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
28442 3' -58.7 NC_005946.1 + 2286 0.69 0.565318
Target:  5'- cGCGGaccCCGCCGggGGCUggugCAGAaAGUGGUa -3'
miRNA:   3'- -CGCU---GGCGGC--UCGGa---GUCUcUCACCG- -5'
28442 3' -58.7 NC_005946.1 + 2478 0.68 0.575414
Target:  5'- gGUGAgCGCCGAGUgggaCUC-GAGGGgGGCc -3'
miRNA:   3'- -CGCUgGCGGCUCG----GAGuCUCUCaCCG- -5'
28442 3' -58.7 NC_005946.1 + 14016 0.72 0.363521
Target:  5'- aUGACCaaCGAGCCU-GGAGAGcUGGCg -3'
miRNA:   3'- cGCUGGcgGCUCGGAgUCUCUC-ACCG- -5'
28442 3' -58.7 NC_005946.1 + 20873 0.66 0.697625
Target:  5'- aGCaGGCCGCCGcgguGGCC-CuGAGGGcaaaGGCu -3'
miRNA:   3'- -CG-CUGGCGGC----UCGGaGuCUCUCa---CCG- -5'
28442 3' -58.7 NC_005946.1 + 45505 0.7 0.466919
Target:  5'- -aGACUGCUG-GUCUCAGGGAGgcgucugaaaacaUGGCc -3'
miRNA:   3'- cgCUGGCGGCuCGGAGUCUCUC-------------ACCG- -5'
28442 3' -58.7 NC_005946.1 + 47080 0.7 0.511757
Target:  5'- aCGGCCGCCGcaaaccccaucauGCCccuguggCGGuGAGUGGCc -3'
miRNA:   3'- cGCUGGCGGCu------------CGGa------GUCuCUCACCG- -5'
28442 3' -58.7 NC_005946.1 + 56382 0.67 0.643755
Target:  5'- uGUGACgGCCGAGUC-CAG-GAGcccgucgugguacaUGGCc -3'
miRNA:   3'- -CGCUGgCGGCUCGGaGUCuCUC--------------ACCG- -5'
28442 3' -58.7 NC_005946.1 + 66401 0.69 0.565318
Target:  5'- -aGACaGCCGuGCCUCAaucucugagcGAGAugGUGGCu -3'
miRNA:   3'- cgCUGgCGGCuCGGAGU----------CUCU--CACCG- -5'
28442 3' -58.7 NC_005946.1 + 71976 0.66 0.697625
Target:  5'- gGUGGgUGCCuccccgacugGGGCCUgaggaaCAGAGAGUGGg -3'
miRNA:   3'- -CGCUgGCGG----------CUCGGA------GUCUCUCACCg -5'
28442 3' -58.7 NC_005946.1 + 72777 0.7 0.503026
Target:  5'- -gGGCCuGCCGGGCUUCuuuGAGGGcgcucccgccaggcUGGCg -3'
miRNA:   3'- cgCUGG-CGGCUCGGAGu--CUCUC--------------ACCG- -5'
28442 3' -58.7 NC_005946.1 + 77182 0.67 0.65704
Target:  5'- -gGGCCGCCaacauGGGUCUCcccaagcucauAGAGAG-GGCu -3'
miRNA:   3'- cgCUGGCGG-----CUCGGAG-----------UCUCUCaCCG- -5'
28442 3' -58.7 NC_005946.1 + 93878 0.66 0.73733
Target:  5'- cGUGGCCGCagcgguagaaGAGCC-CAGGGGacaGGCc -3'
miRNA:   3'- -CGCUGGCGg---------CUCGGaGUCUCUca-CCG- -5'
28442 3' -58.7 NC_005946.1 + 93937 1.03 0.003191
Target:  5'- cGCGACCGCC-AGCCUCAGAGAGUGGCg -3'
miRNA:   3'- -CGCUGGCGGcUCGGAGUCUCUCACCG- -5'
28442 3' -58.7 NC_005946.1 + 96512 0.7 0.486714
Target:  5'- uGCGAgaGCCugcagGAGCCUCugaaccGAGGGUGGg -3'
miRNA:   3'- -CGCUggCGG-----CUCGGAGu-----CUCUCACCg -5'
28442 3' -58.7 NC_005946.1 + 98623 0.71 0.440285
Target:  5'- uGCGGCgGCCGugguGGCCUCAGcggacAGGGUGa- -3'
miRNA:   3'- -CGCUGgCGGC----UCGGAGUC-----UCUCACcg -5'
28442 3' -58.7 NC_005946.1 + 103103 0.68 0.616133
Target:  5'- -gGACCGCCGGGaCCcaggGGAGAGaagGGUc -3'
miRNA:   3'- cgCUGGCGGCUC-GGag--UCUCUCa--CCG- -5'
28442 3' -58.7 NC_005946.1 + 103836 0.71 0.458563
Target:  5'- gGCGACCGUCGAgggcggcagaGUCUgggUGGAGGGUGGa -3'
miRNA:   3'- -CGCUGGCGGCU----------CGGA---GUCUCUCACCg -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.