miRNA display CGI


Results 1 - 17 of 17 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
20734 5' -58.8 NC_004688.1 + 38963 0.66 0.735249
Target:  5'- aGCCAUGCAaCCGUgucgucguaacaGGUGUGAUCg-- -3'
miRNA:   3'- cCGGUACGUgGGCA------------CCACGCUGGagu -5'
20734 5' -58.8 NC_004688.1 + 52734 0.66 0.725394
Target:  5'- aGCCAUccGCACCUGcgGGcGCGGCCc-- -3'
miRNA:   3'- cCGGUA--CGUGGGCa-CCaCGCUGGagu -5'
20734 5' -58.8 NC_004688.1 + 86683 0.66 0.705452
Target:  5'- gGGCCc--CGCCCGUGG-G-GAUCUCGg -3'
miRNA:   3'- -CCGGuacGUGGGCACCaCgCUGGAGU- -5'
20734 5' -58.8 NC_004688.1 + 55897 0.66 0.694373
Target:  5'- gGGCCAgcaaaguguuugcUGCAgcacCCCGa-GUGcCGACCUCAg -3'
miRNA:   3'- -CCGGU-------------ACGU----GGGCacCAC-GCUGGAGU- -5'
20734 5' -58.8 NC_004688.1 + 86591 0.67 0.664893
Target:  5'- uGCCggGCcgauGCCCGUGGUagcgcuGCGGCCcgCGu -3'
miRNA:   3'- cCGGuaCG----UGGGCACCA------CGCUGGa-GU- -5'
20734 5' -58.8 NC_004688.1 + 4370 0.67 0.664893
Target:  5'- gGGUa--GCaACCCGUacGGUGCGGcCCUCGu -3'
miRNA:   3'- -CCGguaCG-UGGGCA--CCACGCU-GGAGU- -5'
20734 5' -58.8 NC_004688.1 + 100166 0.68 0.613654
Target:  5'- uGGCC-UGCACgaagccguCCGUcaGGU-CGACCUCAu -3'
miRNA:   3'- -CCGGuACGUG--------GGCA--CCAcGCUGGAGU- -5'
20734 5' -58.8 NC_004688.1 + 45175 0.69 0.562752
Target:  5'- cGCCcgGCGCCUagcuUGCGGCCUCGg -3'
miRNA:   3'- cCGGuaCGUGGGcaccACGCUGGAGU- -5'
20734 5' -58.8 NC_004688.1 + 109916 0.69 0.562752
Target:  5'- gGGCUcacCAUCCGcGGUGaCGACCUCGa -3'
miRNA:   3'- -CCGGuacGUGGGCaCCAC-GCUGGAGU- -5'
20734 5' -58.8 NC_004688.1 + 92649 0.69 0.542685
Target:  5'- aGGCCGgugaugGgGCCCGUggcgccGGUGCcGACCaUCAg -3'
miRNA:   3'- -CCGGUa-----CgUGGGCA------CCACG-CUGG-AGU- -5'
20734 5' -58.8 NC_004688.1 + 80481 0.7 0.503319
Target:  5'- cGCCAggGCGCCCGggaacaGGUcGCGGCCg-- -3'
miRNA:   3'- cCGGUa-CGUGGGCa-----CCA-CGCUGGagu -5'
20734 5' -58.8 NC_004688.1 + 92743 0.7 0.493668
Target:  5'- cGGCgGUGaAgCCGUGGgugagcGUGACCUCAa -3'
miRNA:   3'- -CCGgUACgUgGGCACCa-----CGCUGGAGU- -5'
20734 5' -58.8 NC_004688.1 + 17388 0.7 0.484102
Target:  5'- cGGCCGggcgugaggucGCACCaCG-GGUGCauGGCCUCAc -3'
miRNA:   3'- -CCGGUa----------CGUGG-GCaCCACG--CUGGAGU- -5'
20734 5' -58.8 NC_004688.1 + 99713 0.72 0.360256
Target:  5'- aGGCCGUGCAUCUGgcccacgacacgcUGcgagGCGACCUCGg -3'
miRNA:   3'- -CCGGUACGUGGGC-------------ACca--CGCUGGAGU- -5'
20734 5' -58.8 NC_004688.1 + 19872 0.74 0.301186
Target:  5'- uGGCCGUcUACCCGaucggaGGUGCGgACCUCGu -3'
miRNA:   3'- -CCGGUAcGUGGGCa-----CCACGC-UGGAGU- -5'
20734 5' -58.8 NC_004688.1 + 101274 0.77 0.195025
Target:  5'- aGGCCAcGCACgCCGcGGUGUaGGCCUCGg -3'
miRNA:   3'- -CCGGUaCGUG-GGCaCCACG-CUGGAGU- -5'
20734 5' -58.8 NC_004688.1 + 17628 0.82 0.080626
Target:  5'- gGGUgAUGCGCCCGUGGgcacCGACCUCGg -3'
miRNA:   3'- -CCGgUACGUGGGCACCac--GCUGGAGU- -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.