miRNA display CGI


Results 1 - 17 of 17 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
20878 3' -53.9 NC_004689.1 + 15794 0.66 0.87529
Target:  5'- uGU--UCCu-CCGGCGAGAGgUCGGCa -3'
miRNA:   3'- gCAucAGGcuGGUCGCUUUUgGGCCG- -5'
20878 3' -53.9 NC_004689.1 + 46596 0.66 0.87529
Target:  5'- ---cGUCCaGACCaAGCGccGACCCuGCa -3'
miRNA:   3'- gcauCAGG-CUGG-UCGCuuUUGGGcCG- -5'
20878 3' -53.9 NC_004689.1 + 22916 0.66 0.87529
Target:  5'- aCGU-GUUCGGCCAuGC----GCCCGGUc -3'
miRNA:   3'- -GCAuCAGGCUGGU-CGcuuuUGGGCCG- -5'
20878 3' -53.9 NC_004689.1 + 5089 0.66 0.867552
Target:  5'- ----aUCCGACCAGUGAAcauGCCCu-- -3'
miRNA:   3'- gcaucAGGCUGGUCGCUUu--UGGGccg -5'
20878 3' -53.9 NC_004689.1 + 2371 0.66 0.859578
Target:  5'- ----aUCCGAgagcagaccCCGuGCGAuguAACCCGGCa -3'
miRNA:   3'- gcaucAGGCU---------GGU-CGCUu--UUGGGCCG- -5'
20878 3' -53.9 NC_004689.1 + 27799 0.66 0.857141
Target:  5'- --cAGUCUGACCAGUGAGGuucuguaguaguucGCCCcagucuGCg -3'
miRNA:   3'- gcaUCAGGCUGGUCGCUUU--------------UGGGc-----CG- -5'
20878 3' -53.9 NC_004689.1 + 321 0.66 0.842098
Target:  5'- --aGGUCUGGguugccuUCGGCGAAAuacauAUCCGGCg -3'
miRNA:   3'- gcaUCAGGCU-------GGUCGCUUU-----UGGGCCG- -5'
20878 3' -53.9 NC_004689.1 + 43454 0.67 0.834316
Target:  5'- aCGgaccCUGACCGGCGAc--CUCGGCa -3'
miRNA:   3'- -GCaucaGGCUGGUCGCUuuuGGGCCG- -5'
20878 3' -53.9 NC_004689.1 + 23866 0.67 0.807217
Target:  5'- -----aCCGACCGuggaGAGAACCUGGCu -3'
miRNA:   3'- gcaucaGGCUGGUcg--CUUUUGGGCCG- -5'
20878 3' -53.9 NC_004689.1 + 16997 0.67 0.797817
Target:  5'- gGUGGcaccgaCGACCGGCGuccagaGAAGCUgGGCg -3'
miRNA:   3'- gCAUCag----GCUGGUCGC------UUUUGGgCCG- -5'
20878 3' -53.9 NC_004689.1 + 48162 0.68 0.788252
Target:  5'- aGUAGUCCG-CUGGCGGGuuccAACgacguggggugaCCGGCc -3'
miRNA:   3'- gCAUCAGGCuGGUCGCUU----UUG------------GGCCG- -5'
20878 3' -53.9 NC_004689.1 + 47243 0.68 0.746491
Target:  5'- uCGggGGUCUGACuCGGCGggGGCagucgcggaucgCGGCg -3'
miRNA:   3'- -GCa-UCAGGCUG-GUCGCuuUUGg-----------GCCG- -5'
20878 3' -53.9 NC_004689.1 + 13423 0.7 0.642772
Target:  5'- uCGUAGUCC----AGCGugguACCCGGCa -3'
miRNA:   3'- -GCAUCAGGcuggUCGCuuu-UGGGCCG- -5'
20878 3' -53.9 NC_004689.1 + 57659 0.7 0.631978
Target:  5'- cCGUGGccUCUGcuauGCCGGgaaucuguUGAAAACCCGGCa -3'
miRNA:   3'- -GCAUC--AGGC----UGGUC--------GCUUUUGGGCCG- -5'
20878 3' -53.9 NC_004689.1 + 24755 0.72 0.546365
Target:  5'- gGU-GUCCauCCGGCGAAAgacgGCCUGGCa -3'
miRNA:   3'- gCAuCAGGcuGGUCGCUUU----UGGGCCG- -5'
20878 3' -53.9 NC_004689.1 + 42902 0.74 0.435828
Target:  5'- uCGUAGUCCaucaGugCAGCGAAuGCCuccaccaggaCGGCg -3'
miRNA:   3'- -GCAUCAGG----CugGUCGCUUuUGG----------GCCG- -5'
20878 3' -53.9 NC_004689.1 + 22237 0.76 0.339323
Target:  5'- aCGUAGUugcgaCCGGCCAGCGG--ACCCuucuucGGCg -3'
miRNA:   3'- -GCAUCA-----GGCUGGUCGCUuuUGGG------CCG- -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.