miRNA display CGI


Results 1 - 20 of 31 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
23590 3' -54.9 NC_005261.1 + 134938 0.66 0.929397
Target:  5'- cGCGGaG-GaCGAGcCGAUGGgcgAGGGCGc -3'
miRNA:   3'- uCGCC-CaC-GCUCaGCUACUa--UCUCGC- -5'
23590 3' -54.9 NC_005261.1 + 134880 0.76 0.430641
Target:  5'- cGCGGGccccugcugUGCGu-UCGGUGGUGGAGCGg -3'
miRNA:   3'- uCGCCC---------ACGCucAGCUACUAUCUCGC- -5'
23590 3' -54.9 NC_005261.1 + 128074 0.69 0.788246
Target:  5'- gGGCGGGcggGCGAG-CGAgcgGGUuaacGGGCGa -3'
miRNA:   3'- -UCGCCCa--CGCUCaGCUa--CUAu---CUCGC- -5'
23590 3' -54.9 NC_005261.1 + 127749 0.67 0.879488
Target:  5'- cGGCGGGaGCGGGcCGcgGcgGGcGCGa -3'
miRNA:   3'- -UCGCCCaCGCUCaGCuaCuaUCuCGC- -5'
23590 3' -54.9 NC_005261.1 + 121503 0.67 0.879488
Target:  5'- cGGCGGG-GCGGgcauggggccGUCGAUGGc-GAGCu -3'
miRNA:   3'- -UCGCCCaCGCU----------CAGCUACUauCUCGc -5'
23590 3' -54.9 NC_005261.1 + 121440 0.67 0.879488
Target:  5'- cGGCGGG-GCGGgcauggggccGUCGAUGGc-GAGCu -3'
miRNA:   3'- -UCGCCCaCGCU----------CAGCUACUauCUCGc -5'
23590 3' -54.9 NC_005261.1 + 121135 0.68 0.864681
Target:  5'- cGCGGGcGCGAGcgCGAguaggaccgGGUAGGGUu -3'
miRNA:   3'- uCGCCCaCGCUCa-GCUa--------CUAUCUCGc -5'
23590 3' -54.9 NC_005261.1 + 116485 0.67 0.879488
Target:  5'- gGGCGGG-GCGGGcgCGcgGuAUaaAGAGCGc -3'
miRNA:   3'- -UCGCCCaCGCUCa-GCuaC-UA--UCUCGC- -5'
23590 3' -54.9 NC_005261.1 + 105002 0.67 0.893392
Target:  5'- cGCGGGcgGCG-GUCGggGcgccAGGGCGg -3'
miRNA:   3'- uCGCCCa-CGCuCAGCuaCua--UCUCGC- -5'
23590 3' -54.9 NC_005261.1 + 101316 1.08 0.003957
Target:  5'- uAGCGGGUGCGAGUCGAUGAUAGAGCGc -3'
miRNA:   3'- -UCGCCCACGCUCAGCUACUAUCUCGC- -5'
23590 3' -54.9 NC_005261.1 + 98912 0.68 0.864681
Target:  5'- cAGCGGGUcgGCgGGGUCGGcUGcggGGGGCa -3'
miRNA:   3'- -UCGCCCA--CG-CUCAGCU-ACua-UCUCGc -5'
23590 3' -54.9 NC_005261.1 + 97596 0.66 0.934545
Target:  5'- gAGCGGGcggaGCGGG-CGGagcgGGcGGAGCGg -3'
miRNA:   3'- -UCGCCCa---CGCUCaGCUa---CUaUCUCGC- -5'
23590 3' -54.9 NC_005261.1 + 92727 0.67 0.879488
Target:  5'- gAGCGGGaGCGGGgCGggGAcagcGAGCGc -3'
miRNA:   3'- -UCGCCCaCGCUCaGCuaCUau--CUCGC- -5'
23590 3' -54.9 NC_005261.1 + 92697 0.71 0.710385
Target:  5'- gAGCGGGaGCGGGagCGG-GAgcgGGAGCGg -3'
miRNA:   3'- -UCGCCCaCGCUCa-GCUaCUa--UCUCGC- -5'
23590 3' -54.9 NC_005261.1 + 80063 0.67 0.893392
Target:  5'- cGGCGGGcGCGGGgggCG-UGggGGAcGCGg -3'
miRNA:   3'- -UCGCCCaCGCUCa--GCuACuaUCU-CGC- -5'
23590 3' -54.9 NC_005261.1 + 69300 0.68 0.832545
Target:  5'- cGCGGG-GCGccGGUgGcgGcgGGAGCGg -3'
miRNA:   3'- uCGCCCaCGC--UCAgCuaCuaUCUCGC- -5'
23590 3' -54.9 NC_005261.1 + 65792 0.69 0.788246
Target:  5'- cGGCGGGaacauccGCGGGUCGG-GGUGcccGGGCGg -3'
miRNA:   3'- -UCGCCCa------CGCUCAGCUaCUAU---CUCGC- -5'
23590 3' -54.9 NC_005261.1 + 56136 0.69 0.778919
Target:  5'- gGGCGGGgggcGCGGGcCGAgGGUGGcggcAGCGg -3'
miRNA:   3'- -UCGCCCa---CGCUCaGCUaCUAUC----UCGC- -5'
23590 3' -54.9 NC_005261.1 + 39735 0.67 0.879488
Target:  5'- gGGCGGGUGCcccAGUCGcgGAUcucGGCc -3'
miRNA:   3'- -UCGCCCACGc--UCAGCuaCUAuc-UCGc -5'
23590 3' -54.9 NC_005261.1 + 35254 0.7 0.73045
Target:  5'- cGGCGGGaUGgGAGgcagUGGUGGUGacGGGCGg -3'
miRNA:   3'- -UCGCCC-ACgCUCa---GCUACUAU--CUCGC- -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.