miRNA display CGI


Results 1 - 19 of 19 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
1563 3' -54.8 NC_001347.2 + 143654 0.66 0.980316
Target:  5'- gUGUACGGGauccUGGCgC-CGGAggCcGGCCu -3'
miRNA:   3'- -ACAUGCUCa---ACCG-GaGCCUa-GaCCGG- -5'
1563 3' -54.8 NC_001347.2 + 34639 0.66 0.980316
Target:  5'- ---cCGGuGUUGGUgCUCGcGAUCcUGGCCg -3'
miRNA:   3'- acauGCU-CAACCG-GAGC-CUAG-ACCGG- -5'
1563 3' -54.8 NC_001347.2 + 147332 0.66 0.978126
Target:  5'- cGUuucAUGGGUgauGUCUUGGGcCUGGCCa -3'
miRNA:   3'- aCA---UGCUCAac-CGGAGCCUaGACCGG- -5'
1563 3' -54.8 NC_001347.2 + 75977 0.66 0.973215
Target:  5'- --gGCGAGUc-GCCcagCGGGUC-GGCCa -3'
miRNA:   3'- acaUGCUCAacCGGa--GCCUAGaCCGG- -5'
1563 3' -54.8 NC_001347.2 + 265 0.66 0.97048
Target:  5'- --aACGAGUgugUGGCCUCGc----GGCCg -3'
miRNA:   3'- acaUGCUCA---ACCGGAGCcuagaCCGG- -5'
1563 3' -54.8 NC_001347.2 + 229744 0.66 0.97048
Target:  5'- --aACGAGUgugUGGCCUCGc----GGCCg -3'
miRNA:   3'- acaUGCUCA---ACCGGAGCcuagaCCGG- -5'
1563 3' -54.8 NC_001347.2 + 200313 0.66 0.968747
Target:  5'- cGUGCGcaucaacgcaggccaGGUguuGCC-CGuGGUCUGGCCg -3'
miRNA:   3'- aCAUGC---------------UCAac-CGGaGC-CUAGACCGG- -5'
1563 3' -54.8 NC_001347.2 + 47570 0.67 0.957543
Target:  5'- gGU-CGGGgagagGGCCugUCGGAgaUGGCCg -3'
miRNA:   3'- aCAuGCUCaa---CCGG--AGCCUagACCGG- -5'
1563 3' -54.8 NC_001347.2 + 200279 0.67 0.953783
Target:  5'- cGgcCGAGUUcGGCCUgGGcuGUCUGGa- -3'
miRNA:   3'- aCauGCUCAA-CCGGAgCC--UAGACCgg -5'
1563 3' -54.8 NC_001347.2 + 65944 0.67 0.949805
Target:  5'- gUGgACGGGUUucagcguccGGCCUCGGGUU--GCCu -3'
miRNA:   3'- -ACaUGCUCAA---------CCGGAGCCUAGacCGG- -5'
1563 3' -54.8 NC_001347.2 + 108679 0.67 0.949805
Target:  5'- gUGgcagGCGcGUcucacGGUCUCGGGaCUGGCCu -3'
miRNA:   3'- -ACa---UGCuCAa----CCGGAGCCUaGACCGG- -5'
1563 3' -54.8 NC_001347.2 + 139814 0.68 0.945606
Target:  5'- -uUGCGAGUUGGCCUUcaGUUUuGCCu -3'
miRNA:   3'- acAUGCUCAACCGGAGccUAGAcCGG- -5'
1563 3' -54.8 NC_001347.2 + 155127 0.68 0.936532
Target:  5'- gGUAUGAGgcGGCCgccgCGGc---GGCCa -3'
miRNA:   3'- aCAUGCUCaaCCGGa---GCCuagaCCGG- -5'
1563 3' -54.8 NC_001347.2 + 78813 0.68 0.931154
Target:  5'- --aACGAGUauuuccguaccuuUcGCCUaCGGGUCUGGUCa -3'
miRNA:   3'- acaUGCUCA-------------AcCGGA-GCCUAGACCGG- -5'
1563 3' -54.8 NC_001347.2 + 151478 0.69 0.909856
Target:  5'- aGUG-GAGggcGCCUCGGGUCUGaGCa -3'
miRNA:   3'- aCAUgCUCaacCGGAGCCUAGAC-CGg -5'
1563 3' -54.8 NC_001347.2 + 208942 0.7 0.870455
Target:  5'- aGUAgcaGAGgUGGaCUCGGAuagagaccUCUGGCCa -3'
miRNA:   3'- aCAUg--CUCaACCgGAGCCU--------AGACCGG- -5'
1563 3' -54.8 NC_001347.2 + 18552 0.7 0.855638
Target:  5'- gGUACGucGUcGGCCUCGuGGgcuauuacCUGGCCu -3'
miRNA:   3'- aCAUGCu-CAaCCGGAGC-CUa-------GACCGG- -5'
1563 3' -54.8 NC_001347.2 + 175406 0.72 0.761787
Target:  5'- -cUACGAGcaGGCCaUGGGUCUGuGCCc -3'
miRNA:   3'- acAUGCUCaaCCGGaGCCUAGAC-CGG- -5'
1563 3' -54.8 NC_001347.2 + 193526 1.13 0.003493
Target:  5'- cUGUACGAGUUGGCCUCGGAUCUGGCCg -3'
miRNA:   3'- -ACAUGCUCAACCGGAGCCUAGACCGG- -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.