miRNA display CGI


Results 1 - 20 of 62 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
24962 3' -53.9 NC_005284.1 + 53656 0.72 0.424625
Target:  5'- cACGAUGGCgACGCGcCGUCgc-CCGGGUu -3'
miRNA:   3'- -UGCUGCCG-UGCGU-GUAGauaGGCUCG- -5'
24962 3' -53.9 NC_005284.1 + 53039 0.71 0.474039
Target:  5'- uACGACGGUuuucgguauuGCGCACAgUUUcUUCGGGCa -3'
miRNA:   3'- -UGCUGCCG----------UGCGUGU-AGAuAGGCUCG- -5'
24962 3' -53.9 NC_005284.1 + 50894 0.66 0.795146
Target:  5'- -gGGCGGCucgGCGCAUUcAUCgaGAGCg -3'
miRNA:   3'- ugCUGCCGug-CGUGUAGaUAGg-CUCG- -5'
24962 3' -53.9 NC_005284.1 + 50826 0.68 0.679694
Target:  5'- uGCGAUGGC-CGUugGguggggCCGGGCg -3'
miRNA:   3'- -UGCUGCCGuGCGugUagaua-GGCUCG- -5'
24962 3' -53.9 NC_005284.1 + 48384 1.12 0.000828
Target:  5'- gACGACGGCACGCACAUCUAUCCGAGCg -3'
miRNA:   3'- -UGCUGCCGUGCGUGUAGAUAGGCUCG- -5'
24962 3' -53.9 NC_005284.1 + 47749 0.7 0.547636
Target:  5'- uACGGCGGCGCGCGUAc--GUCCGcguaAGCa -3'
miRNA:   3'- -UGCUGCCGUGCGUGUagaUAGGC----UCG- -5'
24962 3' -53.9 NC_005284.1 + 47165 0.73 0.405737
Target:  5'- uACGAcCGGCGCGUACAUCaggcgCCGAa- -3'
miRNA:   3'- -UGCU-GCCGUGCGUGUAGaua--GGCUcg -5'
24962 3' -53.9 NC_005284.1 + 46594 0.66 0.765085
Target:  5'- -aGugGGCaACGCcgaACGUC---CCGAGCg -3'
miRNA:   3'- ugCugCCG-UGCG---UGUAGauaGGCUCG- -5'
24962 3' -53.9 NC_005284.1 + 45076 0.7 0.580316
Target:  5'- aGCG-CGGCuACGCGC-UCgugaaguugCCGAGCg -3'
miRNA:   3'- -UGCuGCCG-UGCGUGuAGaua------GGCUCG- -5'
24962 3' -53.9 NC_005284.1 + 44886 0.72 0.453915
Target:  5'- uACGGC-GCACGC-CGUCgcucacaacAUCCGGGCg -3'
miRNA:   3'- -UGCUGcCGUGCGuGUAGa--------UAGGCUCG- -5'
24962 3' -53.9 NC_005284.1 + 44290 0.66 0.804836
Target:  5'- uACGACGGCGCGaACcUCUAcgUCGAa- -3'
miRNA:   3'- -UGCUGCCGUGCgUGuAGAUa-GGCUcg -5'
24962 3' -53.9 NC_005284.1 + 41625 0.66 0.785283
Target:  5'- uUGGCGGCACGgACGaCg---CGAGCg -3'
miRNA:   3'- uGCUGCCGUGCgUGUaGauagGCUCG- -5'
24962 3' -53.9 NC_005284.1 + 41338 0.69 0.611173
Target:  5'- uCGGCGGCGCGUAucagguCAUCUGgccugcggaucgCCGAGa -3'
miRNA:   3'- uGCUGCCGUGCGU------GUAGAUa-----------GGCUCg -5'
24962 3' -53.9 NC_005284.1 + 40279 0.67 0.754773
Target:  5'- gGCGAUGGCugcUGCGCGUCggaUGUCUGcucgaAGCc -3'
miRNA:   3'- -UGCUGCCGu--GCGUGUAG---AUAGGC-----UCG- -5'
24962 3' -53.9 NC_005284.1 + 39641 0.67 0.723123
Target:  5'- uGCGGCaGcGCACGUAUAUCUcgCCGcuCu -3'
miRNA:   3'- -UGCUG-C-CGUGCGUGUAGAuaGGCucG- -5'
24962 3' -53.9 NC_005284.1 + 37700 0.69 0.591307
Target:  5'- aAUGGCGGgGCGCGCAUa----CGGGCc -3'
miRNA:   3'- -UGCUGCCgUGCGUGUAgauagGCUCG- -5'
24962 3' -53.9 NC_005284.1 + 36276 0.66 0.785283
Target:  5'- uCGACGccGUACGCcggaaucgACGUCacgCCGAGCg -3'
miRNA:   3'- uGCUGC--CGUGCG--------UGUAGauaGGCUCG- -5'
24962 3' -53.9 NC_005284.1 + 35866 0.71 0.474039
Target:  5'- uCGAuCGGCGCGCGCAgc--UCCGuGCc -3'
miRNA:   3'- uGCU-GCCGUGCGUGUagauAGGCuCG- -5'
24962 3' -53.9 NC_005284.1 + 33390 0.68 0.690648
Target:  5'- cCGACGGCuCGC-CAUCacccgAUUCGAGa -3'
miRNA:   3'- uGCUGCCGuGCGuGUAGa----UAGGCUCg -5'
24962 3' -53.9 NC_005284.1 + 33133 0.7 0.566094
Target:  5'- cGCGGCGGCAucgugcgcggcgauCGCACGcugcUCggcgUCGAGCg -3'
miRNA:   3'- -UGCUGCCGU--------------GCGUGU----AGaua-GGCUCG- -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.