miRNA display CGI


Results 1 - 16 of 16 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
1417 5' -50.9 NC_001335.1 + 29167 0.66 0.916756
Target:  5'- -gGUGGGG-CGAAGGcucUCGCUgagGCAGu -3'
miRNA:   3'- agCACCCUaGCUUCU---AGCGGa--UGUUg -5'
1417 5' -50.9 NC_001335.1 + 15292 0.66 0.910211
Target:  5'- uUCGUGGcGAUCagccGGAaCGCCUugGCGAUg -3'
miRNA:   3'- -AGCACC-CUAGcu--UCUaGCGGA--UGUUG- -5'
1417 5' -50.9 NC_001335.1 + 28745 0.66 0.910211
Target:  5'- uUCGUGGGGU------UCGCuCUACGGCg -3'
miRNA:   3'- -AGCACCCUAgcuucuAGCG-GAUGUUG- -5'
1417 5' -50.9 NC_001335.1 + 42252 0.66 0.88884
Target:  5'- aUCGUGccGGUCGAGGAUUGCg-ACGAUc -3'
miRNA:   3'- -AGCACc-CUAGCUUCUAGCGgaUGUUG- -5'
1417 5' -50.9 NC_001335.1 + 48217 0.67 0.873189
Target:  5'- cUUGcGGGAgaagCGAgaucAGcUCGCCUACGAUg -3'
miRNA:   3'- -AGCaCCCUa---GCU----UCuAGCGGAUGUUG- -5'
1417 5' -50.9 NC_001335.1 + 41684 0.67 0.847735
Target:  5'- aCGUgGGGAUCGA----CGCCUGgGGCc -3'
miRNA:   3'- aGCA-CCCUAGCUucuaGCGGAUgUUG- -5'
1417 5' -50.9 NC_001335.1 + 5254 0.68 0.838755
Target:  5'- ---aGGGGUCGccAGAUCGCUgguCGACg -3'
miRNA:   3'- agcaCCCUAGCu-UCUAGCGGau-GUUG- -5'
1417 5' -50.9 NC_001335.1 + 20892 0.68 0.838755
Target:  5'- ----uGGAUCGGAGAUCGCgU-CGGCa -3'
miRNA:   3'- agcacCCUAGCUUCUAGCGgAuGUUG- -5'
1417 5' -50.9 NC_001335.1 + 13400 0.68 0.838755
Target:  5'- -gGUGGGcgcucuUCGGAGAcgccacCGUCUACGACu -3'
miRNA:   3'- agCACCCu-----AGCUUCUa-----GCGGAUGUUG- -5'
1417 5' -50.9 NC_001335.1 + 40342 0.68 0.800622
Target:  5'- aUGUcGGGc---AGGAUCGCCUGCGGCu -3'
miRNA:   3'- aGCA-CCCuagcUUCUAGCGGAUGUUG- -5'
1417 5' -50.9 NC_001335.1 + 4777 0.69 0.770008
Target:  5'- aUCGUuccGGcUCGAccacaAGAUCGUCUACGACc -3'
miRNA:   3'- -AGCAc--CCuAGCU-----UCUAGCGGAUGUUG- -5'
1417 5' -50.9 NC_001335.1 + 24696 0.71 0.682621
Target:  5'- gCGUGGGGaacAAGAUCGUCguugGCAACg -3'
miRNA:   3'- aGCACCCUagcUUCUAGCGGa---UGUUG- -5'
1417 5' -50.9 NC_001335.1 + 36563 0.71 0.671335
Target:  5'- cCGUGGG--UGGAGAUCcaGCCUGgAGCg -3'
miRNA:   3'- aGCACCCuaGCUUCUAG--CGGAUgUUG- -5'
1417 5' -50.9 NC_001335.1 + 9226 0.71 0.670205
Target:  5'- gCGcUGGGGgacacccaucagcUCGgcGGUCGCCUGCAu- -3'
miRNA:   3'- aGC-ACCCU-------------AGCuuCUAGCGGAUGUug -5'
1417 5' -50.9 NC_001335.1 + 9856 0.73 0.569341
Target:  5'- cCGUGGGGcUCGggGA--GCCUGgGACc -3'
miRNA:   3'- aGCACCCU-AGCuuCUagCGGAUgUUG- -5'
1417 5' -50.9 NC_001335.1 + 48266 1.1 0.002365
Target:  5'- uUCGUGGGAUCGAAGAUCGCCUACAACc -3'
miRNA:   3'- -AGCACCCUAGCUUCUAGCGGAUGUUG- -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.