miRNA display CGI


Results 1 - 14 of 14 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
20528 3' -50.4 NC_004688.1 + 18279 0.66 0.990834
Target:  5'- uGGCga--UGCCCCAgcUGCGGUccaCGAGg -3'
miRNA:   3'- cCUGauuaACGGGGU--ACGCUA---GCUCg -5'
20528 3' -50.4 NC_004688.1 + 92030 0.67 0.975495
Target:  5'- gGGGCc----GCCCCAUGCcugaccacGAgggCGGGCa -3'
miRNA:   3'- -CCUGauuaaCGGGGUACG--------CUa--GCUCG- -5'
20528 3' -50.4 NC_004688.1 + 45245 0.68 0.969715
Target:  5'- aGGCgucua--UCCAUGCGGUUGAGCa -3'
miRNA:   3'- cCUGauuaacgGGGUACGCUAGCUCG- -5'
20528 3' -50.4 NC_004688.1 + 75879 0.69 0.951152
Target:  5'- aGGGCggcggGCCCCAgcuucGCGGgcUUGGGCc -3'
miRNA:   3'- -CCUGauuaaCGGGGUa----CGCU--AGCUCG- -5'
20528 3' -50.4 NC_004688.1 + 7387 0.7 0.914352
Target:  5'- uGGcGCUAuugGCCCCcggGCGAUCGccguGCa -3'
miRNA:   3'- -CC-UGAUuaaCGGGGua-CGCUAGCu---CG- -5'
20528 3' -50.4 NC_004688.1 + 5588 0.7 0.914352
Target:  5'- aGGACUugua-CCCCA-GCGAgCGGGCu -3'
miRNA:   3'- -CCUGAuuaacGGGGUaCGCUaGCUCG- -5'
20528 3' -50.4 NC_004688.1 + 42492 0.72 0.85665
Target:  5'- cGGAUUGAaaagggcGCCCCAcagcugauuggUGCGAUCaaaGAGCa -3'
miRNA:   3'- -CCUGAUUaa-----CGGGGU-----------ACGCUAG---CUCG- -5'
20528 3' -50.4 NC_004688.1 + 81178 0.72 0.85665
Target:  5'- cGGACUuuuGAaUGCCgCUcUGCGcGUCGAGCu -3'
miRNA:   3'- -CCUGA---UUaACGG-GGuACGC-UAGCUCG- -5'
20528 3' -50.4 NC_004688.1 + 98594 0.72 0.839834
Target:  5'- uGGAUUGAUgaccaagcgaUGCCCguCAUGCGGU-GAGCc -3'
miRNA:   3'- -CCUGAUUA----------ACGGG--GUACGCUAgCUCG- -5'
20528 3' -50.4 NC_004688.1 + 25209 0.73 0.803746
Target:  5'- aGGACcuucUGCCCCGUaGCcuuGUCGGGCa -3'
miRNA:   3'- -CCUGauuaACGGGGUA-CGc--UAGCUCG- -5'
20528 3' -50.4 NC_004688.1 + 34599 0.74 0.764887
Target:  5'- uGGACagcaugUGCCCCAUcGUGAUCGcGGUa -3'
miRNA:   3'- -CCUGauua--ACGGGGUA-CGCUAGC-UCG- -5'
20528 3' -50.4 NC_004688.1 + 86398 0.75 0.681548
Target:  5'- gGGACgaugGAgaGCCCCAUGCGAuaaUCGGucaucGCg -3'
miRNA:   3'- -CCUGa---UUaaCGGGGUACGCU---AGCU-----CG- -5'
20528 3' -50.4 NC_004688.1 + 19060 0.77 0.563126
Target:  5'- uGGGCguguucgGCCCCAUgGCGAUCG-GCu -3'
miRNA:   3'- -CCUGauuaa--CGGGGUA-CGCUAGCuCG- -5'
20528 3' -50.4 NC_004688.1 + 83551 0.94 0.067681
Target:  5'- aGGACUAAUU-CgCCCAUGCGAUCGAGCu -3'
miRNA:   3'- -CCUGAUUAAcG-GGGUACGCUAGCUCG- -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.