miRNA display CGI


Results 1 - 20 of 30 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
25538 3' -55.9 NC_005337.1 + 128629 0.72 0.576325
Target:  5'- cCCCUCGGuuucccugcuGGAUauccUGCGCgGCCGGUCg -3'
miRNA:   3'- -GGGAGCCu---------UCUAc---AUGCG-CGGCCAGa -5'
25538 3' -55.9 NC_005337.1 + 74237 0.66 0.914776
Target:  5'- --aUCGGGAGGgcggGUcgcCGCGCgGGUCUc -3'
miRNA:   3'- gggAGCCUUCUa---CAu--GCGCGgCCAGA- -5'
25538 3' -55.9 NC_005337.1 + 39919 0.66 0.908841
Target:  5'- gCCgaguaCGcGAAGGUGUACGUGCgCGG-Cg -3'
miRNA:   3'- gGGa----GC-CUUCUACAUGCGCG-GCCaGa -5'
25538 3' -55.9 NC_005337.1 + 47505 0.66 0.908841
Target:  5'- gCCCgugCGGAcgccggAGAUGgccauCGUGCCGGa-- -3'
miRNA:   3'- -GGGa--GCCU------UCUACau---GCGCGGCCaga -5'
25538 3' -55.9 NC_005337.1 + 82000 0.66 0.889641
Target:  5'- aCCUCGauGggGAUGUcgcugaucAUGgGCCGGUa- -3'
miRNA:   3'- gGGAGC--CuuCUACA--------UGCgCGGCCAga -5'
25538 3' -55.9 NC_005337.1 + 130167 0.66 0.889641
Target:  5'- gCUUUCGGAGGccGUGCGCG-CGGa-- -3'
miRNA:   3'- -GGGAGCCUUCuaCAUGCGCgGCCaga -5'
25538 3' -55.9 NC_005337.1 + 54088 0.67 0.882787
Target:  5'- gCCCgCGGcAGGAgcgcGUccGCGCGCCGG-Ca -3'
miRNA:   3'- -GGGaGCC-UUCUa---CA--UGCGCGGCCaGa -5'
25538 3' -55.9 NC_005337.1 + 125189 0.67 0.882787
Target:  5'- uCCgUCGaGAAGAUGUucCGC-CUGGUCc -3'
miRNA:   3'- -GGgAGC-CUUCUACAu-GCGcGGCCAGa -5'
25538 3' -55.9 NC_005337.1 + 49710 0.67 0.86842
Target:  5'- gCCC-CGGGcucg--GCGCGCCGGUUg -3'
miRNA:   3'- -GGGaGCCUucuacaUGCGCGGCCAGa -5'
25538 3' -55.9 NC_005337.1 + 75988 0.67 0.86842
Target:  5'- gUCCUCGaaggcGAAGGUGgccgccgUGCGCCGGUa- -3'
miRNA:   3'- -GGGAGC-----CUUCUACau-----GCGCGGCCAga -5'
25538 3' -55.9 NC_005337.1 + 109376 0.68 0.837206
Target:  5'- ---aCGGAGGcgGgcACGCGCgGGUCUg -3'
miRNA:   3'- gggaGCCUUCuaCa-UGCGCGgCCAGA- -5'
25538 3' -55.9 NC_005337.1 + 58714 0.72 0.596568
Target:  5'- gCCgUCGGcagguAGAUGgGCGCGCCGG-Cg -3'
miRNA:   3'- -GGgAGCCu----UCUACaUGCGCGGCCaGa -5'
25538 3' -55.9 NC_005337.1 + 108948 0.72 0.596568
Target:  5'- aCCUCGucguuGGGGUcGUacACGCGCCGGUCg -3'
miRNA:   3'- gGGAGCc----UUCUA-CA--UGCGCGGCCAGa -5'
25538 3' -55.9 NC_005337.1 + 48701 0.7 0.718042
Target:  5'- cCUCUCGGcagaccagAAGgcGUACGUGCCGGggCUu -3'
miRNA:   3'- -GGGAGCC--------UUCuaCAUGCGCGGCCa-GA- -5'
25538 3' -55.9 NC_005337.1 + 28541 0.69 0.765474
Target:  5'- gUCCUCGGAguagaGGAUccggACGCGCCcagaggcGGUCUc -3'
miRNA:   3'- -GGGAGCCU-----UCUAca--UGCGCGG-------CCAGA- -5'
25538 3' -55.9 NC_005337.1 + 100583 0.69 0.766416
Target:  5'- aCCUUCGaGGAGGUG-GCGCccGCCGGcCUc -3'
miRNA:   3'- -GGGAGC-CUUCUACaUGCG--CGGCCaGA- -5'
25538 3' -55.9 NC_005337.1 + 18879 0.69 0.794092
Target:  5'- gUCCUCGGAgcGGAgcgUGUcguacACGCGCUGGa-- -3'
miRNA:   3'- -GGGAGCCU--UCU---ACA-----UGCGCGGCCaga -5'
25538 3' -55.9 NC_005337.1 + 26854 0.68 0.828923
Target:  5'- uUCUCGGugcgcuGGAUGaACGCGUacaGGUCg -3'
miRNA:   3'- gGGAGCCu-----UCUACaUGCGCGg--CCAGa -5'
25538 3' -55.9 NC_005337.1 + 88437 0.66 0.919916
Target:  5'- uCCCgCGGA-------CGCGCCGGUCg -3'
miRNA:   3'- -GGGaGCCUucuacauGCGCGGCCAGa -5'
25538 3' -55.9 NC_005337.1 + 95837 0.75 0.450602
Target:  5'- gCCUCGGGcguGAUG-ACGCGCCccuGGUCg -3'
miRNA:   3'- gGGAGCCUu--CUACaUGCGCGG---CCAGa -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.