miRNA display CGI


Results 1 - 15 of 15 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
27046 3' -52.5 NC_005832.1 + 24467 0.66 0.961185
Target:  5'- aCGGUGGAGGCAcGUGcUGgccaCAGACGc -3'
miRNA:   3'- aGCCGCUUCCGU-UACaGCa---GUCUGUc -5'
27046 3' -52.5 NC_005832.1 + 6485 0.66 0.961185
Target:  5'- -aGGCGGAGGCGgcggAUGaCGa-GGACGGg -3'
miRNA:   3'- agCCGCUUCCGU----UACaGCagUCUGUC- -5'
27046 3' -52.5 NC_005832.1 + 1961 0.66 0.944506
Target:  5'- -aGGUGGacaGGGCGAUGggaggGUCGGACGa -3'
miRNA:   3'- agCCGCU---UCCGUUACag---CAGUCUGUc -5'
27046 3' -52.5 NC_005832.1 + 62644 0.67 0.934636
Target:  5'- uUCGGCGcuAAGGCuagcUCGUUccaGGACGGg -3'
miRNA:   3'- -AGCCGC--UUCCGuuacAGCAG---UCUGUC- -5'
27046 3' -52.5 NC_005832.1 + 78457 0.67 0.92931
Target:  5'- -aGGCGgcGGCGAccGaCGUCAGGCu- -3'
miRNA:   3'- agCCGCuuCCGUUa-CaGCAGUCUGuc -5'
27046 3' -52.5 NC_005832.1 + 6988 0.68 0.911133
Target:  5'- aCGGCGGGcacGGCAuggacccucagagGUGcUgGUCGGACGGa -3'
miRNA:   3'- aGCCGCUU---CCGU-------------UAC-AgCAGUCUGUC- -5'
27046 3' -52.5 NC_005832.1 + 71263 0.68 0.883285
Target:  5'- gCGGCGGugucugcguGGcCAAUGUCGguggaccccaagCAGGCAGa -3'
miRNA:   3'- aGCCGCUu--------CC-GUUACAGCa-----------GUCUGUC- -5'
27046 3' -52.5 NC_005832.1 + 2148 0.69 0.853813
Target:  5'- uUCGGCG-AGGCccUGUCGgUGGACAc -3'
miRNA:   3'- -AGCCGCuUCCGuuACAGCaGUCUGUc -5'
27046 3' -52.5 NC_005832.1 + 67268 0.69 0.837001
Target:  5'- cCGGUG-AGGCuguggcUGUCGagGGACAGg -3'
miRNA:   3'- aGCCGCuUCCGuu----ACAGCagUCUGUC- -5'
27046 3' -52.5 NC_005832.1 + 98534 0.7 0.828284
Target:  5'- gUCGGCaGAGGCAAggacagacgcUG-CGgCAGACAGg -3'
miRNA:   3'- -AGCCGcUUCCGUU----------ACaGCaGUCUGUC- -5'
27046 3' -52.5 NC_005832.1 + 26047 0.71 0.78195
Target:  5'- aCGGCGGAGcuGCuGUGguUCGUCAGAgGGu -3'
miRNA:   3'- aGCCGCUUC--CGuUAC--AGCAGUCUgUC- -5'
27046 3' -52.5 NC_005832.1 + 74742 0.71 0.772201
Target:  5'- aCGGCGAGGgaaGCGGUGacccucuuuagcUCGUCGGACu- -3'
miRNA:   3'- aGCCGCUUC---CGUUAC------------AGCAGUCUGuc -5'
27046 3' -52.5 NC_005832.1 + 11544 0.71 0.762314
Target:  5'- cUGGUGGccaaAGGCGggGUCGUCcuGGACGGc -3'
miRNA:   3'- aGCCGCU----UCCGUuaCAGCAG--UCUGUC- -5'
27046 3' -52.5 NC_005832.1 + 23644 0.72 0.700707
Target:  5'- cCGGCGuacAGGCAAUcugCGUCGGACu- -3'
miRNA:   3'- aGCCGCu--UCCGUUAca-GCAGUCUGuc -5'
27046 3' -52.5 NC_005832.1 + 20960 1.1 0.003444
Target:  5'- cUCGGCGAAGGCAAUGUCGUCAGACAGg -3'
miRNA:   3'- -AGCCGCUUCCGUUACAGCAGUCUGUC- -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.