miRNA display CGI


Results 1 - 18 of 18 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
2880 5' -50.8 NC_001493.1 + 117790 0.65 0.995078
Target:  5'- aCGUGUUUUUCGUGuuGAGGAaaucgucuccgaucGACuuGGGa -3'
miRNA:   3'- -GCAUAGAAAGCAC--CUCCU--------------CUGcgUCC- -5'
2880 5' -50.8 NC_001493.1 + 2236 0.65 0.995078
Target:  5'- aCGUGUUUUUCGUGuuGAGGAaaucgucuccgaucGACuuGGGa -3'
miRNA:   3'- -GCAUAGAAAGCAC--CUCCU--------------CUGcgUCC- -5'
2880 5' -50.8 NC_001493.1 + 94534 0.66 0.99453
Target:  5'- -uUAUUggUCGUGGAGGucAC-CAGGa -3'
miRNA:   3'- gcAUAGaaAGCACCUCCucUGcGUCC- -5'
2880 5' -50.8 NC_001493.1 + 42163 0.66 0.994529
Target:  5'- gGUGUCUcUCGgGGAucGGAcGGCGCGuGGc -3'
miRNA:   3'- gCAUAGAaAGCaCCU--CCU-CUGCGU-CC- -5'
2880 5' -50.8 NC_001493.1 + 9233 0.66 0.991002
Target:  5'- aGUGUCUgcgcaggaugcgUCGUcgggacaggaccggGGAGGcGGGCGUGGGg -3'
miRNA:   3'- gCAUAGAa-----------AGCA--------------CCUCC-UCUGCGUCC- -5'
2880 5' -50.8 NC_001493.1 + 124787 0.66 0.991002
Target:  5'- aGUGUCUgcgcaggaugcgUCGUcgggacaggaccggGGAGGcGGGCGUGGGg -3'
miRNA:   3'- gCAUAGAa-----------AGCA--------------CCUCC-UCUGCGUCC- -5'
2880 5' -50.8 NC_001493.1 + 105887 0.67 0.989028
Target:  5'- --aGUCUUUgaUGGAGGGGAUcCAGGc -3'
miRNA:   3'- gcaUAGAAAgcACCUCCUCUGcGUCC- -5'
2880 5' -50.8 NC_001493.1 + 65979 0.67 0.988149
Target:  5'- uCGUAUcCUUUUGagGGGGGuggggcguucgucggGGACGUGGGg -3'
miRNA:   3'- -GCAUA-GAAAGCa-CCUCC---------------UCUGCGUCC- -5'
2880 5' -50.8 NC_001493.1 + 2682 0.67 0.987534
Target:  5'- uCGUccGUC-UUCGU-GAGGGGugGgAGGg -3'
miRNA:   3'- -GCA--UAGaAAGCAcCUCCUCugCgUCC- -5'
2880 5' -50.8 NC_001493.1 + 118236 0.67 0.987534
Target:  5'- uCGUccGUC-UUCGU-GAGGGGugGgAGGg -3'
miRNA:   3'- -GCA--UAGaAAGCAcCUCCUCugCgUCC- -5'
2880 5' -50.8 NC_001493.1 + 125157 0.67 0.987377
Target:  5'- cCGUGgguuauaacugacUUUUUCGUGuuaGGGGGGCGCGGa -3'
miRNA:   3'- -GCAU-------------AGAAAGCACc--UCCUCUGCGUCc -5'
2880 5' -50.8 NC_001493.1 + 9602 0.67 0.987377
Target:  5'- cCGUGgguuauaacugacUUUUUCGUGuuaGGGGGGCGCGGa -3'
miRNA:   3'- -GCAU-------------AGAAAGCACc--UCCUCUGCGUCc -5'
2880 5' -50.8 NC_001493.1 + 19608 0.67 0.984081
Target:  5'- aGUGUagugCG-GGGGGuGACGUGGGg -3'
miRNA:   3'- gCAUAgaaaGCaCCUCCuCUGCGUCC- -5'
2880 5' -50.8 NC_001493.1 + 20458 0.68 0.977603
Target:  5'- gGUGUCUccucgUCGUGuucGGGAGGguUGCAGGc -3'
miRNA:   3'- gCAUAGAa----AGCACc--UCCUCU--GCGUCC- -5'
2880 5' -50.8 NC_001493.1 + 125257 0.68 0.974261
Target:  5'- gGUAUCUacgugcggacccgcgCGUccaucGAGGAGAUGCGGGg -3'
miRNA:   3'- gCAUAGAaa-------------GCAc----CUCCUCUGCGUCC- -5'
2880 5' -50.8 NC_001493.1 + 9703 0.68 0.974261
Target:  5'- gGUAUCUacgugcggacccgcgCGUccaucGAGGAGAUGCGGGg -3'
miRNA:   3'- gCAUAGAaa-------------GCAc----CUCCUCUGCGUCC- -5'
2880 5' -50.8 NC_001493.1 + 125008 1.11 0.007071
Target:  5'- uCGUAUCUUUCGUGGAGGAGACGCAGGu -3'
miRNA:   3'- -GCAUAGAAAGCACCUCCUCUGCGUCC- -5'
2880 5' -50.8 NC_001493.1 + 9454 1.11 0.007071
Target:  5'- uCGUAUCUUUCGUGGAGGAGACGCAGGu -3'
miRNA:   3'- -GCAUAGAAAGCACCUCCUCUGCGUCC- -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.