miRNA display CGI


Results 1 - 20 of 55 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
27564 3' -50.3 NC_005882.1 + 4994 0.9 0.042107
Target:  5'- uCGACAAAGCCGAUCUUCcGaCGUACCu -3'
miRNA:   3'- -GCUGUUUCGGCUAGAAGuCgGCAUGG- -5'
27564 3' -50.3 NC_005882.1 + 4896 0.68 0.7644
Target:  5'- gCGGCAAAGCaGAUCaa-GGCCGcugucgaagcUGCCg -3'
miRNA:   3'- -GCUGUUUCGgCUAGaagUCGGC----------AUGG- -5'
27564 3' -50.3 NC_005882.1 + 25724 0.67 0.806177
Target:  5'- cCGaACAgcGCCGAUUacgggcgCGGCCGUggcaGCCg -3'
miRNA:   3'- -GC-UGUuuCGGCUAGaa-----GUCGGCA----UGG- -5'
27564 3' -50.3 NC_005882.1 + 3730 0.66 0.894813
Target:  5'- gGACGAAuaccuCCGGUUcaagUUCGGCCGUcucgacaaGCCg -3'
miRNA:   3'- gCUGUUUc----GGCUAG----AAGUCGGCA--------UGG- -5'
27564 3' -50.3 NC_005882.1 + 26819 0.73 0.469867
Target:  5'- gCGACcuucauGCCGAUCa-CGGCCGUugCg -3'
miRNA:   3'- -GCUGuuu---CGGCUAGaaGUCGGCAugG- -5'
27564 3' -50.3 NC_005882.1 + 30046 0.73 0.480581
Target:  5'- aCGGCGAGcGCCGAgcgCUUCAGCuCG-ACUu -3'
miRNA:   3'- -GCUGUUU-CGGCUa--GAAGUCG-GCaUGG- -5'
27564 3' -50.3 NC_005882.1 + 5774 0.71 0.616274
Target:  5'- gCGGCGGGGCCGAcCUgcugCAcGgUGUGCCa -3'
miRNA:   3'- -GCUGUUUCGGCUaGAa---GU-CgGCAUGG- -5'
27564 3' -50.3 NC_005882.1 + 5036 0.71 0.627917
Target:  5'- aGGCAcuGCCGuUCggCGGCCGUcucgACCc -3'
miRNA:   3'- gCUGUuuCGGCuAGaaGUCGGCA----UGG- -5'
27564 3' -50.3 NC_005882.1 + 20579 0.7 0.685958
Target:  5'- cCGACGca-CCGAUCaccaucgugUUCGGCCGgcgGCCg -3'
miRNA:   3'- -GCUGUuucGGCUAG---------AAGUCGGCa--UGG- -5'
27564 3' -50.3 NC_005882.1 + 31668 0.68 0.7644
Target:  5'- uCGACGagcGAGCCGAguugccccggCUgcCAGCCGUuCCc -3'
miRNA:   3'- -GCUGU---UUCGGCUa---------GAa-GUCGGCAuGG- -5'
27564 3' -50.3 NC_005882.1 + 30272 0.69 0.731423
Target:  5'- uGcCGAGGUCGG---UCAGCCGUACg -3'
miRNA:   3'- gCuGUUUCGGCUagaAGUCGGCAUGg -5'
27564 3' -50.3 NC_005882.1 + 11072 0.7 0.674414
Target:  5'- cCGGCGGuuccucGGCCucGAUCgUCAGCCGUucGCUg -3'
miRNA:   3'- -GCUGUU------UCGG--CUAGaAGUCGGCA--UGG- -5'
27564 3' -50.3 NC_005882.1 + 29219 0.8 0.188489
Target:  5'- cCGGCGuAGCCGAUCUUCAGCgucagcgCGUcGCCu -3'
miRNA:   3'- -GCUGUuUCGGCUAGAAGUCG-------GCA-UGG- -5'
27564 3' -50.3 NC_005882.1 + 21163 0.69 0.742545
Target:  5'- uCGGCAAcGCCGAgcgcCUUCGcGCCG-GCUg -3'
miRNA:   3'- -GCUGUUuCGGCUa---GAAGU-CGGCaUGG- -5'
27564 3' -50.3 NC_005882.1 + 30247 0.74 0.437461
Target:  5'- -cGCGAAGCCGggCUUCGacgcacuGaCCGUGCCg -3'
miRNA:   3'- gcUGUUUCGGCuaGAAGU-------C-GGCAUGG- -5'
27564 3' -50.3 NC_005882.1 + 22321 0.7 0.674414
Target:  5'- uGACGccGCUGGUCggUCcGCUGUACUg -3'
miRNA:   3'- gCUGUuuCGGCUAGa-AGuCGGCAUGG- -5'
27564 3' -50.3 NC_005882.1 + 6762 0.68 0.753541
Target:  5'- aGGCGGAGUCGGUUauucgCGGCaaccugCGUGCCg -3'
miRNA:   3'- gCUGUUUCGGCUAGaa---GUCG------GCAUGG- -5'
27564 3' -50.3 NC_005882.1 + 29337 0.68 0.785646
Target:  5'- gCGGCuucGGaCCGAUgcCUUCAcGCCaGUACCg -3'
miRNA:   3'- -GCUGuu-UC-GGCUA--GAAGU-CGG-CAUGG- -5'
27564 3' -50.3 NC_005882.1 + 25456 0.74 0.438486
Target:  5'- gCGACGcGGCCGAggccaUUCAGCgucgugcgCGUGCCg -3'
miRNA:   3'- -GCUGUuUCGGCUag---AAGUCG--------GCAUGG- -5'
27564 3' -50.3 NC_005882.1 + 3319 0.73 0.513403
Target:  5'- aCGGCGGccGGCCGAcgaUCcagaUCGGCCcGUACCu -3'
miRNA:   3'- -GCUGUU--UCGGCU---AGa---AGUCGG-CAUGG- -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.