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
12627 3' -57.9 NC_003345.1 + 66573 0.65 0.695069
Target:  5'- aCGCCGACGccguauccucgucAAGCCCGUccGUcucugccccaucgaGGGUGa -3'
miRNA:   3'- -GCGGCUGC-------------UUCGGGCGuuCG--------------CCUACa -5'
12627 3' -57.9 NC_003345.1 + 69818 0.66 0.692989
Target:  5'- cCGCCGACGcaGauucggcaaacgcacAGCCCGCuguuGGCGuccuGAUGg -3'
miRNA:   3'- -GCGGCUGC--U---------------UCGGGCGu---UCGC----CUACa -5'
12627 3' -57.9 NC_003345.1 + 62972 0.66 0.657354
Target:  5'- gCGCCGACGAuAGCCagCGCAAGau--UGUa -3'
miRNA:   3'- -GCGGCUGCU-UCGG--GCGUUCgccuACA- -5'
12627 3' -57.9 NC_003345.1 + 26943 0.66 0.646809
Target:  5'- uCGCCcACGAGGUCgGCAAGCGu---- -3'
miRNA:   3'- -GCGGcUGCUUCGGgCGUUCGCcuaca -5'
12627 3' -57.9 NC_003345.1 + 22970 0.66 0.646809
Target:  5'- uCGuCCGACGAcGGCCCGaacGGUGGGa-- -3'
miRNA:   3'- -GC-GGCUGCU-UCGGGCgu-UCGCCUaca -5'
12627 3' -57.9 NC_003345.1 + 11592 0.67 0.636251
Target:  5'- gGaCGGCGAAGaCCGCAacuGGCGGAa-- -3'
miRNA:   3'- gCgGCUGCUUCgGGCGU---UCGCCUaca -5'
12627 3' -57.9 NC_003345.1 + 35912 0.67 0.615135
Target:  5'- aGCUGACac-GCCCGCAuccccucuuugAGCuGGAUGg -3'
miRNA:   3'- gCGGCUGcuuCGGGCGU-----------UCG-CCUACa -5'
12627 3' -57.9 NC_003345.1 + 63414 0.67 0.583583
Target:  5'- gGCCGA-GggGCCgGUGAGCGaggacgcauccGAUGUg -3'
miRNA:   3'- gCGGCUgCuuCGGgCGUUCGC-----------CUACA- -5'
12627 3' -57.9 NC_003345.1 + 20690 0.68 0.573129
Target:  5'- uCGCuCGAUGAAGUUaguaGCAAGUGGAg-- -3'
miRNA:   3'- -GCG-GCUGCUUCGGg---CGUUCGCCUaca -5'
12627 3' -57.9 NC_003345.1 + 68760 0.68 0.53183
Target:  5'- aGCCgugguGACGAAGCUCGUcAGCGGcguacucgAUGUg -3'
miRNA:   3'- gCGG-----CUGCUUCGGGCGuUCGCC--------UACA- -5'
12627 3' -57.9 NC_003345.1 + 28714 0.68 0.521666
Target:  5'- aCGCCGcaACGGuuCCCgGCAucgaGGCGGAUGa -3'
miRNA:   3'- -GCGGC--UGCUucGGG-CGU----UCGCCUACa -5'
12627 3' -57.9 NC_003345.1 + 72882 0.69 0.511579
Target:  5'- -cCCGACGAGG---GCGAGCGGAUGg -3'
miRNA:   3'- gcGGCUGCUUCgggCGUUCGCCUACa -5'
12627 3' -57.9 NC_003345.1 + 20134 0.69 0.510574
Target:  5'- -uCCGugGcAAGUCCGUccccggcGAGCGGAUGa -3'
miRNA:   3'- gcGGCugC-UUCGGGCG-------UUCGCCUACa -5'
12627 3' -57.9 NC_003345.1 + 69704 0.69 0.485746
Target:  5'- gGCuCGAUGAAGCCuacgcaaggaacgcaCGCAGGCcggGGAUGa -3'
miRNA:   3'- gCG-GCUGCUUCGG---------------GCGUUCG---CCUACa -5'
12627 3' -57.9 NC_003345.1 + 20478 0.69 0.472095
Target:  5'- uCGCUGACGAcGUUCG--AGCGGAUGg -3'
miRNA:   3'- -GCGGCUGCUuCGGGCguUCGCCUACa -5'
12627 3' -57.9 NC_003345.1 + 58221 0.7 0.415942
Target:  5'- aGCCgGAUGAAGCCCG---GUGGGUGg -3'
miRNA:   3'- gCGG-CUGCUUCGGGCguuCGCCUACa -5'
12627 3' -57.9 NC_003345.1 + 29573 0.71 0.380856
Target:  5'- aCGCCGACGAAGCCgCGUcGGUucAUGUc -3'
miRNA:   3'- -GCGGCUGCUUCGG-GCGuUCGccUACA- -5'
12627 3' -57.9 NC_003345.1 + 63577 0.71 0.380856
Target:  5'- gCGCU-ACGAAgGCCCGCGAGUGGuucgGUg -3'
miRNA:   3'- -GCGGcUGCUU-CGGGCGUUCGCCua--CA- -5'
12627 3' -57.9 NC_003345.1 + 35824 0.84 0.052658
Target:  5'- gGUCGAUGAAGCCCGCAuuGUGGAUGa -3'
miRNA:   3'- gCGGCUGCUUCGGGCGUu-CGCCUACa -5'
12627 3' -57.9 NC_003345.1 + 38673 1.08 0.001
Target:  5'- aCGCCGACGAAGCCCGCAAGCGGAUGUa -3'
miRNA:   3'- -GCGGCUGCUUCGGGCGUUCGCCUACA- -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.