miRNA display CGI


Results 1 - 20 of 35 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
8200 3' -55.1 NC_001978.2 + 29547 1.13 0.000411
Target:  5'- cUGACACCCCACCUAAGCCCCGUUACCg -3'
miRNA:   3'- -ACUGUGGGGUGGAUUCGGGGCAAUGG- -5'
8200 3' -55.1 NC_001978.2 + 22931 0.79 0.116281
Target:  5'- gGACcaauCCCaCACCUGAGCCCCucagUGCCu -3'
miRNA:   3'- aCUGu---GGG-GUGGAUUCGGGGca--AUGG- -5'
8200 3' -55.1 NC_001978.2 + 34355 0.77 0.145977
Target:  5'- gUGACGCCgaCCACuucgcacacuuuCUGAGCCCCGggggUGCCu -3'
miRNA:   3'- -ACUGUGG--GGUG------------GAUUCGGGGCa---AUGG- -5'
8200 3' -55.1 NC_001978.2 + 34648 0.77 0.145977
Target:  5'- cGACGCCga--CUGAGCCCCGUUGCa -3'
miRNA:   3'- aCUGUGGggugGAUUCGGGGCAAUGg -5'
8200 3' -55.1 NC_001978.2 + 35582 0.76 0.176009
Target:  5'- cGGCGCCCCugagcgucggcgcgACCgAAGaCCCCGggACCg -3'
miRNA:   3'- aCUGUGGGG--------------UGGaUUC-GGGGCaaUGG- -5'
8200 3' -55.1 NC_001978.2 + 9270 0.73 0.265667
Target:  5'- cGuCGCUCCgGCCggaacGAGCCCCuGUUGCCa -3'
miRNA:   3'- aCuGUGGGG-UGGa----UUCGGGG-CAAUGG- -5'
8200 3' -55.1 NC_001978.2 + 6903 0.72 0.302109
Target:  5'- cGAC-UCCgGCCguacguccaUGAGCCCCGggACCg -3'
miRNA:   3'- aCUGuGGGgUGG---------AUUCGGGGCaaUGG- -5'
8200 3' -55.1 NC_001978.2 + 29651 0.72 0.325765
Target:  5'- aUGGCAUaUgACagAAGCCCCGUUACCg -3'
miRNA:   3'- -ACUGUGgGgUGgaUUCGGGGCAAUGG- -5'
8200 3' -55.1 NC_001978.2 + 17760 0.7 0.423863
Target:  5'- gGugACCUgggCGCCacguGCCCCGUaGCCg -3'
miRNA:   3'- aCugUGGG---GUGGauu-CGGGGCAaUGG- -5'
8200 3' -55.1 NC_001978.2 + 21549 0.69 0.443513
Target:  5'- cGGCGgagucgagcCCCCACCgggAAGCCugCCGcugUGCCg -3'
miRNA:   3'- aCUGU---------GGGGUGGa--UUCGG--GGCa--AUGG- -5'
8200 3' -55.1 NC_001978.2 + 21539 0.69 0.462647
Target:  5'- cGACGCCugagcgcccgucuCCGCCcccaacAGCCCCGUcgggucagcacgUACCg -3'
miRNA:   3'- aCUGUGG-------------GGUGGau----UCGGGGCA------------AUGG- -5'
8200 3' -55.1 NC_001978.2 + 27825 0.69 0.463666
Target:  5'- gGACGCUUCGCCgAAGCCgCCGacuacgUACUg -3'
miRNA:   3'- aCUGUGGGGUGGaUUCGG-GGCa-----AUGG- -5'
8200 3' -55.1 NC_001978.2 + 1845 0.69 0.47392
Target:  5'- cGACACagCgGCaggguucAAGCCCUGUUGCCg -3'
miRNA:   3'- aCUGUGg-GgUGga-----UUCGGGGCAAUGG- -5'
8200 3' -55.1 NC_001978.2 + 38654 0.69 0.47392
Target:  5'- gGGCGCUCCGCC---GUCCCGaacGCCg -3'
miRNA:   3'- aCUGUGGGGUGGauuCGGGGCaa-UGG- -5'
8200 3' -55.1 NC_001978.2 + 35948 0.69 0.484287
Target:  5'- aGGCGgCUCGCCUGAGUaCCCGUaugaagaaGCCu -3'
miRNA:   3'- aCUGUgGGGUGGAUUCG-GGGCAa-------UGG- -5'
8200 3' -55.1 NC_001978.2 + 38216 0.68 0.494761
Target:  5'- cGACGCCCC-UCUAuGgCCCG-UACUg -3'
miRNA:   3'- aCUGUGGGGuGGAUuCgGGGCaAUGG- -5'
8200 3' -55.1 NC_001978.2 + 17411 0.68 0.534355
Target:  5'- aGcCGCCCCcguugccgaagaacACCUGAGCgCCGaccGCCg -3'
miRNA:   3'- aCuGUGGGG--------------UGGAUUCGgGGCaa-UGG- -5'
8200 3' -55.1 NC_001978.2 + 15707 0.68 0.537616
Target:  5'- cGA-GCCCCAgCgAAGCCgCCGgaACCg -3'
miRNA:   3'- aCUgUGGGGUgGaUUCGG-GGCaaUGG- -5'
8200 3' -55.1 NC_001978.2 + 41079 0.68 0.537616
Target:  5'- gGACACCCC-CCUAuccgucgacaCCCCccUACCu -3'
miRNA:   3'- aCUGUGGGGuGGAUuc--------GGGGcaAUGG- -5'
8200 3' -55.1 NC_001978.2 + 32853 0.68 0.537616
Target:  5'- cGACACCgaCACCUGAGCUUcagCGUUGu- -3'
miRNA:   3'- aCUGUGGg-GUGGAUUCGGG---GCAAUgg -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.