miRNA display CGI


Results 1 - 17 of 17 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
5163 3' -53 NC_001798.1 + 117996 0.66 0.976382
Target:  5'- --cCGCCgGGGUGC-CGcg-AGCUCGu -3'
miRNA:   3'- cuaGCGG-CCCACGaGUuuaUCGAGCu -5'
5163 3' -53 NC_001798.1 + 104827 0.66 0.976382
Target:  5'- cGAUCGCgauCGGGggagGaCUCGugGGUGGUUCGGu -3'
miRNA:   3'- -CUAGCG---GCCCa---C-GAGU--UUAUCGAGCU- -5'
5163 3' -53 NC_001798.1 + 72219 0.66 0.976382
Target:  5'- uGAUCGCCaGGGggGCcgUCGAGcAGCUgCGGc -3'
miRNA:   3'- -CUAGCGG-CCCa-CG--AGUUUaUCGA-GCU- -5'
5163 3' -53 NC_001798.1 + 85073 0.66 0.97093
Target:  5'- aGUCGCCGGGcagcaGCUgGAAggagGGCgcguUCGAg -3'
miRNA:   3'- cUAGCGGCCCa----CGAgUUUa---UCG----AGCU- -5'
5163 3' -53 NC_001798.1 + 101806 0.66 0.970635
Target:  5'- --gCGCCGGGcGcCUCGGGUugggguaAGCUCGc -3'
miRNA:   3'- cuaGCGGCCCaC-GAGUUUA-------UCGAGCu -5'
5163 3' -53 NC_001798.1 + 75167 0.67 0.953476
Target:  5'- cGUCGCCGuccGUGCUCGAGacGCUgGGg -3'
miRNA:   3'- cUAGCGGCc--CACGAGUUUauCGAgCU- -5'
5163 3' -53 NC_001798.1 + 30268 0.68 0.930053
Target:  5'- --aCGCCuGGGggaUGCUCAAcgacaugcaGUGGCUCGc -3'
miRNA:   3'- cuaGCGG-CCC---ACGAGUU---------UAUCGAGCu -5'
5163 3' -53 NC_001798.1 + 66867 0.68 0.918936
Target:  5'- aGUCGCCGGG-GCgccgg-GGCUUGGg -3'
miRNA:   3'- cUAGCGGCCCaCGaguuuaUCGAGCU- -5'
5163 3' -53 NC_001798.1 + 4091 0.68 0.913002
Target:  5'- gGGUCcggGCCGGGgcggGCUCGGcccugggcgGGCUCGGc -3'
miRNA:   3'- -CUAG---CGGCCCa---CGAGUUua-------UCGAGCU- -5'
5163 3' -53 NC_001798.1 + 149661 0.69 0.904275
Target:  5'- cGggCGCCGGGUcGCgggccccgGGCUCGGg -3'
miRNA:   3'- -CuaGCGGCCCA-CGaguuua--UCGAGCU- -5'
5163 3' -53 NC_001798.1 + 103070 0.69 0.893712
Target:  5'- cGUCGCCGGGU-C-CAGGUGGCgaaaCGGa -3'
miRNA:   3'- cUAGCGGCCCAcGaGUUUAUCGa---GCU- -5'
5163 3' -53 NC_001798.1 + 17679 0.69 0.879644
Target:  5'- gGAUCGCgGGGUGguucaggcguCUCAGcagccgcgccucGUGGCUCGu -3'
miRNA:   3'- -CUAGCGgCCCAC----------GAGUU------------UAUCGAGCu -5'
5163 3' -53 NC_001798.1 + 9703 0.69 0.879644
Target:  5'- ---gGgCGGGUggGCUCGAcgGGCUCGGg -3'
miRNA:   3'- cuagCgGCCCA--CGAGUUuaUCGAGCU- -5'
5163 3' -53 NC_001798.1 + 43260 0.7 0.872261
Target:  5'- cGAUCGCCGGGggcgucgugcccugcUGCUCcguggcggccAGCUUGAg -3'
miRNA:   3'- -CUAGCGGCCC---------------ACGAGuuua------UCGAGCU- -5'
5163 3' -53 NC_001798.1 + 120183 0.7 0.848777
Target:  5'- --cCGCCGGGcgGCUCGcAGUgauagaagaggAGCUCGGg -3'
miRNA:   3'- cuaGCGGCCCa-CGAGU-UUA-----------UCGAGCU- -5'
5163 3' -53 NC_001798.1 + 40124 0.76 0.562208
Target:  5'- aGGUCGCCGGG-GCUgGGAUGGCg--- -3'
miRNA:   3'- -CUAGCGGCCCaCGAgUUUAUCGagcu -5'
5163 3' -53 NC_001798.1 + 111972 1.09 0.004994
Target:  5'- cGAUCGCCGGGUGCUCAAAUAGCUCGAu -3'
miRNA:   3'- -CUAGCGGCCCACGAGUUUAUCGAGCU- -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.