miRNA display CGI


Results 1 - 20 of 35 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
1402 3' -56.2 NC_001335.1 + 40747 1.12 0.00058
Target:  5'- cCGCACUCAUCGCCGGAUCGGCGAUCCu -3'
miRNA:   3'- -GCGUGAGUAGCGGCCUAGCCGCUAGG- -5'
1402 3' -56.2 NC_001335.1 + 11613 0.76 0.205612
Target:  5'- aCGCACUCAcgUCGCCGGuccagugCGG-GAUCUu -3'
miRNA:   3'- -GCGUGAGU--AGCGGCCua-----GCCgCUAGG- -5'
1402 3' -56.2 NC_001335.1 + 42411 0.75 0.234119
Target:  5'- aCGCgGCUCG-CGCCGG-UCGGcCGAUUCa -3'
miRNA:   3'- -GCG-UGAGUaGCGGCCuAGCC-GCUAGG- -5'
1402 3' -56.2 NC_001335.1 + 12966 0.73 0.293721
Target:  5'- gGCACUCAgcgguuaCGCCGGAUCGG--GUCa -3'
miRNA:   3'- gCGUGAGUa------GCGGCCUAGCCgcUAGg -5'
1402 3' -56.2 NC_001335.1 + 12109 0.72 0.356095
Target:  5'- cCGCcaGCUCGUCugggGCCaGGUCGGCGGccugUCCu -3'
miRNA:   3'- -GCG--UGAGUAG----CGGcCUAGCCGCU----AGG- -5'
1402 3' -56.2 NC_001335.1 + 36096 0.71 0.39956
Target:  5'- gGUACUCcUC-CCGGuccaAUCGGCGGUCg -3'
miRNA:   3'- gCGUGAGuAGcGGCC----UAGCCGCUAGg -5'
1402 3' -56.2 NC_001335.1 + 17383 0.71 0.39956
Target:  5'- gCGCGCUCAUCGgCGcgcUGGCGAaCCu -3'
miRNA:   3'- -GCGUGAGUAGCgGCcuaGCCGCUaGG- -5'
1402 3' -56.2 NC_001335.1 + 39025 0.7 0.414168
Target:  5'- -aUACUCAUCGCCGGugaugccguaggUGGCcagGAUCCg -3'
miRNA:   3'- gcGUGAGUAGCGGCCua----------GCCG---CUAGG- -5'
1402 3' -56.2 NC_001335.1 + 30173 0.7 0.436683
Target:  5'- uGCGCUUGagagCGCCGa--UGGCGAUCCg -3'
miRNA:   3'- gCGUGAGUa---GCGGCcuaGCCGCUAGG- -5'
1402 3' -56.2 NC_001335.1 + 20193 0.7 0.436683
Target:  5'- gGCACUCAga-CCGcGuUCGGCGGUUCg -3'
miRNA:   3'- gCGUGAGUagcGGC-CuAGCCGCUAGG- -5'
1402 3' -56.2 NC_001335.1 + 7594 0.69 0.475714
Target:  5'- gGCcuGCUCAUCGCCcGA--GGCGAcUCCa -3'
miRNA:   3'- gCG--UGAGUAGCGGcCUagCCGCU-AGG- -5'
1402 3' -56.2 NC_001335.1 + 692 0.69 0.485742
Target:  5'- uGCACUCA-CGCCGGAUuucagccucUGGaCGAacaugCCg -3'
miRNA:   3'- gCGUGAGUaGCGGCCUA---------GCC-GCUa----GG- -5'
1402 3' -56.2 NC_001335.1 + 17324 0.69 0.491807
Target:  5'- gGCGCaggcucuggucagCGUUGCUGGcgCGGUGAUUCa -3'
miRNA:   3'- gCGUGa------------GUAGCGGCCuaGCCGCUAGG- -5'
1402 3' -56.2 NC_001335.1 + 7868 0.69 0.49587
Target:  5'- cCGCGCUCGUCggcuGCCGuGUCaGCGAcggCCu -3'
miRNA:   3'- -GCGUGAGUAG----CGGCcUAGcCGCUa--GG- -5'
1402 3' -56.2 NC_001335.1 + 16929 0.69 0.506092
Target:  5'- gGCGCUCA-CGCCGGccuUCcagacgcuGGCGAgcacgCCg -3'
miRNA:   3'- gCGUGAGUaGCGGCCu--AG--------CCGCUa----GG- -5'
1402 3' -56.2 NC_001335.1 + 28565 0.69 0.515369
Target:  5'- aGCAgcuucucCUCGUCGCCugcgGGAagguggcgcacUCGGCGcUCCa -3'
miRNA:   3'- gCGU-------GAGUAGCGG----CCU-----------AGCCGCuAGG- -5'
1402 3' -56.2 NC_001335.1 + 15351 0.69 0.523672
Target:  5'- cCGCGC-CcUCGCCGagcuGAUCgacaaguucggcggGGCGAUCCu -3'
miRNA:   3'- -GCGUGaGuAGCGGC----CUAG--------------CCGCUAGG- -5'
1402 3' -56.2 NC_001335.1 + 12700 0.68 0.547815
Target:  5'- uGCGCUCgAUCuGCUGGAgcCGGCGcUCg -3'
miRNA:   3'- gCGUGAG-UAG-CGGCCUa-GCCGCuAGg -5'
1402 3' -56.2 NC_001335.1 + 37779 0.68 0.557359
Target:  5'- aCGCugUUcgCGCCGGucaCGGUGuacacccGUCCc -3'
miRNA:   3'- -GCGugAGuaGCGGCCua-GCCGC-------UAGG- -5'
1402 3' -56.2 NC_001335.1 + 45322 0.67 0.622999
Target:  5'- aGUACaUCAaggcuacggguUCGUCGGGccgcugUCGGCGAagUCCg -3'
miRNA:   3'- gCGUG-AGU-----------AGCGGCCU------AGCCGCU--AGG- -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.