miRNA display CGI


Results 1 - 20 of 81 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
27162 3' -57.9 NC_005832.1 + 94210 0.66 0.772517
Target:  5'- -aGGCCCUCuuuCCGCCaacAAAGGUccucaCGCa -3'
miRNA:   3'- cgCCGGGAGc--GGUGGaa-UUUCCG-----GCG- -5'
27162 3' -57.9 NC_005832.1 + 36279 0.66 0.772517
Target:  5'- gGCGGCCuCUgcgacuauggaCGCCAgcucucCCUcgGAAGGCCu- -3'
miRNA:   3'- -CGCCGG-GA-----------GCGGU------GGAa-UUUCCGGcg -5'
27162 3' -57.9 NC_005832.1 + 97255 0.66 0.772517
Target:  5'- aGCcuuuGCCCUCaggGCCACCgcggcGGCCuGCu -3'
miRNA:   3'- -CGc---CGGGAG---CGGUGGaauuuCCGG-CG- -5'
27162 3' -57.9 NC_005832.1 + 12580 0.66 0.762996
Target:  5'- aUGGgCCUUGaUgAgCUUGAGGGCCGUc -3'
miRNA:   3'- cGCCgGGAGC-GgUgGAAUUUCCGGCG- -5'
27162 3' -57.9 NC_005832.1 + 56952 0.66 0.762996
Target:  5'- -aGGCCgUCGCCACUc-AGAGcGCC-Ca -3'
miRNA:   3'- cgCCGGgAGCGGUGGaaUUUC-CGGcG- -5'
27162 3' -57.9 NC_005832.1 + 100773 0.66 0.760116
Target:  5'- -aGGCCauaacCGCCaACCUUuuugcggcuaugggAGAGGCCGg -3'
miRNA:   3'- cgCCGGga---GCGG-UGGAA--------------UUUCCGGCg -5'
27162 3' -57.9 NC_005832.1 + 42536 0.66 0.760116
Target:  5'- cGgGGUCCUCgggggcggacgcguGCUGCUccaugagGAGGGCCGCc -3'
miRNA:   3'- -CgCCGGGAG--------------CGGUGGaa-----UUUCCGGCG- -5'
27162 3' -57.9 NC_005832.1 + 78317 0.66 0.753357
Target:  5'- uGUGGCCaCUCaCCGCCacAGGGGCaugaugggguuCGCg -3'
miRNA:   3'- -CGCCGG-GAGcGGUGGaaUUUCCG-----------GCG- -5'
27162 3' -57.9 NC_005832.1 + 29780 0.66 0.753357
Target:  5'- cGCcGCCCcCGCCGCCccagaccAGGCCu- -3'
miRNA:   3'- -CGcCGGGaGCGGUGGaauu---UCCGGcg -5'
27162 3' -57.9 NC_005832.1 + 11641 0.66 0.753357
Target:  5'- aGgGuGCCCUCGUCgACCUccccccGGCCGa -3'
miRNA:   3'- -CgC-CGGGAGCGG-UGGAauuu--CCGGCg -5'
27162 3' -57.9 NC_005832.1 + 6108 0.66 0.752387
Target:  5'- cGCGGCCUgccucauggagguUCGCgGCUgcGAGGGuuGg -3'
miRNA:   3'- -CGCCGGG-------------AGCGgUGGaaUUUCCggCg -5'
27162 3' -57.9 NC_005832.1 + 97438 0.66 0.74361
Target:  5'- aCGGCgCUgGCCACCUUcaacGAGGacaaGCu -3'
miRNA:   3'- cGCCGgGAgCGGUGGAAu---UUCCgg--CG- -5'
27162 3' -57.9 NC_005832.1 + 42647 0.66 0.74361
Target:  5'- uGCGGUCCUCuuCCACa---GAGGCC-Cg -3'
miRNA:   3'- -CGCCGGGAGc-GGUGgaauUUCCGGcG- -5'
27162 3' -57.9 NC_005832.1 + 79791 0.66 0.733762
Target:  5'- cUGGCCUcCGCCuuGCCaguggUGuAGGCCGUc -3'
miRNA:   3'- cGCCGGGaGCGG--UGGa----AUuUCCGGCG- -5'
27162 3' -57.9 NC_005832.1 + 65561 0.66 0.733762
Target:  5'- cGCcuGCCCUUGCCguagACCUgcggguAAGGCCu- -3'
miRNA:   3'- -CGc-CGGGAGCGG----UGGAau----UUCCGGcg -5'
27162 3' -57.9 NC_005832.1 + 79012 0.67 0.723825
Target:  5'- -aGGCUcagggaCUCuGCCACCcu---GGCCGCa -3'
miRNA:   3'- cgCCGG------GAG-CGGUGGaauuuCCGGCG- -5'
27162 3' -57.9 NC_005832.1 + 54292 0.67 0.713808
Target:  5'- -aGGCCCUC-UCACCUgcuGGGUCugaGCg -3'
miRNA:   3'- cgCCGGGAGcGGUGGAauuUCCGG---CG- -5'
27162 3' -57.9 NC_005832.1 + 28087 0.67 0.713808
Target:  5'- -aGGCCCuUUGCCG---UGGAGGuuGCg -3'
miRNA:   3'- cgCCGGG-AGCGGUggaAUUUCCggCG- -5'
27162 3' -57.9 NC_005832.1 + 32294 0.67 0.713808
Target:  5'- cGUGGacucCCCUCGCCGCUccuccGGCCa- -3'
miRNA:   3'- -CGCC----GGGAGCGGUGGaauuuCCGGcg -5'
27162 3' -57.9 NC_005832.1 + 50545 0.67 0.713808
Target:  5'- -aGGaucCUCUCGcCCGCCUUGAc-GCCGCu -3'
miRNA:   3'- cgCC---GGGAGC-GGUGGAAUUucCGGCG- -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.