miRNA:   3'- cCU--UACCuuGGCCa-------------CGGUCCAGCUGG- -5'
1448 3' -54.4 NC_001335.1 + 40119 0.67 0.743824
Target:  5'- ----gGGAuCCGGgcucuCCGGGUCGAUCc -3'
miRNA:   3'- ccuuaCCUuGGCCac---GGUCCAGCUGG- -5'
1448 3' -54.4 NC_001335.1 + 10766 0.67 0.712177
Target:  5'- uGGAcAUGGugauuucGCCGcGUGCUAGG-CGGCg -3'
miRNA:   3'- -CCU-UACCu------UGGC-CACGGUCCaGCUGg -5'
1448 3' -54.4 NC_001335.1 + 32890 0.67 0.701456
Target:  5'- ----aGGAGCCGGgGCCGGcUCGGgCu -3'
miRNA:   3'- ccuuaCCUUGGCCaCGGUCcAGCUgG- -5'
1448 3' -54.4 NC_001335.1 + 43991 0.68 0.690668
Target:  5'- cGAGUGGA--UGGUGCuCAGGaUGACUc -3'
miRNA:   3'- cCUUACCUugGCCACG-GUCCaGCUGG- -5'
1448 3' -54.4 NC_001335.1 + 3282 0.68 0.690668
Target:  5'- cGAGUGGGu----UGCCgAGGUCGGCCa -3'
miRNA:   3'- cCUUACCUuggccACGG-UCCAGCUGG- -5'
1448 3' -54.4 NC_001335.1 + 2326 0.68 0.679825
Target:  5'- aGGAGU-GAGCUGG-GCCGGcUCaGGCCg -3'
miRNA:   3'- -CCUUAcCUUGGCCaCGGUCcAG-CUGG- -5'
1448 3' -54.4 NC_001335.1 + 7832 0.68 0.668936
Target:  5'- ----aGGuACUuG-GCCAGGUCGACCu -3'
miRNA:   3'- ccuuaCCuUGGcCaCGGUCCAGCUGG- -5'
1448 3' -54.4 NC_001335.1 + 25871 0.68 0.658013
Target:  5'- cGGggUGGcccaAGCagagauGGUGCCcuugguGGUCGACg -3'
miRNA:   3'- -CCuuACC----UUGg-----CCACGGu-----CCAGCUGg -5'
1448 3' -54.4 NC_001335.1 + 18194 0.68 0.656919
Target:  5'- cGAAaGGAACUGcuUGCCAGucgcuuucgcgaaGUCGACCg -3'
miRNA:   3'- cCUUaCCUUGGCc-ACGGUC-------------CAGCUGG- -5'
1448 3' -54.4 NC_001335.1 + 48667 0.68 0.648162
Target:  5'- cGGGAUGGuugucgaggucacuUCGGUcgaguacaaGCC-GGUCGACCa -3'
miRNA:   3'- -CCUUACCuu------------GGCCA---------CGGuCCAGCUGG- -5'
1448 3' -54.4 NC_001335.1 + 36834 0.68 0.636106
Target:  5'- cGGuuccUGGAGCCGcugcGCCAGGUcuacgaCGGCCc -3'
miRNA:   3'- -CCuu--ACCUUGGCca--CGGUCCA------GCUGG- -5'
1448 3' -54.4 NC_001335.1 + 14379 0.7 0.5384
Target:  5'- cGAGaccUGG-ACCGGUGCUaccgguuggacgAGcGUCGGCCa -3'
miRNA:   3'- cCUU---ACCuUGGCCACGG------------UC-CAGCUGG- -5'
1448 3' -54.4 NC_001335.1 + 29890 0.7 0.527802
Target:  5'- cGggUGGAACaGGUcGau-GGUCGACCa -3'
miRNA:   3'- cCuuACCUUGgCCA-CgguCCAGCUGG- -5'
1448 3' -54.4 NC_001335.1 + 28791 0.71 0.486255
Target:  5'- -aGAUGGGuCCGGUGCU-GGUUGGCa -3'
miRNA:   3'- ccUUACCUuGGCCACGGuCCAGCUGg -5'
1448 3' -54.4 NC_001335.1 + 34418 0.71 0.466069
Target:  5'- uGGuAGUGG-ACC-GUGCCGGGUCGGu- -3'
miRNA:   3'- -CC-UUACCuUGGcCACGGUCCAGCUgg -5'
1448 3' -54.4 NC_001335.1 + 31902 0.72 0.43663
Target:  5'- cGGggUGGAgcuugaacagaGCCGGgggcagauggUGCCAaGGUCGGUCg -3'
miRNA:   3'- -CCuuACCU-----------UGGCC----------ACGGU-CCAGCUGG- -5'
1448 3' -54.4 NC_001335.1 + 23159 0.72 0.421373
Target:  5'- ---cUGGGGCUGGgaagGCCAGGcucguaaccgcaaccUCGGCCa -3'
miRNA:   3'- ccuuACCUUGGCCa---CGGUCC---------------AGCUGG- -5'
1448 3' -54.4 NC_001335.1 + 24099 0.72 0.417609
Target:  5'- ----cGGGGCUGGUGcCCAGGUCu-CCg -3'
miRNA:   3'- ccuuaCCUUGGCCAC-GGUCCAGcuGG- -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.