miRNA display CGI


Results 1 - 20 of 40 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
7025 3' -56 NC_001875.2 + 20801 0.66 0.897783
Target:  5'- aCGCGCagugc--GCGGGcGUCGUCGCa -3'
miRNA:   3'- -GCGUGggcuuuuCGUCC-CAGCAGCGa -5'
7025 3' -56 NC_001875.2 + 33916 0.66 0.897783
Target:  5'- aCGUACCCcucgucGAAAcgcAGCGGGcGUCGgCGCc -3'
miRNA:   3'- -GCGUGGG------CUUU---UCGUCC-CAGCaGCGa -5'
7025 3' -56 NC_001875.2 + 110164 0.66 0.897783
Target:  5'- uCGCGCUCGucGGGCGGcGUCGcacugCGCUc -3'
miRNA:   3'- -GCGUGGGCuuUUCGUCcCAGCa----GCGA- -5'
7025 3' -56 NC_001875.2 + 24365 0.66 0.877141
Target:  5'- uGUAUuuGAAAA-CGGGGUCGcCGUUg -3'
miRNA:   3'- gCGUGggCUUUUcGUCCCAGCaGCGA- -5'
7025 3' -56 NC_001875.2 + 80096 0.66 0.876418
Target:  5'- uGCACUccauCGcguuuuuauaguuGAAGGCccauGGGUCGUCGCa -3'
miRNA:   3'- gCGUGG----GC-------------UUUUCGu---CCCAGCAGCGa -5'
7025 3' -56 NC_001875.2 + 15090 0.66 0.865308
Target:  5'- aGCGCCUGGuuGAGGCGGGGUuuuucuaccaguaugUGUuucCGCUu -3'
miRNA:   3'- gCGUGGGCU--UUUCGUCCCA---------------GCA---GCGA- -5'
7025 3' -56 NC_001875.2 + 113867 0.67 0.854505
Target:  5'- -uCGCCCGAAuccaGAGUGGGGaCG-CGCUg -3'
miRNA:   3'- gcGUGGGCUU----UUCGUCCCaGCaGCGA- -5'
7025 3' -56 NC_001875.2 + 44344 0.67 0.8215
Target:  5'- aCGCcuuuaGCUCGAucGGGCAGcGGUCG-CGCUu -3'
miRNA:   3'- -GCG-----UGGGCUu-UUCGUC-CCAGCaGCGA- -5'
7025 3' -56 NC_001875.2 + 12326 0.68 0.794887
Target:  5'- aCGCGCCCGGccAGCgAGaGGUCGuguuugacggcuUCGCc -3'
miRNA:   3'- -GCGUGGGCUuuUCG-UC-CCAGC------------AGCGa -5'
7025 3' -56 NC_001875.2 + 38178 0.68 0.794887
Target:  5'- aGCGCCCGAc--GCA-GGUCGUCa-- -3'
miRNA:   3'- gCGUGGGCUuuuCGUcCCAGCAGcga -5'
7025 3' -56 NC_001875.2 + 84209 0.68 0.785706
Target:  5'- aGCugCCGGu-AGUAGGGcCG-CGCg -3'
miRNA:   3'- gCGugGGCUuuUCGUCCCaGCaGCGa -5'
7025 3' -56 NC_001875.2 + 33362 0.68 0.785706
Target:  5'- aCGCACgCGGcagucgcaaaaGAAGCAGGccgucUCGUCGCc -3'
miRNA:   3'- -GCGUGgGCU-----------UUUCGUCCc----AGCAGCGa -5'
7025 3' -56 NC_001875.2 + 33304 0.68 0.782924
Target:  5'- aGCACUgCGGGuuggcGAGCgcguggcguugccaAGGGUCGUCGCc -3'
miRNA:   3'- gCGUGG-GCUU-----UUCG--------------UCCCAGCAGCGa -5'
7025 3' -56 NC_001875.2 + 3426 0.68 0.766932
Target:  5'- gGguCCC-AAGAGCGcuGGUCGUCGCa -3'
miRNA:   3'- gCguGGGcUUUUCGUc-CCAGCAGCGa -5'
7025 3' -56 NC_001875.2 + 92692 0.69 0.741811
Target:  5'- uCGCgGCCCcAAAauggccaucaucgccGGuCAGGGUCGUCGCc -3'
miRNA:   3'- -GCG-UGGGcUUU---------------UC-GUCCCAGCAGCGa -5'
7025 3' -56 NC_001875.2 + 126516 0.7 0.697886
Target:  5'- cCGCACUCGgcGAGCAGGuagCG-CGCa -3'
miRNA:   3'- -GCGUGGGCuuUUCGUCCca-GCaGCGa -5'
7025 3' -56 NC_001875.2 + 42969 0.7 0.697886
Target:  5'- gCGCGCCaacaaugcuuUGAAAGGCGGcGGcCGUUGCg -3'
miRNA:   3'- -GCGUGG----------GCUUUUCGUC-CCaGCAGCGa -5'
7025 3' -56 NC_001875.2 + 11830 0.7 0.667268
Target:  5'- uCGCGCCgGu--GGCGGGGUCGgUGUa -3'
miRNA:   3'- -GCGUGGgCuuuUCGUCCCAGCaGCGa -5'
7025 3' -56 NC_001875.2 + 29859 0.76 0.369675
Target:  5'- gGCACCUGGGAAaaCGGGGUCGUCGa- -3'
miRNA:   3'- gCGUGGGCUUUUc-GUCCCAGCAGCga -5'
7025 3' -56 NC_001875.2 + 101093 0.79 0.231617
Target:  5'- gGCGCCUauAAAAGCGGGGUCGcCGCUg -3'
miRNA:   3'- gCGUGGGc-UUUUCGUCCCAGCaGCGA- -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.