miRNA display CGI


Results 1 - 20 of 34 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
26456 3' -57.1 NC_005357.1 + 26320 0.66 0.551163
Target:  5'- aGGCACgGUCuuGaCGCGCACCg--CGAa -3'
miRNA:   3'- cUCGUGgCAGu-C-GUGCGUGGacaGCU- -5'
26456 3' -57.1 NC_005357.1 + 27474 0.67 0.466771
Target:  5'- -cGCGCCG-C-GCACGCACCacgCGAg -3'
miRNA:   3'- cuCGUGGCaGuCGUGCGUGGacaGCU- -5'
26456 3' -57.1 NC_005357.1 + 33851 0.67 0.476977
Target:  5'- -cGCcgugACCGUCGuGU-CGCGCCUGUCGc -3'
miRNA:   3'- cuCG----UGGCAGU-CGuGCGUGGACAGCu -5'
26456 3' -57.1 NC_005357.1 + 413 0.67 0.487292
Target:  5'- cAGCACggcggugauCGUCGGC-CGUACCuUGUCGu -3'
miRNA:   3'- cUCGUG---------GCAGUCGuGCGUGG-ACAGCu -5'
26456 3' -57.1 NC_005357.1 + 8663 0.67 0.487292
Target:  5'- -cGCGCgGUCGGCauugcgugccgcGCGCACCUcggcGUUGGu -3'
miRNA:   3'- cuCGUGgCAGUCG------------UGCGUGGA----CAGCU- -5'
26456 3' -57.1 NC_005357.1 + 9186 0.66 0.508229
Target:  5'- uGGCGCCGUCG--ACGUugGCCUGcUCGGc -3'
miRNA:   3'- cUCGUGGCAGUcgUGCG--UGGAC-AGCU- -5'
26456 3' -57.1 NC_005357.1 + 38726 0.66 0.518839
Target:  5'- -uGCGCCGcauggggCAGCGCGuCGCCgugGUgGAu -3'
miRNA:   3'- cuCGUGGCa------GUCGUGC-GUGGa--CAgCU- -5'
26456 3' -57.1 NC_005357.1 + 13289 0.66 0.540313
Target:  5'- cAGCGCCGauugCAGCGCGCcgggGCCggcGUUGu -3'
miRNA:   3'- cUCGUGGCa---GUCGUGCG----UGGa--CAGCu -5'
26456 3' -57.1 NC_005357.1 + 22070 0.66 0.551163
Target:  5'- cGGGuCGCgGUCGGCGCGCGgC--UCGAu -3'
miRNA:   3'- -CUC-GUGgCAGUCGUGCGUgGacAGCU- -5'
26456 3' -57.1 NC_005357.1 + 3869 0.67 0.466771
Target:  5'- aGGCGCCGUCgcuguaGGcCGCGCugCcGUCGc -3'
miRNA:   3'- cUCGUGGCAG------UC-GUGCGugGaCAGCu -5'
26456 3' -57.1 NC_005357.1 + 12617 0.67 0.466771
Target:  5'- uGGCGCCGacgcgcUCGGCAuCGCugCUGcCGu -3'
miRNA:   3'- cUCGUGGC------AGUCGU-GCGugGACaGCu -5'
26456 3' -57.1 NC_005357.1 + 23420 0.67 0.456679
Target:  5'- -cGCGCCgGUCAGUGCGaCGCCgGcCGGg -3'
miRNA:   3'- cuCGUGG-CAGUCGUGC-GUGGaCaGCU- -5'
26456 3' -57.1 NC_005357.1 + 4195 0.74 0.180491
Target:  5'- uGGGCGCCGaaaaguuggaaUCGGCGCGCACCgugccaucGUCGc -3'
miRNA:   3'- -CUCGUGGC-----------AGUCGUGCGUGGa-------CAGCu -5'
26456 3' -57.1 NC_005357.1 + 15570 0.71 0.255489
Target:  5'- uGGCGCCGUCAGUgacgACGCGCUg--CGGa -3'
miRNA:   3'- cUCGUGGCAGUCG----UGCGUGGacaGCU- -5'
26456 3' -57.1 NC_005357.1 + 18117 0.71 0.276079
Target:  5'- -cGCGCCGUcCGGUACGUcgaACUUGUCGc -3'
miRNA:   3'- cuCGUGGCA-GUCGUGCG---UGGACAGCu -5'
26456 3' -57.1 NC_005357.1 + 16943 0.7 0.313305
Target:  5'- cGGCGCCGUcCAGCAgCGUGCCgcGUUGGu -3'
miRNA:   3'- cUCGUGGCA-GUCGU-GCGUGGa-CAGCU- -5'
26456 3' -57.1 NC_005357.1 + 20748 0.7 0.313305
Target:  5'- uGGCGCCGUagaGGCGCuGCGCCgcgcUCGAc -3'
miRNA:   3'- cUCGUGGCAg--UCGUG-CGUGGac--AGCU- -5'
26456 3' -57.1 NC_005357.1 + 30470 0.69 0.362832
Target:  5'- gGGGCGCCgGUCAuCGCGuCACCUGcUGAa -3'
miRNA:   3'- -CUCGUGG-CAGUcGUGC-GUGGACaGCU- -5'
26456 3' -57.1 NC_005357.1 + 26736 0.69 0.371597
Target:  5'- cGGGcCACCGcCAGCGCGCcCgCUG-CGAu -3'
miRNA:   3'- -CUC-GUGGCaGUCGUGCGuG-GACaGCU- -5'
26456 3' -57.1 NC_005357.1 + 4459 0.68 0.417535
Target:  5'- uGGCACCGUCAuGCACaacgaccguGUuCUUGUCGGu -3'
miRNA:   3'- cUCGUGGCAGU-CGUG---------CGuGGACAGCU- -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.