miRNA display CGI


Results 1 - 16 of 16 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
26010 3' -51.9 NC_005340.1 + 8065 0.66 0.736172
Target:  5'- -aGCGcGGUGCUAUUGaCGAuauCCGGg -3'
miRNA:   3'- caCGUuUCGCGGUAAC-GCUuucGGCC- -5'
26010 3' -51.9 NC_005340.1 + 6286 0.66 0.724784
Target:  5'- -cGCAcuGCGUCugcGCGAu-GCCGGu -3'
miRNA:   3'- caCGUuuCGCGGuaaCGCUuuCGGCC- -5'
26010 3' -51.9 NC_005340.1 + 9552 0.66 0.701701
Target:  5'- aUGCAcccGCGCCA-UGCGcuguacccuGCCGGu -3'
miRNA:   3'- cACGUuu-CGCGGUaACGCuuu------CGGCC- -5'
26010 3' -51.9 NC_005340.1 + 17463 0.66 0.690034
Target:  5'- -cGCGucGAGCGCCugcgccUGCGcgcGGGUCGGa -3'
miRNA:   3'- caCGU--UUCGCGGua----ACGCu--UUCGGCC- -5'
26010 3' -51.9 NC_005340.1 + 22854 0.67 0.678303
Target:  5'- -cGCAAAGUGCUGUUGCGgcAuCCa- -3'
miRNA:   3'- caCGUUUCGCGGUAACGCuuUcGGcc -5'
26010 3' -51.9 NC_005340.1 + 17620 0.67 0.631004
Target:  5'- -cGCGucAGUGCgCAgcagGCGAAauuaAGCCGGg -3'
miRNA:   3'- caCGUu-UCGCG-GUaa--CGCUU----UCGGCC- -5'
26010 3' -51.9 NC_005340.1 + 13004 0.68 0.61915
Target:  5'- cGUGCugucAGUGgCAUUGCu-GAGCUGGa -3'
miRNA:   3'- -CACGuu--UCGCgGUAACGcuUUCGGCC- -5'
26010 3' -51.9 NC_005340.1 + 18880 0.68 0.607309
Target:  5'- uUGCugguAGUGCCAUUGUGAccGCacuCGGu -3'
miRNA:   3'- cACGuu--UCGCGGUAACGCUuuCG---GCC- -5'
26010 3' -51.9 NC_005340.1 + 8120 0.68 0.595494
Target:  5'- uUGCcggaauaucuGGGCGUCAUUGCcGGgcGCCGGu -3'
miRNA:   3'- cACGu---------UUCGCGGUAACG-CUuuCGGCC- -5'
26010 3' -51.9 NC_005340.1 + 6291 0.68 0.571981
Target:  5'- aUGUAAGGUGUCGUgcgGCGAuggucaguggugAGGCCGu -3'
miRNA:   3'- cACGUUUCGCGGUAa--CGCU------------UUCGGCc -5'
26010 3' -51.9 NC_005340.1 + 17700 0.68 0.560306
Target:  5'- -cGCAgcAGGCGCUgccggggucgguAUUGCGAcGGCgGGa -3'
miRNA:   3'- caCGU--UUCGCGG------------UAACGCUuUCGgCC- -5'
26010 3' -51.9 NC_005340.1 + 3640 0.7 0.459247
Target:  5'- cGUGCAGAGCuggaaaCAgcGCGAcGGCUGGg -3'
miRNA:   3'- -CACGUUUCGcg----GUaaCGCUuUCGGCC- -5'
26010 3' -51.9 NC_005340.1 + 28862 0.7 0.458176
Target:  5'- gGUGCAGGGCuucGCCccggcugAUUGUGAu-GCCGGu -3'
miRNA:   3'- -CACGUUUCG---CGG-------UAACGCUuuCGGCC- -5'
26010 3' -51.9 NC_005340.1 + 18805 0.71 0.438091
Target:  5'- -aGCAAGuGCGCCAccgGCGAuaauGCCGa -3'
miRNA:   3'- caCGUUU-CGCGGUaa-CGCUuu--CGGCc -5'
26010 3' -51.9 NC_005340.1 + 9366 0.71 0.438091
Target:  5'- -cGCccgAAAGCGCCAgucggUGCGAAguaagaaaGGCCGu -3'
miRNA:   3'- caCG---UUUCGCGGUa----ACGCUU--------UCGGCc -5'
26010 3' -51.9 NC_005340.1 + 15030 1.1 0.000754
Target:  5'- uGUGCAAAGCGCCAUUGCGAAAGCCGGu -3'
miRNA:   3'- -CACGUUUCGCGGUAACGCUUUCGGCC- -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.