miRNA display CGI


Results 1 - 20 of 28 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
18933 3' -54.8 NC_004683.1 + 50524 0.66 0.764007
Target:  5'- cGGCUGgugcuaaaGGGCcucgagUCGUAugucgacgacaacGGCGuGGGCAAGGa -3'
miRNA:   3'- -CCGAC--------UCCG------AGCGU-------------UUGU-CCCGUUCC- -5'
18933 3' -54.8 NC_004683.1 + 46860 0.66 0.741189
Target:  5'- uGGCgcgGuAGGC-CGCGAccucguuauGCAGGGCugcggucaucuucuGAGGa -3'
miRNA:   3'- -CCGa--C-UCCGaGCGUU---------UGUCCCG--------------UUCC- -5'
18933 3' -54.8 NC_004683.1 + 410 0.66 0.73381
Target:  5'- aGCUGcGGGCggugauggCGCAGGCGGuGGCu-GGc -3'
miRNA:   3'- cCGAC-UCCGa-------GCGUUUGUC-CCGuuCC- -5'
18933 3' -54.8 NC_004683.1 + 15044 0.66 0.73381
Target:  5'- cGGCaucGGGUUCgGCAuGCAGgccGGCAAGGc -3'
miRNA:   3'- -CCGac-UCCGAG-CGUuUGUC---CCGUUCC- -5'
18933 3' -54.8 NC_004683.1 + 24071 0.66 0.723182
Target:  5'- aGCUGuucGGCcCGCAGGCcaAGGGCu-GGc -3'
miRNA:   3'- cCGACu--CCGaGCGUUUG--UCCCGuuCC- -5'
18933 3' -54.8 NC_004683.1 + 21621 0.66 0.723182
Target:  5'- cGGCUGGGGCg-GCA-ACuGGGCc--- -3'
miRNA:   3'- -CCGACUCCGagCGUuUGuCCCGuucc -5'
18933 3' -54.8 NC_004683.1 + 6357 0.66 0.723182
Target:  5'- cGCgaGGGUUCGCGAGCAugucGCGAGGg -3'
miRNA:   3'- cCGacUCCGAGCGUUUGUcc--CGUUCC- -5'
18933 3' -54.8 NC_004683.1 + 44889 0.66 0.712463
Target:  5'- uGCcGGGGC-CGCGcucagGugGGcGGCAGGGg -3'
miRNA:   3'- cCGaCUCCGaGCGU-----UugUC-CCGUUCC- -5'
18933 3' -54.8 NC_004683.1 + 52335 0.67 0.701665
Target:  5'- uGCcGAuGGCaCGCAGGCcGGuGCGAGGg -3'
miRNA:   3'- cCGaCU-CCGaGCGUUUGuCC-CGUUCC- -5'
18933 3' -54.8 NC_004683.1 + 52241 0.67 0.690799
Target:  5'- cGGUUGcGGGCcUGCGaguagGugAGGGUggGGg -3'
miRNA:   3'- -CCGAC-UCCGaGCGU-----UugUCCCGuuCC- -5'
18933 3' -54.8 NC_004683.1 + 5186 0.67 0.679875
Target:  5'- gGGCUGuggacaugccgaGGGcCUCGCGuuuGGCGGcgaaguacucGGCGAGGg -3'
miRNA:   3'- -CCGAC------------UCC-GAGCGU---UUGUC----------CCGUUCC- -5'
18933 3' -54.8 NC_004683.1 + 7596 0.67 0.679875
Target:  5'- gGGC---GGUUCGUAuccggGGCAGGuGCAGGGg -3'
miRNA:   3'- -CCGacuCCGAGCGU-----UUGUCC-CGUUCC- -5'
18933 3' -54.8 NC_004683.1 + 12475 0.67 0.668907
Target:  5'- cGGCUguccGAGGC--GC-AGCAGGGCAccuGGa -3'
miRNA:   3'- -CCGA----CUCCGagCGuUUGUCCCGUu--CC- -5'
18933 3' -54.8 NC_004683.1 + 8160 0.67 0.668907
Target:  5'- cGGCgccGAGGC-CGCGAaggccGCGGccaaGCAGGGg -3'
miRNA:   3'- -CCGa--CUCCGaGCGUU-----UGUCc---CGUUCC- -5'
18933 3' -54.8 NC_004683.1 + 41834 0.68 0.640251
Target:  5'- aGGUUGAGGCggugcccgaaugaGCAAGCGGcGCAAcGGu -3'
miRNA:   3'- -CCGACUCCGag-----------CGUUUGUCcCGUU-CC- -5'
18933 3' -54.8 NC_004683.1 + 263 0.68 0.635833
Target:  5'- cGGC-GGGGCuggUCGC-GACGGuGGuCAAGGa -3'
miRNA:   3'- -CCGaCUCCG---AGCGuUUGUC-CC-GUUCC- -5'
18933 3' -54.8 NC_004683.1 + 50737 0.68 0.589536
Target:  5'- uGGUggGAGGacguucagcgcaUCGaCAAACcGGGCAAGGg -3'
miRNA:   3'- -CCGa-CUCCg-----------AGC-GUUUGuCCCGUUCC- -5'
18933 3' -54.8 NC_004683.1 + 34907 0.69 0.580769
Target:  5'- cGGCacGGGCUUGUuuGCGGcgcuGGCAGGGu -3'
miRNA:   3'- -CCGacUCCGAGCGuuUGUC----CCGUUCC- -5'
18933 3' -54.8 NC_004683.1 + 15161 0.69 0.558981
Target:  5'- uGCUG-GGCaCGCAccAACAGcucGGCGAGGu -3'
miRNA:   3'- cCGACuCCGaGCGU--UUGUC---CCGUUCC- -5'
18933 3' -54.8 NC_004683.1 + 10189 0.69 0.537428
Target:  5'- aGC-GAGGCgCGUGAGCGGGcCGAGGa -3'
miRNA:   3'- cCGaCUCCGaGCGUUUGUCCcGUUCC- -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.