miRNA display CGI


Results 1 - 13 of 13 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
9492 5' -53.8 NC_002531.1 + 100962 0.66 0.933625
Target:  5'- gGGaCCCUGGgGGGCuuGGACgaaGUAGGu -3'
miRNA:   3'- -UC-GGGACCgUCCGuuCUUGac-UAUCU- -5'
9492 5' -53.8 NC_002531.1 + 119890 0.66 0.932046
Target:  5'- aGGCCCaGGCggaggagaaggcccAGGCGGGAACUca-AGAa -3'
miRNA:   3'- -UCGGGaCCG--------------UCCGUUCUUGAcuaUCU- -5'
9492 5' -53.8 NC_002531.1 + 123825 0.66 0.928271
Target:  5'- aGGCUaCUGGuCAcGCAGGGGCUGGUAa- -3'
miRNA:   3'- -UCGG-GACC-GUcCGUUCUUGACUAUcu -5'
9492 5' -53.8 NC_002531.1 + 34539 0.67 0.897618
Target:  5'- cGUCCUGGgGGGCGGGGGgugcuccagggcCUGAcauugUAGAa -3'
miRNA:   3'- uCGGGACCgUCCGUUCUU------------GACU-----AUCU- -5'
9492 5' -53.8 NC_002531.1 + 42729 0.67 0.876196
Target:  5'- aGGCgCUGGCuGGaCAGuuguGGAUUGGUGGAa -3'
miRNA:   3'- -UCGgGACCGuCC-GUU----CUUGACUAUCU- -5'
9492 5' -53.8 NC_002531.1 + 47141 0.68 0.852644
Target:  5'- gAGCuCCUgcaGGCAGGCGcuGGGGCUGuu-GAc -3'
miRNA:   3'- -UCG-GGA---CCGUCCGU--UCUUGACuauCU- -5'
9492 5' -53.8 NC_002531.1 + 122825 0.68 0.835846
Target:  5'- aGGCCC-GGCAGGCGcGGAGCaUGGc--- -3'
miRNA:   3'- -UCGGGaCCGUCCGU-UCUUG-ACUaucu -5'
9492 5' -53.8 NC_002531.1 + 96426 0.69 0.799903
Target:  5'- -uCCCagaaggGGCA-GCGGGGACUGGUGGAg -3'
miRNA:   3'- ucGGGa-----CCGUcCGUUCUUGACUAUCU- -5'
9492 5' -53.8 NC_002531.1 + 57369 0.69 0.799903
Target:  5'- cGCC--GGCAGGCGGGGguuGCUGAUGa- -3'
miRNA:   3'- uCGGgaCCGUCCGUUCU---UGACUAUcu -5'
9492 5' -53.8 NC_002531.1 + 121368 0.69 0.79048
Target:  5'- gGGUaaUGGCGGGCAaaguuuucAGAGCUGcUGGAu -3'
miRNA:   3'- -UCGggACCGUCCGU--------UCUUGACuAUCU- -5'
9492 5' -53.8 NC_002531.1 + 68713 0.73 0.561989
Target:  5'- aGGCCCUGGUAuauGGCuauGAuguuagcuagGCUGGUAGAu -3'
miRNA:   3'- -UCGGGACCGU---CCGuu-CU----------UGACUAUCU- -5'
9492 5' -53.8 NC_002531.1 + 49224 0.79 0.271582
Target:  5'- cAGCCCUGGCGGGUGAGAuauCUGGc--- -3'
miRNA:   3'- -UCGGGACCGUCCGUUCUu--GACUaucu -5'
9492 5' -53.8 NC_002531.1 + 60349 1.09 0.00323
Target:  5'- cAGCCCUGGCAGGCAAGAACUGAUAGAc -3'
miRNA:   3'- -UCGGGACCGUCCGUUCUUGACUAUCU- -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.