miRNA display CGI


Results 1 - 20 of 20 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
28121 3' -54.7 NC_005887.1 + 31635 0.66 0.697967
Target:  5'- gGCUcccGGucGAGUGGGACGaCUGCGcGCCu -3'
miRNA:   3'- gCGA---CU--UUCACUCUGCcGAUGCcCGG- -5'
28121 3' -54.7 NC_005887.1 + 13387 0.66 0.686911
Target:  5'- gCGCUGAAGGccGGcGCGGCggacgucgGCGGcaaGCCg -3'
miRNA:   3'- -GCGACUUUCa-CUcUGCCGa-------UGCC---CGG- -5'
28121 3' -54.7 NC_005887.1 + 13480 0.66 0.653461
Target:  5'- gCGCUGAAGGacaAGACGGUcaagaucgACGaGGUCg -3'
miRNA:   3'- -GCGACUUUCac-UCUGCCGa-------UGC-CCGG- -5'
28121 3' -54.7 NC_005887.1 + 33353 0.66 0.653461
Target:  5'- aCGCggaUGGAAGUGcGcCGGCUGCGG-Cg -3'
miRNA:   3'- -GCG---ACUUUCACuCuGCCGAUGCCcGg -5'
28121 3' -54.7 NC_005887.1 + 7109 0.66 0.652341
Target:  5'- gCGCgUGGucuaacgAGGcGGGGCGGCgcUGCGGcGCCg -3'
miRNA:   3'- -GCG-ACU-------UUCaCUCUGCCG--AUGCC-CGG- -5'
28121 3' -54.7 NC_005887.1 + 34301 0.67 0.63104
Target:  5'- gGCUGAcuGcG-GGCGGCaACGGGUa -3'
miRNA:   3'- gCGACUuuCaCuCUGCCGaUGCCCGg -5'
28121 3' -54.7 NC_005887.1 + 18709 0.67 0.619826
Target:  5'- gGCUGGAacAGcGucGACaGCaGCGGGCCg -3'
miRNA:   3'- gCGACUU--UCaCu-CUGcCGaUGCCCGG- -5'
28121 3' -54.7 NC_005887.1 + 9888 0.67 0.619826
Target:  5'- gCGCUGAccGGcUGcGACGcGUUcGCGGGCCc -3'
miRNA:   3'- -GCGACUu-UC-ACuCUGC-CGA-UGCCCGG- -5'
28121 3' -54.7 NC_005887.1 + 39784 0.67 0.597441
Target:  5'- aCGCgcGAGGaUGAGGUGGCgGCGGGCa -3'
miRNA:   3'- -GCGacUUUC-ACUCUGCCGaUGCCCGg -5'
28121 3' -54.7 NC_005887.1 + 946 0.68 0.575178
Target:  5'- cCGcCUGAcucGUccGGCGGC-GCGGGCCa -3'
miRNA:   3'- -GC-GACUuu-CAcuCUGCCGaUGCCCGG- -5'
28121 3' -54.7 NC_005887.1 + 15583 0.68 0.542169
Target:  5'- uCGCUGAucgccgAAGcUGAGACGcaGCgcACGGGCg -3'
miRNA:   3'- -GCGACU------UUC-ACUCUGC--CGa-UGCCCGg -5'
28121 3' -54.7 NC_005887.1 + 5864 0.69 0.520513
Target:  5'- gCGCUGAaaggcGAGUGGGGCGacaGCUACGa-CCg -3'
miRNA:   3'- -GCGACU-----UUCACUCUGC---CGAUGCccGG- -5'
28121 3' -54.7 NC_005887.1 + 9781 0.69 0.519439
Target:  5'- uGCUGAucGgcaugacgggcgaUGAGugGGUgauUGGGCCc -3'
miRNA:   3'- gCGACUuuC-------------ACUCugCCGau-GCCCGG- -5'
28121 3' -54.7 NC_005887.1 + 29705 0.69 0.509812
Target:  5'- gCGCgu-GAGUGAcGACGGCgagaucagcuaUAUGGGCg -3'
miRNA:   3'- -GCGacuUUCACU-CUGCCG-----------AUGCCCGg -5'
28121 3' -54.7 NC_005887.1 + 23189 0.69 0.488695
Target:  5'- gCGCUcgcGAucacGGccgGGGGCGGCUACuucaaGGGCCa -3'
miRNA:   3'- -GCGA---CUu---UCa--CUCUGCCGAUG-----CCCGG- -5'
28121 3' -54.7 NC_005887.1 + 28748 0.69 0.478291
Target:  5'- cCGUUGuAGGUGAGacGCGGCauUAC-GGCCg -3'
miRNA:   3'- -GCGACuUUCACUC--UGCCG--AUGcCCGG- -5'
28121 3' -54.7 NC_005887.1 + 22304 0.7 0.446761
Target:  5'- uCGCUGAucGUGAaccacgcGACGaucaGCGGGCCa -3'
miRNA:   3'- -GCGACUuuCACU-------CUGCcga-UGCCCGG- -5'
28121 3' -54.7 NC_005887.1 + 18987 0.7 0.437825
Target:  5'- cCGCUGcgagauucGGUGAG-C-GCUGCGGGCUg -3'
miRNA:   3'- -GCGACuu------UCACUCuGcCGAUGCCCGG- -5'
28121 3' -54.7 NC_005887.1 + 27513 0.73 0.313285
Target:  5'- gCGCUcGAAcguGUGGGcCGGC-AUGGGCCu -3'
miRNA:   3'- -GCGA-CUUu--CACUCuGCCGaUGCCCGG- -5'
28121 3' -54.7 NC_005887.1 + 7802 1.11 0.000586
Target:  5'- cCGCUGAAAGUGAGACGGCUACGGGCCc -3'
miRNA:   3'- -GCGACUUUCACUCUGCCGAUGCCCGG- -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.