miRNA display CGI


Results 1 - 18 of 18 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
18019 5' -54.5 NC_004665.1 + 2635 0.67 0.617619
Target:  5'- gGGAAGCccauguGUCCgcccuGCCGAUUGCCUUCGa- -3'
miRNA:   3'- -UCUUCG------CAGG-----UGGCUGGUGGAAGUgg -5'
18019 5' -54.5 NC_004665.1 + 2785 0.66 0.685292
Target:  5'- uGGAGCagGUUCACagcaCGACCACCacgcUCAUCa -3'
miRNA:   3'- uCUUCG--CAGGUG----GCUGGUGGa---AGUGG- -5'
18019 5' -54.5 NC_004665.1 + 4353 0.66 0.67408
Target:  5'- -cAAGCGcUCGCCaaGAUCGCC-UCGCCa -3'
miRNA:   3'- ucUUCGCaGGUGG--CUGGUGGaAGUGG- -5'
18019 5' -54.5 NC_004665.1 + 7115 0.78 0.13699
Target:  5'- uGAGGuCGUCCAUgCGACCACCaagaUCACCc -3'
miRNA:   3'- uCUUC-GCAGGUG-GCUGGUGGa---AGUGG- -5'
18019 5' -54.5 NC_004665.1 + 7376 0.68 0.506813
Target:  5'- cGuGGCGUCUacaaggucucGCUGACCAuuCCUUCGCg -3'
miRNA:   3'- uCuUCGCAGG----------UGGCUGGU--GGAAGUGg -5'
18019 5' -54.5 NC_004665.1 + 7547 0.66 0.651541
Target:  5'- gAGcAGCGgcacgaCCGCCGuucucCCACgCUUCGCUg -3'
miRNA:   3'- -UCuUCGCa-----GGUGGCu----GGUG-GAAGUGG- -5'
18019 5' -54.5 NC_004665.1 + 9225 0.66 0.662826
Target:  5'- cGAGGCGaUCCAgaaguUCGACUacaACCUcaaccaguUCGCCa -3'
miRNA:   3'- uCUUCGC-AGGU-----GGCUGG---UGGA--------AGUGG- -5'
18019 5' -54.5 NC_004665.1 + 11911 0.68 0.539376
Target:  5'- --cAGCGacuugagaaCAUCGACCGCCUgcUCGCCu -3'
miRNA:   3'- ucuUCGCag-------GUGGCUGGUGGA--AGUGG- -5'
18019 5' -54.5 NC_004665.1 + 12192 0.66 0.628927
Target:  5'- uGAGGUGcgcuaCCACCGcUCGCCUgaguaCACCg -3'
miRNA:   3'- uCUUCGCa----GGUGGCuGGUGGAa----GUGG- -5'
18019 5' -54.5 NC_004665.1 + 13563 0.66 0.662826
Target:  5'- cGAAcCGUgCAUCGcACCGUCUUCACCc -3'
miRNA:   3'- uCUUcGCAgGUGGC-UGGUGGAAGUGG- -5'
18019 5' -54.5 NC_004665.1 + 14008 0.69 0.46477
Target:  5'- aGGguGCGaUUGCCGACCAgCUcaUCACCg -3'
miRNA:   3'- -UCuuCGCaGGUGGCUGGUgGA--AGUGG- -5'
18019 5' -54.5 NC_004665.1 + 17919 0.7 0.424618
Target:  5'- uGGGAGUG-CCGCauaGGCCACCUugucgagcgUCACg -3'
miRNA:   3'- -UCUUCGCaGGUGg--CUGGUGGA---------AGUGg -5'
18019 5' -54.5 NC_004665.1 + 21551 0.66 0.67408
Target:  5'- uGAAGCGUCga--GAa-GCCUUCGCCa -3'
miRNA:   3'- uCUUCGCAGguggCUggUGGAAGUGG- -5'
18019 5' -54.5 NC_004665.1 + 21803 1.13 0.000428
Target:  5'- cAGAAGCGUCCACCGACCACCUUCACCa -3'
miRNA:   3'- -UCUUCGCAGGUGGCUGGUGGAAGUGG- -5'
18019 5' -54.5 NC_004665.1 + 23102 0.68 0.517579
Target:  5'- cGcAGC-UCCACgGGCCuCCUUCACg -3'
miRNA:   3'- uCuUCGcAGGUGgCUGGuGGAAGUGg -5'
18019 5' -54.5 NC_004665.1 + 28626 0.66 0.628927
Target:  5'- cAGcAGCcgcaCCACCGAUCACag-CACCa -3'
miRNA:   3'- -UCuUCGca--GGUGGCUGGUGgaaGUGG- -5'
18019 5' -54.5 NC_004665.1 + 29316 0.74 0.251575
Target:  5'- cGAAGCGUCCAUUGgaGCCACuCUcggucugCACCg -3'
miRNA:   3'- uCUUCGCAGGUGGC--UGGUG-GAa------GUGG- -5'
18019 5' -54.5 NC_004665.1 + 34733 0.71 0.350914
Target:  5'- gGGAGGgGUCUACCG-UCGCUUgugacgCACCg -3'
miRNA:   3'- -UCUUCgCAGGUGGCuGGUGGAa-----GUGG- -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.