miRNA display CGI


Results 1 - 20 of 39 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
18686 5' -58.3 NC_004682.1 + 39985 0.66 0.562852
Target:  5'- cGGCgAacgaacugcGGAgCGuCUGCGCGaGGCcGAGGc -3'
miRNA:   3'- -CCGgU---------UCUgGC-GAUGCGC-CCGaCUCC- -5'
18686 5' -58.3 NC_004682.1 + 18063 0.66 0.562852
Target:  5'- aGCgAAGGCCGCaACGa-GGCUGAa- -3'
miRNA:   3'- cCGgUUCUGGCGaUGCgcCCGACUcc -5'
18686 5' -58.3 NC_004682.1 + 2005 0.66 0.552287
Target:  5'- uGGCCccccGAGGCCGacgGCGCacccguccaGGGUgucGAGGg -3'
miRNA:   3'- -CCGG----UUCUGGCga-UGCG---------CCCGa--CUCC- -5'
18686 5' -58.3 NC_004682.1 + 14287 0.66 0.552287
Target:  5'- uGCCGGugaucgagauGACCGCgua-CGGGCgUGAGGg -3'
miRNA:   3'- cCGGUU----------CUGGCGaugcGCCCG-ACUCC- -5'
18686 5' -58.3 NC_004682.1 + 46547 0.66 0.552287
Target:  5'- cGCCcAGACCGUgagcgaGCGCGucaaGGCccagGAGGa -3'
miRNA:   3'- cCGGuUCUGGCGa-----UGCGC----CCGa---CUCC- -5'
18686 5' -58.3 NC_004682.1 + 1898 0.66 0.552287
Target:  5'- cGCCcGGACgGgCgaACGCGGG-UGAGGa -3'
miRNA:   3'- cCGGuUCUGgC-Ga-UGCGCCCgACUCC- -5'
18686 5' -58.3 NC_004682.1 + 48837 0.66 0.541784
Target:  5'- cGCCcAGGCgGUgacgUACGuCGGGCUGAa- -3'
miRNA:   3'- cCGGuUCUGgCG----AUGC-GCCCGACUcc -5'
18686 5' -58.3 NC_004682.1 + 41031 0.66 0.531347
Target:  5'- -aUCAcgauGGGCCGCUugGggucCGGGCUGuuGGGg -3'
miRNA:   3'- ccGGU----UCUGGCGAugC----GCCCGAC--UCC- -5'
18686 5' -58.3 NC_004682.1 + 50534 0.67 0.510702
Target:  5'- uGCCAGGugggguacCCGCUAC-CGGGgguacuggguaCUGGGGg -3'
miRNA:   3'- cCGGUUCu-------GGCGAUGcGCCC-----------GACUCC- -5'
18686 5' -58.3 NC_004682.1 + 24420 0.67 0.500504
Target:  5'- cGGUgugcGGAUCGgaACGUacaagGGGCUGAGGa -3'
miRNA:   3'- -CCGgu--UCUGGCgaUGCG-----CCCGACUCC- -5'
18686 5' -58.3 NC_004682.1 + 7299 0.67 0.480387
Target:  5'- cGCgAGGGCaucCUGCGCcgccucaaGGGCUGGGGc -3'
miRNA:   3'- cCGgUUCUGgc-GAUGCG--------CCCGACUCC- -5'
18686 5' -58.3 NC_004682.1 + 6193 0.67 0.470478
Target:  5'- uGGCguAGGCCGCguaGCGGGCc---- -3'
miRNA:   3'- -CCGguUCUGGCGaugCGCCCGacucc -5'
18686 5' -58.3 NC_004682.1 + 35316 0.67 0.470478
Target:  5'- cGGCCucgGGGCCGCUGCcGuuGGCUcGGa -3'
miRNA:   3'- -CCGGu--UCUGGCGAUG-CgcCCGAcUCc -5'
18686 5' -58.3 NC_004682.1 + 46407 0.67 0.468508
Target:  5'- gGGCuCGGGGCCGC-ACGCGcuucgacagcaacGGCUacgcccacggccaGAGGg -3'
miRNA:   3'- -CCG-GUUCUGGCGaUGCGC-------------CCGA-------------CUCC- -5'
18686 5' -58.3 NC_004682.1 + 40169 0.67 0.460673
Target:  5'- cGCCAGGACaCGCU-C-CGGGUagcGAGGu -3'
miRNA:   3'- cCGGUUCUG-GCGAuGcGCCCGa--CUCC- -5'
18686 5' -58.3 NC_004682.1 + 41331 0.67 0.459698
Target:  5'- uGGCCGgucggacccguccGGGCuCGaCUACGCGGaGCUuGAGu -3'
miRNA:   3'- -CCGGU-------------UCUG-GC-GAUGCGCC-CGA-CUCc -5'
18686 5' -58.3 NC_004682.1 + 83 0.68 0.441395
Target:  5'- aGGCUcAGAgCCGCccuCGCGGGCgacuGGa -3'
miRNA:   3'- -CCGGuUCU-GGCGau-GCGCCCGacu-CC- -5'
18686 5' -58.3 NC_004682.1 + 832 0.68 0.426306
Target:  5'- gGGCCAGGAgcCCGCUgaccacccaggagguGacaGUGGGCgaacGAGGc -3'
miRNA:   3'- -CCGGUUCU--GGCGA---------------Ug--CGCCCGa---CUCC- -5'
18686 5' -58.3 NC_004682.1 + 4071 0.68 0.422582
Target:  5'- gGGCaGGGGCCGCU-CGCauGGCUGAucuGGg -3'
miRNA:   3'- -CCGgUUCUGGCGAuGCGc-CCGACU---CC- -5'
18686 5' -58.3 NC_004682.1 + 18349 0.68 0.422582
Target:  5'- gGGCCGAGGCUgggugaGCUACuCGGGUcagucUGuGGg -3'
miRNA:   3'- -CCGGUUCUGG------CGAUGcGCCCG-----ACuCC- -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.